Microwave drying of wood strands

Treesearch

Guanben Du; Siqun Wang; Zhiyong Cai

2005-01-01

Characteristics of microwave drying of wood strands with different initial moisture contents and geometries were investigated using a commercial small microwave oven under different power inputs. Temperature and moisture changes along with the drying efficiency were examined at different drying scenarios. Extractives were analyzed using gas chromatography=mass...

Sometimes Sperm Whales (Physeter macrocephalus) Cannot Find Their Way Back to the High Seas: A Multidisciplinary Study on a Mass Stranding

PubMed Central

Mazzariol, Sandro; Di Guardo, Giovanni; Petrella, Antonio; Marsili, Letizia; Fossi, Cristina M.; Leonzio, Claudio; Zizzo, Nicola; Vizzini, Salvatrice; Gaspari, Stefania; Pavan, Gianni; Podestà, Michela; Garibaldi, Fulvio; Ferrante, Margherita; Copat, Chiara; Traversa, Donato; Marcer, Federica; Airoldi, Sabina; Frantzis, Alexandros; De Bernaldo Quirós, Yara; Cozzi, Bruno; Fernández, Antonio

2011-01-01

Background Mass strandings of sperm whales (Physeter macrocephalus) remain peculiar and rather unexplained events, which rarely occur in the Mediterranean Sea. Solar cycles and related changes in the geomagnetic field, variations in water temperature and weather conditions, coast geographical features and human activities have been proposed as possible causes. In December 2009, a pod of seven male sperm whales stranded along the Adriatic coast of Southern Italy. This is the sixth instance from 1555 in this basin. Methodology/Principal Findings Complete necropsies were performed on three whales whose bodies were in good condition, carrying out on sampled tissues histopathology, virology, bacteriology, parasitology, and screening of veins looking for gas emboli. Furthermore, samples for age determination, genetic studies, gastric content evaluation, stable isotopes and toxicology were taken from all the seven specimens. The animals were part of the same group and determined by genetic and photo-identification to be part of the Mediterranean population. Causes of death did not include biological agents, or the “gas and fat embolic syndrome”, associated with direct sonar exposure. Environmental pollutant tissue concentrations were relatively high, in particular organochlorinated xenobiotics. Gastric content and morphologic tissue examinations showed a prolonged starvation, which likely caused, at its turn, the mobilization of lipophilic contaminants from the adipose tissue. Chemical compounds subsequently entered the blood circulation and may have impaired immune and nervous functions. Conclusions/Significance A multi-factorial cause underlying this sperm whales' mass stranding is proposed herein based upon the results of postmortem investigations as well as of the detailed analyses of the geographical and historical background. The seven sperm whales took the same “wrong way” into the Adriatic Sea, a potentially dangerous trap for Mediterranean sperm whales. Seismic surveys should be also regarded as potential co-factors, even if no evidence of direct impact has been detected. PMID:21673789

OAS proteins and cGAS: unifying concepts in sensing and responding to cytosolic nucleic acids.

PubMed

Hornung, Veit; Hartmann, Rune; Ablasser, Andrea; Hopfner, Karl-Peter

2014-08-01

Recent discoveries in the field of innate immunity have highlighted the existence of a family of nucleic acid-sensing proteins that have similar structural and functional properties. These include the well-known oligoadenylate synthase (OAS) family proteins and the recently identified OAS homologue cyclic GMP-AMP (cGAMP) synthase (cGAS). The OAS proteins and cGAS are template-independent nucleotidyltransferases that, once activated by double-stranded nucleic acids in the cytosol, produce unique classes of 2'-5'-linked second messenger molecules, which - through distinct mechanisms - have crucial antiviral functions. 2'-5'-linked oligoadenylates limit viral propagation through the activation of the enzyme RNase L, which degrades host and viral RNA, and 2'-5'-linked cGAMP activates downstream signalling pathways to induce de novo antiviral gene expression. In this Progress article, we describe the striking functional and structural similarities between OAS proteins and cGAS, and highlight their roles in antiviral immunity.

Persistent-current magnetizations of Nb3Sn Rutherford cables and extracted strands

NASA Astrophysics Data System (ADS)

Collings, E. W.; Sumption, M. D.; Myers, C. S.; Wang, X.; Dietderich, D. R.; Yagotyntsev, K.; Nijhuis, A.

2017-12-01

The magnetizations of eight high-gradient quadrupole cables designated HQ and QXF and a pair of strands, identical in architecture but with different effective strand diameters extracted from an HQ and a related QXF cable, were measured. In the service of field quality assessment, the cable magnetizations and losses were measured by pickup coil magnetometry at 4.2 K in face-on fields, B m , of ± 400 mT at frequencies, f, of up to 60 mHz. Based on the coupling component of loss, Q coup , the coupling magnetization M coup = Q coup /4B m was derived for a ramp rate of 7.5 mT/s. Persistent current (shielding) magnetization and loss (M sh and Q h,strand ) were measured on short pieces of extracted strand by vibrating sample magnetometry at 4.2 K. Unpenetrated M-B loops to ± 400 mT and fully penetrated loops to ± 14 T were obtained. M coup can be easily controlled and reduced to relatively small values by introducing cores and adjusting the preparation conditions. But in low fields near injection Nb3Sn’s high J c and correspondingly high M sh,cable may call for magnetic compensation to preserve field quality. The suitably adjusted cable and strand fully penetrated M-B loops were in reasonable accord leading to the conclusion that strand magnetization is a useful measure of cable magnetization, and that when suitably manipulated can provide input to magnet field error calculations.

Estimation of Prestress Force Distribution in Multi-Strand System of Prestressed Concrete Structures Using Field Data Measured by Electromagnetic Sensor

PubMed Central

Cho, Keunhee; Cho, Jeong-Rae; Kim, Sung Tae; Park, Sung Yong; Kim, Young-Jin; Park, Young-Hwan

2016-01-01

The recently developed smart strand can be used to measure the prestress force in the prestressed concrete (PSC) structure from the construction stage to the in-service stage. The higher cost of the smart strand compared to the conventional strand renders it unaffordable to replace all the strands by smart strands, and results in the application of only a limited number of smart strands in the PSC structure. However, the prestress forces developed in the strands of the multi-strand system frequently adopted in PSC structures differ from each other, which means that the prestress force in the multi-strand system cannot be obtained by simple proportional scaling using the measurement of the smart strand. Therefore, this study examines the prestress force distribution in the multi-strand system to find the correlation between the prestress force measured by the smart strand and the prestress force distribution in the multi-strand system. To that goal, the prestress force distribution was measured using electromagnetic sensors for various factors of the multi-strand system adopted on site in the fabrication of actual PSC girders. The results verified the possibility to assume normal distribution for the prestress force distribution per anchor head, and a method computing the mean and standard deviation defining the normal distribution is proposed. This paper presents a meaningful finding by proposing an estimation method of the prestress force based upon field-measured data of the prestress force distribution in the multi-strand system of actual PSC structures. PMID:27548172

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.

Genotoxicity in native fish associated with agricultural runoff events

USGS Publications Warehouse

Whitehead, Andrew; Kuivila, Kathryn; Orlando, James L.; Kotelevtsev, S.; Anderson, Susan L.

2004-01-01

The primary objective of the present study was to test whether agricultural chemical runoff was associated with in-stream genotoxicity in native fish. Using Sacramento sucker (Catostomus occidentalis), we combined field-caging experiments in an agriculturally dominated watershed with controlled laboratory exposures to field-collected water samples, and we coupled genotoxicity biomarker measurements in fish with bacterial mutagenicity analysis of water samples. We selected DNA strand breakage as a genotoxicity biomarker and Ames Salmonella mutagenicity tests as a second, supporting indicator of genotoxicity. Data from experiments conducted during rainfall runoff events following winter application of pesticides in 2000 and 2001 indicated that DNA strand breaks were significantly elevated in fish exposed to San Joaquin River (CA, USA) water (38.8, 28.4, and 53.6% DNA strand breakage in year 2000 field, year 2000 lab, and year 2001 field exposures, respectively) compared with a nearby reference site (15.4, 8.7, and 12.6% DNA strand breakage in year 2000 field, year 2000 lab, and year 2001 field exposures, respectively). Time-course measurements in field experiments supported a linkage between induction of DNA strand breakage and the timing of agricultural runoff. San Joaquin River water also caused significant reversion mutation in two Ames Salmonella tester strains. Salmonella mutagenicity corroborated in-stream effects, further strengthening a causal relationship between runoff events and genotoxicity. Potentially responsible agents are discussed in the context of timing of runoff events in the field, concordance between laboratory and field exposures, pesticide application patterns in the drainage, and analytical chemistry data.

The Reduction of the Critical Currents in Nb3Sn Cables under Transverse Loads

DOE Office of Scientific and Technical Information (OSTI.GOV)

Van Oort, J.M.; Scanlan, R.M.; Weijers, H.W.

1992-08-01

The degradation of the critical current of impregnated Rutherford type Nb{sub 3}Sn cables is investigated as a function of the applied transverse load and magnetic field. The cable is made of TWCA modified jelly-roll type strand material and has a keystone angle of 1.0 degree. The voltage-current characteristics are determined for the magnetic field ranging from 2 to 11 tesla and transverse pressure up to 250 MPa on the cable surface. It is found that the 48-strand cable, made of strands with 6 elements in the matrix, shows a larger critical current degradation than the 26-strand cable with 36 elementsmore » per strand. The global degradation of the 48-strand cable is 63% at 150 MPa, and 40% at 150 MPa for the 26-strand cable. Micro-analysis of the cross-section shows permanent damage to the sharp edge of the cable. The influence of the keystone angle on the critical-current degradation is currently under investigation.« less

Development of a 10 m quasi-isotropic strand assembled from 2G wires

NASA Astrophysics Data System (ADS)

Kan, Changtao; Wang, Yinshun; Hou, Yanbing; Li, Yan; Zhang, Han; Fu, Yu; Jiang, Zhe

2018-03-01

Quasi-isotropic strands made of second generation (2G) high temperature superconducting (HTS) wires are attractive to applications of high-field magnets at low temperatures and power transmission cables at liquid nitrogen temperature in virtue of their high current carrying capability and well mechanical property. In this contribution, a 10 m length quasi-isotropic strand is manufactured and successfully tested in liquid nitrogen to verify the feasibility of an industrial scale production of the strand by the existing cabling technologies. The strand with copper sheath consists of 72 symmetrically assembled 2G wires. The uniformity of critical properties of long quasi-isotropic strands, including critical current and n-value, is very important for their using. Critical currents as well as n-values of the strand are measured every 1 m respectively and compared with the simulation results. Critical current and n-value of the strand are calculated basing on the self-consistent model solved by the finite element method (FEM). Effects of self-field on the critical current and n-value distributions in wires of the strand are analyzed in detail. The simulation results show good agreement with the experimental data and the 10 m quasi-isotropic strand has good critical properties uniformity.

Commercial industry on the horizon

DOE Office of Scientific and Technical Information (OSTI.GOV)

Belcher, J.

2000-01-01

About 5,000 Tcf of stranded gas reserves exist worldwide--gas that is not economically feasible to recover and move to market through pipelines. For oil producers, this is problematic for a number of reasons. What do you do with associated gas when environmental regulations worldwide are banning flaring due to concerns over greenhouse gas emissions? Reinjection is costly and may not be the best solution in every reservoir. While many producers have enormous gas reserves, they are of no value if that gas is just sitting in the ground with no potential markets at hand. How can you monetize these reserves?more » A potential solution to the problem of stranded gas reserves is GTL processing. This process takes methane and converts it to synthesis gas, uses the Fischer-Tropsch (FT) process to convert the synthesis gas to syncrude, and upgrades the syncrude to various hydrocarbon chains to produce a variety of refined products. Three recent developments favor commercial GTL development: environmental regulations are creating a premium for ultraclean fuels; new technology is lowering the capital costs and operating costs of GTL development; and world oil prices have risen above $20/bbl. Therefore, the oil and gas industry is taking a serious look at commercialization of GTL.« less

Reaction of a phospholipid monolayer with gas-phase ozone at the air-water interface: measurement of surface excess and surface pressure in real time.

PubMed

Thompson, Katherine C; Rennie, Adrian R; King, Martin D; Hardman, Samantha J O; Lucas, Claire O M; Pfrang, Christian; Hughes, Brian R; Hughes, Arwel V

2010-11-16

The reaction between gas-phase ozone and monolayers of the unsaturated lipid 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine, POPC, on aqueous solutions has been studied in real time using neutron reflection and surface pressure measurements. The reaction between ozone and lung surfactant, which contains POPC, leads to decreased pulmonary function, but little is known about the changes that occur to the interfacial material as a result of oxidation. The results reveal that the initial reaction of ozone with POPC leads to a rapid increase in surface pressure followed by a slow decrease to very low values. The neutron reflection measurements, performed on an isotopologue of POPC with a selectively deuterated palmitoyl strand, reveal that the reaction leads to loss of this strand from the air-water interface, suggesting either solubilization of the product lipid or degradation of the palmitoyl strand by a reactive species. Reactions of (1)H-POPC on D(2)O reveal that the headgroup region of the lipids in aqueous solution is not dramatically perturbed by the reaction of POPC monolayers with ozone supporting degradation of the palmitoyl strand rather than solubilization. The results are consistent with the reaction of ozone with the oleoyl strand of POPC at the air-water interface leading to the formation of OH radicals. The highly reactive OH radicals produced can then go on to react with the saturated palmitoyl strands leading to the formation of oxidized lipids with shorter alkyl tails.

Magnetic-field-induced DNA strand breaks in brain cells of the rat.

PubMed Central

Lai, Henry; Singh, Narendra P

2004-01-01

In previous research, we found that rats acutely (2 hr) exposed to a 60-Hz sinusoidal magnetic field at intensities of 0.1-0.5 millitesla (mT) showed increases in DNA single- and double-strand breaks in their brain cells. Further research showed that these effects could be blocked by pretreating the rats with the free radical scavengers melatonin and N-tert-butyl-alpha-phenylnitrone, suggesting the involvement of free radicals. In the present study, effects of magnetic field exposure on brain cell DNA in the rat were further investigated. Exposure to a 60-Hz magnetic field at 0.01 mT for 24 hr caused a significant increase in DNA single- and double-strand breaks. Prolonging the exposure to 48 hr caused a larger increase. This indicates that the effect is cumulative. In addition, treatment with Trolox (a vitamin E analog) or 7-nitroindazole (a nitric oxide synthase inhibitor) blocked magnetic-field-induced DNA strand breaks. These data further support a role of free radicals on the effects of magnetic fields. Treatment with the iron chelator deferiprone also blocked the effects of magnetic fields on brain cell DNA, suggesting the involvement of iron. Acute magnetic field exposure increased apoptosis and necrosis of brain cells in the rat. We hypothesize that exposure to a 60-Hz magnetic field initiates an iron-mediated process (e.g., the Fenton reaction) that increases free radical formation in brain cells, leading to DNA strand breaks and cell death. This hypothesis could have an important implication for the possible health effects associated with exposure to extremely low-frequency magnetic fields in the public and occupational environments. PMID:15121512

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 critical field and is usually attributed to the different tin content profiles and pinning properties of internal-tin and bronze-route strands. We report that the strain dependence of the pivot-point in these strands is quite different from that of the upper critical field and suggest that its origin in optimized high tin content strands is the proximity of the tetragonal Nb3Sn phase, which has low superconducting critical parameters.

Splice length of prestressing strand in field-cast ultra-high performance concrete connections, TechBrief

DOT National Transportation Integrated Search

2014-02-02

The objective of this research was to determine the lap splice length of untensioned prestressing strand in field-cast ultrahigh performance concrete (UHPC). This document is a technical summary of the Federal Highway Administration report, Splice Le...

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 Nb 3Sn-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 onmore » the 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

New design of cable-in-conduit conductor for application in future fusion reactors

NASA Astrophysics Data System (ADS)

Qin, Jinggang; Wu, Yu; Li, Jiangang; Liu, Fang; Dai, Chao; Shi, Yi; Liu, Huajun; Mao, Zhehua; Nijhuis, Arend; Zhou, Chao; Yagotintsev, Konstantin A.; Lubkemann, Ruben; Anvar, V. A.; Devred, Arnaud

2017-11-01

The China Fusion Engineering Test Reactor (CFETR) is a new tokamak device whose magnet system includes toroidal field, central solenoid (CS) and poloidal field coils. The main goal is to build a fusion engineering tokamak reactor with about 1 GW fusion power and self-sufficiency by blanket. In order to reach this high performance, the magnet field target is 15 T. However, the huge electromagnetic load caused by high field and current is a threat for conductor degradation under cycling. The conductor with a short-twist-pitch (STP) design has large stiffness, which enables a significant performance improvement in view of load and thermal cycling. But the conductor with STP design has a remarkable disadvantage: it can easily cause severe strand indentation during cabling. The indentation can reduce the strand performance, especially under high load cycling. In order to overcome this disadvantage, a new design is proposed. The main characteristic of this new design is an updated layout in the triplet. The triplet is made of two Nb3Sn strands and one soft copper strand. The twist pitch of the two Nb3Sn strands is large and cabled first. The copper strand is then wound around the two superconducting strands (CWS) with a shorter twist pitch. The following cable stages layout and twist pitches are similar to the ITER CS conductor with STP design. One short conductor sample with a similar scale to the ITER CS was manufactured and tested with the Twente Cable Press to investigate the mechanical properties, AC loss and internal inspection by destructive examination. The results are compared to the STP conductor (ITER CS and CFETR CSMC) tests. The results show that the new conductor design has similar stiffness, but much lower strand indentation than the STP design. The new design shows potential for application in future fusion reactors.

Modeling of Liquid Steel/Slag/Argon Gas Multiphase Flow During Tundish Open Eye Formation in a Two-Strand Tundish

NASA Astrophysics Data System (ADS)

Chatterjee, Saikat; Li, Donghui; Chattopadhyay, Kinnor

2018-04-01

Multiphase flows are frequently encountered in metallurgical operations. One of the most effective ways to understand these processes is by flow modeling. The process of tundish open eye (TOE) formation involves three-phase interaction between liquid steel, slag, and argon gas. The two-phase interaction involving argon gas bubbles and liquid steel can be modeled relatively easily using the discrete phase modeling technique. However, the effect of an upper slag layer cannot be captured using this approach. The presence of an upper buoyant phase can have a major effect on the behavior of TOEs. Hence, a multiphase model, including three phases, viz. liquid steel, slag, and argon gas, in a two-strand slab caster tundish, was developed to study the formation and evolution of TOEs. The volume of fluid model was used to track the interphase between liquid steel and slag phases, while the discrete phase model was used to trace the movement of the argon gas bubbles in liquid steel. The variation in the TOE areas with different amounts of aspirated argon gas was examined in the presence of an overlying slag phase. The mathematical model predictions were compared against steel plant measurements.

Recent observations of the formation of filaments

NASA Technical Reports Server (NTRS)

Martin, Sara F.

1986-01-01

Two examples of the formation of small filaments in H alpha are described and illustrated. In both cases, the formation is seen to be the spontaneous appearance of strands of absorbing mass that evolve from no previous structure. The initial development of the filaments appears to consist of the accumulation of these absorptive strands along approximately parallel paths in a channel between large-scale, opposite polarity magnetic fields on either side of the filaments. The strands exhibit continuous changes in shape and degree of absorption which can be due to successive condensations resulting in new strands, mass motions within the strands, and outflow of the mass from the strands. For at least several hours before the formation of both filaments, small-scale fragments of opposite polarity, line-of-sight magnetic flux adjacent to or immediately below the filaments, and at the ends of the filaments, were cancelling. This type of magnetic flux disappearance continued during the development of the filaments and is commonly observed in association with established filaments. Cancellation is interpreted as an important evolutionary change in the magnetic field that can lead to configurations suitable for the formation of filaments.

Frequency dependence of magnetic ac loss in a Roebel cable made of YBCO on a Ni-W substrate

NASA Astrophysics Data System (ADS)

Lakshmi, L. S.; Staines, M. P.; Badcock, R. A.; Long, N. J.; Majoros, M.; Collings, E. W.; Sumption, M. D.

2010-08-01

We have investigated the frequency dependent contributions to the magnetic ac loss in a 10 strand Roebel cable with 2 mm wide non-insulated strands and a transposition length of 90 mm. This cable is made from 40 mm wide YBCO coated conductor tape manufactured by AMSC and stabilized by electroplating 25 µm thick copper on either side prior to the mechanical punching of the cable strands. The measurements were carried out in both perpendicular and parallel field orientation, at frequencies in the range of 30-200 Hz. While the loss in the perpendicular orientation is predominantly hysteretic in nature, we observe some frequency dependence of the loss when the cable approaches full flux penetration at high field amplitudes. The magnitude is consistent with eddy current losses in the copper stabilization layer. This supports the fact that the inter-strand coupling loss is not significant in this frequency range. In the parallel field orientation, the hysteresis loss in the Ni-W alloy substrate dominates, but we see an unusually strong frequency dependent contribution to the loss which we attribute to intra-strand current loops.

The extracranial arterial system in the heads of beaked whales, with implications on diving physiology and pathogenesis.

PubMed

Costidis, Alexander M; Rommel, Sentiel A

2016-01-01

Beaked whales are medium-sized toothed whales that inhabit depths beyond the continental shelf; thus beaked whale strandings are relatively infrequent compared to those of other cetaceans. Beaked whales have been catapulted into the spotlight by their tendency to strand in association with naval sonar deployment. Studies have shown the presence of gas and fat emboli within the tissues and analysis of gas emboli is suggestive of nitrogen as the primary component. These findings are consistent with human decompression sickness (DCS) previously not thought possible in cetaceans. Because, tissue loading with nitrogen gas is paramount for the manifestation of DCS and nitrogen loading depends largely on the vascular perfusion of the tissues, we examined the anatomy of the extracranial arterial system using stranded carcasses of 16 beaked whales from five different species. Anatomic regions containing lipid and/or air spaces were prioritized as potential locations of nitrogen gas absorption due to the known solubility of nitrogen in adipose tissue and the nitrogen content of air, respectively. Attention was focused on the acoustic fat bodies and accessory sinus system on the ventral head. We found much of the arterial system of the head to contain arteries homologous to those found in domestic mammals. Robust arterial associations with lipid depots and air spaces occurred within the acoustic fat bodies of the lower jaw and pterygoid air sacs of the ventral head, respectively. Both regions contained extensive trabecular geometry with small arteries investing the trabeculae. Our findings suggest the presence of considerable surface area between the arterial system, and the intramandibular fat bodies and pterygoid air sacs. Our observations may provide support for the hypothesis that these structures play an important role in the exchange of nitrogen gas during diving. © 2015 Wiley Periodicals, Inc.

Electron attachment to DNA single strands: gas phase and aqueous solution.

PubMed

Gu, Jiande; Xie, Yaoming; Schaefer, Henry F

2007-01-01

The 2'-deoxyguanosine-3',5'-diphosphate, 2'-deoxyadenosine-3',5'-diphosphate, 2'-deoxycytidine-3',5'-diphosphate and 2'-deoxythymidine-3',5'-diphosphate systems are the smallest units of a DNA single strand. Exploring these comprehensive subunits with reliable density functional methods enables one to approach reasonable predictions of the properties of DNA single strands. With these models, DNA single strands are found to have a strong tendency to capture low-energy electrons. The vertical attachment energies (VEAs) predicted for 3',5'-dTDP (0.17 eV) and 3',5'-dGDP (0.14 eV) indicate that both the thymine-rich and the guanine-rich DNA single strands have the ability to capture electrons. The adiabatic electron affinities (AEAs) of the nucleotides considered here range from 0.22 to 0.52 eV and follow the order 3',5'-dTDP > 3',5'-dCDP > 3',5'-dGDP > 3',5'-dADP. A substantial increase in the AEA is observed compared to that of the corresponding nucleic acid bases and the corresponding nucleosides. Furthermore, aqueous solution simulations dramatically increase the electron attracting properties of the DNA single strands. The present investigation illustrates that in the gas phase, the excess electron is situated both on the nucleobase and on the phosphate moiety for DNA single strands. However, the distribution of the extra negative charge is uneven. The attached electron favors the base moiety for the pyrimidine, while it prefers the 3'-phosphate subunit for the purine DNA single strands. In contrast, the attached electron is tightly bound to the base fragment for the cytidine, thymidine and adenosine nucleotides, while it almost exclusively resides in the vicinity of the 3'-phosphate group for the guanosine nucleotides due to the solvent effects. The comparatively low vertical detachment energies (VDEs) predicted for 3',5'-dADP(-) (0.26 eV) and 3',5'-dGDP(-) (0.32 eV) indicate that electron detachment might compete with reactions having high activation barriers such as glycosidic bond breakage. However, the radical anions of the pyrimidine nucleotides with high VDE are expected to be electronically stable. Thus the base-centered radical anions of the pyrimidine nucleotides might be the possible intermediates for DNA single-strand breakage.

Understanding the Impacts of Anthropogenic Sound on Beaked Whales

DTIC Science & Technology

2006-01-01

Arbelo, M. 2005. ‘Gas and fat embolic syndrome’ involving a mass stranding of beaked whales (family Ziphiidae) exposed to anthropogenic sonar signals. Vet...intracranial and acoustic fat injuries in the strandings and mortalities was not clear. Analysis of acoustic sources used in the Bahamas naval exercises revealed...Macroscopic examination revealed that the whales had severe, diffuse congestion and haemorrhages, especially in the fat in the jaw, around the ears, in the

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 the completion of the largest Nb3Sn strand production, our experience gained from monitoring the execution of the QC activities and from auditing the results from the measurements is summarised for future superconducting strand material procurement activities.

Sequence-specific activation of the DNA sensor cGAS by Y-form DNA structures as found in primary HIV-1 cDNA.

PubMed

Herzner, Anna-Maria; Hagmann, Cristina Amparo; Goldeck, Marion; Wolter, Steven; Kübler, Kirsten; Wittmann, Sabine; Gramberg, Thomas; Andreeva, Liudmila; Hopfner, Karl-Peter; Mertens, Christina; Zillinger, Thomas; Jin, Tengchuan; Xiao, Tsan Sam; Bartok, Eva; Coch, Christoph; Ackermann, Damian; Hornung, Veit; Ludwig, Janos; Barchet, Winfried; Hartmann, Gunther; Schlee, Martin

2015-10-01

Cytosolic DNA that emerges during infection with a retrovirus or DNA virus triggers antiviral type I interferon responses. So far, only double-stranded DNA (dsDNA) over 40 base pairs (bp) in length has been considered immunostimulatory. Here we found that unpaired DNA nucleotides flanking short base-paired DNA stretches, as in stem-loop structures of single-stranded DNA (ssDNA) derived from human immunodeficiency virus type 1 (HIV-1), activated the type I interferon-inducing DNA sensor cGAS in a sequence-dependent manner. DNA structures containing unpaired guanosines flanking short (12- to 20-bp) dsDNA (Y-form DNA) were highly stimulatory and specifically enhanced the enzymatic activity of cGAS. Furthermore, we found that primary HIV-1 reverse transcripts represented the predominant viral cytosolic DNA species during early infection of macrophages and that these ssDNAs were highly immunostimulatory. Collectively, our study identifies unpaired guanosines in Y-form DNA as a highly active, minimal cGAS recognition motif that enables detection of HIV-1 ssDNA.

A magnetic torsional wave near the Galactic Centre traced by a 'double helix' nebula.

PubMed

Morris, Mark; Uchida, Keven; Do, Tuan

2006-03-16

The magnetic field in the central few hundred parsecs of the Milky Way has a dipolar geometry and is substantially stronger than elsewhere in the Galaxy, with estimates ranging up to a milligauss (refs 1-6). Characterization of the magnetic field at the Galactic Centre is important because it can affect the orbits of molecular clouds by exerting a drag on them, inhibit star formation, and could guide a wind of hot gas or cosmic rays away from the central region. Here we report observations of an infrared nebula having the morphology of an intertwined double helix about 100 parsecs from the Galaxy's dynamical centre, with its axis oriented perpendicular to the Galactic plane. The observed segment is about 25 parsecs in length, and contains about 1.25 full turns of each of the two continuous, helically wound strands. We interpret this feature as a torsional Alfvén wave propagating vertically away from the Galactic disk, driven by rotation of the magnetized circumnuclear gas disk. The direct connection between the circumnuclear disk and the double helix is ambiguous, but the images show a possible meandering channel that warrants further investigation.

Comet Assay in Cancer Chemoprevention.

PubMed

Santoro, Raffaela; Ferraiuolo, Maria; Morgano, Gian Paolo; Muti, Paola; Strano, Sabrina

2016-01-01

The comet assay can be useful in monitoring DNA damage in single cells caused by exposure to genotoxic agents, such as those causing air, water, and soil pollution (e.g., pesticides, dioxins, electromagnetic fields) and chemo- and radiotherapy in cancer patients, or in the assessment of genoprotective effects of chemopreventive molecules. Therefore, it has particular importance in the fields of pharmacology and toxicology, and in both environmental and human biomonitoring. It allows the detection of single strand breaks as well as double-strand breaks and can be used in both normal and cancer cells. Here we describe the alkali method for comet assay, which allows to detect both single- and double-strand DNA breaks.

Electron attachment to DNA single strands: gas phase and aqueous solution

PubMed Central

Gu, Jiande; Xie, Yaoming; Schaefer, Henry F.

2007-01-01

The 2′-deoxyguanosine-3′,5′-diphosphate, 2′-deoxyadenosine-3′,5′-diphosphate, 2′-deoxycytidine-3′,5′-diphosphate and 2′-deoxythymidine-3′,5′-diphosphate systems are the smallest units of a DNA single strand. Exploring these comprehensive subunits with reliable density functional methods enables one to approach reasonable predictions of the properties of DNA single strands. With these models, DNA single strands are found to have a strong tendency to capture low-energy electrons. The vertical attachment energies (VEAs) predicted for 3′,5′-dTDP (0.17 eV) and 3′,5′-dGDP (0.14 eV) indicate that both the thymine-rich and the guanine-rich DNA single strands have the ability to capture electrons. The adiabatic electron affinities (AEAs) of the nucleotides considered here range from 0.22 to 0.52 eV and follow the order 3′,5′-dTDP > 3′,5′-dCDP > 3′,5′-dGDP > 3′,5′-dADP. A substantial increase in the AEA is observed compared to that of the corresponding nucleic acid bases and the corresponding nucleosides. Furthermore, aqueous solution simulations dramatically increase the electron attracting properties of the DNA single strands. The present investigation illustrates that in the gas phase, the excess electron is situated both on the nucleobase and on the phosphate moiety for DNA single strands. However, the distribution of the extra negative charge is uneven. The attached electron favors the base moiety for the pyrimidine, while it prefers the 3′-phosphate subunit for the purine DNA single strands. In contrast, the attached electron is tightly bound to the base fragment for the cytidine, thymidine and adenosine nucleotides, while it almost exclusively resides in the vicinity of the 3′-phosphate group for the guanosine nucleotides due to the solvent effects. The comparatively low vertical detachment energies (VDEs) predicted for 3′,5′-dADP− (0.26 eV) and 3′,5′-dGDP− (0.32 eV) indicate that electron detachment might compete with reactions having high activation barriers such as glycosidic bond breakage. However, the radical anions of the pyrimidine nucleotides with high VDE are expected to be electronically stable. Thus the base-centered radical anions of the pyrimidine nucleotides might be the possible intermediates for DNA single-strand breakage. PMID:17660189

Pore-scale interfacial dynamics during gas-supersaturated water injection in porous media - on nucleation, growth and advection of disconnected fluid phases (Invited)

NASA Astrophysics Data System (ADS)

Or, D.; Ioannidis, M.

2010-12-01

Degassing and in situ development of a mobile gas bubbles occur when injecting supersaturated aqueous phase into water-saturated porous media. Supersaturated water injection (SWI) has potentially significant applications in remediation of soils contaminated by non-aqueous phase liquids and in enhanced oil recovery. Pore network simulations indicate the formation of a region near the injection boundary where gas phase nuclei are activated and grow by mass transfer from the flowing supersaturated aqueous phase. Ramified clusters of gas-filled pores develop which, owing to the low prevailing Bond number, grow laterally to a significant extent prior to the onset of mobilization, and are thus likely to coalesce. Gas cluster mobilization invariably results in fragmentation and stranding, such that a macroscopic region containing few tenuously connected large gas clusters is established. Beyond this region, gas phase nucleation and mass transfer from the aqueous phase are limited by diminishing supply of dissolved gas. New insights into SWI dynamics are obtained using rapid micro-visualization in transparent glass micromodels. Using high-speed imaging, we observe the nucleation, initial growth and subsequent fate (mobilization, fragmentation, collision, coalescence and stranding) of CO2 bubbles and clusters of gas-filled pores and analyze cluster population statistics. We find significant support for the development of invasion-percolation-like patterns, but also report on hitherto unaccounted for gas bubble behavior. Additionally, we report for the first time on the acoustic emission signature of SWI in porous media and relate it to the dynamics of bubble nucleation and growth. Finally, we identify the pore-scale mechanisms associated with the mobilization and subsequent recovery of a residual non-aqueous phase liquid due to gas bubble dynamics during SWI.

Dissimilar Kinetic Behavior of Electrically Manipulated Single- and Double-Stranded DNA Tethered to a Gold Surface

PubMed Central

Rant, Ulrich; Arinaga, Kenji; Tornow, Marc; Kim, Yong Woon; Netz, Roland R.; Fujita, Shozo; Yokoyama, Naoki; Abstreiter, Gerhard

2006-01-01

We report on the electrical manipulation of single- and double-stranded oligodeoxynucleotides that are end tethered to gold surfaces in electrolyte solution. The response to alternating repulsive and attractive electric surface fields is studied by time-resolved fluorescence measurements, revealing markedly distinct dynamics for the flexible single-stranded and stiff double-stranded DNA, respectively. Hydrodynamic simulations rationalize this finding and disclose two different kinetic mechanisms: stiff polymers undergo rotation around the anchoring pivot point; flexible polymers, on the other hand, are pulled onto the attracting surface segment by segment. PMID:16473909

Dissimilar kinetic behavior of electrically manipulated single- and double-stranded DNA tethered to a gold surface.

PubMed

Rant, Ulrich; Arinaga, Kenji; Tornow, Marc; Kim, Yong Woon; Netz, Roland R; Fujita, Shozo; Yokoyama, Naoki; Abstreiter, Gerhard

2006-05-15

We report on the electrical manipulation of single- and double-stranded oligodeoxynucleotides that are end tethered to gold surfaces in electrolyte solution. The response to alternating repulsive and attractive electric surface fields is studied by time-resolved fluorescence measurements, revealing markedly distinct dynamics for the flexible single-stranded and stiff double-stranded DNA, respectively. Hydrodynamic simulations rationalize this finding and disclose two different kinetic mechanisms: stiff polymers undergo rotation around the anchoring pivot point; flexible polymers, on the other hand, are pulled onto the attracting surface segment by segment.

Waveguides having patterned, flattened modes

DOE Office of Scientific and Technical Information (OSTI.GOV)

Messerly, Michael J.; Pax, Paul H.; Dawson, Jay W.

Field-flattening strands may be added to and arbitrarily positioned within a field-flattening shell to create a waveguide that supports a patterned, flattened mode. Patterning does not alter the effective index or flattened nature of the mode, but does alter the characteristics of other modes. Compared to a telecom fiber, a hexagonal pattern of strands allows for a three-fold increase in the flattened mode's area without reducing the separation between its effective index and that of its bend-coupled mode. Hexagonal strand and shell elements prove to be a reasonable approximation, and, thus, to be of practical benefit vis-a-vis fabrication, to thosemore » of circular cross section. Patterned flattened modes offer a new and valuable path to power scaling.« less

Polymer dynamics under nanoscopic constraints: the "corset effect" as revealed by NMR relaxometry and diffusometry.

PubMed

Fatkullin, Nail; Fischer, Elmar; Mattea, Carlos; Beginn, Uwe; Kimmich, Rainer

2004-06-21

A spinodal demixing technique was employed for the preparation of linear poly(ethylene oxide) (PEO) confined in nanoscopic strands, which in turn are embedded in a quasi-solid methacrylate matrix impenetrable to PEO. Both the molecular weight of the PEO and the mean diameter of the strands are variable to a certain degree. Chain dynamics of the PEO in the molten state were examined with the aid of field-gradient NMR diffusometry and field-cycling NMR relaxometry. The dominating mechanism for translational displacements in the nanoscopic strands is shown to be reptation. A formalism for the evaluation of NMR diffusometry is presented, which permits the estimation of the mean PEO strand diameter. Samples of different composition revealed diameters in the range 9-58 nm, in reasonable agreement with electron micrographs. The time scale of the diffusion measurements was 10-300 ms. On the much shorter time scale of field-cycling NMR relaxometry, 10(-9)-10(-4)s, a frequency dispersion of the spin-lattice relaxation time characteristic for reptation clearly showed up in all samples. An effective tube diameter of only 0.6 nm was found even when the strand diameter was larger than the radius of gyration of the PEO chain random coils. The finding that the tube diameter effective on the short time scale of field-cycling NMR relaxometry is much smaller than the diameter of the confining structure is termed the "corset effect", and is traced back to the lack of local free-volume fluctuation capacity under nanoscale confinements. The order of magnitude of the 'pore' diameter, at which the cross-over from confined to bulk chain dynamics is expected, is estimated.

A Study of Stranding of Juvenile Salmon by Ship Wakes Along the Lower Columbia River Using a Before-and-After Design: Before-Phase Results

DOE Office of Scientific and Technical Information (OSTI.GOV)

Pearson, Walter H.; Skalski, J R.; Sobocinski, Kathryn L.

2006-02-01

Ship wakes produced by deep-draft vessels transiting the lower Columbia River have been observed to cause stranding of juvenile salmon. Proposed deepening of the Columbia River navigation channel has raised concerns about the potential impact of the deepening project on juvenile salmon stranding. The Portland District of the U.S. Army Corps of Engineers requested that the Pacific Northwest National Laboratory design and conduct a study to assess stranding impacts that may be associated with channel deepening. The basic study design was a multivariate analysis of covariance of field observations and measurements under a statistical design for a before and aftermore » impact comparison. We have summarized field activities and statistical analyses for the ?before? component of the study here. Stranding occurred at all three sampling sites and during all three sampling seasons (Summer 2004, Winter 2005, and Spring 2005), for a total of 46 stranding events during 126 observed vessel passages. The highest occurrence of stranding occurred at Barlow Point, WA, where 53% of the observed events resulted in stranding. Other sites included Sauvie Island, OR (37%) and County Line Park, WA (15%). To develop an appropriate impact assessment model that accounted for relevant covariates, regression analyses were conducted to determine the relationships between stranding probability and other factors. Nineteen independent variables were considered as potential factors affecting the incidence of juvenile salmon stranding, including tidal stage, tidal height, river flow, current velocity, ship type, ship direction, ship condition (loaded/unloaded), ship speed, ship size, and a proxy variable for ship kinetic energy. In addition to the ambient and ship characteristics listed above, site, season, and fish density were also considered. Although no single factor appears as the primary factor for stranding, statistical analyses of the covariates resulted in the following equations: (1) Stranding Probability {approx} Location + Kinetic Energy Proxy + Tidal Height + Salmonid Density + Kinetic energy proxy ? Tidal Height + Tidal Height x Salmonid Density. (2) Stranding Probability {approx} Location + Total Wave Distance + Salmonid Density Index. (3) Log(Total Wave Height) {approx} Ship Block + Tidal Height + Location + Ship Speed. (4) Log(Total Wave Excursion Across the Beach) {approx} Location + Kinetic Energy Proxy + Tidal Height The above equations form the basis for a conceptual model of the factors leading to salmon stranding. The equations also form the basis for an approach for assessing impacts of dredging under the before/after study design.« less

Cable testing for Fermilab's high field magnets using small racetrack coils

DOE Office of Scientific and Technical Information (OSTI.GOV)

Feher, S.; Ambrosio, G.; Andreev, N.

As part of the High Field Magnet program at Fermilab simple magnets have been designed utilizing small racetrack coils based on a sound mechanical structure and bladder technique developed by LBNL. Two of these magnets have been built in order to test Nb{sub 3}Sn cables used in cos-theta dipole models. The powder-in-tube strand based cable exhibited excellent performance. It reached its critical current limit within 14 quenches. Modified jelly roll strand based cable performance was limited by magnetic instabilities at low fields as previously tested dipole models which used similar cable.

Statistical Assessment of Cetacean Stranding Events in Cape Cod Area

NASA Technical Reports Server (NTRS)

Zellar, R.; Pulkkinen, A.; Moore, K.; Reeb, D.; Karakoylu, E.; Uritskaya, O.

2017-01-01

Cetacean (whales, dolphins and porpoises) mass strandings are a longstanding mystery in the field of marine biology that continue to be recorded in coastal environments around the world. For each of these events, anywhere from a few to several hundred otherwise healthy animals strand in onshore environments, often for no apparent reason. While the causes of these events remain unclear, anthropogenic and naturogenic mechanisms have been suggested. We present results of an inter-disciplinary study that draws expertise from space weather, marine mammal biology and ecology, and marine mammal stranding response. This study assessed 16 years of cetacean stranding events in the Cape Cod (Massachusetts, USA) area concurrently with a large dataset of meteorological, geophysical, biological, oceanographic and space weather data to produce inferences about possible causes for these unexplained events.

Statistical Assessment of Cetacean Stranding Events in Cape Cod (Massachusetts, USA) area.

NASA Astrophysics Data System (ADS)

Zellar, R.; Pulkkinen, A. A.; Moore, K.; Reeb, D.; Karakoylu, E.; Uritskaya, O.

2017-12-01

Cetacean (whales, dolphins and porpoises) mass strandings are a longstanding mystery in the field of marine biology that continue to be recorded in coastal environments around the world. For each of these events, anywhere from a few to several hundred otherwise healthy animals strand in onshore environments, often for no apparent reason. While the causes of these events remain unclear, anthropogenic and naturogenic mechanisms have been suggested. We present results of an inter-disciplinary study that draws expertise from space weather, marine mammal biology and ecology, and marine mammal stranding response. This study assessed 16 years of cetacean stranding events in the Cape Cod (Massachusetts, USA) area concurrently with a large dataset of meteorological, geophysical, biological, oceanographic and space weather data to produce inferences about possible causes for these unexplained events.

Two, Three, Many Strands of Activity Theory!

ERIC Educational Resources Information Center

Levant, Alex

2018-01-01

This piece critically follows David Bakhurst's 2009 article "Reflections on Activity Theory" in light of recent developments in the field. It sketches three directions for further research. First, it examines his identification of "two strands" of activity theory (AT)--the philosophical, which he associates with E.V. Ilyenkov…

Method for imaging informational biological molecules on a semiconductor substrate

NASA Technical Reports Server (NTRS)

Coles, L. Stephen (Inventor)

1994-01-01

Imaging biological molecules such as DNA at rates several times faster than conventional imaging techniques is carried out using a patterned silicon wafer having nano-machined grooves which hold individual molecular strands and periodically spaced unique bar codes permitting repeatably locating all images. The strands are coaxed into the grooves preferably using gravity and pulsed electric fields which induce electric charge attraction to the molecular strands in the bottom surfaces of the grooves. Differential imaging removes substrate artifacts.

Analysis of DNA Double-Strand Breaks and Cytotoxicity after 7 Tesla Magnetic Resonance Imaging of Isolated Human Lymphocytes

PubMed Central

Guttek, Karina; Hartig, Roland; Godenschweger, Frank; Roggenbuck, Dirk; Ricke, Jens; Reinhold, Dirk; Speck, Oliver

2015-01-01

The global use of magnetic resonance imaging (MRI) is constantly growing and the field strengths increasing. Yet, only little data about harmful biological effects caused by MRI exposure are available and published research analyzing the impact of MRI on DNA integrity reported controversial results. This in vitro study aimed to investigate the genotoxic and cytotoxic potential of 7 T ultra-high-field MRI on isolated human peripheral blood mononuclear cells. Hence, unstimulated mononuclear blood cells were exposed to 7 T static magnetic field alone or in combination with maximum permissible imaging gradients and radiofrequency pulses as well as to ionizing radiation during computed tomography and γ-ray exposure. DNA double-strand breaks were quantified by flow cytometry and automated microscopy analysis of immunofluorescence stained γH2AX. Cytotoxicity was studied by CellTiter-Blue viability assay and [3H]-thymidine proliferation assay. Exposure of unstimulated mononuclear blood cells to 7 T static magnetic field alone or combined with varying gradient magnetic fields and pulsed radiofrequency fields did not induce DNA double-strand breaks, whereas irradiation with X- and γ-rays led to a dose-dependent induction of γH2AX foci. The viability assay revealed a time- and dose-dependent decrease in metabolic activity only among samples exposed to γ-radiation. Further, there was no evidence for altered proliferation response after cells were exposed to 7 T MRI or low doses of ionizing radiation (≤ 0.2 Gy). These findings confirm the acceptance of MRI as a safe non-invasive diagnostic imaging tool, but whether MRI can induce other types of DNA lesions or DNA double-strand breaks during altered conditions still needs to be investigated. PMID:26176601

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.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Emanuela Barzi et al.

Fermilab is developing 11 T superconducting dipole magnets for future accelerators based on Nb{sub 3}Sn conductor. Within the High Field Magnet Project, the first prototypes feature 1 meter long two-layer shell-type coils and common coils. For the former, keystoned Rutherford-type cable made of 28 Nb{sub 3}Sn strands 1 mm in diameter are used, whereas for the latter a 60-strand flat cable was chosen. Multifilamentary Nb{sub 3}Sn strands produced with various technologies by industry were used for the development and testing of the prototype cable. An experimental cabling machine with up to 28-strand capacity that has been recently purchased, installed andmore » commissioned at Fermilab, has allowed further advances in strand and cable studies. Cables of 27 and 28 strands of various structures (single strands or assemblies of sub-strands), with aspect ratios from 7 to 17, packing factors from 85 to 95%, with and without a stainless steel core were made out of Copper, NbTi, and Modified Jelly Roll (OST), Powder-in-Tube (SMI) and Internal Tin (Mitsubishi) Nb{sub 3}Sn strands. optimal parameters were determined with respect to mechanical and electrical properties, including critical current degradation, interstrand resistance, etc. Round strands of the same billets used in the cables were deformed by rolling them down to various thicknesses. Their critical current Ic was then measured and compared with that of the strands extracted from cables having different packing factors. This paper summarizes the results of such R and D efforts at Fermilab.« less

The effect of heat treatment on the stability of Nb 3Sn RRP-150/169 strands

DOE PAGES

Li, Pei; Turrioni, Daniele; Barzi, Emanuela; ...

2017-02-17

Here, the magnetic stability of superconductor strands and cables is a key issue in the successful building and operation of high-field accelerator magnets. In this paper, we report the study of a state-of-the-art 0.7 mm Nb 3Sn restacked-rod-process strand manufactured by Oxford Instrument Superconductor Technology. This conductor will be used in Rutherford cable for a 15-T Nb 3Sn dipole demonstrator being built at Fermi National Accelerator Laboratory. Particularly, this study focuses on the impact of varying heat treatment conditions on the stability of the strand. Both the stability against internal flux jumps and external thermal perturbations are studied.

The effect of heat treatment on the stability of Nb 3Sn RRP-150/169 strands

DOE Office of Scientific and Technical Information (OSTI.GOV)

Li, Pei; Turrioni, Daniele; Barzi, Emanuela

Here, the magnetic stability of superconductor strands and cables is a key issue in the successful building and operation of high-field accelerator magnets. In this paper, we report the study of a state-of-the-art 0.7 mm Nb 3Sn restacked-rod-process strand manufactured by Oxford Instrument Superconductor Technology. This conductor will be used in Rutherford cable for a 15-T Nb 3Sn dipole demonstrator being built at Fermi National Accelerator Laboratory. Particularly, this study focuses on the impact of varying heat treatment conditions on the stability of the strand. Both the stability against internal flux jumps and external thermal perturbations are studied.

MULTI-STRAND CORONAL LOOP MODEL AND FILTER-RATIO ANALYSIS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bourouaine, Sofiane; Marsch, Eckart, E-mail: bourouaine@mps.mpg.d

2010-01-10

We model a coronal loop as a bundle of seven separate strands or filaments. Each of the loop strands used in this model can independently be heated (near their left footpoints) by Alfven/ion-cyclotron waves via wave-particle interactions. The Alfven waves are assumed to penetrate the strands from their footpoints, at which we consider different wave energy inputs. As a result, the loop strands can have different heating profiles, and the differential heating can lead to a varying cross-field temperature in the total coronal loop. The simulation of Transition Region and Coronal Explorer (TRACE) observations by means of this loop modelmore » implies two uniform temperatures along the loop length, one inferred from the 171:195 filter ratio and the other from the 171:284 ratio. The reproduced flat temperature profiles are consistent with those inferred from the observed extreme-ultraviolet coronal loops. According to our model, the flat temperature profile is a consequence of the coronal loop consisting of filaments, which have different temperatures but almost similar emission measures in the cross-field direction. Furthermore, when we assume certain errors in the simulated loop emissions (e.g., due to photometric uncertainties in the TRACE filters) and use the triple-filter analysis, our simulated loop conditions become consistent with those of an isothermal plasma. This implies that the use of TRACE or EUV Imaging Telescope triple filters for observation of a warm coronal loop may not help in determining whether the cross-field isothermal assumption is satisfied or not.« less

Architecture and Transport Properties of Multifilamentary MgB2 Strands for MRI and Low AC Loss Applications

PubMed Central

Wan, F.; Sumption, M. D.; Rindfleisch, M. A.; Tomsic, M. J.; Collings, E. W.

2016-01-01

Standard in-situ type MgB2 strands manufactured by Hyper Tech Inc have 19 – 36 subelements, a monel outer sheath, and a Cu interfilamentary matrix. Typical transport Jcs of the strands are 2×105 A/cm2 with n-values of 20 – 30 at 4.2 K and 5 T. This work introduces two new MgB2 conductor designs. First, a new class of MgB2 strand is designed for magnetic resonance imaging applications. This type has a higher Cu content designed to enhance protection of a magnet wound with it, and a larger diameter to increase the critical current. Second, a new class of low AC loss MgB2 strand with high filament count and a high resistance matrix is discussed. Transport properties at 4.2 K and fields up to 10 T are reported. Optical techniques are used to study the macro- and micro-structures of these MgB2 strands. PMID:28827975

Uniform magnetic fields and double-wrapped coil systems: improved techniques for the design of bioelectromagnetic experiments.

PubMed

Kirschvink, J L

1992-01-01

A common mistake in biomagnetic experimentation is the assumption that Helmholtz coils provide uniform magnetic fields; this is true only for a limited volume at their center. Substantial improvements on this design have been made during the past 140 years with systems of three, four, and five coils. Numerical comparisons of the field uniformity generated by these designs are made here, along with a table of construction details and recommendations for their use in experiments in which large volumes of uniform intensity magnetic exposures are needed. Double-wrapping, or systems of bifilar windings, can also help control for the non-magnetic effects of the electric coils used in many experiments. In this design, each coil is wrapped in parallel with two separate, adjacent strands of copper wire, rather than the single strand used normally. If currents are flowing in antiparallel directions, the magnetic fields generated by each strand will cancel and yield virtually no external magnetic field, whereas parallel currents will yield an external field. Both cases will produce similar non-magnetic effects of ohmic heating, and simple measures can reduce the small vibration and electric field differences. Control experiments can then be designed such that the only major difference between treated and untreated groups is the presence or absence of the magnetic field. Double-wrapped coils also facilitate the use of truly double-blind protocol, as the same apparatus can be used either for experimental or control groups.

Factors affecting stranding of juvenile salmonids by wakes from ship passage in the Lower Columbia River

DOE Office of Scientific and Technical Information (OSTI.GOV)

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% ofmore » 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.« less

On the orientation of the backbone dipoles in native folds

PubMed Central

Ripoll, Daniel R.; Vila, Jorge A.; Scheraga, Harold A.

2005-01-01

The role of electrostatic interactions in determining the native fold of proteins has been investigated by analyzing the alignment of peptide bond dipole moments with the local electrostatic field generated by the rest of the molecule with and without solvent effects. This alignment was calculated for a set of 112 native proteins by using charges from a gas phase potential. Most of the peptide dipoles in this set of proteins are on average aligned with the electrostatic field. The dipole moments associated with α-helical conformations show the best alignment with the electrostatic field, followed by residues in β-strand conformations. The dipole moments associated with other secondary structure elements are on average better aligned than in randomly generated conformations. The alignment of a dipole with the local electrostatic field depends on both the topology of the native fold and the charge distribution assumed for all of the residues. The influences of (i) solvent effects, (ii) different sets of charges, and (iii) the charge distribution assumed for the whole molecule were examined with a subset of 22 proteins each of which contains <30 ionizable groups. The results show that alternative charge distribution models lead to significant differences among the associated electrostatic fields, whereas the electrostatic field is less sensitive to the particular set of the adopted charges themselves (empirical conformational energy program for peptides or parameters for solvation energy). PMID:15894608

THE INSTABILITY AND NON-EXISTENCE OF MULTI-STRANDED LOOPS WHEN DRIVEN BY TRANSVERSE WAVES

DOE Office of Scientific and Technical Information (OSTI.GOV)

Magyar, N.; Van Doorsselaere, T., E-mail: norbert.magyar@wis.kuleuven.be

2016-06-01

In recent years, omni-present transverse waves have been observed in all layers of the solar atmosphere. Coronal loops are often modeled as a collection of individual strands in order to explain their thermal behavior and appearance. We perform three-dimensional (3D) ideal magnetohydrodynamics simulations to study the effect of a continuous small amplitude transverse footpoint driving on the internal structure of a coronal loop composed of strands. The output is also converted into synthetic images, corresponding to the AIA 171 and 193 Å passbands, using FoMo. We show that the multi-stranded loop ceases to exist in the traditional sense of themore » word, because the plasma is efficiently mixed perpendicularly to the magnetic field, with the Kelvin–Helmholtz instability acting as the main mechanism. The final product of our simulation is a mixed loop with density structures on a large range of scales, resembling a power-law. Thus, multi-stranded loops are unstable to driving by transverse waves, and this raises strong doubts on the usability and applicability of coronal loop models consisting of independent strands.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Xu, Xingchen; Peng, Xuan; Sumption, Michael

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.

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 Nb 3Snmore » filament 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

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 Office of Scientific and Technical Information (OSTI.GOV)

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

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 Nb 3Snmore » filament 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

Stress and Friction Distribution around Slab Corner in Continuous Casting Mold with Different Corner Structures

NASA Astrophysics Data System (ADS)

Yu, Sheng; Long, Mujun; Chen, Huabiao; Chen, Dengfu; Liu, Tao; Duan, Huamei; Cao, Junsheng

2018-06-01

The non-uniform friction and thermal stress in the mold are important as causes of the transverse cracks around strand corner. To analyze the stress distribution features around strand corner, a three-dimensional thermo-elastoplastic finite-element mold model with different corner structures (right-angle, big-chamfer, multi-chamfer, and fillet) was established. The temperature field in the mold was indirectly coupled through a three-dimensional fluid flow and heat transfer model. In addition, the non-uniform mold friction stress loaded on the strand surface was calculated through a friction model. The results show that the stress distribution on the shell is similar to the temperature distribution. The stress concentration appears in the strand corner and the lower part of wide face. The friction stress enhances the corner stress around the edge of the air-gap. For chamfered molds, the stress around the corner between the wide face and chamfer face is larger than that between the narrow face and chamfer face. Around the corner region, both the stress peak and the area of the large stress zone of the right-angle strand are the largest, while those of big-chamfered, multi-chamfered, and fillet strands decrease in that order. The stress peak position of the chamfered strands is closer to the mold exit than that of the right-angle strand. Compared with the use of the right-angle mold, the application of chamfered molds is able to reduce the stress concentration around the strand corner.

Stress and Friction Distribution around Slab Corner in Continuous Casting Mold with Different Corner Structures

NASA Astrophysics Data System (ADS)

Yu, Sheng; Long, Mujun; Chen, Huabiao; Chen, Dengfu; Liu, Tao; Duan, Huamei; Cao, Junsheng

2018-02-01

The non-uniform friction and thermal stress in the mold are important as causes of the transverse cracks around strand corner. To analyze the stress distribution features around strand corner, a three-dimensional thermo-elastoplastic finite-element mold model with different corner structures (right-angle, big-chamfer, multi-chamfer, and fillet) was established. The temperature field in the mold was indirectly coupled through a three-dimensional fluid flow and heat transfer model. In addition, the non-uniform mold friction stress loaded on the strand surface was calculated through a friction model. The results show that the stress distribution on the shell is similar to the temperature distribution. The stress concentration appears in the strand corner and the lower part of wide face. The friction stress enhances the corner stress around the edge of the air-gap. For chamfered molds, the stress around the corner between the wide face and chamfer face is larger than that between the narrow face and chamfer face. Around the corner region, both the stress peak and the area of the large stress zone of the right-angle strand are the largest, while those of big-chamfered, multi-chamfered, and fillet strands decrease in that order. The stress peak position of the chamfered strands is closer to the mold exit than that of the right-angle strand. Compared with the use of the right-angle mold, the application of chamfered molds is able to reduce the stress concentration around the strand corner.

Static and dynamic parasitic magnetizations and their control in superconducting accelerator dipoles

NASA Astrophysics Data System (ADS)

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

2001-05-01

Long dipole magnets guide the particle beams in synchrotron-type high energy accelerators. In principal Cu-wound DC-excited dipoles could be designed to deliver a very uniform transverse bore field, i.e. with small or negligible harmonic (multipolar) distortion. But if the Cu is replaced by (a) superconducting strand that is (b) wound into a Rutherford cable carrying a time-varying transport current, extra magnetizations present within the windings cause distortions of the otherwise uniform field. The static (persistent-current) strand magnetization can be reduced by reducing the filament diameter, and the residue compensated or corrected by strategically placed active or passive components. The cable’s interstrand coupling currents can be controlled by increasing the interstrand contact resistance by: adjusting the level of native oxidation of the strand, coating it, or by inserting a ribbon-like core into the cable itself. Methods of locally compensating the magnetization of NbTi and Nb 3Sn strand and cable are discussed, progress in coupling-current suppression through the use of coatings and cores is reviewed, and a method of simultaneously reducing both the static and dynamic magnetizations of a NbTi cable by means of a thin Ni core is suggested.

The extracranial venous system in the heads of beaked whales, with implications on diving physiology and pathogenesis.

PubMed

Costidis, Alexander M; Rommel, Sentiel A

2016-01-01

Beaked whales are a poorly known but diverse group of whales that have received considerable attention due to strandings that have been temporally and spatially associated with naval sonar deployment. Postmortem studies on stranded carcasses have revealed lesions consistent with decompression sickness, including intravascular gas and fat emboli. These findings have been supported by analyses of intravascular gas emboli showing composition dominated by nitrogen gas. To increase our understanding of the pathophysiology of nitrogen bubble formation and intravascular embolization, we examined the gross and microscopic anatomy of the venous system in the head of beaked whales. Since the potential sources of intravascular fat and gas emboli were of greatest interest, focus was placed on the acoustic fat bodies and pneumatic accessory sinus system. Herein, we describe intimate arteriovenous associations with specialized adipose depots and air sinuses in beaked whales. These vascular structures comprise an extensive network of thin-walled vessels with a large surface area, which is likely to facilitate exchange of nitrogen gas and may, therefore, form anatomic regions that may be important in physiological management of diving gases. These structures may also be vulnerable to pathologic introduction of emboli into the vascular system. Expansive, thin-walled venous lakes are found within the pterygoid region, which suggest the potential for nitrogen exchange as well as for compensation of middle-ear pressures during descent on a dive. These findings warrant further research into the structure and function of this morphology as it relates to normal and pathologic physiology. © 2015 Wiley Periodicals, Inc.

Experimental results of 40-kA Nb[sub 3]Al cable-in-conduit conductor for fusion machines

DOE Office of Scientific and Technical Information (OSTI.GOV)

Takahashi, Y.; Sugimoto, M.; Isono, T.

1994-07-01

A 40-kA Nb[sub 3]Al cable-in-conduit conductor has been developed for the toroidal field coils of fusion reactors, because Nb[sub 3]Al has excellent mechanical performance. This conductor consists of 405 copper-stabilized multifilamentary strands inserted into a CuNi case circular conduit. The Nb[sub 3]Al strands are fabricated by the Jelly-roll process with a diameter of 1.22 mm. This conductor could be operated up to a current of 46 kA at an external field of 11.2 T. Accordingly, Nb[sub 3]Al promises to soon become a useful superconductor for large-scale high-field applications, such as fusion machines.

The first example of erbium triple-stranded helicates displaying SMM behaviour.

PubMed

Gorczyński, Adam; Kubicki, Maciej; Pinkowicz, Dawid; Pełka, Robert; Patroniak, Violetta; Podgajny, Robert

2015-10-14

A series of isostructural C3-symmetrical triple stranded dinuclear lanthanide [Ln2L3](NO3)3 molecules have been synthesized using subcomponent self-assembly of Ln(NO3)3 with 2-(methylhydrazino)benzimidazole and 4-tert-butyl-2,6-diformylphenol, where Ln = Tb (1), Dy (2), Ho (3), Er (4), Tm (5), and Yb (6). The temperature dependent and field dependent magnetic properties of 1-6 were modeled using the van Vleck approximation including the crystal field term HCF, the super-exchange term HSE and the Zeeman term HZE. Ferromagnetic interactions were found in 1, 2, 4 and 6, while antiferromagnetic interactions were found in 3 and 5. The erbium analogue reveals field induced SMM behaviour.

Hairpin Bisulfite Sequencing: Synchronous Methylation Analysis on Complementary DNA Strands of Individual Chromosomes.

PubMed

Giehr, Pascal; Walter, Jörn

2018-01-01

The accurate and quantitative detection of 5-methylcytosine is of great importance in the field of epigenetics. The method of choice is usually bisulfite sequencing because of the high resolution and the possibility to combine it with next generation sequencing. Nevertheless, also this method has its limitations. Following the bisulfite treatment DNA strands are no longer complementary such that in a subsequent PCR amplification the DNA methylation patterns information of only one of the two DNA strand is preserved. Several years ago Hairpin Bisulfite sequencing was developed as a method to obtain the pattern information on complementary DNA strands. The method requires fragmentation (usually by enzymatic cleavage) of genomic DNA followed by a covalent linking of both DNA strands through ligation of a short DNA hairpin oligonucleotide to both strands. The ligated covalently linked dsDNA products are then subjected to a conventional bisulfite treatment during which all unmodified cytosines are converted to uracils. During the treatment the DNA is denatured forming noncomplementary ssDNA circles. These circles serve as a template for a locus specific PCR to amplify chromosomal patterns of the region of interest. As a result one ends up with a linearized product, which contains the methylation information of both complementary DNA strands.

An innovative design for using flexible printed coils for magnetostrictive-based longitudinal guided wave sensors in steel strand inspection

NASA Astrophysics Data System (ADS)

Tse, P. W.; Liu, X. C.; Liu, Z. H.; Wu, B.; He, C. F.; Wang, X. J.

2011-05-01

Magnetostrictive sensors (MsSs) that can excite and receive guided waves are commonly used in detecting defects that may occur in cables and strands for supporting heavy structures. A conventional MsS has a hard sensing coil that is wound onto a bobbin with electric wires to generate the necessary dynamic magnetic field to excite the desired guided waves. This tailor-made hard coil is usually bulky and is not flexible enough to fit steel strands of various sizes. The conventional MsS also cannot be mounted to any steel strand that does not have a free end to allow the bobbin to pass through the structure of the tested strand. Such inflexibilities limit the use of conventional MsSs in practical situations. To solve these limitations, an innovative type of coil, called a flexible printed coil (FPC), which is made out of flexible printed film, has been designed to replace the inflexible hard coil. The flexible structure of the FPC ensures that the new MsS can be easily installed on and removed from steel strands with different diameters and without free ends. Moreover, the FPC-based MsS can be wrapped into multiple layers due to its thin and flexible design. Although multi-layer FPC creates a minor asymmetry in the dynamic magnetic field, the results of finite element analysis and experiments confirm that the longitudinal guided waves excited by a FPC-based MsS are comparable to those excited by a conventional hard coil MsS. No significant reduction in defect inspection performance was found; in fact, further advantages were identified when using the FPC-based MsS. When acting as the transmitter, the innovative FPC-based MsS can cover a longer inspection length of strand. When acting as the receiver, the FPC-based MsS is more sensitive to smaller defects that are impossible to detect using a hard coil MsS. Hence, the multi-layer FPC-based MsS has great potential for replacing the conventional hard coil MsS because of its convenient installation, and ease of fitting to different strand diameters; it is smaller, and, most importantly, performs much better in strand defect detection.

The climate responsibilities of the fossil fuel industry: why the Paris Agreement goals require an end to growth

NASA Astrophysics Data System (ADS)

Trout, K.; Muttitt, G.; Kretzmann, S.; Stockman, L.; Doukas, A.

2017-12-01

In December 2015, governments agreed in Paris to limit global average temperature rise to well below 2°C, and to aim to limit it to 1.5°C, compared to pre-industrial levels. Achieving these goals would require greenhouse gas emissions to reach net zero early in the second half of this century, and consequently most fossil fuel use to be phased out. This has clear implications for fossil fuel industry, and shines light on what should be expected of the industry in its business decisions - complementing the discussion of the industry's role in the scientific debate. This presentation shares the results to date of ongoing research into the committed emissions from oilfields, gasfields and coal mines, compared to carbon budgets. Building on prior work on fossil fuel reserves (notably Meinshausen 2009), our research focuses just on the developed reserves, from already-producing fields and mines. We estimate developed reserves of oil and gas using industry databases, and of coal using analysis by the International Energy Agency, and compare with carbon budgets published in the IPCC's 5th Assessment Report. The key findings are that: Developed reserves of oil, gas, and coal are more than we can afford to burn while keeping likely warming below 2°C. Developed reserves of oil and gas alone would take the world beyond 1.5°C. The implications are that development of any new fields or mines will either push the world beyond agreed climate limits, or cause some existing extraction assets to become stranded. This suggests that fossil fuel companies should stop developing new infrastructure, and governments should oversee a managed decline of the industry over the coming decades, combined with an upscaling of clean energy, as existing fossil fuel reserves are depleted.

DDX41 Recognizes RNA/DNA Retroviral Reverse Transcripts and Is Critical for In Vivo Control of Murine Leukemia Virus Infection.

PubMed

Stavrou, Spyridon; Aguilera, Alexya N; Blouch, Kristin; Ross, Susan R

2018-06-05

Host recognition of viral nucleic acids generated during infection leads to the activation of innate immune responses essential for early control of virus. Retrovirus reverse transcription creates numerous potential ligands for cytosolic host sensors that recognize foreign nucleic acids, including single-stranded RNA (ssRNA), RNA/DNA hybrids, and double-stranded DNA (dsDNA). We and others recently showed that the sensors cyclic GMP-AMP synthase (cGAS), DEAD-box helicase 41 (DDX41), and members of the Aim2-like receptor (ALR) family participate in the recognition of retroviral reverse transcripts. However, why multiple sensors might be required and their relative importance in in vivo control of retroviral infection are not known. Here, we show that DDX41 primarily senses the DNA/RNA hybrid generated at the first step of reverse transcription, while cGAS recognizes dsDNA generated at the next step. We also show that both DDX41 and cGAS are needed for the antiretroviral innate immune response to murine leukemia virus (MLV) and HIV in primary mouse macrophages and dendritic cells (DCs). Using mice with cell type-specific knockout of the Ddx41 gene, we show that DDX41 sensing in DCs but not macrophages was critical for controlling in vivo MLV infection. This suggests that DCs are essential in vivo targets for infection, as well as for initiating the antiviral response. Our work demonstrates that the innate immune response to retrovirus infection depends on multiple host nucleic acid sensors that recognize different reverse transcription intermediates. IMPORTANCE Viruses are detected by many different host sensors of nucleic acid, which in turn trigger innate immune responses, such as type I interferon (IFN) production, required to control infection. We show here that at least two sensors are needed to initiate a highly effective innate immune response to retroviruses-DDX41, which preferentially senses the RNA/DNA hybrid generated at the first step of retrovirus replication, and cGAS, which recognizes double-stranded DNA generated at the second step. Importantly, we demonstrate using mice lacking DDX41 or cGAS that both sensors are needed for the full antiviral response needed to control in vivo MLV infection. These findings underscore the need for multiple host factors to counteract retroviral infection. Copyright © 2018 Stavrou et al.

Stability mechanical considerations, and AC loss in HTSC monoliths, coils, and wires

NASA Technical Reports Server (NTRS)

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

1995-01-01

For monolithic high-T(sub c) superconductors (HTSC's) calculations are presented of: (1) the initial flux jump field, H(sub fj), in melt-processed YBCO based on a field and temperature dependent J(sub c), and (2) the radial and circumferential stresses in solid and hollow cylinders containing trapped magnetic flux. For model multi filamentary (MF) HTSC/Ag strands calculations are presented of: (1) the limiting filament diameters for adiabatic and dynamic stability, and (2) the hysteretic and eddy current components of AC loss. Again for MF HTSC/Ag composite strands the need for filamentary subdivision and twisting is discussed.

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 Nb 3Sn 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.

Strand-seq: a unifying tool for studies of chromosome segregation

PubMed Central

Falconer, Ester; Lansdorp, Peter M.

2013-01-01

Non random segregation of sister chromatids has been implicated to help specify daughter cell fate (the Silent Sister Hypothesis [1]) or to protect the genome of long-lived stem cells (the Immortal Strand Hypothesis [2]). The idea that sister chromatids are non-randomly segregated into specific daughter cells is only marginally supported by data in sporadic and often contradictory studies. As a result, the field has moved forward rather slowly. The advent of being able to directly label and differentiate sister chromatids in vivo using fluorescence in situ hybridization [3] was a significant advance for such studies. However, this approach is limited by the need for large tracks of unidirectional repeats on chromosomes and the reliance on quantitative imaging of fluorescent probes and rigorous statistical analysis to discern between the two competing hypotheses. A novel method called Strand-seq which uses next-generation sequencing to assay sister chromatid inheritance patterns independently for each chromosome [4] offers a comprehensive approach to test for non-random segregation. In addition Strand-seq enables studies on the deposition of chromatin marks in relation to DNA replication. This method is expected to help unify the field by testing previous claims of non-random segregation in an unbiased way in many model systems in vitro and in vivo. PMID:23665005

Degradation and rearrangement of a lung surfactant lipid at the air-water interface during exposure to the pollutant gas ozone.

PubMed

Thompson, Katherine C; Jones, Stephanie H; Rennie, Adrian R; King, Martin D; Ward, Andrew D; Hughes, Brian R; Lucas, Claire O M; Campbell, Richard A; Hughes, Arwel V

2013-04-09

The presence of unsaturated lipids in lung surfactant is important for proper respiratory function. In this work, we have used neutron reflection and surface pressure measurements to study the reaction of the ubiquitous pollutant gas-phase ozone, O3, with pure and mixed phospholipid monolayers at the air-water interface. The results reveal that the reaction of the unsaturated lipid 1-palmitoyl-2-oleoyl-sn-glycero-3-phosphocholine, POPC, with ozone leads to the rapid loss of the terminal C9 portion of the oleoyl strand of POPC from the air-water interface. The loss of the C9 portion from the interface is accompanied by an increase in the surface pressure (decrease in surface tension) of the film at the air-water interface. The results suggest that the portion of the oxidized oleoyl strand that is still attached to the lipid headgroup rapidly reverses its orientation and penetrates the air-water interface alongside the original headgroup, thus increasing the surface pressure. The reaction of POPC with ozone also leads to a loss of material from the palmitoyl strand, but the loss of palmitoyl material occurs after the loss of the terminal C9 portion from the oleoyl strand of the molecule, suggesting that the palmitoyl material is lost in a secondary reaction step. Further experiments studying the reaction of mixed monolayers composed of unsaturated lipid POPC and saturated lipid dipalmitoyl-sn-glycero-3-phosphocholine, DPPC, revealed that no loss of DPPC from the air-water interface occurs, eliminating the possibility that a reactive species such as an OH radical is formed and is able to attack nearby lipid chains. The reaction of ozone with the mixed films does cause a significant change in the surface pressure of the air-water interface. Thus, the reaction of unsaturated lipids in lung surfactant changes and impairs the physical properties of the film at the air-water interface.

Turbulent Flow Validation in the Helios Strand Solver

DTIC Science & Technology

2014-01-07

usual (̄) notation is omitted for simplicity). The pressure is obtained from the ideal gas equation of state given as: P = (γ−1) [ Et − 1 2 ρ ( u2 + v2...2. SA-RANS System The state vector and flux vectors including those of the SA model equation for three-dimensional flow are explicitly given as: u...number, PrT is the turbulent Prandtl number, and T is the temperature. The ideal gas equation of state , p = ρRT is used to close the equations . IV.A

Estimating potential stranded commitments for U.S. investor-owned electric utilities

DOE Office of Scientific and Technical Information (OSTI.GOV)

Baxter, L.; Hirst, E.

New technologies, low natural gas prices, and federal and state utility regions are restructuring the electricity industry. Yesterday`s vertically integrated utility with a retail monopoly franchise may be a very different organization in a few years. Conferences, regulatory-commission hearings, and other industry fora are dominated by debates over the extent and form of utility deintegration, wholesale competition, and retail wheeling. A key obstacle to restructuring the electricity industry is stranded commitments. Past investments, power-purchase contracts, and public-policy-driven programs that made sense in an era of cost-of-service regulation may not be cost-effective in a competitive power market. Regulators, utilities, and othermore » parties face tough decisions concerning the mitigation and allocation of these stranded commitments. The authors developed and applied a simple method to calculate the amount of stranded commitments facing US investor-owned electric utilities. The results obtained with this method depend strongly on a few key assumptions: (1) the fraction of utility sales that is at risk with respect to competition, (2) the market price of electric generation, and (3) the number of years during which the utility would lose money because of differences between its embedded cost of production and the market price.« less

Weathering of field-collected floating and stranded Macondo oils during and shortly after the Deepwater Horizon oil spill.

PubMed

Stout, Scott A; Payne, James R; Emsbo-Mattingly, Stephen D; Baker, Gregory

2016-04-15

Chemical analysis of large populations of floating (n=62) and stranded (n=1174) Macondo oils collected from the northern Gulf of Mexico sea surface and shorelines during or within seven weeks of the end of the Deepwater Horizon oil spill demonstrates the range, rates, and processes affecting surface oil weathering. Oil collected immediately upon reaching the sea surface had already lost most mass below n-C8 from dissolution of soluble aliphatics, monoaromatics, and naphthalenes during the oil's ascent with further reductions extending up to n-C13 due to the onset of evaporation. With additional time, weathering of the floating and stranded oils advanced with total PAH (TPAH50) depletions averaging 69±23% for floating oils and 94±3% for stranded oils caused by the combined effects of evaporation, dissolution, and photo-oxidation, the latter of which also reduced triaromatic steroid biomarkers. Biodegradation was not evident among the coalesced floating oils studied, but had commenced in some stranded oils. Copyright © 2016 Elsevier Ltd. All rights reserved.

Repair of DNA Strand Breaks in a Minichromosome In Vivo: Kinetics, Modeling, and Effects of Inhibitors

PubMed Central

Kumala, Slawomir; Fujarewicz, Krzysztof; Jayaraju, Dheekollu; Rzeszowska-Wolny, Joanna; Hancock, Ronald

2013-01-01

To obtain an overall picture of the repair of DNA single and double strand breaks in a defined region of chromatin in vivo, we studied their repair in a ∼170 kb circular minichromosome whose length and topology are analogous to those of the closed loops in genomic chromatin. The rate of repair of single strand breaks in cells irradiated with γ photons was quantitated by determining the sensitivity of the minichromosome DNA to nuclease S1, and that of double strand breaks by assaying the reformation of supercoiled DNA using pulsed field electrophoresis. Reformation of supercoiled DNA, which requires that all single strand breaks have been repaired, was not slowed detectably by the inhibitors of poly(ADP-ribose) polymerase-1 NU1025 or 1,5-IQD. Repair of double strand breaks was slowed by 20–30% when homologous recombination was supressed by KU55933, caffeine, or siRNA-mediated depletion of Rad51 but was completely arrested by the inhibitors of nonhomologous end-joining wortmannin or NU7441, responses interpreted as reflecting competition between these repair pathways similar to that seen in genomic DNA. The reformation of supercoiled DNA was unaffected when topoisomerases I or II, whose participation in repair of strand breaks has been controversial, were inhibited by the catalytic inhibitors ICRF-193 or F11782. Modeling of the kinetics of repair provided rate constants and showed that repair of single strand breaks in minichromosome DNA proceeded independently of repair of double strand breaks. The simplicity of quantitating strand breaks in this minichromosome provides a usefull system for testing the efficiency of new inhibitors of their repair, and since the sequence and structural features of its DNA and its transcription pattern have been studied extensively it offers a good model for examining other aspects of DNA breakage and repair. PMID:23382828

Progressing in cable-in-conduit for fusion magnets: from ITER to low cost, high performance DEMO

NASA Astrophysics Data System (ADS)

Uglietti, D.; Sedlak, K.; Wesche, R.; Bruzzone, P.; Muzzi, L.; della Corte, A.

2018-05-01

The performance of ITER toroidal field (TF) conductors still have a significant margin for improvement because the effective strain between ‑0.62% and ‑0.95% limits the strands’ critical current between 15% and 45% of the maximum achievable. Prototype Nb3Sn cable-in-conduit conductors have been designed, manufactured and tested in the frame of the EUROfusion DEMO activities. In these conductors the effective strain has shown a clear improvement with respect to the ITER conductors, reaching values between ‑0.55% and ‑0.28%, resulting in a strand critical current which is two to three times higher than in ITER conductors. In terms of the amount of Nb3Sn strand required for the construction of the DEMO TF magnet system, such improvement may lead to a reduction of at least a factor of two with respect to a similar magnet built with ITER type conductors; a further saving of Nb3Sn is possible if graded conductors/windings are employed. In the best case the DEMO TF magnet could require fewer Nb3Sn strands than the ITER one, despite the larger size of DEMO. Moreover high performance conductors could be operated at higher fields than ITER TF conductors, enabling the construction of low cost, compact, high field tokamaks.

Terahertz electromagnetic fields (0.106 THz) do not induce manifest genomic damage in vitro.

PubMed

Hintzsche, Henning; Jastrow, Christian; Kleine-Ostmann, Thomas; Kärst, Uwe; Schrader, Thorsten; Stopper, Helga

2012-01-01

Terahertz electromagnetic fields are non-ionizing electromagnetic fields in the frequency range from 0.1 to 10 THz. Potential applications of these electromagnetic fields include the whole body scanners, which currently apply millimeter waves just below the terahertz range, but future scanners will use higher frequencies in the terahertz range. These and other applications will bring along human exposure to these fields. Up to now, only a limited number of investigations on biological effects of terahertz electromagnetic fields have been performed. Therefore, research is strongly needed to enable reliable risk assessment.Cells were exposed for 2 h, 8 h, and 24 h with different power intensities ranging from 0.04 mW/cm(2) to 2 mW/cm(2), representing levels below, at, and above current safety limits. Genomic damage on the chromosomal level was measured as micronucleus formation. DNA strand breaks and alkali-labile sites were quantified with the comet assay. No DNA strand breaks or alkali-labile sites were observed as a consequence of exposure to terahertz electromagnetic fields in the comet assay. The fields did not cause chromosomal damage in the form of micronucleus induction.

Terahertz Electromagnetic Fields (0.106 THz) Do Not Induce Manifest Genomic Damage In Vitro

PubMed Central

Hintzsche, Henning; Jastrow, Christian; Kleine-Ostmann, Thomas; Kärst, Uwe; Schrader, Thorsten; Stopper, Helga

2012-01-01

Terahertz electromagnetic fields are non-ionizing electromagnetic fields in the frequency range from 0.1 to 10 THz. Potential applications of these electromagnetic fields include the whole body scanners, which currently apply millimeter waves just below the terahertz range, but future scanners will use higher frequencies in the terahertz range. These and other applications will bring along human exposure to these fields. Up to now, only a limited number of investigations on biological effects of terahertz electromagnetic fields have been performed. Therefore, research is strongly needed to enable reliable risk assessment. Cells were exposed for 2 h, 8 h, and 24 h with different power intensities ranging from 0.04 mW/cm2 to 2 mW/cm2, representing levels below, at, and above current safety limits. Genomic damage on the chromosomal level was measured as micronucleus formation. DNA strand breaks and alkali-labile sites were quantified with the comet assay. No DNA strand breaks or alkali-labile sites were observed as a consequence of exposure to terahertz electromagnetic fields in the comet assay. The fields did not cause chromosomal damage in the form of micronucleus induction. PMID:23029508

Strand-seq: a unifying tool for studies of chromosome segregation.

PubMed

Falconer, Ester; Lansdorp, Peter M

2013-01-01

Non random segregation of sister chromatids has been implicated to help specify daughter cell fate (the Silent Sister Hypothesis [1]) or to protect the genome of long-lived stem cells (the Immortal Strand Hypothesis [2]). The idea that sister chromatids are non-randomly segregated into specific daughter cells is only marginally supported by data in sporadic and often contradictory studies. As a result, the field has moved forward rather slowly. The advent of being able to directly label and differentiate sister chromatids in vivo using fluorescence in situ hybridization [3] was a significant advance for such studies. However, this approach is limited by the need for large tracks of unidirectional repeats on chromosomes and the reliance on quantitative imaging of fluorescent probes and rigorous statistical analysis to discern between the two competing hypotheses. A novel method called Strand-seq which uses next-generation sequencing to assay sister chromatid inheritance patterns independently for each chromosome [4] offers a comprehensive approach to test for non-random segregation. In addition Strand-seq enables studies on the deposition of chromatin marks in relation to DNA replication. This method is expected to help unify the field by testing previous claims of non-random segregation in an unbiased way in many model systems in vitro and in vivo. Crown Copyright © 2013. Published by Elsevier Ltd. All rights reserved.

A Drift Model to Predict Where Marine Mammals Struck by Tidal Stream Turbines Might Strand

NASA Astrophysics Data System (ADS)

Bedington, M.; Dale, A. C.; Wilson, B.

2016-02-01

Tidal stream turbines will be a novel technology in Scottish waters, the risk of blade collision with marine mammals is an unknown environmental risk. In order to monitor this risk when scaling to commercial size arrays it is proposed to walk beaches for stranded carcases; where to conduct this monitoring for a given site can be informed by the use of an appropriately constructed drift model. A drift model has been created and investigated for case studies on the West Coast of Scotland. The model uses forcing fields from existing and specially set up current, wind and wave models. It considers the effect of carcase buoyancy, the combination of forcing fields and the coastline dynamics as well as the problems that arise from numerical approximations and uncertainty. Novel fieldwork using carcase like drifters has been undertaken to parametrise and inform the model, and to further understand the effect of wave transport on carcase sized objects, a feature not previously considered in drift work. The model is found to have sensitivity to the wind and wave parametrisations of carcases, as well as specification of stranding schemes. It shows heterogeneous stranding patterns which are site specific and allow a hierarchy of areas to be specified for monitoring. The uncertainties in this approach and the potential utility and drawbacks of using this sort of tool in environmental monitoring and mitigation are also discussed.

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 couplingmore » 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.« less

Holocene geologic slip rate for the Mission Creek strand of the Southern San Andreas Fault, northern Coachella Valley, CA.

NASA Astrophysics Data System (ADS)

Munoz, J. J.; Behr, W. M.; Sharp, W. D.; Fryer, R.; Gold, P. O.

2016-12-01

Slip on the southern San Andreas fault in the northwestern Coachella Valley in Southern California is partitioned between three strands, the Mission Creek, Garnet Hill, and Banning strands. In the vicinity of the Indio Hills, the NW striking Mission Creek strand extends from the Indio Hills into the San Bernardino Mountains, whereas the Banning and Garnet Hill strands strike WNW and transfer slip into the San Gorgonio Pass region. Together, these three faults accommodate 20 mm/yr of right-lateral motion. Determining which strand accommodates the majority of fault slip and how slip rates on these strands have varied during the Quaternary is critical to seismic hazard assessment for the southern California region. Here we present a new Holocene geologic slip rate from an alluvial fan offset along the Mission Creek strand at the Three Palms site in the Indio Hills. Field mapping and remote sensing using the B4 LiDAR data indicates that the Three Palms fan is offset 57 +/- 3 meters. U-series dating on pedogenic carbonate rinds collected at 25-100 cm depth within the fan deposit constrain the minimum depositional age to 3.49 +/- 0.92 ka, yielding a maximum slip rate of 16 +6.1/-3.8 mm/yr. This Holocene maximum slip rate overlaps within errors with a previously published late Pleistocene slip rate of 12-22 mm/yr measured at Biskra Palms, a few kilometers to the south. Cosmogenic 10Be surface exposure samples were also collected from the fan surface to bracket the maximum depositional age. These samples have been processed and are currently awaiting AMS measurement.

Single walled carbon nanotubes functionally adsorbed to biopolymers for use as chemical sensors

DOEpatents

Johnson, Jr., Alan T.; Gelperin, Alan [Princeton, NJ; Staii, Cristian [Madison, WI

2011-07-12

Chemical field effect sensors comprising nanotube field effect devices having biopolymers such as single stranded DNA functionally adsorbed to the nanotubes are provided. Also included are arrays comprising the sensors and methods of using the devices to detect volatile compounds.

Could beaked whales get the bends? Effect of diving behaviour and physiology on modelled gas exchange for three species: Ziphius cavirostris, Mesoplodon densirostris and Hyperoodon ampullatus.

PubMed

Hooker, Sascha K; Baird, Robin W; Fahlman, Andreas

2009-07-31

A mathematical model, based on current knowledge of gas exchange and physiology of marine mammals, was used to predict blood and tissue tension N2 (P(N2)) using field data from three beaked whale species: northern bottlenose whales, Cuvier's beaked whales, and Blainville's beaked whales. The objective was to determine if physiology (body mass, diving lung volume, dive response) or dive behaviour (dive depth and duration, changes in ascent rate, diel behaviour) would lead to differences in P(N2) levels and thereby decompression sickness (DCS) risk between species. Diving lung volume and extent of the dive response had a large effect on end-dive P(N2). The dive profile had a larger influence on end-dive P(N2) than body mass differences between species. Despite diel changes in dive behaviour, P(N2) levels showed no consistent trend. Model output suggested that all three species live with tissue P(N2) levels that would cause a significant proportion of DCS cases in terrestrial mammals. Cuvier's beaked whale diving behaviour appears to put them at higher risk than the other species, which may explain their prevalence in strandings after the use of mid-frequency sonar.

Wind and React MgB2 Rotor Coils

NASA Astrophysics Data System (ADS)

Bohnenstiehl, S. D.; Sumption, M. D.; Majoros, M.; Tomsic, M.; Rindfleisch, M.; Phillips, J.; Yue, J.; Collings, E. W.

2008-03-01

Five rotor coils (four plus a spare) intended for a prototype 2 MW generator were fabricated and tested. For each coil, multifilamentary MgB2 strand was wound around a stepped former in a wind and react mode using S-glass insulation in combination with vacuum epoxy impregnation. The stepped, ellipsoidal coils had maximum in-plane dimensions of 26.7 cm×13.1 cm and a total thickness of 5.4 cm, and were wound with approximately 580 m of MgB2 strand per coil. Each of the coils were measured separately for Ic and magnetic field in the bore at 4.2 K and for one coil Ic and B were also measured as a function of temperature. The bore field as a function of position along the z-axis was also determined near the critical current at 4.2 K. The coils typically reached 186 A at 4.2 K generating a 1.7 T field, while at 20 K the Ic was 117 A with a bore field of 1.1 T field.

Single walled carbon nanotubes with functionally adsorbed biopolymers for use as chemical sensors

DOEpatents

Johnson, Jr., Alan T

2013-12-17

Chemical field effect sensors comprising nanotube field effect devices having biopolymers such as single stranded DNA or RNA functionally adsorbed to the nanotubes are provided. Also included are arrays comprising the sensors and methods of using the devices to detect volatile compounds.

Nitrogen solubility in odontocete blubber and mandibular fats in relation to lipid composition.

PubMed

Lonati, Gina L; Westgate, Andrew J; Pabst, D Ann; Koopman, Heather N

2015-08-01

Understanding toothed whale (odontocete) diving gas dynamics is important given the recent atypical mass strandings of odontocetes (particularly beaked whales) associated with mid-frequency naval sonar. Some stranded whales have exhibited gas emboli (pathologies resembling decompression sickness) in their specialized intramandibular and extramandibular fat bodies used for echolocation and hearing. These tissues have phylogenetically unique, endogenous lipid profiles with poorly understood biochemical properties. Current diving gas dynamics models assume an Ostwald nitrogen (N2) solubility of 0.07 ml N2 ml(-1) oil in odontocete fats, although solubility in blubber from many odontocetes exceeds this value. The present study examined N2 solubility in the blubber and mandibular fats of seven species across five families, relating it to lipid composition. Across all species, N2 solubility increased with wax ester content and was generally higher in mandibular fats (0.083 ± 0.002 ml N2 ml(-1) oil) than in blubber (0.069 ± 0.007 ml N2 ml(-1) oil). This effect was more pronounced in mandibular fats with higher concentrations of shorter, branched fatty acids/alcohols. Mandibular fats of short-finned pilot whales, Atlantic spotted dolphins and Mesoplodon beaked whales had the highest N2 solubility values (0.097 ± 0.005, 0.081 ± 0.007 and 0.080 ± 0.003 ml N2 ml(-1) oil, respectively). Pilot and beaked whales may experience high N2 loads during their relatively deeper dives, although more information is needed about in vivo blood circulation to mandibular fats. Future diving models should incorporate empirically measured N2 solubility of odontocete mandibular fats to better understand N2 dynamics and potential pathologies from gas/fat embolism. © 2015. Published by The Company of Biologists Ltd.

Dying Star Shrouded by a Blanket of Hailstones Forms the Bug Nebula

NASA Image and Video Library

2017-12-08

Release Date: May 3, 2004 A Dying Star Shrouded by a Blanket of Hailstones Forms the Bug Nebula (NGC 6302) The Bug Nebula, NGC 6302, is one of the brightest and most extreme planetary nebulae known. The fiery, dying star at its center is shrouded by a blanket of icy hailstones. This NASA Hubble Wide Field Plantery Camera 2 image shows impressive walls of compressed gas, laced with trailing strands and bubbling outflows. Object Names: NGC 6302, Bug Nebula Image Type: Astronomical Credit: NASA, ESA and A.Zijlstra (UMIST, Manchester, UK) To learn more about this image go to: hubblesite.org/gallery/album/nebula/pr2004046a/ NASA image use policy. NASA Goddard Space Flight Center enables NASA’s mission through four scientific endeavors: Earth Science, Heliophysics, Solar System Exploration, and Astrophysics. Goddard plays a leading role in NASA’s accomplishments by contributing compelling scientific knowledge to advance the Agency’s mission. Follow us on Twitter Like us on Facebook Find us on Instagram

Developing a Psychology of Learning in the Field: Pre-service Mentoring of At-Risk Middle School Students.

ERIC Educational Resources Information Center

Navarro, Virginia

This narrative recounts the process of developing and implementing a field component in a preservice course on the psychology of teaching and learning at a large urban school of education. The professional development model of integrated school reform was used as a theoretical base. The field component of the course had two strands: reflective…

Polymer chain dynamics under nanoscopic confinements.

PubMed

Kimmich, Rainer; Fatkullin, Nail; Mattea, Carlos; Fischer, Elmar

2005-02-01

It is shown that the confinement of polymer melts in nanopores leads to chain dynamics dramatically different from bulk behavior. This so-called corset effect occurs both above and below the critical molecular mass and induces the dynamic features predicted for reptation. A spinodal demixing technique was employed for the preparation of linear poly(ethylene oxide) (PEO) confined to nanoscopic strands that are in turn embedded in a quasi-solid and impenetrable methacrylate matrix. Both the molecular weight of the PEO and the mean diameter of the strands were varied to a certain degree. The chain dynamics of the PEO in the molten state was examined with the aid of field-gradient NMR diffusometry (time scale, 10(-2)-10(0) s) and field-cycling NMR relaxometry (time scale, 10(-9)-10(-4) s). The dominating mechanism for translational displacements probed in the nanoscopic strands by either technique is shown to be reptation. On the time scale of spin-lattice relaxation time measurements, the frequency dependence signature of reptation (i.e., T1 approximately nu(3/4)) showed up in all samples. A "tube" diameter of only 0.6 nm was concluded to be effective on this time scale even when the strand diameter was larger than the radius of gyration of the PEO random coils. This corset effect is traced back to the lack of the local fluctuation capacity of the free volume in nanoscopic confinements. The confinement dimension is estimated at which the crossover from confined to bulk chain dynamics is expected.

Are solar activity and sperm whale Physeter macrocephalus strandings around the North Sea related?

NASA Astrophysics Data System (ADS)

Vanselow, Klaus Heinrich; Ricklefs, Klaus

2005-04-01

In the final decades of the last century, an increasing number of strandings of male sperm whales ( Physeter macrocephalus) around the North Sea led to an increase in public interest. Anthropogenic influences (such as contaminants or intensive sound disturbances) are supposed to be the main causes, but natural environmental effects may also explain the disorientation of the animals. We compared the documented sperm whale strandings in the period from 1712 to 2003 with solar activity, especially with sun spot number periodicity and found that 90% of 97 sperm whale stranding events around the North Sea took place when the smoothed sun spot period length was below the mean value of 11 years, while only 10% happened during periods of longer sun spot cycles. The relation becomes even more pronounced (94% to 6%, n = 70) if a smaller time window from November to March is used (which seems to be the main southward migration period of male sperm whales). Adequate chi-square tests of the data give a significance of 1% error probability that sperm whale strandings can depend on solar activity. As an alternative explanation, we suggest that variations of the earth's magnetic field, due to variable energy fluxes from the sun to the earth, may cause a temporary disorientation of migrating animals.

Fingerprint and weathering characteristics of stranded oils after the Hebei Spirit oil spill.

PubMed

Yim, Un Hyuk; Ha, Sung Yong; An, Joon Geon; Won, Jong Ho; Han, Gi Myung; Hong, Sang Hee; Kim, Moonkoo; Jung, Jee-Hyun; Shim, Won Joon

2011-12-15

After the Hebei Spirit oil spill in December 2007, mixtures of three types of Middle East crude oil were stranded along 375 km of coastline in Western Korea. Stranded oils were monitored for their identity and weathering status in 19 stations in three provinces. The results obtained using a weathering model indicated that evaporation would be a dominant weathering process immediately after the spill and the sequential changes of chemical composition in the field verified this prediction positively. In the early stages of weathering, the half-life of spilled oil was calculated to be 2.6 months. Tiered fingerprinting approaches identified background contamination and confirmed the identity of the stranded oils with the spill source. Double ratios using alkylated phenanthrenes and dibenzothiophenes in samples after the spill clearly reveal the impact of weathering on oil. However, to derive defensible fingerprinting for source identification and allocation, recalcitrant biomarkers are extremely useful. Weathering status of the stranded oils was evaluated using composition profiles of saturated hydrocarbons, polycyclic aromatic hydrocarbons and various weathering indices. Most samples collected 8 months after the spill were categorized in either the advanced or extreme weathering states. Gradual increase in toxic components in the residual oil through weathering emphasizes the need for adaptive ecotoxicological approaches. Copyright © 2011 Elsevier B.V. All rights reserved.

Effect of Mobile Phone-Induced Electromagnetic Field on Brain Hemodynamics and Human Stem Cell Functioning: Possible Mechanistic Link to Cancer Risk and Early Diagnostic Value of Electronphotonic Imaging.

PubMed

Bhargav, Hemant; Srinivasan, T M; Varambally, S; Gangadhar, B N; Koka, Prasad

2015-01-01

The mobile phones (MP) are low power radio devices which work on electromagnetic fields (EMFs), in the frequency range of 900-1800 MHz. Exposure to MPEMFs may affect brain physiology and lead to various health hazards including brain tumors. Earlier studies with positron emission tomography (PET) have found alterations in cerebral blood flow (CBF) after acute exposure to MPEMFs. It is widely accepted that DNA double-strand breaks (DSBs) and their misrepair in stem cells are critical events in the multistage origination of various leukemia and tumors, including brain tumors such as gliomas. Both significant misbalance in DSB repair and severe stress response have been triggered by MPEMFs and EMFs from cell towers. It has been shown that stem cells are most sensitive to microwave exposure and react to more frequencies than do differentiated cells. This may be important for cancer risk assessment and indicates that stem cells are the most relevant cellular model for validating safe mobile communication signals. Recently developed technology for recording the human bio-electromagnetic (BEM) field using Electron photonic Imaging (EPI) or Gas Discharge Visualisation (GDV) technique provides useful information about the human BEM. Studies have recorded acute effects of Mobile Phone Electromagnetic Fields (MPEMFs) using EPI and found quantifiable effects on human BEM field. Present manuscript reviews evidences of altered brain physiology and stem cell functioning due to mobile phone/cell tower radiations, its association with increased cancer risk and explores early diagnostic value of EPI imaging in detecting EMF induced changes on human BEM.

The Meal Tastes Sweeter: Documentation of Young’s Mill West Point Lake, Troup County, Georgia

DTIC Science & Technology

1989-07-27

unmortared courses of field stone. In addition, several strands of barbed wire were covering the feature, and an early twentieth century medicine bottle was...retaining wall. It’s stone lined, and it’s about 6 ft long and 2 ft wide. Had some barb wire, a few strands of barbed wire, laid over the top of it...a stallion and three mares. I raised them ****** Yates: Going back, when you was just a young man, Mr. Young, how many, say, farm employees worked for

Wheeling and stranded investment-is there a better way

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ferrar, T.

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; thismore » 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.« less

2D - 3D high resolution seismic survey on the Sea of Marmara - Western High

NASA Astrophysics Data System (ADS)

Saritas, H.; Cifci, G.; Géli, L.; Thomas, Y.; Marsset, B.; Rochat, A.; Westbrook, G. K.; Ker, S.; Atgin, O.; Akhun ćoşkun, S. D.; Grall, C.; Henr, P.; Gürçay, S.; Okay, S.; ćoşkun, S.; Özkan, Ö.; Barın, B.

2012-04-01

In the Sea of Marmara the main strand of the NAF is made up of the Ganos (15km long), Central Marmara (150 km), and North Boundary (45 km) fault segment (Okay et al., 2000). The Central Marmara Fault crosses over The Western High which is located between Tekirdag and Central Marmara Basins. The Western High and Cinarcik Basin is one of the major regions of geological interest which is the area close to the NAF where evidence of gas hydrates and gas escapes have been observed during previous scientific cruises. To understand movement of the NAF and origin of the gas , collecting data was focused on these areas by the latter cruises. It started with TAMAM (Turkish-American Marmara Multichannel) cruise in July 2008 by R/V Koca Piri Reis which belongs to Dokuz Eylul University , and after that it continued with MARMESONET (Marmara Demonstration Mission Program supported by European Seafloor Observatory Network) in December 2009 by R/V Le Suroit which belongs to IFREMER. This cruise consisted of two leg; leg-1 was about collecting multibeam and AUV data, Leg-2 was about collecting High Resolution 3D Seismic data. The last cruise PirMarmara was carried out in June 2010 by R/V Koca Piri Reis , its aim was that collecting 2D High Resolution Seismic Data .These projects are grouped in ESONET MARMARA-DM Project. 3D seismic data provide detailed information about fault distribution and subsurface structures. Computer-based interpretation and display of 3D seismic data allow for more thorough analysis than 2D seismic data. The objectives of this survey are; find gas strata and gas hydrate formation location in the western high, geological description of this area, understand tectonical movement related to dextral strike slip North Anatolian fault, focus on the mud volcano in which close to NAF, find gas hydrate and origin of the existing gas , and location of the gas escaping, investigate the creation of the Marmara Sea concerning with Western High. Integrate good velocity information which is obtained from 2D seismic processing with to 3D seismic data for effective interpretation. In conclusion, there were some cruises related to collecting kind of the marine geology and geophysics data in The Western High. The investigations have been focused on gas hydrate, gas escape, location of the gas strata and tectonic movement. The Data has been processed and started to interpretation. Keywords: Sea of Marmara, Western High, Gas field, Gas Hyrate, 2D-3D Seismic

Multifilament Superconducting Wire Based on NbTi Alloy in a Combined Copper/Copper-Nickel Matrix

NASA Astrophysics Data System (ADS)

Vedernikov, G. P.; Shikov, A. K.; Potanina, L. V.; Gubkin, I. N.; Scherbakova, O. V.; Salunin, N. I.; Korpusov, V. U.; Novikov, S. I.; Novikov, M. S.

2004-06-01

Model fine filament superconducting 0.65 mm wire based on NbTi alloy, intended for operating in fields having sweep rate from 1 up to 4 T/s, has been developed and manufactured by Bochvar Institute (VNIINM). The wire was fabricated by a single stacking method. Each filament was surrounded by a matrix of commercial MN-5 alloy (Cu-5wt.%Ni). The effects of heat treatment regimes, and twist pitches within the range of 3.5 - 8 mm on Jc of the strand were investigated at fields of 2-8 T. The critical current density is more than 2700 A/mm2 at 5 T, 4.2 K. The magnetization of wire has been measured by a vibrating magnetometer at field amplitude up to ± 3 T. Hysteresis losses and effective diameter were calculated. Total and coupling losses have been determined by Fitz method on strand magnetization at fields, varying in trapezoidal mode. It was shown that the wire of this type is of potential application for the use in the magnets of the GSI-type accelerator to be constructed in Germany.

Critical Current of Superconducting Rutherford Cable in High Magnetic Fields with Transverse Pressure

DOE Office of Scientific and Technical Information (OSTI.GOV)

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

For high energy physics applications superconducting cables are subjected to large stresses and high magnetic fields during service. It is essential to know how these cables perform in these operating conditions. A loading fixture capable of applying loads of up to 700 kN has been developed by NHMFL for LBNL. This fixture permits uniform loading of straight cables over a 122 mm length in a split-pair solenoid in fields up to 12 T at 4.2 K. The first results from this system for Rutherford cables of internal-tin and modified jelly roll strand of Nb{sub 3}Sn produced by IGC and TWCmore » showed that little permanent degradation occurs up to 210 MPa. However, the cable made from internal-tin strand showed a 40% reduction in K{sub c} at 11T and 210 MPa while a dable made from modified jelly roll material showed only a 15% reduction in I{sub c} at 11T and 185 MPa.« less

Challenges and status of ITER conductor production

NASA Astrophysics Data System (ADS)

Devred, A.; Backbier, I.; Bessette, D.; Bevillard, G.; Gardner, M.; Jong, C.; Lillaz, F.; Mitchell, N.; Romano, G.; Vostner, A.

2014-04-01

Taking the relay of the large Hadron collider (LHC) at CERN, ITER has become the largest project in applied superconductivity. In addition to its technical complexity, ITER is also a management challenge as it relies on an unprecedented collaboration of seven partners, representing more than half of the world population, who provide 90% of the components as in-kind contributions. The ITER magnet system is one of the most sophisticated superconducting magnet systems ever designed, with an enormous stored energy of 51 GJ. It involves six of the ITER partners. The coils are wound from cable-in-conduit conductors (CICCs) made up of superconducting and copper strands assembled into a multistage cable, inserted into a conduit of butt-welded austenitic steel tubes. The conductors for the toroidal field (TF) and central solenoid (CS) coils require about 600 t of Nb3Sn strands while the poloidal field (PF) and correction coil (CC) and busbar conductors need around 275 t of Nb-Ti strands. The required amount of Nb3Sn strands far exceeds pre-existing industrial capacity and has called for a significant worldwide production scale up. The TF conductors are the first ITER components to be mass produced and are more than 50% complete. During its life time, the CS coil will have to sustain several tens of thousands of electromagnetic (EM) cycles to high current and field conditions, way beyond anything a large Nb3Sn coil has ever experienced. Following a comprehensive R&D program, a technical solution has been found for the CS conductor, which ensures stable performance versus EM and thermal cycling. Productions of PF, CC and busbar conductors are also underway. After an introduction to the ITER project and magnet system, we describe the ITER conductor procurements and the quality assurance/quality control programs that have been implemented to ensure production uniformity across numerous suppliers. Then, we provide examples of technical challenges that have been encountered and we present the status of ITER conductor production worldwide.

Detecting bacterial magnetite in sediments: strengths and limitations of FMR spectroscopy

NASA Astrophysics Data System (ADS)

Winklhofer, M.

2012-04-01

Ferromagnetic resonance spectroscopy (FMR) is increasingly being used as a diagnostic tool for identifying bacterial magnetite in sediments [e.g., Kopp et al. 2007; Kind et al. 2011, Roberts et al. 2011 ], the reason being that magnetic bacteria have a characteristic FMR fingerprint which is not known from inorganic geological samples [Kopp & Kirschvink, 2008]. The diagnostic FMR features of single-stranded magnetite chains are a g-value < 2 and a markedly asymmetric FMR absorption spectrum, which produces several low-field peaks and a deep high-field minimum in the first-derivative spectrum. These key features can be reproduced not only with a chain-of-spheroids model, but - somewhat astonishingly - also with a single-particle model (Stoner-Wohlfarth-type), provided the easy cubic axis ( ) coincides with the long particle axis [Charilaou et al. 2011]. This agreement weakens the diagnostic strength of the FMR screen, which would render false positive results for the admittedly exotic case of an assemblage of elongated magnetite particles of inorganic origin. Likewise, it will render false negatives by not recognizing bacterial magnetite in other than single-stranded configurations. For example, the FMR absorption spectrum of two-stranded magnetosome chains, which represent the preferred chain arrangement in a number of uncultured but otherwise widespread coccoid bacteria, lacks asymmetry and has a g-value > 2, quite opposite to what we know from single-stranded chains. Therefore, in order to better understand possible biogenic FMR fingerprints and to refine the screen, there is a clear need to acquire FMR spectra of magnetic bacteria with different chain configurations and, in particular, of greigite producing bacteria.

Measurement of longitudinal sulfur isotopic variations by laser ablation MC-ICP-MS in single human hair strands.

PubMed

Santamaria-Fernandez, Rebeca; Giner Martínez-Sierra, Justo; Marchante-Gayón, J M; García-Alonso, J Ignacio; Hearn, Ruth

2009-05-01

A new method for the measurement of longitudinal variations of sulfur isotope amount ratios in single hair strands using a laser ablation system coupled to a multicollector inductively coupled plasma mass spectrometer (LA-MC-ICP-MS) is reported here for the first time. Ablation parameters have been optimized for the measurement of sulfur isotope ratios in scalp human hair strands of 80-120-microm thickness and different washing procedures have been evaluated. The repeatability of the method has been tested and the ability to measure sulfur isotopic variations in 1,000-microm-long hair segments has been evaluated. A horse hair sample previously characterized for carbon and nitrogen isotope ratios in an interlaboratory study has been characterized by LA-MC-ICP-MS to be used as an in-house standard for the bracketing of human hair strands. (34)S/(32)S isotope amount ratios have been measured and corrected for instrumental mass bias adopting the external standardization approach using National Institute of Standards and Technology (NIST) RM8553 and full uncertainty budgets have been calculated using the Kragten approach. Results are reported as both (34)S/(32)S isotope amount ratios and deltaS(V-CDT) values (sulfur isotopic differences relative to a reference sample expressed in the Vienna Canyon Diablo Troilite (V-CDT) scale) calculated using NIST RM8553, NIST RM8554, and NIST RM8556 to anchor results to the V-CDT scale. The main advantage of the new method versus conventional gas source isotope ratio mass spectrometry measurements is that longitudinal variations in sulfur isotope amount ratios can be resolved. Proof of concept is shown with human scalp hair strands from three individuals, two UK residents and one traveler (long periods of time abroad). The method enables monitoring of longitudinal isotope ratio variations in single hair strands. Absolute ratios are reported and delta(34)S(V-CDT) values are plotted for comparison. Slight variations of <1.2 per thousand were detected in the hair strands from UK residents whereas the traveler presented a variation of >5 per thousand. Thus, the measurement of sulfur isotopic variations in hair samples has potential to be an indicator of geographical origin and recent movements and could be used in combination with isotope ratio measurements in water/foodstuffs from different geographical locations to provide important information in nutritional and geographical studies.

Sensitivity of Nb$$_3$$Sn Rutherford-Type Cables to Transverse Pressure

DOE Office of Scientific and Technical Information (OSTI.GOV)

Barzi, E.; Wokas, T.; Zlobin, A. V.

Fermilab is developing high field superconducting magnets for future accelerators based on Nb/sub 3/Sn strands. Testing the critical current of superconducting cables under compression is a means to appraise the performance of the produced magnet. However, these cable tests are expensive and labor-intensive. A fixture to assess the superconducting performance of a Nb/sub 3/Sn strand within a reacted and impregnated cable under pressure was designed and built at Fermilab. Several Rutherford-type cables were fabricated at Fermilab and at LBNL using multifilamentary Nb/sub 3/Sn strands. The sensitivity of Nb/sub 3/Sn to transverse pressure was measured for a number of Nb/sub 3/Snmore » technologies (Modified Jelly Roll, Powder-in-Tube, Internal Tin, and Restack Rod Process). Results on the effect of a stainless steel core in the cable are also shown.« less

Modelling nanoflares in active regions and implications for coronal heating mechanisms

PubMed Central

Cargill, P. J.; Warren, H. P.; Bradshaw, S. J.

2015-01-01

Recent observations from the Hinode and Solar Dynamics Observatory spacecraft have provided major advances in understanding the heating of solar active regions (ARs). For ARs comprising many magnetic strands or sub-loops heated by small, impulsive events (nanoflares), it is suggested that (i) the time between individual nanoflares in a magnetic strand is 500–2000 s, (ii) a weak ‘hot’ component (more than 106.6 K) is present, and (iii) nanoflare energies may be as low as a few 1023 ergs. These imply small heating events in a stressed coronal magnetic field, where the time between individual nanoflares on a strand is of order the cooling time. Modelling suggests that the observed properties are incompatible with nanoflare models that require long energy build-up (over 10 s of thousands of seconds) and with steady heating. PMID:25897093

G-Strands on symmetric spaces

PubMed Central

2017-01-01

We study the G-strand equations that are extensions of the classical chiral model of particle physics in the particular setting of broken symmetries described by symmetric spaces. These equations are simple field theory models whose configuration space is a Lie group, or in this case a symmetric space. In this class of systems, we derive several models that are completely integrable on finite dimensional Lie group G, and we treat in more detail examples with symmetric space SU(2)/S1 and SO(4)/SO(3). The latter model simplifies to an apparently new integrable nine-dimensional system. We also study the G-strands on the infinite dimensional group of diffeomorphisms, which gives, together with the Sobolev norm, systems of 1+2 Camassa–Holm equations. The solutions of these equations on the complementary space related to the Witt algebra decomposition are the odd function solutions. PMID:28413343

Quantitative Study on Corrosion of Steel Strands Based on Self-Magnetic Flux Leakage.

PubMed

Xia, Runchuan; Zhou, Jianting; Zhang, Hong; Liao, Leng; Zhao, Ruiqiang; Zhang, Zeyu

2018-05-02

This paper proposed a new computing method to quantitatively and non-destructively determine the corrosion of steel strands by analyzing the self-magnetic flux leakage (SMFL) signals from them. The magnetic dipole model and three growth models (Logistic model, Exponential model, and Linear model) were proposed to theoretically analyze the characteristic value of SMFL. Then, the experimental study on the corrosion detection by the magnetic sensor was carried out. The setup of the magnetic scanning device and signal collection method were also introduced. The results show that the Logistic Growth model is verified as the optimal model for calculating the magnetic field with good fitting effects. Combined with the experimental data analysis, the amplitudes of the calculated values ( B xL ( x,z ) curves) agree with the measured values in general. This method provides significant application prospects for the evaluation of the corrosion and the residual bearing capacity of steel strand.

Investigation of dissociative electron attachment to 2'-deoxycytidine-3'-monophosphate using DFT method and time dependent wave packet approach

NASA Astrophysics Data System (ADS)

Bhowmick, Somnath; B, Renjith; Mishra, Manoj K.; Sarma, Manabendra

2012-08-01

Effect of electron correlation on single strand breaks (SSBs) induced by low energy electron (LEE) has been investigated in a fragment excised from a DNA, viz., 2'-deoxycytidine-3'-monophosphate [3'-dCMPH] molecule in gas phase at DFT-B3LYP/6-31+G(d) accuracy level and using local complex potential based time dependent wave packet (LCP-TDWP) approach. The results obtained, in conjunction with our earlier investigation, show the possibility of SSB at very low energy (0.15 eV) where the LEE transfers from π* to σ* resonance state which resembles a SN2 type mechanism. In addition, for the first time, an indication of quantum mechanical tunneling in strand breaking is seen from the highest anionic bound vibrational state (χ5), which may have a substantial role during DNA damage.

Two-dimensional numerical simulation of flow around three-stranded rope

NASA Astrophysics Data System (ADS)

Wang, Xinxin; Wan, Rong; Huang, Liuyi; Zhao, Fenfang; Sun, Peng

2016-08-01

Three-stranded rope is widely used in fishing gear and mooring system. Results of numerical simulation are presented for flow around a three-stranded rope in uniform flow. The simulation was carried out to study the hydrodynamic characteristics of pressure and velocity fields of steady incompressible laminar and turbulent wakes behind a three-stranded rope. A three-cylinder configuration and single circular cylinder configuration are used to model the three-stranded rope in the two-dimensional simulation. The governing equations, Navier-Stokes equations, are solved by using two-dimensional finite volume method. The turbulence flow is simulated using Standard κ-ɛ model and Shear-Stress Transport κ-ω (SST) model. The drag of the three-cylinder model and single cylinder model is calculated for different Reynolds numbers by using control volume analysis method. The pressure coefficient is also calculated for the turbulent model and laminar model based on the control surface method. From the comparison of the drag coefficient and the pressure of the single cylinder and three-cylinder models, it is found that the drag coefficients of the three-cylinder model are generally 1.3-1.5 times those of the single circular cylinder for different Reynolds numbers. Comparing the numerical results with water tank test data, the results of the three-cylinder model are closer to the experiment results than the single cylinder model results.

Dissociation of single-strand DNA: single-walled carbon nanotube hybrids by Watson-Crick base-pairing.

PubMed

Jung, Seungwon; Cha, Misun; Park, Jiyong; Jeong, Namjo; Kim, Gunn; Park, Changwon; Ihm, Jisoon; Lee, Junghoon

2010-08-18

It has been known that single-strand DNA wraps around a single-walled carbon nanotube (SWNT) by pi-stacking. In this paper it is demonstrated that such DNA is dissociated from the SWNT by Watson-Crick base-pairing with a complementary sequence. Measurement of field effect transistor characteristics indicates a shift of the electrical properties as a result of this "unwrapping" event. We further confirm the suggested process through Raman spectroscopy and gel electrophoresis. Experimental results are verified in view of atomistic mechanisms with molecular dynamics simulations and binding energy analyses.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Negus-De Wys, J.; Dixon, J. M.; Evans, M. A.

This document consists of the following papers: inorganic geochemistry studies of the Eastern Kentucky Gas Field; lithology studies of upper Devonian well cuttings in the Eastern Kentucky Gas Field; possible effects of plate tectonics on the Appalachian Devonian black shale production in eastern Kentucky; preliminary depositional model for upper Devonian Huron age organic black shale in the Eastern Kentucky Gas Field; the anatomy of a large Devonian black shale gas field; the Cottageville (Mount Alto) Gas Field, Jackson County, West Virginia: a case study of Devonian shale gas production; the Eastern Kentucky Gas Field: a geological study of the relationshipsmore » of Ohio Shale gas occurrences to structure, stratigraphy, lithology, and inorganic geochemical parameters; and a statistical analysis of geochemical data for the Eastern Kentucky Gas Field.« less

Molecular dynamics study of some non-hydrogen-bonding base pair DNA strands

NASA Astrophysics Data System (ADS)

Tiwari, Rakesh K.; Ojha, Rajendra P.; Tiwari, Gargi; Pandey, Vishnudatt; Mall, Vijaysree

2018-05-01

In order to elucidate the structural activity of hydrophobic modified DNA, the DMMO2-D5SICS, base pair is introduced as a constituent in different set of 12-mer and 14-mer DNA sequences for the molecular dynamics (MD) simulation in explicit water solvent. AMBER 14 force field was employed for each set of duplex during the 200ns production-dynamics simulation in orthogonal-box-water solvent by the Particle-Mesh-Ewald (PME) method in infinite periodic boundary conditions (PBC) to determine conformational parameters of the complex. The force-field parameters of modified base-pair were calculated by Gaussian-code using Hartree-Fock /ab-initio methodology. RMSD Results reveal that the conformation of the duplex is sequence dependent and the binding energy of the complex depends on the position of the modified base-pair in the nucleic acid strand. We found that non-bonding energy had a significant contribution to stabilising such type of duplex in comparison to electrostatic energy. The distortion produced within strands by such type of base-pair was local and destabilised the duplex integrity near to substitution, moreover the binding energy of duplex depends on the position of substitution of hydrophobic base-pair and the DNA sequence and strongly supports the corresponding experimental study.

Effect of a magnetic field on the track structure of low-energy electrons: a Monte Carlo study

NASA Astrophysics Data System (ADS)

Bug, M. U.; Gargioni, E.; Guatelli, S.; Incerti, S.; Rabus, H.; Schulte, R.; Rosenfeld, A. B.

2010-10-01

The increasing use of MRI-guided radiation therapy evokes the necessity to investigate the potential impact of a magnetic field on the biological effectiveness of therapeutic radiation beams. While it is known that a magnetic field, applied during irradiation, can improve the macroscopic absorbed dose distribution of electrons in the tumor region, effects on the microscopic distribution of energy depositions and ionizations have not yet been investigated. An effect on the number of ionizations in a DNA segment, which is related to initial DNA damage in form of complex strand breaks, could be beneficial in radiation therapy. In this work we studied the effects of a magnetic field on the pattern of ionizations at nanometric level by means of Monte Carlo simulations using the Geant4-DNA toolkit. The track structure of low-energy electrons in the presence of a uniform static magnetic field of strength up to 14 T was calculated for a simplified DNA segment model in form of a water cylinder. In the case that no magnetic field is applied, nanodosimetric results obtained with Geant4-DNA were compared with those from the PTB track structure code. The obtained results suggest that any potential enhancement of complexity of DNA strand breaks induced by irradiation in a magnetic field is not related to modifications of the low-energy secondary electrons track structure.

40 CFR 60.631 - Definitions.

Code of Federal Regulations, 2014 CFR

2014-07-01

... this subpart. Field gas means feedstock gas entering the natural gas processing plant. In light liquid... field gas before the extraction step in the process. Natural gas liquids means the hydrocarbons, such as... (gas plant) means any processing site engaged in the extraction of natural gas liquids from field gas...

40 CFR 60.631 - Definitions.

Code of Federal Regulations, 2013 CFR

2013-07-01

... this subpart. Field gas means feedstock gas entering the natural gas processing plant. In light liquid... field gas before the extraction step in the process. Natural gas liquids means the hydrocarbons, such as... (gas plant) means any processing site engaged in the extraction of natural gas liquids from field gas...

Gas, Oil, and Water Production from Jonah, Pinedale, Greater Wamsutter, and Stagecoach Draw Fields in the Greater Green River Basin, Wyoming

USGS Publications Warehouse

Nelson, Philip H.; Ewald, Shauna M.; Santus, Stephen L.; Trainor, Patrick K.

2010-01-01

Gas, oil, and water production data were compiled from selected wells in four gas fields in rocks of Late Cretaceous age in southwestern Wyoming. This study is one of a series of reports examining fluid production from tight-gas reservoirs, which are characterized by low permeability, low porosity, and the presence of clay minerals in pore space. Production from each well is represented by two samples spaced five years apart, the first sample typically taken two years after commencement of production. For each producing interval, summary diagrams of oil versus gas and water versus gas production show fluid production rates, the change in rates during five years, the water-gas and oil-gas ratios, and the fluid type. These diagrams permit well-to-well and field-to-field comparisons. Fields producing water at low rates (water dissolved in gas in the reservoir) can be distinguished from fields producing water at moderate or high rates, and the water-gas ratios are quantified. The ranges of first-sample gas rates in Pinedale field and Jonah field are quite similar, and the average gas production rate for the second sample, taken five years later, is about one-half that of the first sample for both fields. Water rates are generally substantially higher in Pinedale than in Jonah, and water-gas ratios in Pinedale are roughly a factor of ten greater in Pinedale than in Jonah. Gas and water production rates from each field are fairly well grouped, indicating that Pinedale and Jonah fields are fairly cohesive gas-water systems. Pinedale field appears to be remarkably uniform in its flow behavior with time. Jonah field, which is internally faulted, exhibits a small spread in first-sample production rates. In the Greater Wamsutter field, gas production from the upper part of the Almond Formation is greater than from the main part of the Almond. Some wells in the main and the combined (upper and main parts) Almond show increases in water production with time, whereas increases in water production are rare in the upper part of the Almond, and a higher percentage of wells in the upper part of the Almond show water decreasing at the same rate as gas than in the main or combined parts of the Almond. In Stagecoach Draw field, the gas production rate after five years is about one-fourth that of the first sample, whereas in Pinedale, Jonah, and Greater Wamsutter fields, the production rate after five years is about one-half that of the first sample. The more rapid gas decline rate seems to be the outstanding feature distinguishing Stagecoach Draw field, which is characterized as a conventional field, from Pinedale, Jonah, and Greater Wamsutter fields, which are generally characterized as tight-gas accumulations. Oil-gas ratios are fairly consistent within Jonah, Pinedale, and Stagecoach Draw fields, suggesting similar chemical composition and pressure-temperature conditions within each field, and are less than the 20 bbl/mmcf upper limit for wet gas. However, oil-gas ratios vary considerably from one area to another in the Greater Wamsutter field, demonstrating a lack of commonality in either chemistry or pressure-temperature conditions among the six areas. In all wells in all four fields examined here, water production commences with gas production-there are no examples of wells with water-free production and no examples where water production commences after first-sample gas production. The fraction of records with water production higher in the second sample than in the first sample varies from field to field, with Pinedale field showing the lowest percentage of such cases and Jonah field showing the most. Most wells have water-gas ratios exceeding the amount that could exist dissolved in gas at reservoir pressure and temperature.

Investigations of nanoscale variations in spin and charge transport in manganites and organic semiconductors using spin polarized scanning tunneling spectroscopy

NASA Astrophysics Data System (ADS)

Hughes, Cameron Richard

Analysis of DNA structure and behavior, up to and including full sequencing of a genome's bases, and of biological processes such as replication, transcription and translation, is essential for an understanding of genetic variation, heritable diseases and the effects of environmental factors. Recently, single-molecule techniques have been developed to study DNA properties in unprecedented detail. For a number of these techniques, controlled adsorption of linearly stretched DNA molecules on surfaces is necessary. In experiments where hybridization of adsorbed molecules to labeled probes is used to determine DNA structure, single-stranded DNA is needed. Conventionally, for long DNA's (up to Mbp), double-stranded DNA is deposited on a surface and denatured in-situ. While successful, this method has several disadvantages. This thesis reports efforts to directly adsorb long single-stranded DNA's out of solution as an alternative strategy. It consists of three parts: (1) Establishment of a simple method using Acridine Orange (AO) staining dye to determine whether DNA's are ss or ds on the surface. The method allows for the assessment of the degree of renaturation during deposition. Incubation of surface-adsorbed DNA in solutions of AO dye in the concentration range of 10--15uM were found to be effective for discriminating between ss DNA and ds DNA based on differences in the fluorescence emission spectra. (2) Deposition of ss DNA produced by heat denaturation on polymer-coated surfaces. Lambda DNA (48502bp) was adsorbed by drop evaporation or dipping/extraction of surface out of a buffered solution. The efficiency of deposition was optimized with respect to DNA concentration, buffer type and pH. (3) Separation of complementary single strands of Lambda, mono-cut digest and HindIII digest by gel electrophoresis. Using agarose gels in concentrations ranging from 0.4% to 1.4% (weight/volume), electric fields in the range 1--4V/cm in 1x Tris-Acetate-EDTA (TAE) buffer, good strand separation could be obtained. Both DC and pulsed electric fields were used and compared. Following separation, sense and anti-sense strands of lambda DNA were extracted from gels and deposited separately onto surfaces, and length distributions of the isolated molecules were measured by fluorescence microscopy.

Glass-like stress relaxation of a permanent gelatin network as a signature of pretransitional helix-coil fluctuations

NASA Astrophysics Data System (ADS)

Caroli, Christiane; Ronsin, Olivier; Lemaître, Anaël

2018-02-01

The stress response of permanently crosslinked gelatin gels was recently observed to display glass-like features, namely, a stretched-exponential behavior terminated by an exponential decay, the characteristic time scales of which increase dramatically with decreasing temperature. This phenomenon is studied here using a model of flexible polymer gel network where relaxation proceeds via elementary monomer exchanges between helix and coil segments. The relaxation dynamics of a full network simulation is found to be nearly identical to that of a model of independent strands, which shows that for flexible polymer gels in the range of elastic moduli of interest, both strand contour length disorder and elastic couplings are irrelevant. We thus focus on the independent strand model and find it not only to explain the observed functional form of the stress relaxation curves but also to yield predictions that match very satisfactorily the experimental measurements of final relaxation time and total stress drop. The system under study thus constitutes a rare case where the origin of glass-like behavior can be unambiguously identified, namely, as the signature of the enhancement of helix content fluctuations when approaching from above the mean-field helix-coil transition of strands.

Heat Treatment Optimization of Rutherford Cables for a 15 T Nb 3Sn Dipole Demonstrator

DOE PAGES

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

2017-01-09

FNAL has been developing a 15 T Nb 3Sn 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, heatmore » treatment 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 Nb 3Sn RRP® wire design and layout. Index Terms— Accelerator magnet, critical current density, Nb 3Sn strand, Rutherford cable.« less

Mechanical reinforcement for RACC cables in high magnetic background fields

NASA Astrophysics Data System (ADS)

Bayer, C. M.; Gade, P. V.; Barth, C.; Preuß, A.; Jung, A.; Weiß, K. P.

2016-02-01

Operable in liquid helium, liquid hydrogen or liquid nitrogen, high temperature superconductor (HTS) cables are investigated as future alternatives to low temperature superconductor (LTS) cables in magnet applications. Different high current HTS cable concepts have been developed and optimized in the last years—each coming with its own benefits and challenges. As the Roebel assembled coated conductor (RACC) is the only fully transposed HTS cable investigated so far, it is attractive for large scale magnet and accelerator magnet applications when field quality and alternating current (AC) losses are of highest importance. However, due to its filamentary character, the RACC is very sensitive to Lorentz forces. In order to increase the mechanical strength of the RACC, each of the HTS strands was covered by an additional copper tape. After investigating the maximum applicable transverse pressure on the strand composition, the cable was clamped into a stainless steel structure to reinforce it against Lorentz forces. A comprehensive test has been carried out in the FBI facility at 4.2 K in a magnetic field of up to 12 T. This publication discusses the maximum applicable pressure as well as the behaviour of the RACC cable as a function of an external magnetic field.

Frequency and Voltage Dependence of the Dielectrophoretic Trapping of Short Lengths of DNA and dCTP in a Nanopipette

PubMed Central

Ying, Liming; White, Samuel S.; Bruckbauer, Andreas; Meadows, Lisa; Korchev, Yuri E.; Klenerman, David

2004-01-01

The study of the properties of DNA under high electric fields is of both fundamental and practical interest. We have exploited the high electric fields produced locally in the tip of a nanopipette to probe the motion of double- and single-stranded 40-mer DNA, a 1-kb single-stranded DNA, and a single-nucleotide triphosphate (dCTP) just inside and outside the pipette tip at different frequencies and amplitudes of applied voltages. We used dual laser excitation and dual color detection to simultaneously follow two fluorophore-labeled DNA sequences with millisecond time resolution, significantly faster than studies to date. A strong trapping effect was observed during the negative half cycle for all DNA samples and also the dCTP. This effect was maximum below 1 Hz and decreased with higher frequency. We assign this trapping to strong dielectrophoresis due to the high electric field and electric field gradient in the pipette tip. Dielectrophoresis in electrodeless tapered nanostructures has potential applications for controlled mixing and manipulation of short lengths of DNA and other biomolecules, opening new possibilities in miniaturized biological analysis. PMID:14747337

Trapping and breaking of in vivo nicked DNA during pulsed-field gel electrophoresis

PubMed Central

Khan, Sharik R.; Kuzminov, Andrei

2013-01-01

Pulsed field gel electrophoresis (PFGE) offers a high-resolution approach to quantify chromosomal fragmentation in bacteria, measured as percent of chromosomal DNA entering the gel. The degree of separation in PFG depends upon the size of DNA, as well as various conditions of electrophoresis, such as electric field strength (FS), time of electrophoresis, switch time and buffer composition. Here we describe a new parameter, the structural integrity of the sample DNA itself, that influences its migration through PFGs. We show that sub-chromosomal fragments containing both spontaneous and DNA damage-induced nicks are prone to breakage during PFGE. Such breakage at single strand interruptions results in artefactual decrease in molecular weight of linear DNA making accurate determination of the number of double strand breaks difficult. While breakage of nicked sub-chromosomal fragments is FS-independent, some high molecular weight sub-chromosomal fragments are also trapped within wells under the standard PFGE conditions. This trapping can be minimized by lowering the field strength and increasing the time of electrophoresis. We discuss how breakage of nicked DNA may be mechanistically linked to trapping. Our results suggest how to optimize conditions for PFGE when quantifying chromosomal fragmentation induced by DNA damage. PMID:23770235

Characterizing tight-gas systems with production data: Wyoming, Utah, and Colorado

USGS Publications Warehouse

Nelson, Philip H.; Santus, Stephen L.; Baez, Luis; Beeney, Ken; Sonnenberg, Steve

2013-01-01

The study of produced fluids allows comparisons among tight-gas systems. This paper examines gas, oil, and water production data from vertical wells in 23 fields in five Rocky Mountain basins of the United States, mostly from wells completed before the year 2000. Average daily rates of gas, oil, and water production are determined two years and seven years after production begins in order to represent the interval in which gas production declines exponentially. In addition to the daily rates, results are also presented in terms of oil-to-gas and water-to-gas ratios, and in terms of the five-year decline in gas production rates and water-to-gas ratios. No attempt has been made to estimate the ultimate productivity of wells or fields. The ratio of gas production rates after seven years to gas production rates at two years is about one-half, with median ratios falling within a range of 0.4 to 0.6 in 16 fields. Oil-gas ratios show substantial variation among fields, ranging from dry gas (no oil) to wet gas to retrograde conditions. Among wells within fields, the oil-gas ratios vary by a factor of three to thirty, with the exception of the Lance Formation in Jonah and Pinedale fields, where the oil-gas ratios vary by less than a factor of two. One field produces water-free gas and a large fraction of wells in two other fields produce water-free gas, but most fields have water-gas ratios greater than 1 bbl/mmcf—greater than can be attributed to water dissolved in gas in the reservoir— and as high as 100 bbl/mmcf. The median water-gas ratio for fields increases moderately with time, but in individual wells water influx relative to gas is erratic, increasing greatly with time in many wells while remaining constant or decreasing in others.

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.

Modeling on Fluid Flow and Inclusion Motion in Centrifugal Continuous Casting Strands

NASA Astrophysics Data System (ADS)

Wang, Qiangqiang; Zhang, Lifeng; Sridhar, Seetharaman

2016-08-01

During the centrifugal continuous casting process, unreasonable casting parameters can cause violent level fluctuation, serious gas entrainment, and formation of frozen shell pieces at the meniscus. Thus, in the current study, a three-dimensional multiphase turbulent model was established to study the transport phenomena during centrifugal continuous casting process. The effects of nozzle position, casting and rotational speed on the flow pattern, centrifugal force acting on the molten steel, level fluctuation, gas entrainment, shear stress on mold wall, and motion of inclusions during centrifugal continuous casting process were investigated. Volume of Fluid model was used to simulate the molten steel-air two-phase. The level fluctuation and the gas entrainment during casting were calculated by user-developed subroutines. The trajectory of inclusions in the rotating system was calculated using the Lagrangian approach. The results show that during centrifugal continuous casting, a large amount of gas was entrained into the molten steel, and broken into bubbles of various sizes. The greater the distance to the mold wall, the smaller the centrifugal force. Rotation speed had the most important influence on the centrifugal force distribution at the side region. Angular moving angle of the nozzle with 8° and keeping the rotation speed with 60 revolutions per minute can somehow stabilize the level fluctuation. The increase of angular angle of nozzle from 8 to 18 deg and rotation speed from 40 to 80 revolutions per minute favored to decrease the total volume of entrained bubbles, while the increase of distance of nozzle moving left and casting speed had reverse effects. The trajectories of inclusions in the mold were irregular, and then rotated along the strand length. After penetrating a certain distance, the inclusions gradually moved to the center of billet and gathered there. More work, such as the heat transfer, the solidification, and the inclusions entrapment during centrifugal continuous casting, will be performed.

M1.3 - a small scaffold for DNA origami

NASA Astrophysics Data System (ADS)

Said, Hassan; Schüller, Verena J.; Eber, Fabian J.; Wege, Christina; Liedl, Tim; Richert, Clemens

2012-12-01

The DNA origami method produces programmable nanoscale objects that form when one long scaffold strand hybridizes to numerous oligonucleotide staple strands. One scaffold strand is dominating the field: M13mp18, a bacteriophage-derived vector 7249 nucleotides in length. The full-length M13 is typically folded by using over 200 staple oligonucleotides. Here we report the convenient preparation of a 704 nt fragment dubbed ``M1.3'' as a linear or cyclic scaffold and the assembly of small origami structures with just 15-24 staple strands. A typical M1.3 origami is large enough to be visualized by TEM, but small enough to show a cooperativity in its assembly and thermal denaturation that is reminiscent of oligonucleotide duplexes. Due to its medium size, M1.3 origami with globally modified staples is affordable. As a proof of principle, two origami structures with globally 5'-capped staples were prepared and were shown to give higher UV-melting points than the corresponding assembly with unmodified DNA. M1.3 has the size of a gene, not a genome, and may function as a model for gene-based nanostructures. Small origami with M1.3 as a scaffold may serve as a workbench for chemical, physical, and biological experiments.The DNA origami method produces programmable nanoscale objects that form when one long scaffold strand hybridizes to numerous oligonucleotide staple strands. One scaffold strand is dominating the field: M13mp18, a bacteriophage-derived vector 7249 nucleotides in length. The full-length M13 is typically folded by using over 200 staple oligonucleotides. Here we report the convenient preparation of a 704 nt fragment dubbed ``M1.3'' as a linear or cyclic scaffold and the assembly of small origami structures with just 15-24 staple strands. A typical M1.3 origami is large enough to be visualized by TEM, but small enough to show a cooperativity in its assembly and thermal denaturation that is reminiscent of oligonucleotide duplexes. Due to its medium size, M1.3 origami with globally modified staples is affordable. As a proof of principle, two origami structures with globally 5'-capped staples were prepared and were shown to give higher UV-melting points than the corresponding assembly with unmodified DNA. M1.3 has the size of a gene, not a genome, and may function as a model for gene-based nanostructures. Small origami with M1.3 as a scaffold may serve as a workbench for chemical, physical, and biological experiments. Electronic supplementary information (ESI) available: Materials, full sequence of M1.3, alternative restriction reactions, sequences and origami designs, ALEX data, estimated cost of producing M13, additional melting data for origami, and MALDI spectra of individual capped oligonucleotides. See DOI: 10.1039/c2nr32393a

Is Downtown Seattle on the Hanging Wall of the Seattle Fault?

NASA Astrophysics Data System (ADS)

Pratt, T. L.

2008-12-01

The Seattle fault is an ~80-km-long thrust or reverse fault that trends east-west beneath the Puget Lowland of western Washington State, and is interpreted to extend beneath the Seattle urban area just south of the downtown area. The fault ruptured about A.D. 930 in a large earthquake that uplifted parts of the Puget Sound shoreline as much as 7 m, caused a tsunami in Puget Sound and extensive landslides throughout the area. Seismic reflection profiles indicate that the fault has 3 or more fault splays that together form the Seattle fault zone. Models for the Seattle fault zone vary considerably, but most models place the northern edge of the Seattle fault zone south of the downtown area. These interpretations require that the fault zone shifts about 2 km to the south in the Seattle area relative to its location to the east (Bellevue) and west (Bainbridge Island). Potential field anomalies, particularly prominent magnetic highs associated with dipping, shallow conglomerate layers, are not continuous in the downtown Seattle area as observed to the east and west. Compilation and re-interpretation of all the existing seismic profiles in the area indicate that the northern strand of the Seattle fault, specifically a fold associated with the northernmost, blind fault strand, lies beneath the northern part of downtown Seattle, about 1.5 to 2 km farther north than has previously been interpreted. This study focuses on one previously unpublished seismic profile in central Puget Sound that shows a remarkable image of the Seattle fault, with shallow subhorizontal layers disrupted or folded by at least two thrust faults and several shallow backthrusts. These apparently Holocene layers are arched gently upwards, with the peak of the anticline in line with Alki and Restoration Points on the east and west sides of Puget Sound, respectively. The profile shows that the shallow part of the northern fault strand dips to the south at about 35 degrees, consistent with the 35 to 40 degree dip previously interpreted from tomography data. A second fault strand about 2 km south of the northern strand causes gentle folding of the Holocene strata. Two prominent backthrusts occur on the south side of the anticline, with the southern backthrust on strike with a prominent scarp on the eastern shoreline. A large erosional paleochannel beneath west Seattle and the Duwamish waterway extends beneath Elliot Bay and obscures potential field anomalies and seismic reflection evidence for the fault strands. However, hints of fault-related features on the profiles in Elliot Bay, and clear images in Lake Washington, indicate that the fault strands extend beneath the city of Seattle in the downtown area. If indeed the northern strand of the Seattle fault lies beneath the northern part of downtown Seattle, the downtown area may experience ground deformation during a major Seattle fault earthquake and that focusing of energy in the fault zone may occur farther north than previously estimated.

The core microprocessor component DiGeorge syndrome critical region 8 (DGCR8) is a nonspecific RNA-binding protein.

PubMed

Roth, Braden M; Ishimaru, Daniella; Hennig, Mirko

2013-09-13

MicroRNA (miRNA) biogenesis follows a conserved succession of processing steps, beginning with the recognition and liberation of an miRNA-containing precursor miRNA hairpin from a large primary miRNA transcript (pri-miRNA) by the Microprocessor, which consists of the nuclear RNase III Drosha and the double-stranded RNA-binding domain protein DGCR8 (DiGeorge syndrome critical region protein 8). Current models suggest that specific recognition is driven by DGCR8 detection of single-stranded elements of the pri-miRNA stem-loop followed by Drosha recruitment and pri-miRNA cleavage. Because countless RNA transcripts feature single-stranded-dsRNA junctions and DGCR8 can bind hundreds of mRNAs, we explored correlations between RNA binding properties of DGCR8 and specific pri-miRNA substrate processing. We found that DGCR8 bound single-stranded, double-stranded, and random hairpin transcripts with similar affinity. Further investigation of DGCR8/pri-mir-16 interactions by NMR detected intermediate exchange regimes over a wide range of stoichiometric ratios. Diffusion analysis of DGCR8/pri-mir-16 interactions by pulsed field gradient NMR lent further support to dynamic complex formation involving free components in exchange with complexes of varying stoichiometry, although in vitro processing assays showed exclusive cleavage of pri-mir-16 variants bearing single-stranded flanking regions. Our results indicate that DGCR8 binds RNA nonspecifically. Therefore, a sequential model of DGCR8 recognition followed by Drosha recruitment is unlikely. Known RNA substrate requirements are broad and include 70-nucleotide hairpins with unpaired flanking regions. Thus, specific RNA processing is likely facilitated by preformed DGCR8-Drosha heterodimers that can discriminate between authentic substrates and other hairpins.

The Core Microprocessor Component DiGeorge Syndrome Critical Region 8 (DGCR8) Is a Nonspecific RNA-binding Protein*

PubMed Central

Roth, Braden M.; Ishimaru, Daniella; Hennig, Mirko

2013-01-01

MicroRNA (miRNA) biogenesis follows a conserved succession of processing steps, beginning with the recognition and liberation of an miRNA-containing precursor miRNA hairpin from a large primary miRNA transcript (pri-miRNA) by the Microprocessor, which consists of the nuclear RNase III Drosha and the double-stranded RNA-binding domain protein DGCR8 (DiGeorge syndrome critical region protein 8). Current models suggest that specific recognition is driven by DGCR8 detection of single-stranded elements of the pri-miRNA stem-loop followed by Drosha recruitment and pri-miRNA cleavage. Because countless RNA transcripts feature single-stranded-dsRNA junctions and DGCR8 can bind hundreds of mRNAs, we explored correlations between RNA binding properties of DGCR8 and specific pri-miRNA substrate processing. We found that DGCR8 bound single-stranded, double-stranded, and random hairpin transcripts with similar affinity. Further investigation of DGCR8/pri-mir-16 interactions by NMR detected intermediate exchange regimes over a wide range of stoichiometric ratios. Diffusion analysis of DGCR8/pri-mir-16 interactions by pulsed field gradient NMR lent further support to dynamic complex formation involving free components in exchange with complexes of varying stoichiometry, although in vitro processing assays showed exclusive cleavage of pri-mir-16 variants bearing single-stranded flanking regions. Our results indicate that DGCR8 binds RNA nonspecifically. Therefore, a sequential model of DGCR8 recognition followed by Drosha recruitment is unlikely. Known RNA substrate requirements are broad and include 70-nucleotide hairpins with unpaired flanking regions. Thus, specific RNA processing is likely facilitated by preformed DGCR8-Drosha heterodimers that can discriminate between authentic substrates and other hairpins. PMID:23893406

The cost of getting CCS wrong: Uncertainty, infrastructure design, and stranded CO 2

DOE PAGES

Middleton, Richard Stephen; Yaw, Sean Patrick

2018-01-11

Carbon capture, and storage (CCS) infrastructure will require industry—such as fossil-fuel power, ethanol production, and oil and gas extraction—to make massive investment in infrastructure. The cost of getting these investments wrong will be substantial and will impact the success of CCS technology. Multiple factors can and will impact the success of commercial-scale CCS, including significant uncertainties regarding capture, transport, and injection-storage decisions. Uncertainties throughout the CCS supply chain include policy, technology, engineering performance, economics, and market forces. In particular, large uncertainties exist for the injection and storage of CO 2. Even taking into account upfront investment in site characterization, themore » final performance of the storage phase is largely unknown until commercial-scale injection has started. We explore and quantify the impact of getting CCS infrastructure decisions wrong based on uncertain injection rates and uncertain CO 2 storage capacities using a case study managing CO 2 emissions from the Canadian oil sands industry in Alberta. We use SimCCS, a widely used CCS infrastructure design framework, to develop multiple CCS infrastructure scenarios. Each scenario consists of a CCS infrastructure network that connects CO 2 sources (oil sands extraction and processing) with CO 2 storage reservoirs (acid gas storage reservoirs) using a dedicated CO 2 pipeline network. Each scenario is analyzed under a range of uncertain storage estimates and infrastructure performance is assessed and quantified in terms of cost to build additional infrastructure to store all CO 2. We also include the role of stranded CO 2, CO 2 that a source was expecting to but cannot capture due substandard performance in the transport and storage infrastructure. Results show that the cost of getting the original infrastructure design wrong are significant and that comprehensive planning will be required to ensure that CCS becomes a successful climate mitigation technology. Here, we show that the concept of stranded CO 2 can transform a seemingly high-performing infrastructure design into the worst case scenario.« less

The cost of getting CCS wrong: Uncertainty, infrastructure design, and stranded CO 2

DOE Office of Scientific and Technical Information (OSTI.GOV)

Middleton, Richard Stephen; Yaw, Sean Patrick

Carbon capture, and storage (CCS) infrastructure will require industry—such as fossil-fuel power, ethanol production, and oil and gas extraction—to make massive investment in infrastructure. The cost of getting these investments wrong will be substantial and will impact the success of CCS technology. Multiple factors can and will impact the success of commercial-scale CCS, including significant uncertainties regarding capture, transport, and injection-storage decisions. Uncertainties throughout the CCS supply chain include policy, technology, engineering performance, economics, and market forces. In particular, large uncertainties exist for the injection and storage of CO 2. Even taking into account upfront investment in site characterization, themore » final performance of the storage phase is largely unknown until commercial-scale injection has started. We explore and quantify the impact of getting CCS infrastructure decisions wrong based on uncertain injection rates and uncertain CO 2 storage capacities using a case study managing CO 2 emissions from the Canadian oil sands industry in Alberta. We use SimCCS, a widely used CCS infrastructure design framework, to develop multiple CCS infrastructure scenarios. Each scenario consists of a CCS infrastructure network that connects CO 2 sources (oil sands extraction and processing) with CO 2 storage reservoirs (acid gas storage reservoirs) using a dedicated CO 2 pipeline network. Each scenario is analyzed under a range of uncertain storage estimates and infrastructure performance is assessed and quantified in terms of cost to build additional infrastructure to store all CO 2. We also include the role of stranded CO 2, CO 2 that a source was expecting to but cannot capture due substandard performance in the transport and storage infrastructure. Results show that the cost of getting the original infrastructure design wrong are significant and that comprehensive planning will be required to ensure that CCS becomes a successful climate mitigation technology. Here, we show that the concept of stranded CO 2 can transform a seemingly high-performing infrastructure design into the worst case scenario.« less

The preferred conformation of dipeptides in the context of biosynthesis

NASA Astrophysics Data System (ADS)

Bywater, Robert P.; Veryazov, Valera

2013-09-01

Globular proteins are folded polypeptide structures comprising stretches of secondary structures (helical (α- or 310 helix type), polyproline helix or β-strands) interspersed by regions of less well-ordered structure ("random coil"). Protein fold prediction is a very active field impacting inte alia on protein engineering and misfolding studies. Apart from the many studies of protein refolding from the denatured state, there has been considerable interest in studying the initial formation of peptides during biosynthesis, when there are at the outset only a few residues in the emerging polypeptide. Although there have been many studies employing quantum chemical methods of the conformation of dipeptides, these have mostly been carried out in the gas phase or simulated water. None of these conditions really apply in the interior confines of the ribosome. In the present work, we are concerned with the conformation of dipeptides in this low dielectric environment. Furthermore, only the residue types glycine and alanine have been studied by previous authors, but we extend this repertoire to include leucine and isoleucine, position isomers which have very different structural propensities.

Simulation of prepackaged grout bleed under field conditions : [summary].

DOT National Transportation Integrated Search

2014-04-01

Post-tensioning (PT) is a method of compensating : for concretes weakness under tension by adding : steel. Tubes (ducts) are cast into concrete : components; after the concrete sets, high-strength steel cables (tendons or strand) are run : through...

The 3D structures of G-quadruplexes of HIV-1 integrase inhibitors: molecular dynamics simulations in aqueous solution and in the gas phase.

PubMed

Li, Ming-Hui; Zhou, Yi-Han; Luo, Quan; Li, Ze-Sheng

2010-04-01

The unimolecular G-quadruplex structures of d(GGGTGGGTGGGTGGGT) (G1) and d(GTGGTGGGTGGGTGGGT) (G2) are known as the potent nanomolar HIV-1 integrase inhibitors, thus investigating the 3D structures of the two sequences is significant for structure-based rational anti-HIV drug design. In this research, based on the experimental data of circular dichroism (CD) spectropolarimetry and electrospray ionization mass spectrometry (ESI-MS), the initial models of G1 and G2 were constructed by molecular modeling method. The modeling structures of G1 and G2 are intramolecular parallel-stranded quadruplex conformation with three guanine tetrads. Particularly, the structure of G2 possesses a T loop residue between the first and the second G residues that are the component of two adjacent same-stranded G-tetrad planes. This structure proposed by us has a very novel geometry and is different from all reported G-quadruplexes. The extended (35 ns) molecular dynamic (MD) simulations for the models indicate that the G-quadruplexes maintain their structures very well in aqueous solution whether the existence of K(+) or NH (4) (+) in the central channel. Furthermore, we perform 500 ns MD simulations for the models in the gas phase. The results show that all the ion-G-quadruplex complexes are maintained during the whole simulations, despite the large magnitude of phosphate-phosphate repulsions. The gas phase MD simulations provide a good explanation to ESI-MS experiments. Our 3D structures for G1 and G2 will assist in understanding geometric formalism of G-quadruplex folding and may be helpful as a platform for rational anti-HIV drug design.

Reservoir model for Hillsboro gas storage field management

USGS Publications Warehouse

Udegbunam, Emmanuel O.; Kemppainen, Curt; Morgan, Jim; ,

1995-01-01

A 3-dimensional reservoir model is used to understand the behavior of the Hillsboro Gas Storage Field and to investigate the field's performance under various future development. Twenty-two years of the gas storage reservoir history, comprising the initial gas bubble development and seasonal gas injection and production cycles, are examined with a full-field, gas water, reservoir simulation model. The results suggest that the gas-water front is already in the vicinity of the west observation well that increasing the field's total gas-in-place volume would cause gas to migrate beyond the east, north and west observation well. They also suggest that storage enlargement through gas injection into the lower layers may not prevent gas migration. Moreover, the results suggest that the addition of strategically-located new wells would boost the simulated gas deliverabilities.

Ultrasensitive detection of uranyl by graphene oxide-based background reduction and RCDzyme-based enzyme strand recycling signal amplification.

PubMed

Li, Ming-Hui; Wang, Yong-Sheng; Cao, Jin-Xiu; Chen, Si-Han; Tang, Xian; Wang, Xiao-Feng; Zhu, Yu-Feng; Huang, Yan-Qin

2015-10-15

We proposed a novel strategy which combines graphene oxide-based background reduction with RCDzyme-based enzyme strand recycling amplification for ultrahigh sensitive detection of uranyl. The RCDzyme is designed to contain a guanine (G)-rich sequence that replaces the partial sequence in an uranyl-specific DNAzyme. This multifunctional probe can act as the target recognition element, DNAzyme and the primer of signal amplification. The presence of UO2(2+) can induce the cleavage of the substrate strands in RCDzyme. Then, each released enzyme strand can hybridize with another substrate strands to trigger many cycles of the cleavage by binding uranyl, leading to the formation of more G-quadruplexes by split guanine-rich oligonucleotide fragments. The resulting G-quadruplexes could bind to N-methyl-mesoporphyrin IX (NMM), causing an amplified detection signal for the target uranyl. Next, graphene oxide-based background reduction strategy was further employed for adsorbing free ssDNA and NMM, thereby providing a proximalis zero-background signal. The combination of RCDzyme signal amplification and proximalis zero-background signal remarkably improves the sensitivity of this method, achieving a dynamic range of two orders of magnitude and giving a detection limit down to 86 pM, which is much lower than those of related literature reports. These achievements might be helpful in the design of highly sensitive analytical platform for wide applications in environmental and biomedical fields. Copyright © 2015 Elsevier B.V. All rights reserved.

Recent Advances in Chemical Modification of Peptide Nucleic Acids

PubMed Central

Rozners, Eriks

2012-01-01

Peptide nucleic acid (PNA) has become an extremely powerful tool in chemistry and biology. Although PNA recognizes single-stranded nucleic acids with exceptionally high affinity and sequence selectivity, there is considerable ongoing effort to further improve properties of PNA for both fundamental science and practical applications. The present paper discusses selected recent studies that improve on cellular uptake and binding of PNA to double-stranded DNA and RNA. The focus is on chemical modifications of PNA's backbone and heterocyclic nucleobases. The paper selects representative recent studies and does not attempt to provide comprehensive coverage of the broad and vibrant field of PNA modification. PMID:22991652

Schooling's "Contribution" to Contemporary Violent Conflict: Review of Theoretical Ideas and Case Studies in the Field of Education and Conflict

ERIC Educational Resources Information Center

Matsumoto, Mitsuko

2015-01-01

Some argue that the field of study of "education and conflict" has yet to be solidified since its emergence in the 1990s, partly due to the weak theory base. This article reviews the literature on the "contribution" of schooling in contemporary violent conflict, via three strands of theoretical ideas, to demonstrate the…

Field Trial of Distributed Acoustic Sensing in an Active Room-and-Pillar Mine

NASA Astrophysics Data System (ADS)

Wang, H. F.; Zeng, X.; Lord, N. E.; Fratta, D.; Coleman, T.; Maclaughlin, M.

2017-12-01

A Distributed Acoustic Sensing (DAS) field trial was conducted in July 2017 on the floor of the first level of the Lafarge-Conco limestone mine in N. Aurora Illinois. The room-and-pillar mine occupies a wedge-shaped footprint that is approximately 1500 m long by 500 m wide at the midpoint. The mine consists of four levels down to a depth of about 80 m. Pillars are approximately 20-meters on a side and in height. DAS cable was deployed in a shallow groove cut with a pavement saw. The groove was approximately 300-meters long and in the overall shape of an irregular rectangle as it followed a pathway around three pillars in each direction. The groove was 1.25-cm wide and between 2.5 and 7.5-cm deep. Three strands of fiber-optic cable were placed in the groove, positioned one above the other and separated by different materials. The bottom cable was covered with cement to a depth of 1.25-cm and allowed to dry for several days. The middle strand was covered with fines and the top strand was without cover. The DAS array consisted of the three co-located strands connected in series. It recorded signals from daily mine blasts on the afternoons of July 27 and 28. The blast locations were along the mine perimeter at a distance of about 1 km from the array. In addition to the distant blast source, a series of near-array tests were made with a weight-drop source located at surveyed points along the cable and within the array. Average mine-scale velocities were obtained from travel times from blast locations to different DAS channels. Local seismic velocities were obtained from first arrivals of the weight-drop source and from moveout of traces with time. The DAS response and travel times were noted as a function of cable direction. The field test showed that DAS can be used to monitor ground motion within an active mine. The research project is funded by a contract to Montana Tech from the National Institute for Occupational Safety and Health, Office of Mine Safety and Health Research.

Thermo-magnetic instabilities in Nb 3Sn superconducting accelerator magnets

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bordini, Bernardo

2006-09-01

The advance of High Energy Physics research using circulating accelerators strongly depends on increasing the magnetic bending field which accelerator magnets provide. To achieve high fields, the most powerful present-day accelerator magnets employ NbTi superconducting technology; however, with the start up of Large Hadron Collider (LHC) in 2007, NbTi magnets will have reached the maximum field allowed by the intrinsic properties of this superconductor. A further increase of the field strength necessarily requires a change in superconductor material; the best candidate is Nb 3Sn. Several laboratories in the US and Europe are currently working on developing Nb 3Sn accelerator magnets,more » and although these magnets have great potential, it is suspected that their performance may be fundamentally limited by conductor thermo-magnetic instabilities: an idea first proposed by the Fermilab High Field Magnet group early in 2003. This thesis presents a study of thermo-magnetic instability in high field Nb 3Sn accelerator magnets. In this chapter the following topics are described: the role of superconducting magnets in High Energy Physics; the main characteristics of superconductors for accelerator magnets; typical measurements of current capability in superconducting strands; the properties of Nb 3Sn; a description of the manufacturing process of Nb 3Sn strands; superconducting cables; a typical layout of superconducting accelerator magnets; the current state of the art of Nb 3Sn accelerator magnets; the High Field Magnet program at Fermilab; and the scope of the thesis.« less

Laboratory-Model Integrated-System FARAD Thruster

NASA Technical Reports Server (NTRS)

Polzin, K.A.; Best, S.; Miller, R.; Rose, M.F.; Owens, T.

2008-01-01

Pulsed inductive plasma accelerators are spacecraft propulsion devices in which energy is stored in a capacitor and then discharged through an inductive coil. The device is electrodeless, inducing a plasma current sheet in propellant located near the face of the coil. The propellant is accelerated and expelled at a high exhaust velocity (order of 10 km/s) through the interaction of the plasma current with an induced magnetic field. The Faraday Accelerator with RF-Assisted Discharge (FARAD) thruster [1,2] is a type of pulsed inductive plasma accelerator in which the plasma is preionized by a mechanism separate from that used to form the current sheet and accelerate the gas. Employing a separate preionization mechanism in this manner allows for the formation of an inductive current sheet at much lower discharge energies and voltages than those found in previous pulsed inductive accelerators like the Pulsed Inductive Thruster (PIT). In a previous paper [3], the authors presented a basic design for a 100 J/pulse FARAD laboratory-version thruster. The design was based upon guidelines and performance scaling parameters presented in Refs. [4, 5]. In this paper, we expand upon the design presented in Ref. [3] by presenting a fully-assembled and operational FARAD laboratory-model thruster and addressing system and subsystem-integration issues (concerning mass injection, preionization, and acceleration) that arose during assembly. Experimental data quantifying the operation of this thruster, including detailed internal plasma measurements, are presented by the authors in a companion paper [6]. The thruster operates by first injecting neutral gas over the face of a flat, inductive acceleration coil and at some later time preionizing the gas. Once the gas is preionized current is passed through the acceleration coil, inducing a plasma current sheet in the propellant that is accelerated away from the coil through electromagnetic interaction with the time-varying magnetic field. Neutral gas is injected over the face of the acceleration coil through a fast-acting valve that feeds a central distribution manifold. The thruster is designed to preionize the gas using an RF-frequency ringing signal produced by a discharging Vector Inversion Generator (VIG). The acceleration stage consists of a multiple-turn, multiple-strand spiral induction coil (see Fig. 1, left panel) and is designed for operation at discharge energies on the order of 100 J/pulse. Several different pulsed power train modules can be used to drive current through the acceleration coil. One such power train is based upon the Bernardes and Merryman circuit topology, which restricts voltage reversal on the capacitor banks and can be clamped to eliminate current reversal in the coil. A second option is a pulse-compression-ring power train (see Fig. 1, right panel), which takesa temporally broad, low current pulse and transforms it into a short, high current pulse.

[RNA interference library research progress and its application in cancer research].

PubMed

Zhao, Ning; Cai, Li

2013-02-01

RNA interference is a homologous mRNA special degradation phenomenon which is caused by the double-stranded RNA. RNAi library is a pooled library that is artificially constructed using RNAi technology. As RNAi library has made a major breakthrough in the field of genetic research, it has been widely used in the field of medical research, especially in the field of cancer research. This review discussed the research progress of RNAi library and its applications in cancer research.

Surface Modification of Silicon Pillar Arrays To Enhance Fluorescence Detection of Uranium and DNA

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lincoln, Danielle R.; Charlton, Jennifer J.; Hatab, Nahla A.

There is an ever-growing need for detection methods that are both sensitive and efficient, such that reagent and sample consumption is minimized. Nanopillar arrays offer an attractive option to fill this need by virtue of their small scale in conjunction with their field enhancement intensity gains. This work investigates the use of nanopillar substrates for the detection of the uranyl ion and DNA, two analytes unalike but for their low quantum efficiencies combined with the need for high-throughput analyses. Here in this paper, the adaptability of these platforms was explored, as methods for the successful surface immobilization of both analytesmore » were developed and compared, resulting in a limit of detection for the uranyl ion of less than 1 ppm with a 0.2 μL sample volume. Moreover, differentiation between single-stranded and double-stranded DNA was possible, including qualitative identification between double-stranded DNA and DNA of the same sequence, but with a 10-base-pair mismatch.« less

Enhanced DNA Sensing via Catalytic Aggregation of Gold Nanoparticles

PubMed Central

Huttanus, Herbert M.; Graugnard, Elton; Yurke, Bernard; Knowlton, William B.; Kuang, Wan; Hughes, William L.; Lee, Jeunghoon

2014-01-01

A catalytic colorimetric detection scheme that incorporates a DNA-based hybridization chain reaction into gold nanoparticles was designed and tested. While direct aggregation forms an inter-particle linkage from only ones target DNA strand, the catalytic aggregation forms multiple linkages from a single target DNA strand. Gold nanoparticles were functionalized with thiol-modified DNA strands capable of undergoing hybridization chain reactions. The changes in their absorption spectra were measured at different times and target concentrations and compared against direct aggregation. Catalytic aggregation showed a multifold increase in sensitivity at low target concentrations when compared to direct aggregation. Gel electrophoresis was performed to compare DNA hybridization reactions in catalytic and direct aggregation schemes, and the product formation was confirmed in the catalytic aggregation scheme at low levels of target concentrations. The catalytic aggregation scheme also showed high target specificity. This application of a DNA reaction network to gold nanoparticle-based colorimetric detection enables highly-sensitive, field-deployable, colorimetric readout systems capable of detecting a variety of biomolecules. PMID:23891867

Sequence-Dependent Elasticity and Electrostatics of Single-Stranded DNA: Signatures of Base-Stacking

PubMed Central

McIntosh, Dustin B.; Duggan, Gina; Gouil, Quentin; Saleh, Omar A.

2014-01-01

Base-stacking is a key factor in the energetics that determines nucleic acid structure. We measure the tensile response of single-stranded DNA as a function of sequence and monovalent salt concentration to examine the effects of base-stacking on the mechanical and thermodynamic properties of single-stranded DNA. By comparing the elastic response of highly stacked poly(dA) and that of a polypyrimidine sequence with minimal stacking, we find that base-stacking in poly(dA) significantly enhances the polymer’s rigidity. The unstacking transition of poly(dA) at high force reveals that the intrinsic electrostatic tension on the molecule varies significantly more weakly on salt concentration than mean-field predictions. Further, we provide a model-independent estimate of the free energy difference between stacked poly(dA) and unstacked polypyrimidine, finding it to be ∼−0.25 kBT/base and nearly constant over three orders of magnitude in salt concentration. PMID:24507606

Surface Modification of Silicon Pillar Arrays To Enhance Fluorescence Detection of Uranium and DNA

DOE PAGES

Lincoln, Danielle R.; Charlton, Jennifer J.; Hatab, Nahla A.; ...

2017-10-27

There is an ever-growing need for detection methods that are both sensitive and efficient, such that reagent and sample consumption is minimized. Nanopillar arrays offer an attractive option to fill this need by virtue of their small scale in conjunction with their field enhancement intensity gains. This work investigates the use of nanopillar substrates for the detection of the uranyl ion and DNA, two analytes unalike but for their low quantum efficiencies combined with the need for high-throughput analyses. Here in this paper, the adaptability of these platforms was explored, as methods for the successful surface immobilization of both analytesmore » were developed and compared, resulting in a limit of detection for the uranyl ion of less than 1 ppm with a 0.2 μL sample volume. Moreover, differentiation between single-stranded and double-stranded DNA was possible, including qualitative identification between double-stranded DNA and DNA of the same sequence, but with a 10-base-pair mismatch.« less

DNA/RNA heteroduplex oligonucleotide for highly efficient gene silencing

PubMed Central

Nishina, Kazutaka; Piao, Wenying; Yoshida-Tanaka, Kie; Sujino, Yumiko; Nishina, Tomoko; Yamamoto, Tsuyoshi; Nitta, Keiko; Yoshioka, Kotaro; Kuwahara, Hiroya; Yasuhara, Hidenori; Baba, Takeshi; Ono, Fumiko; Miyata, Kanjiro; Miyake, Koichi; Seth, Punit P.; Low, Audrey; Yoshida, Masayuki; Bennett, C. Frank; Kataoka, Kazunori; Mizusawa, Hidehiro; Obika, Satoshi; Yokota, Takanori

2015-01-01

Antisense oligonucleotides (ASOs) are recognized therapeutic agents for the modulation of specific genes at the post-transcriptional level. Similar to any medical drugs, there are opportunities to improve their efficacy and safety. Here we develop a short DNA/RNA heteroduplex oligonucleotide (HDO) with a structure different from double-stranded RNA used for short interfering RNA and single-stranded DNA used for ASO. A DNA/locked nucleotide acid gapmer duplex with an α-tocopherol-conjugated complementary RNA (Toc-HDO) is significantly more potent at reducing the expression of the targeted mRNA in liver compared with the parent single-stranded gapmer ASO. Toc-HDO also improves the phenotype in disease models more effectively. In addition, the high potency of Toc-HDO results in a reduction of liver dysfunction observed in the parent ASO at a similar silencing effect. HDO technology offers a novel concept of therapeutic oligonucleotides, and the development of this molecular design opens a new therapeutic field. PMID:26258894

Exploring the mechanisms of DNA hybridization on a surface

NASA Astrophysics Data System (ADS)

Schmitt, Terry J.; Rogers, J. Brandon; Knotts, Thomas A.

2013-01-01

DNA microarrays are a potentially disruptive technology in the medical field, but their use in such settings is limited by poor reliability. Microarrays work on the principle of hybridization and can only be as reliable as this process is robust, yet little is known at the molecular level about how the surface affects the hybridization process. This work uses advanced molecular simulation techniques and an experimentally parameterized coarse-grain model to determine the mechanism by which hybridization occurs on surfaces. The results show that hybridization proceeds through a mechanism where the untethered (target) strand often flips orientation. For evenly lengthed strands, the surface stabilizes hybridization (compared to the bulk system) by reducing the barriers involved in the flipping event. For unevenly lengthed strands, the surface destabilizes hybridization compared to the bulk, but the degree of destabilization is dependent on the location of the matching sequence. Taken as a whole, the results offer an unprecedented view into the hybridization process on surfaces and provide some insights as to the poor reproducibility exhibited by microarrays.

On-Chip Fluorescence Switching System for Constructing a Rewritable Random Access Data Storage Device.

PubMed

Nguyen, Hoang Hiep; Park, Jeho; Hwang, Seungwoo; Kwon, Oh Seok; Lee, Chang-Soo; Shin, Yong-Beom; Ha, Tai Hwan; Kim, Moonil

2018-01-10

We report the development of on-chip fluorescence switching system based on DNA strand displacement and DNA hybridization for the construction of a rewritable and randomly accessible data storage device. In this study, the feasibility and potential effectiveness of our proposed system was evaluated with a series of wet experiments involving 40 bits (5 bytes) of data encoding a 5-charactered text (KRIBB). Also, a flexible data rewriting function was achieved by converting fluorescence signals between "ON" and "OFF" through DNA strand displacement and hybridization events. In addition, the proposed system was successfully validated on a microfluidic chip which could further facilitate the encoding and decoding process of data. To the best of our knowledge, this is the first report on the use of DNA hybridization and DNA strand displacement in the field of data storage devices. Taken together, our results demonstrated that DNA-based fluorescence switching could be applicable to construct a rewritable and randomly accessible data storage device through controllable DNA manipulations.

Survey on the presence of non-dioxine-like PCBs (NDL-PCBs) in loggerhead turtles (Caretta caretta) stranded in south Mediterranean coasts (Sicily, Southern Italy).

PubMed

Cammilleri, Gaetano; Calvaruso, Enza; Pantano, Licia; Cascio, Giovanni Lo; Randisi, Barbara; Macaluso, Andrea; Vazzana, Mirella; Caracappa, Giulia; Giangrosso, Giuseppe; Vella, Antonio; Ferrantelli, Vincenzo

2017-11-01

A total of 71 loggerhead turtles (Caretta caretta) stranded along the coasts of Sicily (Southern Italy) were examined for non-dioxine like polychlorinated biphenyl (NDL-PCB) levels in muscle and adipose tissue by a gas chromatography-mass spectrometry/mass spectrometry (GC-MS/MS) method. The results revealed 6 high-indicator congener (∑ 6 PCB IND ) levels in 45% of the loggerhead turtles examined, with mean values of 980.39 ± 2508.39 ng/g wet weight in adipose tissue and 102.53 ± 238.58 ng/g wet weight in muscle tissue. The hexachloro and heptachloro PCB congeners were the most abundant in both the sample types. The highest NDL-PCB levels were reached in an adipose tissue sample of a loggerhead turtle of 80 kg stranded along the coasts of Termini Imerese (14 183.85 ng/g wet wt). No significant correlation was found between modified Fulton's K values of the loggerhead turtles and PCB contents (S = 47 151, p > 0.05). Furthermore, no significant differences were found between sexes (W = 365, p >  0.05). The PCB levels found in the present study were much higher than those found in the literature. The present study is the first report on the existence of NDL-PCBs in loggerhead turtles stranded in Sicilian coasts confirming C. caretta as a valuable indicator of contaminant exposure in the marine environment because of their specific biological and ecological characteristics. Environ Toxicol Chem 2017;36:2997-3002. © 2017 SETAC. © 2017 SETAC.

Relationships between gas field development and the presence and abundance of pygmy rabbits in southwestern Wyoming

USGS Publications Warehouse

Germaine, Stephen; Carter, Sarah; Ignizio, Drew A.; Freeman, Aaron T.

2017-01-01

More than 5957 km2 in southwestern Wyoming is currently covered by operational gas fields, and further development is projected through 2030. Gas fields fragment landscapes through conversion of native vegetation to roads, well pads, pipeline corridors, and other infrastructure elements. The sagebrush steppe landscape where most of this development is occurring harbors 24 sagebrush-associated species of greatest conservation need, but the effects of gas energy development on most of these species are unknown. Pygmy rabbits (Brachylagus idahoensis) are one such species. In 2011, we began collecting three years of survey data to examine the relationship between gas field development density and pygmy rabbit site occupancy patterns on four major Wyoming gas fields (Continental Divide–Creston–Blue Gap, Jonah, Moxa Arch, Pinedale Anticline Project Area). We surveyed 120 plots across four gas fields, with plots distributed across the density gradient of gas well pads on each field. In a 1 km radius around the center of each plot, we measured the area covered by each of 10 gas field infrastructure elements and by shrub cover using 2012 National Agriculture Imagery Program imagery. We then modeled the relationship between gas field elements, pygmy rabbit presence, and two indices of pygmy rabbit abundance. Gas field infrastructure elements—specifically buried utility corridors and a complex of gas well pads, adjacent disturbed areas, and well pad access roads—were negatively correlated with pygmy rabbit presence and abundance indices, with sharp declines apparent after approximately 2% of the area consisted of gas field infrastructure. We conclude that pygmy rabbits in southwestern Wyoming may be sensitive to gas field development at levels similar to those observed for greater sage-grouse, and may suffer local population declines at lower levels of development than are allowed in existing plans and policies designed to conserve greater sage-grouse by limiting the surface footprint of energy development. Buried utilities, gas well pads, areas adjacent to well pads, and well pad access roads had the strongest negative correlation with pygmy rabbit presence and abundance. Minimizing the surface footprint of these elements may reduce negative impacts of gas energy development on pygmy rabbits.

Two-Tailed Comet Assay (2T-Comet): Simultaneous Detection of DNA Single and Double Strand Breaks.

PubMed

Cortés-Gutiérrez, Elva I; Fernández, José Luis; Dávila-Rodríguez, Martha I; López-Fernández, Carmen; Gosálvez, Jaime

2017-01-01

A modification of the original comet assay was developed for the simultaneous evaluation of DNA single strand breaks (SSBs) and double strand breaks (DSBs) in human spermatozoa. The two-dimensional perpendicular tail comet assay (2T-comet) combines non-denaturing and denaturant conditions to the same sperm nucleoid. In this case, the species-specific deproteinized sperm is first subjected to an electrophoretic field under non-denaturing conditions to mobilize isolated free discrete DNA fragments produced from DSBs; this is then followed by a second electrophoresis running perpendicular to the first one but under alkaline conditions to produce DNA denaturation, exposing SSBs on the same linear DNA chain or DNA fragments flanked by DSBs. This procedure results in a two dimensional comet tail emerging from the core where two types of original DNA affected molecule can be simultaneously discriminated. The 2T-comet is a fast, sensitive, and reliable procedure to distinguish between single and double strand DNA damage within the same cell. It is an innovative method for assessing sperm DNA integrity, which has important implications for human fertility and andrological pathology. This technique may be adapted to assess different DNA break types in other species and other cell types.

No effects of intermittent 50 Hz EMF on cytoplasmic free calcium and on the mitochondrial membrane potential in human diploid fibroblasts.

PubMed

Pilger, Alexander; Ivancsits, Sabine; Diem, Elisabeth; Steffens, Melanie; Kolb, Hans-Albert; Rüdiger, Hugo W

2004-09-01

The recently described increase in DNA strand breaks of cultured human diploid fibroblasts after intermittent exposure to extremely-low-frequency electromagnetic fields (ELF-EMF) of more than about 70 microT ELF-EMF is difficult to explain by a direct induction of covalent bond disruption. Therefore the hypothesis has been tested that ELF-EMF-induced DNA strand breaks might be mediated by cellular processes that cause alteration of the intracellular concentration of free calcium ([Ca2+]i) and/or the membrane potential (DeltaPsi(m)). [Ca2+]i was determined by the ratiometric fura-2 technique. Changes in DeltaPsi(m) were assessed by using the potential-dependent lipophilic cationic probe JC-1. Human fibroblasts were exposed to intermittent ELF-EMF (50 Hz, 1000 microT). Although exposure of fiboblasts to ELF-EMF resulted in a highly significant increase in DNA strand breaks as determined by the comet assay, no effect on JC-1 fluorescence emission or on [Ca2+]i has been observed when comparing exposed with sham-exposed cells. Therefore, it is suggested that ELF-EMF-induced DNA strand breaks are unlikely to be caused by intracellular changes that affect [Ca2+]i and/or DeltaPsi(m).

DNA denaturation through a model of the partition points on a one-dimensional lattice

NASA Astrophysics Data System (ADS)

Mejdani, R.; Huseini, H.

1994-08-01

We have shown that by using a model of the partition points gas on a one-dimensional lattice, we can study, besides the saturation curves obtained before for the enzyme kinetics, also the denaturation process, i.e. the breaking of the hydrogen bonds connecting the two strands, under treatment by heat of DNA. We think that this model, as a very simple model and mathematically transparent, can be advantageous for pedagogic goals or other theoretical investigations in chemistry or modern biology.

Radiotherapy Measurements with a Deoxyribonucleic Acid Doublestrand-Break Dosimeter

NASA Astrophysics Data System (ADS)

Obeidat, Mohammad Ali

Many types of dosimeters are used in the clinic to measure radiation dose for therapy but none of them directly measures the biological effect of this dose. The overall purpose of this work was to develop a dosimeter that measures biological damage in the form of double-strand breaks to deoxyribonucleic acid. This dosimeter could provide a more biologically relevant measure of radiation damage than the currently utilized dosimeters. A pair of oligonucleotides was designed to fabricate this dosimeter. One is labeled with a 5'-end biotin and the other with a 5'-end 6 Fluorescein amidite (fluorescent dye excited at 495?nanometer, with a peak emission at 520 nanometer). These were designed to adhere to certain locations on the pRS316 vector and serve as the primers for polymerase chain reactions. The end product of this reaction is a 4 kilo-base pair double strands deoxyribonucleic acid fragment with biotin on one end and 6 Fluorescein amidite oligonucleotide on the other attached to streptavidin beads. The biotin end connects the double strands deoxyribonucleic acid to the streptavidin bead. These bead-connected double strands deoxyribonucleic acid were suspended in 50 microliter of phosphate-buffered saline and placed into a tube for irradiation. Following irradiation of the deoxyribonucleic acid dosimeter, we take advantage of the magnetic properties of the streptavidin bead by placing our sample microtube against a magnet. The magnetic field pulls the streptavidin beads against the side of the tube. If a double-strand-break has occurred for a double strands deoxyribonucleic acid, the fluorescein end of the double strands deoxyribonucleic acid becomes free and is no longer attached to the bead or held against the side of the microtube. The free fluorescein following a double-strand-break in double strands deoxyribonucleic acid is referred to here as supernatant. The supernatant is extracted and placed in another microtube, while the unbroken double strands deoxyribonucleic acid remain attached to the beads and stay in the microtube (Fig. 4). Those beads were re-suspended with 50 microliter of phosphate-buffered saline again (called beads), then we placed both supernatant and beads in a reader microplate and we read the fluorescence signal for both with a fluorescence reader (BioTek Synergy 2). These beads and supernatant fluorescence signals are denoted by B and S, respectively. The relative amount of supernatant fluorescence counts is proportional to the probability of a double-strand-break. The probability of double-strand-break was calculated with the following equation: (S-BG)/(S+B-2BG) (1). where S was the supernatant fluorescence intensity (related to the number of double strands deoxyribonucleic acid with double-strand breaks), B was the re-suspended beads fluorescence intensity (related to the number of double strands deoxyribonucleic acid without double-strand breaks), and BG was the phosphate-buffered saline fluorescence intensity (related to the background signal). There are two advantages that this type of dosimeter has over the gel separation technique. First, it is important to irradiate deoxyribonucleic acid in a solution that has similar osmolarity and ion concentrations to that in a human, such as phosphate-buffered saline. A gel dosimeter would require a transfer to gel to separate deoxyribonucleic acid, whereas our dosimeter can be separated in this solution. Currently, we use pipettes to manually perform this separation, but this step could be automated. Second, the magnetic deoxyribonucleic acid separation technique is much faster than that for gel electrophoresis. Calibration of radiotherapy equipment isn't something that happens in national science laboratories, with only world-leading experts. This is something that happens locally at every cancer clinic, with physicists that do not have the luxury of focusing solely on this one measurement. For this reason, ease of use is critical for this type of technology. (Abstract shortened by ProQuest.).

Increased apoptosis and DNA double-strand breaks in the embryonic mouse brain in response to very low-dose X-rays but not 50 Hz magnetic fields.

PubMed

Saha, Shreya; Woodbine, Lisa; Haines, Jackie; Coster, Margaret; Ricket, Nicole; Barazzuol, Lara; Ainsbury, Elizabeth; Sienkiewicz, Zenon; Jeggo, Penny

2014-11-06

The use of X-rays for medical diagnosis is enhancing exposure to low radiation doses. Exposure to extremely low-frequency electromagnetic or magnetic fields is also increasing. Epidemiological studies show consistent associations of childhood leukaemia with exposure to magnetic fields but any causal relationship is unclear. A limitation in assessing the consequence of such exposure is the availability of sensitive assays. The embryonic neuronal stem and progenitor cell compartments are radiosensitive tissues. Using sensitive assays, we report a statistically significant increase in DNA double-strand break (DSB) formation and apoptosis in the embryonic neuronal stem cell compartment following in utero exposure to 10-200 mGy X-rays. Both endpoints show a linear response. We also show that DSB repair is delayed following exposure to doses below 50 mGy compared with 100 mGy. Thus, we demonstrate in vivo consequences of low-dose radiation. In contrast to these impacts, we did not observe any significant induction of DSBs or apoptosis following exposure to 50 Hz magnetic fields (100 or 300 µT). We conclude that any DSB induction by treatment with magnetic fields is lower than following exposure to 10 mGy X-rays. For comparison, certain procedures involving computed tomography scanning are equivalent to 1-5 mGy X-rays.

Roebel assembled coated conductor cables (RACC): Ac-Losses and current carrying potential

NASA Astrophysics Data System (ADS)

Frank, A.; Heller, R.; Goldacker, W.; Kling, A.; Schmidt, C.

2008-02-01

Low ac-loss HTS cables for transport currents well above 1 kA are required for application in transformers and generators and are taken into consideration for future generations of fusion reactor coils. Coated conductors (CC) are suitable candidates for high field application at an operation temperature in the range 50-77 K. Ac-field applications require cables with low ac-losses and hence twisting of the individual strands. We solved this problem using the Roebel technique. Short lengths of Roebel bar cables were prepared from industrial DyBCO and YBCO-CC. Meander shaped tapes of 4 or 5 mm width with twist pitches of 123 or 127 mm were cut from the 10 or 12 mm wide CC tapes using a specially designed tool. Eleven or twelve of these strands were assembled to a cable. The electrical and mechanical connection of the tapes was achieved using a silver powder filled conductive epoxy resin. Ac-losses of a short sample in an external ac-field were measured as a function of frequency and field amplitude as well as the coupling current decay time constant. We discuss the results in terms of available theories and compare measured time constants in transverse field with measured coupling losses. Finally the potential of this cable type for ac-use is discussed with respect to ac-losses and current carrying capability.

Increased apoptosis and DNA double-strand breaks in the embryonic mouse brain in response to very low-dose X-rays but not 50 Hz magnetic fields

PubMed Central

Saha, Shreya; Woodbine, Lisa; Haines, Jackie; Coster, Margaret; Ricket, Nicole; Barazzuol, Lara; Ainsbury, Elizabeth; Sienkiewicz, Zenon; Jeggo, Penny

2014-01-01

The use of X-rays for medical diagnosis is enhancing exposure to low radiation doses. Exposure to extremely low-frequency electromagnetic or magnetic fields is also increasing. Epidemiological studies show consistent associations of childhood leukaemia with exposure to magnetic fields but any causal relationship is unclear. A limitation in assessing the consequence of such exposure is the availability of sensitive assays. The embryonic neuronal stem and progenitor cell compartments are radiosensitive tissues. Using sensitive assays, we report a statistically significant increase in DNA double-strand break (DSB) formation and apoptosis in the embryonic neuronal stem cell compartment following in utero exposure to 10–200 mGy X-rays. Both endpoints show a linear response. We also show that DSB repair is delayed following exposure to doses below 50 mGy compared with 100 mGy. Thus, we demonstrate in vivo consequences of low-dose radiation. In contrast to these impacts, we did not observe any significant induction of DSBs or apoptosis following exposure to 50 Hz magnetic fields (100 or 300 µT). We conclude that any DSB induction by treatment with magnetic fields is lower than following exposure to 10 mGy X-rays. For comparison, certain procedures involving computed tomography scanning are equivalent to 1–5 mGy X-rays. PMID:25209403

Reverse genetics in high throughput: rapid generation of complete negative strand RNA virus cDNA clones and recombinant viruses thereof.

PubMed

Nolden, T; Pfaff, F; Nemitz, S; Freuling, C M; Höper, D; Müller, T; Finke, Stefan

2016-04-05

Reverse genetics approaches are indispensable tools for proof of concepts in virus replication and pathogenesis. For negative strand RNA viruses (NSVs) the limited number of infectious cDNA clones represents a bottleneck as clones are often generated from cell culture adapted or attenuated viruses, with limited potential for pathogenesis research. We developed a system in which cDNA copies of complete NSV genomes were directly cloned into reverse genetics vectors by linear-to-linear RedE/T recombination. Rapid cloning of multiple rabies virus (RABV) full length genomes and identification of clones identical to field virus consensus sequence confirmed the approache's reliability. Recombinant viruses were recovered from field virus cDNA clones. Similar growth kinetics of parental and recombinant viruses, preservation of field virus characters in cell type specific replication and virulence in the mouse model were confirmed. Reduced titers after reporter gene insertion indicated that the low level of field virus replication is affected by gene insertions. The flexibility of the strategy was demonstrated by cloning multiple copies of an orthobunyavirus L genome segment. This important step in reverse genetics technology development opens novel avenues for the analysis of virus variability combined with phenotypical characterization of recombinant viruses at a clonal level.

Accurate and rapid modeling of iron-bleomycin-induced DNA damage using tethered duplex oligonucleotides and electrospray ionization ion trap mass spectrometric analysis.

PubMed

Harsch, A; Marzilli, L A; Bunt, R C; Stubbe, J; Vouros, P

2000-05-01

Bleomycin B(2)(BLM) in the presence of iron [Fe(II)] and O(2)catalyzes single-stranded (ss) and double-stranded (ds) cleavage of DNA. Electrospray ionization ion trap mass spectrometry was used to monitor these cleavage processes. Two duplex oligonucleotides containing an ethylene oxide tether between both strands were used in this investigation, allowing facile monitoring of all ss and ds cleavage events. A sequence for site-specific binding and cleavage by Fe-BLM was incorporated into each analyte. One of these core sequences, GTAC, is a known hot-spot for ds cleavage, while the other sequence, GGCC, is a hot-spot for ss cleavage. Incubation of each oligo-nucleotide under anaerobic conditions with Fe(II)-BLM allowed detection of the non-covalent ternary Fe-BLM/oligonucleotide complex in the gas phase. Cleavage studies were then performed utilizing O(2)-activated Fe(II)-BLM. No work-up or separation steps were required and direct MS and MS/MS analyses of the crude reaction mixtures confirmed sequence-specific Fe-BLM-induced cleavage. Comparison of the cleavage patterns for both oligonucleotides revealed sequence-dependent preferences for ss and ds cleavages in accordance with previously established gel electrophoresis analysis of hairpin oligonucleotides. This novel methodology allowed direct, rapid and accurate determination of cleavage profiles of model duplex oligonucleotides after exposure to activated Fe-BLM.

Sensitivity of natural gas deployment in the US power sector to future carbon policy expectations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mignone, Bryan K.; Showalter, Sharon; Wood, Frances

One option for reducing carbon emissions in the power sector is replacement of coal-fired generation with less carbon-intensive natural gas combined cycle (NGCC) generation. In the United States, where there is abundant, low-cost natural gas supply, increased NGCC deployment could be a cost-effective emissions abatement opportunity at relatively modest carbon prices. However, under scenarios in which carbon prices rise and deeper emissions reductions are achieved, other technologies may be more cost-effective than NGCC in the future. In this analysis, using a US energy system model with foresight (a version of the National Energy Modeling System or 'NEMS' model), we findmore » that varying expectations about carbon prices after 2030 does not materially affect NGCC deployment prior to 2030, all else equal. An important implication of this result is that, under the set of natural gas and carbon price trajectories explored here, myopic behavior or other imperfect expectations about potential future carbon policy do not change the natural gas deployment path or lead to stranded natural gas generation infrastructure. We explain these results in terms of the underlying economic competition between available generation technologies and discuss the broader relevance to US climate change mitigation policy.« less

Sensitivity of natural gas deployment in the US power sector to future carbon policy expectations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mignone, Bryan K.; Showalter, Sharon; Wood, Frances

One option for reducing carbon emissions in the power sector is replacement of coal-fired generation with less carbon-intensive natural gas combined cycle (NGCC) generation. In the United States, where there is abundant, low-cost natural gas supply, increased NGCC deployment could be a cost-effective emissions abatement opportunity at relatively modest carbon prices. However, under scenarios in which carbon prices rise and deeper emissions reductions are achieved, other technologies may be more cost-effective than NGCC in the future. In this analysis, using a US energy system model with foresight (a version of the National Energy Modeling System or “NEMS” model), we findmore » that varying expectations about carbon prices after 2030 does not materially affect NGCC deployment prior to 2030, all else equal. An important implication of this result is that, under the set of natural gas and carbon price trajectories explored here, myopic behavior or other imperfect expectations about potential future carbon policy do not change the natural gas deployment path or lead to stranded natural gas generation infrastructure. Lastly, we explain these results in terms of the underlying economic competition between available generation technologies and discuss the broader relevance to US climate change mitigation policy.« less

Sensitivity of natural gas deployment in the US power sector to future carbon policy expectations

DOE PAGES

Mignone, Bryan K.; Showalter, Sharon; Wood, Frances; ...

2017-11-01

One option for reducing carbon emissions in the power sector is replacement of coal-fired generation with less carbon-intensive natural gas combined cycle (NGCC) generation. In the United States, where there is abundant, low-cost natural gas supply, increased NGCC deployment could be a cost-effective emissions abatement opportunity at relatively modest carbon prices. However, under scenarios in which carbon prices rise and deeper emissions reductions are achieved, other technologies may be more cost-effective than NGCC in the future. In this analysis, using a US energy system model with foresight (a version of the National Energy Modeling System or 'NEMS' model), we findmore » that varying expectations about carbon prices after 2030 does not materially affect NGCC deployment prior to 2030, all else equal. An important implication of this result is that, under the set of natural gas and carbon price trajectories explored here, myopic behavior or other imperfect expectations about potential future carbon policy do not change the natural gas deployment path or lead to stranded natural gas generation infrastructure. We explain these results in terms of the underlying economic competition between available generation technologies and discuss the broader relevance to US climate change mitigation policy.« less

Sensitivity of natural gas deployment in the US power sector to future carbon policy expectations

DOE PAGES

Mignone, Bryan K.; Showalter, Sharon; Wood, Frances; ...

2017-09-07

One option for reducing carbon emissions in the power sector is replacement of coal-fired generation with less carbon-intensive natural gas combined cycle (NGCC) generation. In the United States, where there is abundant, low-cost natural gas supply, increased NGCC deployment could be a cost-effective emissions abatement opportunity at relatively modest carbon prices. However, under scenarios in which carbon prices rise and deeper emissions reductions are achieved, other technologies may be more cost-effective than NGCC in the future. In this analysis, using a US energy system model with foresight (a version of the National Energy Modeling System or “NEMS” model), we findmore » that varying expectations about carbon prices after 2030 does not materially affect NGCC deployment prior to 2030, all else equal. An important implication of this result is that, under the set of natural gas and carbon price trajectories explored here, myopic behavior or other imperfect expectations about potential future carbon policy do not change the natural gas deployment path or lead to stranded natural gas generation infrastructure. Lastly, we explain these results in terms of the underlying economic competition between available generation technologies and discuss the broader relevance to US climate change mitigation policy.« less

Inhibition mechanisms of hemoglobin, immunoglobulin G, and whole blood in digital and real-time PCR.

PubMed

Sidstedt, Maja; Hedman, Johannes; Romsos, Erica L; Waitara, Leticia; Wadsö, Lars; Steffen, Carolyn R; Vallone, Peter M; Rådström, Peter

2018-04-01

Blood samples are widely used for PCR-based DNA analysis in fields such as diagnosis of infectious diseases, cancer diagnostics, and forensic genetics. In this study, the mechanisms behind blood-induced PCR inhibition were evaluated by use of whole blood as well as known PCR-inhibitory molecules in both digital PCR and real-time PCR. Also, electrophoretic mobility shift assay was applied to investigate interactions between inhibitory proteins and DNA, and isothermal titration calorimetry was used to directly measure effects on DNA polymerase activity. Whole blood caused a decrease in the number of positive digital PCR reactions, lowered amplification efficiency, and caused severe quenching of the fluorescence of the passive reference dye 6-carboxy-X-rhodamine as well as the double-stranded DNA binding dye EvaGreen. Immunoglobulin G was found to bind to single-stranded genomic DNA, leading to increased quantification cycle values. Hemoglobin affected the DNA polymerase activity and thus lowered the amplification efficiency. Hemoglobin and hematin were shown to be the molecules in blood responsible for the fluorescence quenching. In conclusion, hemoglobin and immunoglobulin G are the two major PCR inhibitors in blood, where the first affects amplification through a direct effect on the DNA polymerase activity and quenches the fluorescence of free dye molecules, and the latter binds to single-stranded genomic DNA, hindering DNA polymerization in the first few PCR cycles. Graphical abstract PCR inhibition mechanisms of hemoglobin and immunoglobulin G (IgG). Cq quantification cycle, dsDNA double-stranded DNA, ssDNA single-stranded DNA.

Gravitational Thermodynamics for Interstellar Gas and Weakly Degenerate Quantum Gas

NASA Astrophysics Data System (ADS)

Zhu, Ding Yu; Shen, Jian Qi

2016-03-01

The temperature distribution of an ideal gas in gravitational fields has been identified as a longstanding problem in thermodynamics and statistical physics. According to the principle of entropy increase (i.e., the principle of maximum entropy), we apply a variational principle to the thermodynamical entropy functional of an ideal gas and establish a relationship between temperature gradient and gravitational field strength. As an illustrative example, the temperature and density distributions of an ideal gas in two simple but typical gravitational fields (i.e., a uniform gravitational field and an inverse-square gravitational field) are considered on the basis of entropic and hydrostatic equilibrium conditions. The effect of temperature inhomogeneity in gravitational fields is also addressed for a weakly degenerate quantum gas (e.g., Fermi and Bose gas). The present gravitational thermodynamics of a gas would have potential applications in quantum fluids, e.g., Bose-Einstein condensates in Earth’s gravitational field and the temperature fluctuation spectrum in cosmic microwave background radiation.

Oil and gas field code master list, 1993

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

This document contains data collected through October 1993 and provides standardized field name spellings and codes for all identified oil and/or gas fields in the United States. Other Federal and State government agencies, as well as industry, use the EIA Oil and Gas Field Code Master List as the standard for field identification. A machine-readable version of the Oil and Gas Field Code Master List is available from the National Technical Information Service.

Characterization of individual polynucleotide molecules using a membrane channel

NASA Technical Reports Server (NTRS)

Kasianowicz, J. J.; Brandin, E.; Branton, D.; Deamer, D. W.

1996-01-01

We show that an electric field can drive single-stranded RNA and DNA molecules through a 2.6-nm diameter ion channel in a lipid bilayer membrane. Because the channel diameter can accommodate only a single strand of RNA or DNA, each polymer traverses the membrane as an extended chain that partially blocks the channel. The passage of each molecule is detected as a transient decrease of ionic current whose duration is proportional to polymer length. Channel blockades can therefore be used to measure polynucleotide length. With further improvements, the method could in principle provide direct, high-speed detection of the sequence of bases in single molecules of DNA or RNA.

Effect of calcium nitrite on the properties of concrete used in prestressed piles and beams.

DOT National Transportation Integrated Search

1992-01-01

This study evaluates the concretes in steam-cured prestressed piles and beams containing calcium nitrite as protection against chloride-induced corrosion of the steel strands and assesses their field performance over a 3-year period. Concretes contai...

Review of a model to assess stranding of juvenile salmon by ship wakes along the Lower Columbia River, Oregon and Washington

USGS Publications Warehouse

Kock, Tobias J.; Plumb, John M.; Adams, Noah S.

2013-01-01

Long period wake waves from deep draft vessels have been shown to strand small fish, particularly juvenile Chinook salmon Oncorhynchus tschawytcha, in the lower Columbia River (LCR). The U.S. Army Corps of Engineers is responsible for maintaining the shipping channel in the LCR and recently conducted dredging operations to deepen the shipping channel from an authorized depth of 40 feet(ft) to an authorized depth of 43 ft (in areas where rapid shoaling was expected, dredging operations were used to increase the channel depth to 48 ft). A model was developed to estimate stranding probabilities for juvenile salmon under the 40- and 43-ft channel scenarios, to determine if channel deepening was going to affect wake stranding (Assessment of potential stranding of juvenile salmon by ship wakes along the Lower Columbia River under scenarios of ship traffic and channel depth: Report prepared for the Portland District U.S. Army Corps of Engineers, Portland, Oregon). The U.S. Army Corps of Engineers funded the U.S. Geological Survey to review this model. A total of 30 review questions were provided to guide the review process, and these questions are addressed in this report. In general, we determined that the analyses by Pearson (2011) were appropriate given the data available. We did identify two areas where additional information could have been provided: (1) a more thorough description of model diagnostics and model selection would have been useful for the reader to better understand the model framework; and (2) model uncertainty should have been explicitly described and reported in the document. Stranding probability estimates between the 40- and 43-ft channel depths were minimally different under most of the scenarios that were examined by Pearson (2011), and a discussion of the effects of uncertainty given these minimal differences would have been useful. Ultimately, however, a stochastic (or simulation) model would provide the best opportunity to illustrate uncertainty within a given set of model predictions, but such an approach would require a substantial amount of additional data collection. Several review questions focused on the accuracy and precision of the model estimates, but we were unable to address these questions because of the limited data that currently exists regarding wake stranding in the LCR. Additional field studies will be required to validate findings from Pearson (2011), if concerns regarding accuracy and precision remain a priority. Although the Pearson (2011) model provided a useful examination of stranding under pre-construction and post-construction conditions, future research will be required to better understand the effects of wake stranding on juvenile salmonids throughout the entire LCR. If additional information on wake stranding is desired in the future, the following topics may be of interest: (1) spatial examination of wake stranding throughout the entire LCR; (2) additional evaluation of juvenile salmonid behavior and population dynamics; (3) assessing and integrating predicted changes in ship development; and (4) assessing and integrating predicted changes in climate on environmental factors known to cause stranding.

Programmable self-assembly of three-dimensional nanostructures from 10,000 unique components

NASA Astrophysics Data System (ADS)

Ong, Luvena L.; Hanikel, Nikita; Yaghi, Omar K.; Grun, Casey; Strauss, Maximilian T.; Bron, Patrick; Lai-Kee-Him, Josephine; Schueder, Florian; Wang, Bei; Wang, Pengfei; Kishi, Jocelyn Y.; Myhrvold, Cameron; Zhu, Allen; Jungmann, Ralf; Bellot, Gaetan; Ke, Yonggang; Yin, Peng

2017-12-01

Nucleic acids (DNA and RNA) are widely used to construct nanometre-scale structures with ever increasing complexity, with possible application in fields such as structural biology, biophysics, synthetic biology and photonics. The nanostructures are formed through one-pot self-assembly, with early kilodalton-scale examples containing typically tens of unique DNA strands. The introduction of DNA origami, which uses many staple strands to fold one long scaffold strand into a desired structure, has provided access to megadalton-scale nanostructures that contain hundreds of unique DNA strands. Even larger DNA origami structures are possible, but manufacturing and manipulating an increasingly long scaffold strand remains a challenge. An alternative and more readily scalable approach involves the assembly of DNA bricks, which each consist of four short binding domains arranged so that the bricks can interlock. This approach does not require a scaffold; instead, the short DNA brick strands self-assemble according to specific inter-brick interactions. First-generation bricks used to create three-dimensional structures are 32 nucleotides long, consisting of four eight-nucleotide binding domains. Protocols have been designed to direct the assembly of hundreds of distinct bricks into well formed structures, but attempts to create larger structures have encountered practical challenges and had limited success. Here we show that DNA bricks with longer, 13-nucleotide binding domains make it possible to self-assemble 0.1-1-gigadalton, three-dimensional nanostructures from tens of thousands of unique components, including a 0.5-gigadalton cuboid containing about 30,000 unique bricks and a 1-gigadalton rotationally symmetric tetramer. We also assembled a cuboid that contains around 10,000 bricks and about 20,000 uniquely addressable, 13-base-pair ‘voxels’ that serves as a molecular canvas for three-dimensional sculpting. Complex, user-prescribed, three-dimensional cavities can be produced within this molecular canvas, enabling the creation of shapes such as letters, a helicoid and a teddy bear. We anticipate that with further optimization of structure design, strand synthesis and assembly procedure even larger structures could be accessible, which could be useful for applications such as positioning functional components.

Oil and gas field code master list 1994

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

This is the thirteenth annual edition of the Energy Information Administration`s (EIA) Oil and Gas Field Code Master List. It reflects data collected through October 1994 and provides standardized field name spellings and codes for all identified oil and/or gas fields in the United States. The master field name spellings and codes are to be used by respondents when filing the following Department of Energy (DOE) forms: Form EIA-23, {open_quotes}Annual Survey of Domestic Oil and Gas Reserves,{close_quotes} filed by oil and gas well operators (field codes are required from larger operators only); Forms FERC 8 and EIA-191, {open_quotes}Underground Gas Storagemore » Report,{close_quotes} filed by natural gas producers and distributors who operate underground natural gas storage facilities. Other Federal and State government agencies, as well as industry, use the EIA Oil and Gas Field Code Master List as the standard for field identification. A machine-readable version of the Oil and Gas Field Code Master List is available from the National Technical Information Service, 5285 Port Royal Road, Springfield, Virginia 22161, (703) 487-4650. In order for the Master List to be useful, it must be accurate and remain current. To accomplish this, EIA constantly reviews and revises this list. The EIA welcomes all comments, corrections, and additions to the Master List. All such information should be given to the EIA Field Code Coordinator at (214) 953-1858. EIA gratefully acknowledges the assistance provides by numerous State organizations and trade associations in verifying the existence of fields and their official nomenclature.« less

Lattice topology dictates photon statistics.

PubMed

Kondakci, H Esat; Abouraddy, Ayman F; Saleh, Bahaa E A

2017-08-21

Propagation of coherent light through a disordered network is accompanied by randomization and possible conversion into thermal light. Here, we show that network topology plays a decisive role in determining the statistics of the emerging field if the underlying lattice is endowed with chiral symmetry. In such lattices, eigenmode pairs come in skew-symmetric pairs with oppositely signed eigenvalues. By examining one-dimensional arrays of randomly coupled waveguides arranged on linear and ring topologies, we are led to a remarkable prediction: the field circularity and the photon statistics in ring lattices are dictated by its parity while the same quantities are insensitive to the parity of a linear lattice. For a ring lattice, adding or subtracting a single lattice site can switch the photon statistics from super-thermal to sub-thermal, or vice versa. This behavior is understood by examining the real and imaginary fields on a lattice exhibiting chiral symmetry, which form two strands that interleave along the lattice sites. These strands can be fully braided around an even-sited ring lattice thereby producing super-thermal photon statistics, while an odd-sited lattice is incommensurate with such an arrangement and the statistics become sub-thermal.

Aptamer-Based Carboxyl-Terminated Nanocrystalline Diamond Sensing Arrays for Adenosine Triphosphate Detection

PubMed Central

Suaebah, Evi; Naramura, Takuro; Myodo, Miho; Hasegawa, Masataka; Shoji, Shuichi; Buendia, Jorge J.; Kawarada, Hiroshi

2017-01-01

Here, we propose simple diamond functionalization by carboxyl termination for adenosine triphosphate (ATP) detection by an aptamer. The high-sensitivity label-free aptamer sensor for ATP detection was fabricated on nanocrystalline diamond (NCD). Carboxyl termination of the NCD surface by vacuum ultraviolet excimer laser and fluorine termination of the background region as a passivated layer were investigated by X-ray photoelectron spectroscopy. Single strand DNA (amide modification) was used as the supporting biomolecule to immobilize into the diamond surface via carboxyl termination and become a double strand with aptamer. ATP detection by aptamer was observed as a 66% fluorescence signal intensity decrease of the hybridization intensity signal. The sensor operation was also investigated by the field-effect characteristics. The shift of the drain current–drain voltage characteristics was used as the indicator for detection of ATP. From the field-effect characteristics, the shift of the drain current–drain voltage was observed in the negative direction. The negative charge direction shows that the aptamer is capable of detecting ATP. The ability of the sensor to detect ATP was investigated by fabricating a field-effect transistor on the modified NCD surface. PMID:28753998

Aptamer-Based Carboxyl-Terminated Nanocrystalline Diamond Sensing Arrays for Adenosine Triphosphate Detection.

PubMed

Suaebah, Evi; Naramura, Takuro; Myodo, Miho; Hasegawa, Masataka; Shoji, Shuichi; Buendia, Jorge J; Kawarada, Hiroshi

2017-07-21

Here, we propose simple diamond functionalization by carboxyl termination for adenosine triphosphate (ATP) detection by an aptamer. The high-sensitivity label-free aptamer sensor for ATP detection was fabricated on nanocrystalline diamond (NCD). Carboxyl termination of the NCD surface by vacuum ultraviolet excimer laser and fluorine termination of the background region as a passivated layer were investigated by X-ray photoelectron spectroscopy. Single strand DNA (amide modification) was used as the supporting biomolecule to immobilize into the diamond surface via carboxyl termination and become a double strand with aptamer. ATP detection by aptamer was observed as a 66% fluorescence signal intensity decrease of the hybridization intensity signal. The sensor operation was also investigated by the field-effect characteristics. The shift of the drain current-drain voltage characteristics was used as the indicator for detection of ATP. From the field-effect characteristics, the shift of the drain current-drain voltage was observed in the negative direction. The negative charge direction shows that the aptamer is capable of detecting ATP. The ability of the sensor to detect ATP was investigated by fabricating a field-effect transistor on the modified NCD surface.

Gas magnetometer

DOEpatents

Walker, Thad Gilbert; Lancor, Brian Robert; Wyllie, Robert

2016-05-03

Measurement of a precessional rate of a gas, such as an alkali gas, in a magnetic field is made by promoting a non-uniform precession of the gas in which substantially no net magnetic field affects the gas during a majority of the precession cycle. This allows sensitive gases that would be subject to spin-exchange collision de-phasing to be effectively used for extremely sensitive measurements in the presence of an environmental magnetic field such as the Earth's magnetic field.

Programmable self-assembly of three-dimensional nanostructures from 104 unique components

PubMed Central

Ong, Luvena L.; Hanikel, Nikita; Yaghi, Omar K.; Grun, Casey; Strauss, Maximilian T.; Bron, Patrick; Lai-Kee-Him, Josephine; Schueder, Florian; Wang, Bei; Wang, Pengfei; Kishi, Jocelyn Y.; Myhrvold, Cameron A.; Zhu, Allen; Jungmann, Ralf

2017-01-01

Nucleic acids (DNA and RNA) are widely used to construct nanoscale structures with ever increasing complexity1–14 for possible applications in fields as diverse as structural biology, biophysics, synthetic biology and photonics. The nanostructures are formed through one-pot self-assembly, with early examples typically containing on the order of 10 unique DNA strands. The introduction of DNA origami4, which uses many staple strands to fold one long scaffold strand into a desired structure, gave access to kilo- to mega-dalton nanostructures containing about 102 unique DNA strands6,7,10,13 . Aiming for even larger DNA origami structures is in principle possible15,16, but faces the challenge of having to manufacture and route an increasingly long scaffold strand. An alternative and in principle more readily scalable approach uses DNA brick assembly8,9, which doesn’t need a scaffold and instead uses hundreds of short DNA brick strands that self-assemble according to specific inter-brick interactions. First-generation bricks used to create 3D structures are 32-nt long with four 8-nt binding domains that directed 102 distinct bricks into well-formed assemblies, but attempts to create larger structures encountered practical challenges and had limited success.9 Here we show that a new generation of DNA bricks with longer binding domains makes it possible to self-assemble 0.1 – 1 giga-dalton three-dimensional nanostructures from 104 unique components, including a 0.5 giga-dalton cuboid containing 30,000 unique bricks and a 1 giga-dalton rotationally symmetric tetramer. We also assemble a cuboid containing 10,000 bricks and 20,000 uniquely addressable ‘nano-voxels’ that serves as a molecular canvas for three-dimensional sculpting, with introduction of sophisticated user-prescribed 3D cavities yielding structures such as letters, a complex helicoid and a teddy bear. We anticipate that, with further optimization, even larger assemblies might be accessible and prove useful as scaffolds or for positioning functional components. PMID:29219968

Design and synthesis of target-responsive hydrogel for portable visual quantitative detection of uranium with a microfluidic distance-based readout device.

PubMed

Huang, Yishun; Fang, Luting; Zhu, Zhi; Ma, Yanli; Zhou, Leiji; Chen, Xi; Xu, Dunming; Yang, Chaoyong

2016-11-15

Due to uranium's increasing exploitation in nuclear energy and its toxicity to human health, it is of great significance to detect uranium contamination. In particular, development of a rapid, sensitive and portable method is important for personal health care for those who frequently come into contact with uranium ore mining or who investigate leaks at nuclear power plants. The most stable form of uranium in water is uranyl ion (UO2(2+)). In this work, a UO2(2+) responsive smart hydrogel was designed and synthesized for rapid, portable, sensitive detection of UO2(2+). A UO2(2+) dependent DNAzyme complex composed of substrate strand and enzyme strand was utilized to crosslink DNA-grafted polyacrylamide chains to form a DNA hydrogel. Colorimetric analysis was achieved by encapsulating gold nanoparticles (AuNPs) in the DNAzyme-crosslinked hydrogel to indicate the concentration of UO2(2+). Without UO2(2+), the enzyme strand is not active. The presence of UO2(2+) in the sample activates the enzyme strand and triggers the cleavage of the substrate strand from the enzyme strand, thereby decreasing the density of crosslinkers and destabilizing the hydrogel, which then releases the encapsulated AuNPs. As low as 100nM UO2(2+) was visually detected by the naked eye. The target-responsive hydrogel was also demonstrated to be applicable in natural water spiked with UO2(2+). Furthermore, to avoid the visual errors caused by naked eye observation, a previously developed volumetric bar-chart chip (V-Chip) was used to quantitatively detect UO2(2+) concentrations in water by encapsulating Au-Pt nanoparticles in the hydrogel. The UO2(2+) concentrations were visually quantified from the travelling distance of ink-bar on the V-Chip. The method can be used for portable and quantitative detection of uranium in field applications without skilled operators and sophisticated instruments. Copyright © 2016 Elsevier B.V. All rights reserved.

Structure and dynamics of the peptide strand KRFK from the thrombospondin TSP-1 in water.

PubMed

Taleb Bendiab, W; Benomrane, B; Bounaceur, B; Dauchez, M; Krallafa, A M

2018-02-14

Theoretical investigations of a solute in liquid water at normal temperature and pressure can be performed at different levels of theory. Static quantum calculations as well as classical and ab initio molecular dynamics are used to completely explore the conformational space for large solvated molecular systems. In the classical approach, it is essential to describe all of the interactions of the solute and the solvent in detail. Water molecules are very often described as rigid bodies when the most commonly used interaction potentials, such as the SPCE and the TIP4P models, are employed. Recently, a physical model based upon a cluster of rigid water molecules with a tetrahedral architecture (AB 4 ) was proposed that describes liquid water as a mixture of both TIP4P and SPCE molecular species that occur in the proportions implied by the tetrahedral architecture (one central molecule versus four outer molecules; i.e., 20% TIP4P versus 80% SPCE molecules). In this work, theoretical spectroscopic data for a peptide strand were correlated with the structural properties of the peptide strand solvated in water, based on data calculated using different theoretical approaches and physical models. We focused on a particular peptide strand, KRFK (lysine-arginine-phenylalanine-lysine), found in the thrombospondin TSP-1, due to its interesting properties. As the activity and electronic structure of this system is strongly linked to its structure, we correlated its structure with charge-density maps obtained using different semi-empirical charge Q eq equations. The structural and thermodynamic properties obtained from classical simulations were correlated with ab initio molecular dynamics (AIMD) data. Structural changes in the peptide strand were rationalized in terms of the motions of atoms and groups of atoms. To achieve this, conformational changes were investigated using calculated infrared spectra for the peptide in the gas phase and in water solvent. The calculated AIMD infrared spectrum for the peptide was correlated with static quantum calculations of the molecular system based on a harmonic approach as well as the VDOS (vibrational density of states) spectra obtained using various classical solvent models (SPCE, TIP4P, and AB 4 ) and charge maps.

Noble gas magnetic resonator

DOEpatents

Walker, Thad Gilbert; Lancor, Brian Robert; Wyllie, Robert

2014-04-15

Precise measurements of a precessional rate of noble gas in a magnetic field is obtained by constraining the time averaged direction of the spins of a stimulating alkali gas to lie in a plane transverse to the magnetic field. In this way, the magnetic field of the alkali gas does not provide a net contribution to the precessional rate of the noble gas.

DETECTION OF LOW DOSE RADIATION-AND CHEMICALLY-INDUCED DNA DAMAGE USING TEMPERATURE DIFFERENTIAL FLUORESCENCE ASSAYS

EPA Science Inventory

Rapid, sensitive and simple assays for radiation- and chemically-induced DNA damage can be of significant benefit to a number of fields including radiation biology, clinical research, and environmental monitoring. Although temperature-induced DNA strand separation has been use...

EVALUATION OF GENETIC DAMAGE IN FISH EXPOSED TO PESTICIDES IN FIELD AQUATIC MICROCOSMS

EPA Science Inventory

Single cell gel electrophoresis (SCG) and micronucleus (MN) assays were used to measure DNA strand breaks and chromosomal damage in fish blood erythrocytes as biological indicators of exposure to alachlor and atrazine in a surrogate aquatic ecosystem. Caged common carp (Cyprinus...

Development of a thin oil rim with horizontal wells in a low relief chalk gas field, Tyra field, Danish North Sea

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nykjaer, O.

1994-12-31

This paper presents the history of the development of an oil rim in a chalk gas field. In a low relief gas field, oil rim development is problematic because the proximity to fluid contacts leads to gas and water coning and a significantly decreased oil production. This problem has been reduced in Tyra by developing the oil rim with horizontal wells. The best oil wells are in areas where gas production is impaired by tight chalk immediately above the gas-oil contact, and where the oil rim is thickest. The field was initially developed as a gas field due to poormore » production tests of the oil rim during the appraisal of the field. An understanding of the distribution of oil led to the drilling of a successful oil rim well. The advent of horizontal drilling increased the scope for oil rim development and accelerated the drilling of oil rim wells. Extensive reservoir simulation work provided the reservoir management tool for the planning of an oil rim development under the constraint of a gas sales agreement. It has resulted in a plan for further development of the Tyra gas field. According to the plan additional gas injection will in a period of seven years result in low net annual gas off-take from the Tyra gas production wells and the main production will instead come from horizontal wells in the oil-rim. During this time the majority of the oil reserves will be produced.« less

Some factors determining the effective resistance between strands in flat cables (or superconducting filaments in tapes)

NASA Astrophysics Data System (ADS)

Takács, S.; Iwakuma, M.; Funaki, K.

2000-04-01

Two effects are considered which can influence the effective resistance between crossing strands on flat cables or filaments in twisted tapes. As analogous cases, the one-layer Rutherford-type cable with classical superconductors and the tapes with twisted BSCCO filaments in a silver matrix in perpendicular magnetic fields are considered as a model. At first, the amount of the central core between the strands and the silver matrix between the filaments increases the effective conductance compared with the direct current paths, which is supposed to be proportional to the touching area of filaments. The increase factor is about two and can be easily suppressed by other effects, such as the contact resistance between the superconductor and the matrix. However, due to the strong anisotropy of critical parameters for high temperature superconductors, this effect can partially compensate the influence of the usually weaker critical current density perpendicular to the tape. The second effect is connected with the existence of the induced voltage between any points of crossing filaments. This leads to an additional effective conductance, proportional to the square of the total number of the filaments. This contribution is prevailing for the anisotropic superconductors. Therefore, to obtain low ac coupling losses in BSCCO tapes, structures with smaller filament number are required. This case is analogous to round structures, leading to ac losses proportional to the square of the layer number in the field direction.

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 propellers were noted on several stranded animals including one Antarctic minke whale, one pygmy sperm whale, one dwarf sperm whale, and four dugongs. Collisions with vessels were suspected to be a frequent cause of death for dugong.

A homogeneous nucleic acid hybridization assay based on strand displacement.

PubMed Central

Vary, C P

1987-01-01

A homogeneous nucleic acid hybridization assay which is conducted in solution and requires no separation steps is described. The assay is based on the concept of strand displacement. In the strand displacement assay, an RNA "signal strand" is hybridized within a larger DNA strand termed the "probe strand", which is, in turn, complementary to the target nucleic acid of interest. Hybridization of the target nucleic acid with the probe strand ultimately results in displacement of the RNA signal strand. Strand displacement, therefore, causes conversion of the RNA from double to single-stranded form. The single-strand specificity of polynucleotide phosphorylase (EC 2.7.7.8) allows discrimination between double-helical and single-stranded forms of the RNA signal strand. As displacement proceeds, free RNA signal strands are preferentially phosphorolyzed to component nucleoside diphosphates, including adenosine diphosphate. The latter nucleotide is converted to ATP by pyruvate kinase(EC 2.7.1.40). Luciferase catalyzed bioluminescence is employed to measure the ATP generated as a result of strand displacement. Images PMID:3309890

East Spar: Alliance approach for offshore gasfield development

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

1998-04-01

East spar is a gas/condensate field 25 miles west of Barrow Island, offshore Western Australia. Proved plus probable reserves at the time of development were estimated at 430 Bcf gas and 28 million bbl of condensate. The field was discovered in early 1993 when the Western Australia gas market was deregulated and the concept of a gas pipeline to the gold fields was proposed. This created a window of opportunity for East Spar, but only if plans could be established quickly. A base-case development plan was established to support gas marketing while alternative plans could be developed in parallel. Themore » completed East Spar facilities comprise two subsea wells, a subsea gathering system, and a multiphase (gas/condensate/water) pipeline to new gas-processing facilities. The subsea facilities are controlled through a navigation, communication, and control (NCC) buoy. The control room and gas-processing plant are 39 miles east of the field on Varanus Island. Sales gas is exported through a pre-existing gas-sales pipeline to the Dampier-Bunbury and Goldfields Gas Transmission pipelines. Condensate is stored in and exported by use of pre-existing facilities on Varanus Island. Field development from approval to first production took 22 months. The paper describes its field development.« less

75 FR 62820 - Screening Framework Guidance for Providers of Synthetic Double-Stranded DNA

Federal Register 2010, 2011, 2012, 2013, 2014

2010-10-13

... I. Summary Synthetic biology, the developing interdisciplinary field that focuses on both the design and fabrication of novel biological components and systems as well as the re-design and fabrication of... develop, maintain, and document protocols to determine if a sequence ``hit'' qualifies as a true...

College and Career Development Organizer

ERIC Educational Resources Information Center

National High School Center, 2012

2012-01-01

The National High School Center has created a college and career development organizer to synthesize and organize an increasingly complicated and crowded field of college and career readiness initiatives. The organizer, composed of three strands, can be used to map the efforts of state education agencies (SEAs) and local education agencies (LEAs)…

Three-input majority logic gate and multiple input logic circuit based on DNA strand displacement.

PubMed

Li, Wei; Yang, Yang; Yan, Hao; Liu, Yan

2013-06-12

In biomolecular programming, the properties of biomolecules such as proteins and nucleic acids are harnessed for computational purposes. The field has gained considerable attention due to the possibility of exploiting the massive parallelism that is inherent in natural systems to solve computational problems. DNA has already been used to build complex molecular circuits, where the basic building blocks are logic gates that produce single outputs from one or more logical inputs. We designed and experimentally realized a three-input majority gate based on DNA strand displacement. One of the key features of a three-input majority gate is that the three inputs have equal priority, and the output will be true if any of the two inputs are true. Our design consists of a central, circular DNA strand with three unique domains between which are identical joint sequences. Before inputs are introduced to the system, each domain and half of each joint is protected by one complementary ssDNA that displays a toehold for subsequent displacement by the corresponding input. With this design the relationship between any two domains is analogous to the relationship between inputs in a majority gate. Displacing two or more of the protection strands will expose at least one complete joint and return a true output; displacing none or only one of the protection strands will not expose a complete joint and will return a false output. Further, we designed and realized a complex five-input logic gate based on the majority gate described here. By controlling two of the five inputs the complex gate can realize every combination of OR and AND gates of the other three inputs.

Spatial distribution and yield of DNA double-strand breaks induced by 3-7 MeV helium ions in human fibroblasts

NASA Technical Reports Server (NTRS)

Rydberg, Bjorn; Heilbronn, Lawrence; Holley, William R.; Lobrich, Markus; Zeitlin, Cary; Chatterjee, Aloke; Cooper, Priscilla K.

2002-01-01

Accelerated helium ions with mean energies at the target location of 3-7 MeV were used to simulate alpha-particle radiation from radon daughters. The experimental setup and calibration procedure allowed determination of the helium-ion energy distribution and dose in the nuclei of irradiated cells. Using this system, the induction of DNA double-strand breaks and their spatial distributions along DNA were studied in irradiated human fibroblasts. It was found that the apparent number of double-strand breaks as measured by a standard pulsed-field gel assay (FAR assay) decreased with increasing LET in the range 67-120 keV/microm (corresponding to the energy of 7-3 MeV). On the other hand, the generation of small and intermediate-size DNA fragments (0.1-100 kbp) increased with LET, indicating an increased intratrack long-range clustering of breaks. The fragment size distribution was measured in several size classes down to the smallest class of 0.1-2 kbp. When the clustering was taken into account, the actual number of DNA double-strand breaks (separated by at least 0.1 kbp) could be calculated and was found to be in the range 0.010-0.012 breaks/Mbp Gy(-1). This is two- to threefold higher than the apparent yield obtained by the FAR assay. The measured yield of double-strand breaks as a function of LET is compared with theoretical Monte Carlo calculations that simulate the track structure of energy depositions from helium ions as they interact with the 30-nm chromatin fiber. When the calculation is performed to include fragments larger than 0.1 kbp (to correspond to the experimental measurements), there is good agreement between experiment and theory.

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, 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 Bochvarmore » 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 Nb 3Sn 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

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 Office of Scientific and Technical Information (OSTI.GOV)

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

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 Bochvarmore » 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 Nb 3Sn 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

Explaining observed red and blue-shifts using multi-stranded coronal loops

NASA Astrophysics Data System (ADS)

Regnier, S.; Walsh, R. W.; Pearson, J.

2012-03-01

Magnetic plasma loops have been termed the building blocks of the solar atmosphere. However, it must be recognised that if the range of loop structures we can observe do consist of many ''sub-resolution'' elements, then current one-dimensional hydrodynamic models are really only applicable to an individual plasma element or strand. Thus a loop should be viewed is an amalgamation of these strands. They could operate in thermal isolation from one another with a wide range of temperatures occurring across the structural elements. This scenario could occur when the energy release mechanism consists of localised, discrete bursts of energy that are due to small scale reconnection sites within the coronal magnetic field- the nanoflare coronal heating mechanism. These energy bursts occur in a time-dependent manner, distributed along the loop/strand length, giving a heating function that depends on space and time. An important observational discovery with the Hinode/EIS spectrometer is the existence of red and blue-shifts in coronal loops depending on the location of the footpoints (inner or outer parts of the active region), and the temperature of the emission line in which the Doppler shifts are measured. Based on the multi-stranded model developed by Sarkar and Walsh (2008, ApJ, 683, 516), we show that red and blue-shifts exist in different simulated Hinode/EIS passbands: cooler lines (OV-SiVII) being dominated by red-shifts, whilst hotter lines (FeXV-CaXVII) are a combination of both. The distribution of blue-shifts depends on the energy input and not so much on the heating location. Characteristic Doppler shifts generated fit well with observed values. We also simulate the Hinode/EIS rasters to closely compare our simulation with the observations. Even if not statistically significant, loops can have footpoints with opposite Doppler shifts.

Extremely low-frequency electromagnetic fields cause DNA strand breaks in normal cells

PubMed Central

2014-01-01

Background Extremely low frequency electromagnetic fields aren’t considered as a real carcinogenic agent despite the fact that some studies have showed impairment of the DNA integrity in different cells lines. The aim of this study was evaluation of the late effects of a 100 Hz and 5.6 mT electromagnetic field, applied continuously or discontinuously, on the DNA integrity of Vero cells assessed by alkaline Comet assay and by cell cycle analysis. Normal Vero cells were exposed to extremely low frequency electromagnetic fields (100 Hz, 5.6 mT) for 45 minutes. The Comet assay and cell cycle analysis were performed 48 hours after the treatment. Results Exposed samples presented an increase of the number of cells with high damaged DNA as compared with non-exposed cells. Quantitative evaluation of the comet assay showed a significantly (<0.001) increase of the tail lengths, of the quantity of DNA in tail and of Olive tail moments, respectively. Cell cycle analysis showed an increase of the frequency of the cells in S phase, proving the occurrence of single strand breaks. The most probable mechanism of induction of the registered effects is the production of different types of reactive oxygen species. Conclusions The analysis of the registered comet indices and of cell cycle showed that extremely low frequency electromagnetic field of 100 Hz and 5.6 mT had a genotoxic impact on Vero cells. PMID:24401758

Targeted Gene Knock Out Using Nuclease-Assisted Vector Integration: Hemi- and Homozygous Deletion of JAG1.

PubMed

Gapinske, Michael; Tague, Nathan; Winter, Jackson; Underhill, Gregory H; Perez-Pinera, Pablo

2018-01-01

Gene editing technologies are revolutionizing fields such as biomedicine and biotechnology by providing a simple means to manipulate the genetic makeup of essentially any organism. Gene editing tools function by introducing double-stranded breaks at targeted sites within the genome, which the host cells repair preferentially by Non-Homologous End Joining. While the technologies to introduce double-stranded breaks have been extensively optimized, this progress has not been matched by the development of methods to integrate heterologous DNA at the target sites or techniques to detect and isolate cells that harbor the desired modification. We present here a technique for rapid introduction of vectors at target sites in the genome that enables efficient isolation of successfully edited cells.

Gay-Berne and electrostatic multipole based coarse-grain potential in implicit solvent

NASA Astrophysics Data System (ADS)

Wu, Johnny; Zhen, Xia; Shen, Hujun; Li, Guohui; Ren, Pengyu

2011-10-01

A general, transferable coarse-grain (CG) framework based on the Gay-Berne potential and electrostatic point multipole expansion is presented for polypeptide simulations. The solvent effect is described by the Generalized Kirkwood theory. The CG model is calibrated using the results of all-atom simulations of model compounds in solution. Instead of matching the overall effective forces produced by atomic models, the fundamental intermolecular forces such as electrostatic, repulsion-dispersion, and solvation are represented explicitly at a CG level. We demonstrate that the CG alanine dipeptide model is able to reproduce quantitatively the conformational energy of all-atom force fields in both gas and solution phases, including the electrostatic and solvation components. Replica exchange molecular dynamics and microsecond dynamic simulations of polyalanine of 5 and 12 residues reveal that the CG polyalanines fold into "alpha helix" and "beta sheet" structures. The 5-residue polyalanine displays a substantial increase in the "beta strand" fraction relative to the 12-residue polyalanine. The detailed conformational distribution is compared with those reported from recent all-atom simulations and experiments. The results suggest that the new coarse-graining approach presented in this study has the potential to offer both accuracy and efficiency for biomolecular modeling.

Analysis of field errors for LARP Nb 3Sn 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) Nb 3Sn model magnets, to support the development of the 150 mm aperture Nb 3Sn 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 onmore » the measured 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

Formation of template-switching artifacts by linear amplification.

PubMed

Chakravarti, Dhrubajyoti; Mailander, Paula C

2008-07-01

Linear amplification is a method of synthesizing single-stranded DNA from either a single-stranded DNA or one strand of a double-stranded DNA. In this protocol, molecules of a single primer DNA are extended by multiple rounds of DNA synthesis at high temperature using thermostable DNA polymerases. Although linear amplification generates the intended full-length single-stranded product, it is more efficient over single-stranded templates than double-stranded templates. We analyzed linear amplification over single- or double-stranded mouse H-ras DNA (exon 1-2 region). The single-stranded H-ras template yielded only the intended product. However, when the double-stranded template was used, additional artifact products were observed. Increasing the concentration of the double-stranded template produced relatively higher amounts of these artifact products. One of the artifact DNA bands could be mapped and analyzed by sequencing. It contained three template-switching products. These DNAs were formed by incomplete DNA strand extension over the template strand, followed by switching to the complementary strand at a specific Ade nucleotide within a putative hairpin sequence, from which DNA synthesis continued over the complementary strand.

Comet Kohoutek, The Arab Oil Embargo, and the Jan 1974 AAS Meeting

NASA Astrophysics Data System (ADS)

Duncan, D. K.

1999-05-01

An unlikely combination of factors, including Comet Kohoutek and the Arab Oil embargo, combined to make my first AAS Meeting my most memorable. Three young graduate students confronted lack of gas, lack of money, and lack of planning to attend the Jan 1974 meeting in Tucson, AZ. One, Steve Hawley, displayed skills which would later be valuable when he became the astronaut who launched HST. Although we became stranded in the desert, two of the three of us made it to the meeting, and only one didn't....

Identification and Quantification of Pesticides in Environmental Waters With Solid Phase Microextraction and Analysis Using Field-Portable Gas Chromatography-Mass Spectrometry

DTIC Science & Technology

2004-06-10

Microextraction and Analysis using Field-Portable Gas Chromatography-Mass Spectrometry Name of Candidate: CPT Michael J. Nack...and Analysis using Field-Portable Gas Chromatography-Mass Spectrometry Beyond brief excerpts is with the permission of the copyright owner, and...Pesticides in Environmental Waters with Solid Phase Microextraction and Analysis using Field-Portable Gas Chromatography-Mass Spectrometry

PIV Measurements of Gas Flow Fields from Burning End

NASA Astrophysics Data System (ADS)

Huang, Yifei; Wu, Junzhang; Zeng, Jingsong; Tang, Darong; Du, Liang

2017-12-01

To study the influence of cigarette gas on the environment, it is necessary to know the cigarette gas flow fields from burning end. By using PIV technique, in order to reveal velocity characteristics of gas flow fields, the velocities of cigarette gas flow fields was analyzed with different stepping motor frequencies corresponding to suction pressures, and the trend of velocity has been given with image fitting. The results shows that the velocities of the burning end increased with suction pressures; Between velocities of the burning end and suction pressures, the relations present polynomial rule; The cigarette gas diffusion in combustion process is faster than in the smoldering process.

Oil and Gas Field Code Master List 1990

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

This is the ninth annual edition of the Energy Information Administration's (EIA) Oil and Gas Field Code Master List. It reflects data collected through October 1990 and provides standardized field name spellings and codes for all identified oil and/or gas fields in the United States. There are 54,963 field records in this year's Oil and Gas Field Code Master List (FCML). This amounts to 467 more than in last year's report. As it is maintained by EIA, the Master List includes: Field records for each state and county in which a field resides; field records for each offshore area blockmore » in the Gulf of Mexico in which a field resides;field records for each alias field name; fields crossing state boundaries that may be assigned different names by the respective state naming authorities.« less

Committed emissions from existing and planned power plants and asset stranding required to meet the Paris Agreement

NASA Astrophysics Data System (ADS)

Pfeiffer, Alexander; Hepburn, Cameron; Vogt-Schilb, Adrien; Caldecott, Ben

2018-05-01

Over the coming decade, the power sector is expected to invest ~7.2 trillion USD in power plants and grids globally, much of it into CO2-emitting coal and gas plants. These assets typically have long lifetimes and commit large amounts of (future) CO2 emissions. Here, we analyze the historic development of emission commitments from power plants and compare the emissions committed by current and planned plants with remaining carbon budgets. Based on this comparison we derive the likely amount of stranded assets that would be required to meet the 1.5 °C–2 °C global warming goal. We find that even though the growth of emission commitments has slowed down in recent years, currently operating generators still commit us to emissions (~300 GtCO2) above the levels compatible with the average 1.5 °C–2 °C scenario (~240 GtCO2). Furthermore, the current pipeline of power plants would add almost the same amount of additional commitments (~270 GtCO2). Even if the entire pipeline was cancelled, therefore, ~20% of global capacity would need to be stranded to meet the climate goals set out in the Paris Agreement. Our results can help companies and investors re-assess their investments in fossil-fuel power plants, and policymakers strengthen their policies to avoid further carbon lock-in.

Oil and Gas field code master list 1995

DOE Office of Scientific and Technical Information (OSTI.GOV)

NONE

This is the fourteenth annual edition of the Energy Information Administration`s (EIA) Oil and Gas Field Code Master List. It reflects data collected through October 1995 and provides standardized field name spellings and codes for all identified oil and/or gas fields in the US. The Field Code Index, a listing of all field names and the States in which they occur, ordered by field code, has been removed from this year`s publications to reduce printing and postage costs. Complete copies (including the Field Code Index) will be available on the EIA CD-ROM and the EIA World-Wide Web Site. Future editionsmore » of the complete Master List will be available on CD-ROM and other electronic media. There are 57,400 field records in this year`s Oil and Gas Field Code Master List. As it is maintained by EIA, the Master List includes the following: field records for each State and county in which a field resides; field records for each offshore area block in the Gulf of Mexico in which a field resides; field records for each alias field name (see definition of alias below); and fields crossing State boundaries that may be assigned different names by the respective State naming authorities. Taking into consideration the double-counting of fields under such circumstances, EIA identifies 46,312 distinct fields in the US as of October 1995. This count includes fields that no longer produce oil or gas, and 383 fields used in whole or in part for oil or gas Storage. 11 figs., 6 tabs.« less

Onset of the Magnetic Explosion in Solar Flames and Coronal Mass Ejections

NASA Technical Reports Server (NTRS)

Moore, Ronald L.; Sterling, Alphonse C.; Hudson, Hugh S.; Lemen, James R.

2001-01-01

We present observations of the magnetic field configuration and its transformation in six solar eruptive events that show good agreement with the standard bipolar model for eruptive flares. The observations are X-ray images from the Yohkoh soft X-ray telescope (SXT) and magnetograms from Kitt Peak National Solar Observatory, interpreted together with the 1-8 Angstrom X-ray flux observed by Geostationary Operational Environmental Satellites (GOES). The observations yield the following interpretations: (1) Each event is a magnetic explosion that occurs in an initially closed single bipole in which the core field is sheared and twisted in the shape of a sigmoid, having an oppositely curved elbow on each end. The arms of the opposite elbows are sheared past each other so that they overlap and are crossed low above the neutral line in the middle of the bipole. The elbows and arms seen in the SXT images are illuminated strands of the sigmoidal core field, which is a continuum of sheared/twisted field that fills these strands as well as the space between and around them; (2) Although four of the explosions are ejective (appearing to blow open the bipole) and two are confined (appearing to be arrested within the closed bipole), all six begin the same way. In the SXT images, the explosion begins with brightening and expansion of the two elbows together with the appearance of short bright sheared loops low over the neutral line under the crossed arms and, rising up from the crossed arms, long strands connecting the far ends of the elbows; and (3) All six events are single-bipole events in that during the onset and early development of the explosion they show no evidence for reconnection between the exploding bipole and any surrounding magnetic fields. We conclude that in each of our events the magnetic explosion was unleashed by runaway tether-cutting via implosive/explosive reconnection in the middle of the sigmoid, as in the standard model. The similarity of the onsets of the two confined explosions to the onsets of the four ejective explosions and their agreement with the model indicate that runaway reconnection inside a sheared core field can begin whether or not a separate system of overlying fields, or the structure of the bipole itself, allows the explosion to be ejective. Because this internal reconnection apparently begins at the very start of the sigmoid eruption and grows in step with the explosion, we infer that this reconnection is essential for the onset and growth of the magnetic explosion in eruptive flares and coronal mass ejections.

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 Nb 3Sn superconducting strands are twisted together to form a high-current-carrying cable inserted into a steelmore » jacket 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 J cNb 3Sn RRP strands (J c > 1000 A/mm 2 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

High-performance superconductors for Fusion Nuclear Science Facility

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhai, Yuhu; Kessel, Chuck; Barth, Christian

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 Nb 3Sn superconducting strands are twisted together to form a high-current-carrying cable inserted into a steelmore » jacket 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 J cNb 3Sn RRP strands (J c > 1000 A/mm 2 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

Mode Transition of RNA Trap by Electric and Hydraulic Force Field in Microfluidic Taper Shape Channel

NASA Astrophysics Data System (ADS)

Takamura, Yuzuru; Ueno, Kunimitsu; Nagasaka, Wako; Tomizawa, Yuichi; Tamiya, Eiichi

2007-03-01

We have discovered a phenomenon of accumulation of DNA near the constricted position of a microfluidic chip with taper shaped channel when both hydro pressure and electric field are applied in opposite directions. However, RNA has not been able to trap so far, unlike huge and uniformly double stranded DNA molecules, RNAs are smaller in size and single stranded with complicated conformation like blocks in lysed cell solution. In this paper, we will report not only large but also small RNA (100˜10b) are successfully trapped in relatively large microfluidic taper shape channel (width >10um). RNA are trapped in circular motion near the constricted position of taper shape channel, and the position and shape of the trapped RNA are controlled and make mode transition by changing the hydraulic and the electric force. Using this technique, smaller size molecule can be trapped in larger micro fluidic structure compared to the trap using dielectrophoresis. This technique is expected to establish easy and practical device as a direct total RNA extraction tool from living cells or tissues.

Cold atmospheric pressure plasma jets: Interaction with plasmid DNA and tailored electron heating using dual-frequency excitation

NASA Astrophysics Data System (ADS)

Niemi, K.; O'Neill, C.; Cox, L. J.; Waskoenig, J.; Hyland, W. B.; McMahon, S. J.; Reuter, S.; Currell, F. J.; Graham, W. G.; O'Connell, D.; Gans, T.

2012-05-01

Recent progress in plasma science and technology has enabled the development of a new generation of stable cold non-equilibrium plasmas operating at ambient atmospheric pressure. This opens horizons for new plasma technologies, in particular in the emerging field of plasma medicine. These non-equilibrium plasmas are very efficient sources for energy transport through reactive neutral particles (radicals and metastables), charged particles (ions and electrons), UV radiation, and electro-magnetic fields. The effect of a cold radio frequency-driven atmospheric pressure plasma jet on plasmid DNA has been investigated. The formation of double strand breaks correlates well with the atomic oxygen density. Taken with other measurements, this indicates that neutral components in the jet are effective in inducing double strand breaks. Plasma manipulation techniques for controlled energy delivery are highly desirable. Numerical simulations are employed for detailed investigations of the electron dynamics, which determines the generation of reactive species. New concepts based on nonlinear power dissipation promise superior strategies to control energy transport for tailored technological exploitations.

Complete Moment Tensor Determination of Induced Seismicity in Unconventional and Conventional Oil/Gas Fields

NASA Astrophysics Data System (ADS)

Gu, C.; Li, J.; Toksoz, M. N.

2013-12-01

Induced seismicity occurs both in conventional oil/gas fields due to production and water injection and in unconventional oil/gas fields due to hydraulic fracturing. Source mechanisms of these induced earthquakes are of great importance for understanding their causes and the physics of the seismic processes in reservoirs. Previous research on the analysis of induced seismic events in conventional oil/gas fields assumed a double couple (DC) source mechanism. However, recent studies have shown a non-negligible percentage of a non-double-couple (non-DC) component of source moment tensor in hydraulic fracturing events (Šílený et al., 2009; Warpinski and Du, 2010; Song and Toksöz, 2011). In this study, we determine the full moment tensor of the induced seismicity data in a conventional oil/gas field and for hydrofrac events in an unconventional oil/gas field. Song and Toksöz (2011) developed a full waveform based complete moment tensor inversion method to investigate a non-DC source mechanism. We apply this approach to the induced seismicity data from a conventional gas field in Oman. In addition, this approach is also applied to hydrofrac microseismicity data monitored by downhole geophones in four wells in US. We compare the source mechanisms of induced seismicity in the two different types of gas fields and explain the differences in terms of physical processes.

Activation energies for dissociation of double strand oligonucleotide anions: evidence for watson-crick base pairing in vacuo.

PubMed

Schnier, P D; Klassen, J S; Strittmatter, E F; Williams, E R

1998-09-23

The dissociation kinetics of a series of complementary and noncomplementary DNA duplexes, (TGCA)(2) (3-), (CCGG)(2) (3-), (AATTAAT)(2) (3-), (CCGGCCG)(2) (3-), A(7)*T(7) (3-), A(7)*A(7) (3-), T(7)*T(7) (3-), and A(7)*C(7) (3-) were investigated using blackbody infrared radiative dissociation in a Fourier transform mass spectrometer. From the temperature dependence of the unimolecular dissociation rate constants, Arrhenius activation parameters in the zero-pressure limit are obtained. Activation energies range from 1.2 to 1.7 eV, and preexponential factors range from 10(13) to 10(19) s(-1). Dissociation of the duplexes results in cleavage of the noncovalent bonds and/or cleavage of covalent bonds leading to loss of a neutral nucleobase followed by backbone cleavage producing sequence-specific (a - base) and w ions. Four pieces of evidence are presented which indicate that Watson-Crick (WC) base pairing is preserved in complementary DNA duplexes in the gas phase: i. the activation energy for dissociation of the complementary dimer, A(7)*T(7) (3-), to the single strands is significantly higher than that for the related noncomplementary A(7)*A(7) (3-) and T(7)*T(7) (3-) dimers, indicating a stronger interaction between strands with a specific base sequence, ii. extensive loss of neutral adenine occurs for A(7)*A(7) (3-) and A(7)*C(7) (3-) but not for A(7)*T(7) (3-) consistent with this process being shut down by WC hydrogen bonding, iii. a correlation is observed between the measured activation energy for dissociation to single strands and the dimerization enthalpy (-DeltaH(d)) in solution, and iv. molecular dynamics carried out at 300 and 400 K indicate that WC base pairing is preserved for A(7)*T(7) (3-) duplex, although the helical structure is essentially lost. In combination, these results provide strong evidence that WC base pairing can exist in the complete absence of solvent.

Graphic comparison of reserve-growth models for conventional oil and accumulation

USGS Publications Warehouse

Klett, T.R.

2003-01-01

The U.S. Geological Survey (USGS) periodically assesses crude oil, natural gas, and natural gas liquids resources of the world. The assessment procedure requires estimated recover-able oil and natural gas volumes (field size, cumulative production plus remaining reserves) in discovered fields. Because initial reserves are typically conservative, subsequent estimates increase through time as these fields are developed and produced. The USGS assessment of petroleum resources makes estimates, or forecasts, of the potential additions to reserves in discovered oil and gas fields resulting from field development, and it also estimates the potential fully developed sizes of undiscovered fields. The term ?reserve growth? refers to the commonly observed upward adjustment of reserve estimates. Because such additions are related to increases in the total size of a field, the USGS uses field sizes to model reserve growth. Future reserve growth in existing fields is a major component of remaining U.S. oil and natural gas resources and has therefore become a necessary element of U.S. petroleum resource assessments. Past and currently proposed reserve-growth models compared herein aid in the selection of a suitable set of forecast functions to provide an estimate of potential additions to reserves from reserve growth in the ongoing National Oil and Gas Assessment Project (NOGA). Reserve growth is modeled by construction of a curve that represents annual fractional changes of recoverable oil and natural gas volumes (for fields and reservoirs), which provides growth factors. Growth factors are used to calculate forecast functions, which are sets of field- or reservoir-size multipliers. Comparisons of forecast functions were made based on datasets used to construct the models, field type, modeling method, and length of forecast span. Comparisons were also made between forecast functions based on field-level and reservoir- level growth, and between forecast functions based on older and newer data. The reserve-growth model used in the 1995 USGS National Assessment and the model currently used in the NOGA project provide forecast functions that yield similar estimates of potential additions to reserves. Both models are based on the Oil and Gas Integrated Field File from the Energy Information Administration (EIA), but different vintages of data (from 1977 through 1991 and 1977 through 1996, respectively). The model based on newer data can be used in place of the previous model, providing similar estimates of potential additions to reserves. Fore-cast functions for oil fields vary little from those for gas fields in these models; therefore, a single function may be used for both oil and gas fields, like that used in the USGS World Petroleum Assessment 2000. Forecast functions based on the field-level reserve growth model derived from the NRG Associates databases (from 1982 through 1998) differ from those derived from EIA databases (from 1977 through 1996). However, the difference may not be enough to preclude the use of the forecast functions derived from NRG data in place of the forecast functions derived from EIA data. Should the model derived from NRG data be used, separate forecast functions for oil fields and gas fields must be employed. The forecast function for oil fields from the model derived from NRG data varies significantly from that for gas fields, and a single function for both oil and gas fields may not be appropriate.

Gas, Oil, and Water Production from Grand Valley, Parachute, Rulison, and Mamm Creek Fields in the Piceance Basin, Colorado

USGS Publications Warehouse

Nelson, Philip H.; Santus, Stephen L.

2010-01-01

Gas, oil, and water production data for tight gas reservoirs were compiled from selected wells in western Colorado. These reservoir rocks-the relatively shallow Paleogene Wasatch G sandstone interval in the Parachute and Rulison fields and fluvial sandstones in the deeper Upper Cretaceous Mesaverde Group in the Grand Valley, Parachute, Rulison, and Mamm Creek fields-are characterized by low permeability, low porosity, and the presence of clay minerals in pore space. Production from each well is represented by two samples spaced five years apart, the first sample typically taken two years after production commenced, which was generally in the 1990s. For each producing interval, summary diagrams of oil-versus-gas and water-versus-gas production show fluid production rates, the change in rates during five years, the water-gas and oil-gas ratios, and the fluid type. These diagrams permit well-to-well and field-to-field comparisons. Fields producing water at low rates (water dissolved in gas in the reservoir) can be distinguished from fields producing water at moderate or high rates, and the water-gas ratios are quantified. Dry gas is produced from the Wasatch G interval and wet gas is produced from the Mesaverde Group. Production from the Wasatch G interval is also almost completely free of water, but water production commences with gas production in wells producing from the Mesaverde Group-all of these wells have water-gas ratios exceeding the amount that could exist dissolved in gas at reservoir temperature and pressure. The lack of produced water from the Wasatch G interval is attributed to expansion of the gas accumulation with uplift and erosion. The reported underpressure of the Wasatch G interval is here attributed to hydraulic connection to the atmosphere by outcrops in the Colorado River valley at an elevation lower than that of the gas fields. The amount of reduction of gas production over the five-year time span between the first and second samples is roughly one-half, with median values of second-sample to first-sample gas-production ratios ranging from 0.40 for Rulison-Mesaverde to 0.63 for Rulison-Wasatch G. Commencing with the first sample, the logarithm-of-production rate appears to decline linearly with time in many wells. However, water production is much more erratic as a function of time from an individual well and also from one well to the next within a field. Water production can either decrease or increase with time (from the first to the second sample). In this study, slightly more than half the wells producing from the Mesaverde Group show decreases in water production with time. Plots of water decline versus gas decline show little relation between the two, with only the wells in Rulison field displaying some tendency for water and gas to decline proportionately

TU-H-CAMPUS-TeP2-04: Measurement of Stereotactic Output Factors with DNA Double-Strand Breaks

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cline, K; Obeidat, M; Stathakis, S

Purpose: Radiotherapy treatment is specified by radiation dose prescriptions, but biological DNA damage actually controls treatment effectiveness. It is impractical to directly measure dose in the clinic, so we measure quantities, such as collected charge, and calculate the relationship to dose. At small fields, such as those in stereotactic radiosurgery (SRS), charged-particle equilibrium (CPE) breaks down and the accuracy of the measurement for delivered dose decreases. By measuring DNA double-strand breaks (DSB) directly, we believe treatment accuracy could improve by providing a more meaningful measurement. Methods: A DNA dosimeter, consisting of magnetic streptavidin beads attached to 4 kilobase pair DNAmore » strands labeled with biotin and fluorescein amidite (FAM) on opposing ends, was suspended in phosphate-buffered saline (PBS). Twenty µL samples were placed in plastic micro-capillary tubes inside a water tank setup and irradiated with 10 cm, 3 cm, 1.25 cm, 0.75 cm, and 0.5 cm radiation field sizes, where the three smallest sizes were cones. After irradiation, the dosimeters were mechanically separated into beads (intact DNA) and supernatant (broken DNA/FAM) using a magnet. The fluorescence was read and the probability of DSB was calculated. This was used to calculate the output factor for an SRS beam and compared to that measured using a diode detector. Results: The output factors relative to a 10 cm field were 0.89±0.07, 0.76±0.08, 0.59±0.04, and 0.78±0.12 for the field sizes of 3 cm, 1.25 cm, 0.75 cm, and 0.5 cm, respectively. Some of the diode measurements do not fall within these uncertainties. Conclusion: This was the first attempt to measure output factors in a water tank with the DNA dosimeter. Although differences compared to the diode were observed, the uncertainty analysis ignored systematic errors. For future work, we will repeat this experiment to quantify and correct systematic errors, such as those caused by positional alignment and sample contamination. This work was funded in part by CPRIT (RP140105).« less

Gas occurrence property in shales of Tuha basin northwest china

NASA Astrophysics Data System (ADS)

Chen, Jinlong; Huang, Zhilong

2017-04-01

Pore of rock under formation condition must be fulfilled by gas, oil, or water, so the volume of water and gas is equation to porous volume in shale gas. The occurrences states of gas are free gas, solution gas, and absorbed gas. Field analysis is used to obtain total gas content by improved lost gas recover method. Free gas content acquired by pore proportion of gas, which use measured pore volume minus water and oil saturation, convert gas content of standard condition by state equation. Water saturation obtain from core water content, oil saturation obtain from extract carbohydrate. Solution gas need gas solubility in oil and water to calculate solution gas content in standard condition. Absorbed gas, introduce Absorbed Gas Saturation ɛ, which acquire from isothermal adsorption volume vs field analysis gas content in many basins of published paper, need isothermal adsorption and Absorbed Gas Saturation to obtain absorbed gas content. All of the data build connect with logging value by regression equation. The gas content is 0.92-1.53 m3/t from field analysis, evaluate gas content is 1.33 m3/t average, free gas proportion is about 47%, absorbed gas counter for 49%, and solution gas is average 4%.

The Contribution of the Activation Entropy to the Gas-Phase Stability of Modified Nucleic Acid Duplexes

NASA Astrophysics Data System (ADS)

Hari, Yvonne; Dugovič, Branislav; Istrate, Alena; Fignolé, Annabel; Leumann, Christian J.; Schürch, Stefan

2016-07-01

Tricyclo-DNA (tcDNA) is a sugar-modified analogue of DNA currently tested for the treatment of Duchenne muscular dystrophy in an antisense approach. Tandem mass spectrometry plays a key role in modern medical diagnostics and has become a widespread technique for the structure elucidation and quantification of antisense oligonucleotides. Herein, mechanistic aspects of the fragmentation of tcDNA are discussed, which lay the basis for reliable sequencing and quantification of the antisense oligonucleotide. Excellent selectivity of tcDNA for complementary RNA is demonstrated in direct competition experiments. Moreover, the kinetic stability and fragmentation pattern of matched and mismatched tcDNA heteroduplexes were investigated and compared with non-modified DNA and RNA duplexes. Although the separation of the constituting strands is the entropy-favored fragmentation pathway of all nucleic acid duplexes, it was found to be only a minor pathway of tcDNA duplexes. The modified hybrid duplexes preferentially undergo neutral base loss and backbone cleavage. This difference is due to the low activation entropy for the strand dissociation of modified duplexes that arises from the conformational constraint of the tc-sugar-moiety. The low activation entropy results in a relatively high free activation enthalpy for the dissociation comparable to the free activation enthalpy of the alternative reaction pathway, the release of a nucleobase. The gas-phase behavior of tcDNA duplexes illustrates the impact of the activation entropy on the fragmentation kinetics and suggests that tandem mass spectrometric experiments are not suited to determine the relative stability of different types of nucleic acid duplexes.

Computational studies of suppression of microwave gas breakdown by crossed dc magnetic field using electron fluid model

NASA Astrophysics Data System (ADS)

Zhao, Pengcheng; Guo, Lixin; Shu, Panpan

2016-08-01

The gas breakdown induced by a square microwave pulse with a crossed dc magnetic field is investigated using the electron fluid model, in which the accurate electron energy distribution functions are adopted. Simulation results show that at low gas pressures the dc magnetic field of a few tenths of a tesla can prolong the breakdown formation time by reducing the mean electron energy. With the gas pressure increasing, the higher dc magnetic field is required to suppress the microwave breakdown. The electric field along the microwave propagation direction generated due to the motion of electrons obviously increases with the dc magnetic field, but it is much less than the incident electric field. The breakdown predictions of the electron fluid model agree very well with the particle-in-cell-Monte Carlo collision simulations as well as the scaling law for the microwave gas breakdown.

Accurate quantification of microRNA via single strand displacement reaction on DNA origami motif.

PubMed

Zhu, Jie; Feng, Xiaolu; Lou, Jingyu; Li, Weidong; Li, Sheng; Zhu, Hongxin; Yang, Lun; Zhang, Aiping; He, Lin; Li, Can

2013-01-01

DNA origami is an emerging technology that assembles hundreds of staple strands and one single-strand DNA into certain nanopattern. It has been widely used in various fields including detection of biological molecules such as DNA, RNA and proteins. MicroRNAs (miRNAs) play important roles in post-transcriptional gene repression as well as many other biological processes such as cell growth and differentiation. Alterations of miRNAs' expression contribute to many human diseases. However, it is still a challenge to quantitatively detect miRNAs by origami technology. In this study, we developed a novel approach based on streptavidin and quantum dots binding complex (STV-QDs) labeled single strand displacement reaction on DNA origami to quantitatively detect the concentration of miRNAs. We illustrated a linear relationship between the concentration of an exemplary miRNA as miRNA-133 and the STV-QDs hybridization efficiency; the results demonstrated that it is an accurate nano-scale miRNA quantifier motif. In addition, both symmetrical rectangular motif and asymmetrical China-map motif were tested. With significant linearity in both motifs, our experiments suggested that DNA Origami motif with arbitrary shape can be utilized in this method. Since this DNA origami-based method we developed owns the unique advantages of simple, time-and-material-saving, potentially multi-targets testing in one motif and relatively accurate for certain impurity samples as counted directly by atomic force microscopy rather than fluorescence signal detection, it may be widely used in quantification of miRNAs.

Role of geometrical shape in like-charge attraction of DNA.

PubMed

Kuron, Michael; Arnold, Axel

2015-03-01

While the phenomenon of like-charge attraction of DNA is clearly observed experimentally and in simulations, mean-field theories fail to predict it. Kornyshev et al. argued that like-charge attraction is due to DNA's helical geometry and hydration forces. Strong-coupling (SC) theory shows that attraction of like-charged rods is possible through ion correlations alone at large coupling parameters, usually by multivalent counterions. However for SC theory to be applicable, counterion-counterion correlations perpendicular to the DNA strands need to be sufficiently small, which is not a priori the case for DNA even with trivalent counterions. We study a system containing infinitely long DNA strands and trivalent counterions by computer simulations employing varying degrees of coarse-graining. Our results show that there is always attraction between the strands, but its magnitude is indeed highly dependent on the specific shape of the strand. While discreteness of the charge distribution has little influence on the attractive forces, the role of the helical charge distribution is considerable: charged rods maintain a finite distance in equilibrium, while helices collapse to close contact with a phase shift of π, in full agreement with SC predictions. The SC limit is applicable because counterions strongly bind to the charged sites of the helices, so that helix-counterion interactions dominate over counterion-counterion interactions. Thus DNA's helical geometry is not crucial for like-charge DNA attraction, but strongly enhances it, and electrostatic interactions in the strong-coupling limit are sufficient to explain this attraction.

Gathering system optimization in a gas field with commingled flowlines

DOE Office of Scientific and Technical Information (OSTI.GOV)

Soetedja, V.; Harun, A.F.

1995-10-01

Badak Field, located in East Kalimantan, Indonesia, is a giant onshore gas field with 181 wells and total gas deliverability of 1.3 billion standard cubic feet (BSCF) per day. In many cases, gas from more than one well is commingled in the same flowline. This study concludes that commingling flowlines has been extremely cost effective over the life of the field. However, good initial design is required to anticipate future reservoir depletion and recompletions in order to achieve the best economic efficiency.

Materials, Strands, and Cables for Superconducting Accelerator Magnets. Final Report

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 Nb 3Sn. These materials science aspects have been married to results, in the form of flux pinning, B c2, B irr, and transport J c, with an emphasis on obtaining the needed J c 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 reportmore » 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 Nb 3Sn 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 Nb 3Sn 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.« less

An RNA Origami Octahedron with Intrinsic siRNAs for Potent Gene Knockdown.

PubMed

Høiberg, Hans Christian; Sparvath, Steffen M; Andersen, Veronica L; Kjems, Jørgen; Andersen, Ebbe S

2018-05-26

The fields of DNA and RNA nanotechnology have established nucleic acids as valuable building blocks for functional nanodevices with applications in nanomedicine. Here, a simple method for designing and assembling a 3D scaffolded RNA origami wireframe structure with intrinsic functioning small interfering RNAs (siRNAs) embedded is introduced. Uniquely, the method uses an mRNA fragment as scaffold strand, which is folded by sequence-complementarity of nine shorter synthetic strands. High-yield production of the intended 3D structure is verified by transmission electron microscopy (TEM). Production of functional siRNAs is facilitated by incorporating recognition sites for Dicer at selected locations in the structure, and efficient silencing of a target reporter gene is demonstrated. © 2018 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Concerns about cultural neurosciences: a critical analysis.

PubMed

Martínez Mateo, Marina; Cabanis, Maurice; Cruz de Echeverría Loebell, Nicole; Krach, Sören

2012-01-01

Ten years ago, neuroscientists began to study cultural phenomena by using functional MRI. Since then the number of publications in this field, termed cultural neuroscience (CN), has tremendously increased. In these studies, particular concepts of culture are implied, but rarely explicitly discussed. We argue that it is necessary to make these concepts a topic of debate in order to unravel the foundations of CN. From 40 fMRI studies we extracted two strands of reasoning: models investigating universal mechanisms for the formation of cultural groups and habits and, models assessing differences in characteristics among cultural groups. Both strands simplify culture as an inflexible set of traits and specificities. We question this rigid understanding of culture and highlight its hidden evaluative nature. Copyright © 2011 Elsevier Ltd. All rights reserved.

Thermal-mechanical properties of epoxy-impregnated Bi-2212/Ag composite

DOE PAGES

Li, Pei; Wang, Yang; Fermi National Accelerator Lab.; ...

2014-11-26

In this study, knowledge of the thermal-mechanical properties of epoxy/superconductor/insulation composite is important for designing, fabricating, and operating epoxy impregnated high field superconducting magnets near their ultimate potentials. We report measurements of the modulus of elasticity, Poisson's ratio, and the coefficient of thermal contraction of epoxy-impregnated composite made from the state-of-the-art powder-in-tube multifilamentary Ag/Bi 2Sr 2CaCu 2O x round wire at room temperature and cryogenic temperatures. Stress-strain curves of samples made from single-strand and Rutherford cables were tested under both monotonic and cyclic compressive loads, with single strands insulated using a thin TiO 2 insulation coating and the Rutherford cablemore » insulated with a braided ceramic sleeve.« less

Optimization of ITER Nb3Sn CICCs for coupling loss, transverse electromagnetic load and axial thermal contraction

NASA Astrophysics Data System (ADS)

Nijhuis, A.; van Lanen, E. P. A.; Rolando, G.

2012-01-01

The ITER cable-in-conduit conductors (CICCs) are built up from sub-cable bundles, wound in different stages, which are twisted to counter coupling loss caused by time-changing external magnet fields. The selection of the twist pitch lengths has major implications for the performance of the cable in the case of strain-sensitive superconductors, i.e. Nb3Sn, as the electromagnetic and thermal contraction loads are large but also for the heat load from the AC coupling loss. At present, this is a great challenge for the ITER central solenoid (CS) CICCs and the solution presented here could be a breakthrough for not only the ITER CS but also for CICC applications in general. After proposing longer twist pitches in 2006 and successful confirmation by short sample tests later on, the ITER toroidal field (TF) conductor cable pattern was improved accordingly. As the restrictions for coupling loss are more demanding for the CS conductors than for the TF conductors, it was believed that longer pitches would not be applicable for the conductors in the CS coils. In this paper we explain how, with the use of the TEMLOP model and the newly developed models JackPot-ACDC and CORD, the design of a CICC can be improved appreciably, particularly for the CS conductor layout. For the first time a large improvement is predicted not only providing very low sensitivity to electromagnetic load and thermal axial cable stress variations but at the same time much lower AC coupling loss. Reduction of the transverse load and warm-up-cool-down degradation can be reached by applying longer twist pitches in a particular sequence for the sub-stages, offering a large cable transverse stiffness, adequate axial flexibility and maximum allowed lateral strand support. Analysis of short sample (TF conductor) data reveals that increasing the twist pitch can lead to a gain of the effective axial compressive strain of more than 0.3% with practically no degradation from bending. This is probably explained by the distinct difference in mechanical response of the cable during axial contraction for short and long pitches. For short pitches periodic bending in different directions with relatively short wavelength is imposed because of a lack of sufficient lateral restraint of radial pressure. This can lead to high bending strain and eventually buckling. Whereas for cables with long twist pitches, the strands are only able to react as coherent bundles, being tightly supported by the surrounding strands, providing sufficient lateral restraint of radial pressure in combination with enough slippage to avoid single strand bending along detrimental short wavelengths. Experimental evidence of good performance was already provided with the test of the long pitch TFPRO2-OST2, which is still until today, the best ITER-type cable to strand performance ever without any cyclic load (electromagnetic and thermal contraction) degradation. For reduction of the coupling loss, specific choices of the cabling twist sequence are needed to minimize the area of linked strands and bundles that are coupled and form loops with the applied changing magnetic field, instead of simply avoiding longer pitches. In addition we recommend increasing the wrap coverage of the CS conductor from 50% to at least 70%. A larger wrap coverage fraction enhances the overall strand bundle lateral restraint. The long pitch design seems the best solution to optimize the ITER CS conductor within the given restrictions of the present coil design envelope, only allowing marginal changes. The models predict significant improvement against strain sensitivity and substantial decrease of the AC coupling loss in Nb3Sn CICCs, but also for NbTi CICCs minimization of the coupling loss can obviously be achieved. Although the success of long pitches to transverse load degradation was already demonstrated, the prediction of the elegant innovative combination with low coupling loss needs to be validated by a short sample test.

Geothermal Power/Oil & Gas Coproduction Opportunity

DOE Office of Scientific and Technical Information (OSTI.GOV)

DOE

2012-02-01

Coproduced geothermal resources can deliver near-term energy savings, diminish greenhouse gas emissions, extend the economic life of oil and gas fields, and profitably utilize oil and gas field infrastructure. This two-pager provides an overview of geothermal coproduced resources.

Gas Production Strategy of Underground Coal Gasification Based on Multiple Gas Sources

PubMed Central

Tianhong, Duan; Zuotang, Wang; Limin, Zhou; Dongdong, Li

2014-01-01

To lower stability requirement of gas production in UCG (underground coal gasification), create better space and opportunities of development for UCG, an emerging sunrise industry, in its initial stage, and reduce the emission of blast furnace gas, converter gas, and coke oven gas, this paper, for the first time, puts forward a new mode of utilization of multiple gas sources mainly including ground gasifier gas, UCG gas, blast furnace gas, converter gas, and coke oven gas and the new mode was demonstrated by field tests. According to the field tests, the existing power generation technology can fully adapt to situation of high hydrogen, low calorific value, and gas output fluctuation in the gas production in UCG in multiple-gas-sources power generation; there are large fluctuations and air can serve as a gasifying agent; the gas production of UCG in the mode of both power and methanol based on multiple gas sources has a strict requirement for stability. It was demonstrated by the field tests that the fluctuations in gas production in UCG can be well monitored through a quality control chart method. PMID:25114953

Gas production strategy of underground coal gasification based on multiple gas sources.

PubMed

Tianhong, Duan; Zuotang, Wang; Limin, Zhou; Dongdong, Li

2014-01-01

To lower stability requirement of gas production in UCG (underground coal gasification), create better space and opportunities of development for UCG, an emerging sunrise industry, in its initial stage, and reduce the emission of blast furnace gas, converter gas, and coke oven gas, this paper, for the first time, puts forward a new mode of utilization of multiple gas sources mainly including ground gasifier gas, UCG gas, blast furnace gas, converter gas, and coke oven gas and the new mode was demonstrated by field tests. According to the field tests, the existing power generation technology can fully adapt to situation of high hydrogen, low calorific value, and gas output fluctuation in the gas production in UCG in multiple-gas-sources power generation; there are large fluctuations and air can serve as a gasifying agent; the gas production of UCG in the mode of both power and methanol based on multiple gas sources has a strict requirement for stability. It was demonstrated by the field tests that the fluctuations in gas production in UCG can be well monitored through a quality control chart method.

DNA double-strand breaks induced by high-energy neon and iron ions in human fibroblasts. II. Probing individual notI fragments by hybridization.

PubMed

Löbrich, M; Rydberg, B; Cooper, P K

1994-08-01

The initial yields of DNA double-strand breaks induced by energetic heavy ions (425 MeV/u neon and 250, 400 and 600 MeV/u iron) in comparison to X rays were measured in normal human diploid fibroblast cells within three small areas of the genome, defined by NotI fragments of 3.2, 2.0 and 1.2 Mbp. The methodology involves NotI restriction endonuclease digestion of DNA from irradiated cells, followed by pulsed-field gel electrophoresis, Southern blotting and hybridization with probes recognizing single-copy sequences within the three NotI fragments. The gradual disappearance of the full-size NotI fragment with dose and the appearance of a smear of broken DNA molecules are quantified. Assuming Poisson statistics for the number of double-strand breaks induced per NotI fragment of known size, absolute yields of DNA double-strand breaks were calculated and determined to be linear with dose in all cases, with the neon ion (LET 32 keV/microns) producing 4.4 x 10(-3) breaks/Mbp/Gy and all three iron-ion beams (LETs from 190 to 350 keV/microns) producing 2.8 x 10(-3) breaks/Mbp/Gy, giving RBE values for production of double-strand breaks of 0.76 for neon and 0.48 for iron in comparison to our previously determined X-ray induction rate of 5.8 x 10(-3) breaks/Mbp/Gy. These RBE values are in good agreement with results of measurements over the whole genome as reported in the accompanying paper (B. Rydberg, M. Löbrich and P. Cooper, Radiat. Res. 139, 133-141, 1994). The distribution of broken DNA molecules was similar for the various radiations, supporting a random distribution of double-strand breaks induced by the heavy ions over Mbp distances; however, correlated breaks (clusters) over much smaller distances are not ruled out. Reconstitution of the 3.2 Mbp NotI fragment was studied during postirradiation incubation of the cells as a measure of rejoining of correct DNA ends. The proportion of breaks repaired decreased with increasing LET.

Sequence-Specific DNA Photosplitting of Crosslinked DNAs Containing the 3-Cyanovinylcarbazole Nucleoside by Using DNA Strand Displacement.

PubMed

Nakamura, Shigetaka; Kawabata, Hayato; Fujimoto, Kenzo

2016-08-17

An oligodeoxynucleotide (ODN) containing the ultrafast reversible 3-cyanovinylcarbazole ((CNV) K) photo-crosslinker was photo-crosslinked to a complementary strand upon exposure to 366 nm irradiation and photosplit by use of 312 nm irradiation. In this paper we report that the photoreaction of (CNV) K on irradiation at 366 nm involves a photostationary state and that its reaction can be controlled by temperature. Guided by this new insight, we proposed and have now demonstrated previously unknown photosplitting of (CNV) K aided by DNA strand displacement as an alternative to heating. The photo-crosslinked double-stranded DNA (dsDNA) underwent >80 % photosplitting aided by DNA strand displacement on irradiation at 366 nm without heating. In this photosplitting based on DNA strand displacement, the relative thermal stability of the invader strand with respect to the template strands plays an important role, and an invader strand/template strand system that is more stable than the passenger strand/template strand system induces photosplitting without heating. This new strand-displacement-aided photosplitting occurred in a sequence-specific manner through irradiation at 366 nm in the presence of an invader strand. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Heat Transfer to Anode of Arc as Function of Transverse Magnetic Field and Lateral Gas Flow Velocity

NASA Astrophysics Data System (ADS)

Zama, Yoshiyuki; Shiino, Toru; Ishii, Yoko; Maeda, Yoshifumi; Yamamoto, Shinji; Iwao, Toru

2016-10-01

Gas tungsten arc welding has useful joining technology because of high-energy and high-current characteristics. It can be flexible from the transverse magnetic field and lateral gas flow velocity. In this case, the weld defect occurs. In this research, the heat transfer to the anode of the arc as a function of the transverse magnetic field and lateral gas flow velocity is elucidated. That magnetic flux density and lateral gas velocity were varied from 0 to 3 mT and 0 to 50?m?s -1, respectively. The axial plasma gas argon flow rates were 3?slm. A transverse magnetic field is applied to the arc using Helmholtz coil. The anode is used by a water-cooled copper plate, and the heat transfer is measured by temperature of cooled water. As a result, the arc is deflected by the Lorentz force and lateral gas convection. Thus, the heat transfer to the anode of the arc decreases with increasing the transverse magnetic field and lateral gas flow velocity. In addition, the heat transfer to the anode changes with different attachments modes. The lateral gas flow causes a convective heat loss from the arc to the chamber walls.

History of gas production from Devonian shale in eastern Kentucky

DOE Office of Scientific and Technical Information (OSTI.GOV)

Kemper, J.R.; Frankie, W.T.; Smath, R.A.

More than 10,500 wells that penetrate the Devonian shale have been compiled into a data base covering a 25-county area of eastern Kentucky. This area includes the Big Sandy gas field, the largest in the Appalachian basin, and marginal areas to the southwest, west, and northwest. The development of the Big Sandy gas field began in the 1920s in western Floyd County, Kentucky, and moved concentrically outward through 1970. Since 1971, the trend has been for infill and marginal drilling, and fewer companies have been involved. The resulting outline of the Big Sandy gas field covers most of Letcher, Knott,more » Floyd, Martin, and Pike Counties in Kentucky; it also extends into West Virginia. Outside the Big Sandy gas field, exploration for gas has been inconsistent, with a much higher ratio of dry holes. The results of this study, which was partially supported by the Gas Research Institute (GRI), indicate that certain geologic factors, such as fracture size and spacing, probably determine the distribution of commercial gas reserves as well as the outline of the Big Sandy gas field. Future Big Sandy infill and extension drilling will need to be based on an understanding of these factors.« less

Gas hydrates from the continental slope, offshore Sakhalin Island, Okhotsk Sea

USGS Publications Warehouse

Ginsburg, G.D.; Soloviev, V.A.; Cranston, R.E.; Lorenson, T.D.; Kvenvolden, K.A.

1993-01-01

Ten gas-vent fields were discovered in the Okhotsk Sea on the northeast continental slope offshore from Sakhalin Island in water depths of 620-1040 m. At one vent field, estimated to be more than 250 m across, gas hydrates, containing mainly microbial methane (??13C = -64.3???), were recovered from subbottom depths of 0.3-1.2 m. The sediment, having lenses and bedded layers of gas hydrate, contained 30-40% hydrate per volume of wet sediment. Although gas hydrates were not recovered at other fields, geochemical and thermal measurements suggest that gas hydrates are present. ?? 1993 Springer-Verlag.

Development length of 0.6-inch prestressing strand in standard I-shaped pretensioned concrete beams

NASA Astrophysics Data System (ADS)

Barnes, Robert Wesley

The use of 0.6 in prestressing strand at a center-to-center spacing of 2 in allows for the optimal implementation of High Strength Concrete (HSC) in precast, prestressed concrete bridge superstructures. For this strand configuration, partial debonding of strands is a desirable alternative to the more traditional method of draping strands to alleviate extreme concrete stresses after prestress release. Recent experimental evidence suggests that existing code provisions addressing the anchorage of pretensioned strands do not adequately describe the behavior of these strands. In addition, the anchorage behavior of partially debonded strands is not fully understood. These uncertainties have combined to hinder the full exploitation of HSC in pretensioned concrete construction. A research study was conducted to determine the anchorage behavior of 0.6 in strands at 2 in spacing in full-size bridge members. The experimental program consisted of assessing transfer and development lengths in plant-cast AASHTO Type I I-beams. The influence of concrete compressive strengths ranging from 5700 to 14,700 psi was examined. In order to consider the full range of strand surface conditions found in practice, the prestressing strand featured either a bright mill finish or a rusted surface condition. The anchorage behavior of partially debonded strands was investigated by using a variety of strand debonding configurations---including debonded strand percentages as high as 75 percent. A limited investigation of the effect of horizontal web reinforcement on anchorage behavior was performed. Pull-out tests were performed in an attempt to correlate results with the bond quality of the strands used in the study. The correlation between strand draw-in and the anchorage behavior of prestressing strands was also examined. A review of the evolution and shortcomings of existing code provisions for the anchorage of prestressing strands is presented. Results of the experimental program are reported, along with recommended design procedures based on these results and those from other studies. The use of 0.6 in strand at 2 in spacing is concluded to be safe, and partial debonding of prestressing strands is shown to be an effective means of reducing stresses in the end regions of pretensioned girders.

An improved DNA force field for ssDNA interactions with gold nanoparticles

DOE Office of Scientific and Technical Information (OSTI.GOV)

Jiang, Xiankai; Huai, Ping; Fan, Chunhai

The widespread applications of single-stranded DNA (ssDNA) conjugated gold nanoparticles (AuNPs) have spurred an increasing interest in the interactions between ssDNA and AuNPs. Despite extensive studies using the most sophisticated experimental techniques, the detailed molecular mechanisms still remain largely unknown. Large scale molecular dynamics (MD) simulations can thus be used to supplement experiments by providing complementary information about ssDNA-AuNP interactions. However, up to now, all modern force fields for DNA were developed based on the properties of double-stranded DNA (dsDNA) molecules, which have hydrophilic outer backbones “protecting” hydrophobic inner nucleobases from water. Without the double-helix structure of dsDNA and thusmore » the “protection” by the outer backbone, the nucleobases of ssDNA are directly exposed to solvent, and their behavior in water is very different from that of dsDNA, especially at the interface with nanoparticles. In this work, we have improved the force field of ssDNA for use with nanoparticles, such as AuNPs, based on recent experimental results and quantum mechanics calculations. With the new improved force field, we demonstrated that a poly(A) sequence adsorbed on a AuNP surface is much more stable than a poly(T) sequence, which is consistent with recent experimental observations. On the contrary, the current standard force fields, including AMBER03, CHARMM27, and OPLSAA, all gave erroneous results as compared to experiments. The current improved force field is expected to have wide applications in the study of ssDNA with nanomaterials including AuNPs, which might help promote the development of ssDNA-based biosensors and other bionano-devices.« less

An improved DNA force field for ssDNA interactions with gold nanoparticles

NASA Astrophysics Data System (ADS)

Jiang, Xiankai; Gao, Jun; Huynh, Tien; Huai, Ping; Fan, Chunhai; Zhou, Ruhong; Song, Bo

2014-06-01

The widespread applications of single-stranded DNA (ssDNA) conjugated gold nanoparticles (AuNPs) have spurred an increasing interest in the interactions between ssDNA and AuNPs. Despite extensive studies using the most sophisticated experimental techniques, the detailed molecular mechanisms still remain largely unknown. Large scale molecular dynamics (MD) simulations can thus be used to supplement experiments by providing complementary information about ssDNA-AuNP interactions. However, up to now, all modern force fields for DNA were developed based on the properties of double-stranded DNA (dsDNA) molecules, which have hydrophilic outer backbones "protecting" hydrophobic inner nucleobases from water. Without the double-helix structure of dsDNA and thus the "protection" by the outer backbone, the nucleobases of ssDNA are directly exposed to solvent, and their behavior in water is very different from that of dsDNA, especially at the interface with nanoparticles. In this work, we have improved the force field of ssDNA for use with nanoparticles, such as AuNPs, based on recent experimental results and quantum mechanics calculations. With the new improved force field, we demonstrated that a poly(A) sequence adsorbed on a AuNP surface is much more stable than a poly(T) sequence, which is consistent with recent experimental observations. On the contrary, the current standard force fields, including AMBER03, CHARMM27, and OPLSAA, all gave erroneous results as compared to experiments. The current improved force field is expected to have wide applications in the study of ssDNA with nanomaterials including AuNPs, which might help promote the development of ssDNA-based biosensors and other bionano-devices.

An improved DNA force field for ssDNA interactions with gold nanoparticles.

PubMed

Jiang, Xiankai; Gao, Jun; Huynh, Tien; Huai, Ping; Fan, Chunhai; Zhou, Ruhong; Song, Bo

2014-06-21

The widespread applications of single-stranded DNA (ssDNA) conjugated gold nanoparticles (AuNPs) have spurred an increasing interest in the interactions between ssDNA and AuNPs. Despite extensive studies using the most sophisticated experimental techniques, the detailed molecular mechanisms still remain largely unknown. Large scale molecular dynamics (MD) simulations can thus be used to supplement experiments by providing complementary information about ssDNA-AuNP interactions. However, up to now, all modern force fields for DNA were developed based on the properties of double-stranded DNA (dsDNA) molecules, which have hydrophilic outer backbones "protecting" hydrophobic inner nucleobases from water. Without the double-helix structure of dsDNA and thus the "protection" by the outer backbone, the nucleobases of ssDNA are directly exposed to solvent, and their behavior in water is very different from that of dsDNA, especially at the interface with nanoparticles. In this work, we have improved the force field of ssDNA for use with nanoparticles, such as AuNPs, based on recent experimental results and quantum mechanics calculations. With the new improved force field, we demonstrated that a poly(A) sequence adsorbed on a AuNP surface is much more stable than a poly(T) sequence, which is consistent with recent experimental observations. On the contrary, the current standard force fields, including AMBER03, CHARMM27, and OPLSAA, all gave erroneous results as compared to experiments. The current improved force field is expected to have wide applications in the study of ssDNA with nanomaterials including AuNPs, which might help promote the development of ssDNA-based biosensors and other bionano-devices.

Fossil Cores In The Kepler Data

NASA Astrophysics Data System (ADS)

Jackson, Brian

Most gas giant exoplanets with orbital periods < few days are unstable against tidal decay and may be tidally disrupted before their host stars leave the main sequence. These gas giants probably contain rocky/icy cores, and so their cores will be stranded near their progenitor's Roche limit (few hours orbital period). These fossil cores will evade the Kepler mission's transit search because it is focused on periods > 0.5 days, but finding these fossil cores would provide unprecedented insights into planetary interiors and formation ? e.g., they would be a smoking gun favoring formation of gas giants via core accretion. We propose to search for and characterize fossil cores in the Kepler dataset. We will vet candidates using the Kepler photometry and auxiliary data, collect ground-based spectra of the host stars and radial-velocity (RV) and adaptive optics (AO) data to corroborate candidates. We will also constrain stellar tidal dissipation efficiencies (parameterized by Q) by determining our survey's completeness, elucidating dynamical origins and evolution of exoplanets even if we find no fossil cores. Our preliminary search has already found several dozen candidates, so the proposed survey has a high likelihood of success.

Electron attachment-induced DNA single-strand breaks at the pyrimidine sites

PubMed Central

Gu, Jiande; Wang, Jing; Leszczynski, Jerzy

2010-01-01

To elucidate the contribution of pyrimidine in DNA strand breaks caused by low-energy electrons (LEEs), theoretical investigations of the LEE attachment-induced C3′–O3′, and C5′–O5′ σ bond as well as N-glycosidic bond breaking of 2′-deoxycytidine-3′,5′-diphosphate and 2′-deoxythymidine-3′,5′-diphosphate were performed using the B3LYP/DZP++ approach. The base-centered radical anions are electronically stable enough to assure that either the C–O or glycosidic bond breaking processes might compete with the electron detachment and yield corresponding radical fragments and anions. In the gas phase, the computed glycosidic bond breaking activation energy (24.1 kcal/mol) excludes the base release pathway. The low-energy barrier for the C3′–O3′ σ bond cleavage process (∼6.0 kcal/mol for both cytidine and thymidine) suggests that this reaction pathway is the most favorable one as compared to other possible pathways. On the other hand, the relatively low activation energy barrier (∼14 kcal/mol) for the C5′–O5′ σ bond cleavage process indicates that this bond breaking pathway could be possible, especially when the incident electrons have relatively high energy (a few electronvolts). The presence of the polarizable medium greatly increases the activation energies of either C–O σ bond cleavage processes or the N-glycosidic bond breaking process. The only possible pathway that dominates the LEE-induced DNA single strands in the presence of the polarizable surroundings (such as in an aqueous solution) is the C3′–O3′ σ bond cleavage (the relatively low activation energy barrier, ∼13.4 kcal/mol, has been predicted through a polarizable continuum model investigation). The qualitative agreement between the ratio for the bond breaks of C5′–O5′, C3′–O3′ and N-glycosidic bonds observed in the experiment of oligonucleotide tetramer CGAT and the theoretical sequence of the bond breaking reaction pathways have been found. This consistency between the theoretical predictions and the experimental observations provides strong supportive evidences for the base-centered radical anion mechanism of the LEE-induced single-strand bond breaking around the pyrimidine sites of the DNA single strands. PMID:20430827

The multiple personalities of Watson and Crick strands.

PubMed

Cartwright, Reed A; Graur, Dan

2011-02-08

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. 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. This article was reviewed by John M. Logsdon, Igor B. Rogozin (nominated by Andrey Rzhetsky), and William Martin.

DNA forms of the geminivirus African cassava mosaic virus consistent with a rolling circle mechanism of replication.

PubMed Central

Saunders, K; Lucy, A; Stanley, J

1991-01-01

We have analysed DNA from African cassava mosaic virus (ACMV)-infected Nicotiana benthamiana by two-dimensional agarose gel electrophoresis and detected ACMV-specific DNAs by blot-hybridisation. ACMV DNA forms including the previously characterised single-stranded, open-circular, linear and supercoiled DNAs along with five previously uncharacterised heterogeneous DNAs (H1-H5) were resolved. The heterogeneous DNAs were characterised by their chromatographic properties on BND-cellulose and their ability to hybridise to strand-specific and double-stranded probes. The data suggest a rolling circle mechanism of DNA replication, based on the sizes and strand specificity of the heterogeneous single-stranded DNA forms and their electrophoretic properties in relation to genome length single-stranded DNAs. Second-strand synthesis on a single-stranded virus-sense template is evident from the position of heterogeneous subgenomic complementary-sense DNA (H3) associated with genome-length virus-sense template (VT) DNA. The position of heterogeneous virus-sense DNA (H5), ranging in size from one to two genome lengths, is consistent with its association with genome-length complementary-sense template (CT) DNA, reflecting virus-sense strand displacement during replication from a double-stranded intermediate. The absence of subgenomic complementary-sense DNA associated with the displaced virus-sense strand suggests that replication proceeds via an obligate single-stranded intermediate. The other species of heterogeneous DNAs comprised concatemeric single-stranded virus-sense DNA (H4), and double-stranded or partially single-stranded DNA (H1 and H2). Images PMID:2041773

Method and apparatus for the application of textile treatment compositions to textile materials

DOEpatents

Argyle, M.D.; Propp, W.A.

1998-01-20

A system is described for applying textile treatment compositions to textile materials. A conduit member is provided which includes a passageway having a first end, a second end, and a medial portion with a constricted (narrowed) region. The passageway may include at least one baffle having an opening there through. A yarn strand is then moved through the passageway. A textile treatment composition (a sizing agent or dye) dissolved in a carrier medium (a supercritical fluid or liquefied gas) is thereafter introduced into the constricted region, preferably at an acute angle relative to the passageway. The carrier medium expands inside the passageway which causes delivery of the treatment composition to the yarn. The treated yarn then passes through the baffle (if used) which facilitates drying of the yarn. During this process, a carrier gas can be introduced into the passageway to ensure the production of a smooth, dry product. 1 fig.

LEAKAGE CHARACTERISTICS OF MULTI-CONDUCTOR CABLES AND CONDUIT SEALS

DOE Office of Scientific and Technical Information (OSTI.GOV)

Nelson, C.; Becker, S.

1962-12-12

Pipe threads in conduit seal-offs can be made air tight by use of a two- part thiokol-epoxy sealant such as Sika.'' This material bonds to metal but does not harden; thus, threaded parts can be separated. Gas seals in conduit sealoffs can be made by use of Chico, Type A'' sealant. This material is hard and can withstand high pressure differentials. However, there is a detectable leakage through Chico, Type A.'' Sika'' can be used to make a suitable gas- tight seal. However, this material is flexible and will not support long cable lengths. A dual pour method is suggestedmore » of first casting Chico'' around the connectors to obtain strength in the seal and then using either Sika'' or Micro-Preg'' to produce a tight seal. Leakage through the cable, between strands of conductor, can be reduced by either soldering the ends or dipping the ends in conductive epoxy paint. (auth)« less

Method and apparatus for the application of textile treatment compositions to textile materials

DOEpatents

Argyle, Mark D.; Propp, William Alan

1998-01-01

A system for applying textile treatment compositions to textile materials. A conduit member is provided which includes a passageway having a first end, a second end, and a medial portion with a constricted (narrowed) region. The passageway may include at least one baffle having an opening therethrough. A yarn strand is then moved through the passageway. A textile treatment composition (a sizing agent or dye) dissolved in a carrier medium (a supercritical fluid or liquified gas) is thereafter introduced into the constricted region, preferably at an acute angle relative to the passageway. The carrier medium expands inside the passageway which causes delivery of the treatment composition to the yarn. The treated yarn then passes through the baffle (if used) which facilitates drying of the yarn. During this process, a carrier gas can be introduced into the passageway to ensure the production of a smooth, dry product.

Interstrand contact resistances of Bi-2212 Rutherford cables for SMES

NASA Astrophysics Data System (ADS)

Kawagoe, A.; Kawabata, Y.; Sumiyoshi, F.; Nagaya, S.; Hirano, N.

2006-10-01

Interstrand contact resistances of Bi-2212 Rutherford cables for SMES coils were evaluated from a comparison between measured data and 2D-FEM analyses on interstrand coupling losses in these cables. The cables were composed of 30 non-twisted Bi-2212 strands with a diameter of 0.81 mm and a cable twist pitch of 90 mm. Three samples were measured; one of them had NiCr cores and the others had no cores. One of the latter two samples repeatedly experienced bending. The interstrand coupling losses were measured in liquid helium for the straight samples under transverse ac ripple magnetic fields superposed on dc bias magnetic fields. The transverse magnetic field was applied to the samples in directions both perpendicular and parallel to the flat face of the cable. The effect of the bending on the interstrand coupling losses could be neglected for the non-cored samples. The interstrand coupling losses of NiCr cored sample decreased by about 30% compared with the non-cored samples, in case the direction of the transverse magnetic fields applied to the cable is perpendicular to the flat face of the cable. Using these results and 2D-FEM analyses, taking into account that interstrand contact conditions vary from the center to the edge in the cross-section of cables, gave us the conclusion that the between side-by-side strands contact with metallurgical bond only in both edges of the cables.

Gas storage and separation by electric field swing adsorption

DOEpatents

Currier, Robert P; Obrey, Stephen J; Devlin, David J; Sansinena, Jose Maria

2013-05-28

Gases are stored, separated, and/or concentrated. An electric field is applied across a porous dielectric adsorbent material. A gas component from a gas mixture may be selectively separated inside the energized dielectric. Gas is stored in the energized dielectric for as long as the dielectric is energized. The energized dielectric selectively separates, or concentrates, a gas component of the gas mixture. When the potential is removed, gas from inside the dielectric is released.

RNA Nanostructures – Methods and Protocols | Center for Cancer Research

Cancer.gov

RNA nanotechnology is a young field with many potential applications. The goal is to utilize designed RNA strands, such that the obtained constructs have specific properties in terms of shape and functionality. RNA has potential functionalities that are comparable to that of proteins, but possesses (compared to proteins) simpler design principles akin to DNA. The promise is

Double strand RNA-mediated RNA interference through feeding in larval gypsy moth, Lymantria dispar (Lepidoptera: Erebidae)

USDA-ARS?s Scientific Manuscript database

RNA interference (RNAi) has gained popularity in several fields of research, silencing targeted genes by degradation of RNA. The objective of this study was to develop RNAi for use as a molecular tool in the control of the invasive pest Lymantria dispar (Lepidoptera: Erebidae), gypsy moth, which ha...

Moisture Performance of Energy-Efficient and Conventional Wood-Frame Wall Assemblies in a Mixed-Humid Climate

Treesearch

Samuel Glass; Vladimir Kochkin; S. Drumheller; Lance Barta

2015-01-01

Long-term moisture performance is a critical consideration for design and construction of building envelopes in energy-efficient buildings, yet field measurements of moisture characteristics for highly insulated wood-frame walls in mixed-humid climates are lacking. Temperature, relative humidity, and moisture content of wood framing and oriented strand board (OSB)...

Field instrumentation and measured response of the I-295 cable-stayed bridge : interim report on construction period strains in cable stays.

DOT National Transportation Integrated Search

1991-01-01

During the construction of the I-295 cable-stayed bridge, a number of the stays on the main span cantilever were instrumented with electrical resistance strain gages mounted directly on the wires of the seven-wire strands making up the stay cables. M...

SCDC Spanish Curricula Units. Social Science Strand, Unit 7, Grade 3, Teacher's Guide--Multi-Ethnic Edition.

ERIC Educational Resources Information Center

Spanish Curricula Development Center, Miami Beach, FL.

Expanding the conceptual field of the child from his neighborhood to the total community, this social science unit for Spanish-speaking third graders presents instructional and assessment activities in kits 25-28. Activities address four spiraling questions pertaining to the elements, wants and needs, change occurrence, and results of change.…

Agarose Gel Electrophoresis System in the Classroom: Detection of DNA Strand Breaks through the Alteration of Plasmid Topology

ERIC Educational Resources Information Center

De Mattos, J. C. P.; Dantas, F. J. S.; Caldeira-de-Araujo, A.; Moraes, M. O.

2004-01-01

Good quality scientific teaching depends on the ability of researchers to translate laboratory experiments into high school and undergraduate classes, bridging the advanced and basic science with common knowledge. A fast-growing field in biomedical sciences is oxidative stress, which has been associated to several diseases, including cancer and…

Different Views on Digital Scholarship: Separate Worlds or Cohesive Research Field?

ERIC Educational Resources Information Center

Raffaghelli, Juliana E.; Cucchiara, Stefania; Manganello, Flavio; Persico, Donatella

2016-01-01

This article presents a systematic review of the literature on Digital Scholarship, aimed at better understanding the collocation of this research area at the crossroad of several disciplines and strands of research. The authors analysed 45 articles in order to draw a picture of research in this area. In the first phase, the articles were…

SCDC Spanish Curricula Units. Social Science Strand, Unit 2, Grade One, Teacher's Guide--Multi-Ethnic Edition.

ERIC Educational Resources Information Center

Spanish Curricula Development Center, Miami Beach, FL.

Building on a unit designed to help first graders adjust to the classroom environment, this teacher's guide for the second bilingual social science instructional unit includes material which expands the conceptual field of the child to the family. The Spanish-English guide presents instructional and assessment activities for kits five through…

A Learning Architecture: How School Leaders Can Design for Learning Social Justice

ERIC Educational Resources Information Center

Scanlan, Martin

2013-01-01

Purpose: The field of socially just educational leadership focuses on reducing inequities within schools. The purpose of this article is to illustrate how one strand of social learning theory, communities of practice, can serve as a powerful tool for analyzing learning within a school ostensibly pursuing social justice. The author employs a core…

Development of a Random Field Model for Gas Plume Detection in Multiple LWIR Images.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Heasler, Patrick G.

This report develops a random field model that describes gas plumes in LWIR remote sensing images. The random field model serves as a prior distribution that can be combined with LWIR data to produce a posterior that determines the probability that a gas plume exists in the scene and also maps the most probable location of any plume. The random field model is intended to work with a single pixel regression estimator--a regression model that estimates gas concentration on an individual pixel basis.

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

... strand (``PC strand'') from the People's Republic of China (``PRC''). On June 22, 2010, the ITC notified... investigation of PC strand from the PRC. See Prestressed Concrete Steel Wire Strand From the People's Republic... Determination''). Scope of the Order The scope of this investigation consists of PC strand, produced from wire...

Deep microbial life in the Altmark natural gas reservoir: baseline characterization prior CO2 injection

NASA Astrophysics Data System (ADS)

Morozova, Daria; Shaheed, Mina; Vieth, Andrea; Krüger, Martin; Kock, Dagmar; Würdemann, Hilke

2010-05-01

Within the framework of the CLEAN project (CO2 Largescale Enhanced gas recovery in the Altmark Natural gas field) technical basics with special emphasis on process monitoring are explored by injecting CO2 into a gas reservoir. Our study focuses on the investigation of the in-situ microbial community of the Rotliegend natural gas reservoir in the Altmark, located south of the city Salzwedel, Germany. In order to characterize the microbial life in the extreme habitat we aim to localize and identify microbes including their metabolism influencing the creation and dissolution of minerals. The ability of microorganisms to speed up dissolution and formation of minerals might result in changes of the local permeability and the long-term safety of CO2 storage. However, geology, structure and chemistry of the reservoir rock and the cap rock as well as interaction with saline formation water and natural gases and the injected CO2 affect the microbial community composition and activity. The reservoir located at the depth of about 3500m, is characterised by high salinity fluid and temperatures up to 127° C. It represents an extreme environment for microbial life and therefore the main focus is on hyperthermophilic, halophilic anaerobic microorganisms. In consequence of the injection of large amounts of CO2 in the course of a commercial EGR (Enhanced Gas Recovery) the environmental conditions (e.g. pH, temperature, pressure and solubility of minerals) for the autochthonous microorganisms will change. Genetic profiling of amplified 16S rRNA genes are applied for detecting structural changes in the community by using PCR- SSCP (PCR-Single-Strand-Conformation Polymorphism) and DGGE (Denaturing Gradient Gel Electrophoresis). First results of the baseline survey indicate the presence of microorganisms similar to representatives from other saline, hot, anoxic, deep environments. However, due to the hypersaline and hyperthermophilic reservoir conditions, cell numbers are low, so that the quantification of those microorganisms as well as the determination of microbial activity was not yet possible. Microbial monitoring methods have to be further developed to study microbial activities under these extreme conditions to access their influence on the EGR technique and on enhancing the long term safety of the process by fixation of carbon dioxide by precipitation of carbonates. We would like to thank GDF SUEZ for providing the data for the Rotliegend reservoir, sample material and enabling sampling campaigns. The CLEAN project is funded by the German Federal Ministry of Education and Research (BMBF) in the frame of the Geotechnologien Program.

Autonomous parvovirus LuIII encapsidates equal amounts of plus and minus DNA strands

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bates, R.C.; Snyder, C.E.; Banerjee, P.T.

1984-02-01

Autonomous parvoviruses are thought to uniquely encapsidate single-stranded DNA of minus polarity. In contrast, the defective adeno-associated viruses separately encapsidate equal amounts of plus and minus DNA strands. The uniqueness of minus strand encapsidation is reexamined for the autonomous parvoviruses. Although it was found that Kilham rat virus and H-1 virus encapsidate varying but small amounts of complementary-strand DNA, it was unexpected to find that LuIII virus encapsidated equal amounts of plus and minus DNA. The extracted LuIII DNA possessed properties of double-stranded replicative-form DNA, including insensitivity to S1 endonuclease, cleavage by restriction enzymes, and conversion to unit-length, single-stranded DNAmore » when electrophoresed under denaturing conditions. However, the inability of this DNA to form single-stranded DNA circles when denatured and then renatured in the presence of formamide and the lack of double-stranded DNA circle formation after treatment with exonuclease III and reannealing shows a lack of sequence homology of the 3' and 5' termini of LuIII DNA, in contrast to adeno-associated virus DNA. Digestion of LuIII double-stranded DNA with EcoRI and HincII and separation of plus and minus DNA strands on composite agarose-acrylamide gels identified a heterogeneity present only in the plus DNA strand. These results suggest that strand specificity of viral DNA encapsidation is not a useful property for differentiation between the autonomous and defective parvoviruses. Furthermore, encapsidation by LuIII of equal amounts of complementary DNA strands in contrast to encapsidation of minus strands by H-1 virus, when propagated in the same host cell type, suggests that selection of strands for encapsidation is a virus-coded rather than host-controlled event.« less

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. Copyright © 2012 Elsevier Ltd. All rights reserved.

Triple Helix Formation in a Topologically Controlled DNA Nanosystem.

PubMed

Yamagata, Yutaro; Emura, Tomoko; Hidaka, Kumi; Sugiyama, Hiroshi; Endo, Masayuki

2016-04-11

In the present study, we demonstrate single-molecule imaging of triple helix formation in DNA nanostructures. The binding of the single-molecule third strand to double-stranded DNA in a DNA origami frame was examined using two different types of triplet base pairs. The target DNA strand and the third strand were incorporated into the DNA frame, and the binding of the third strand was controlled by the formation of Watson-Crick base pairing. Triple helix formation was monitored by observing the structural changes in the incorporated DNA strands. It was also examined using a photocaged third strand wherein the binding of the third strand was directly observed using high-speed atomic force microscopy during photoirradiation. We found that the binding of the third strand could be controlled by regulating duplex formation and the uncaging of the photocaged strands in the designed nanospace. © 2016 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

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

Strand-Specific Analysis of DNA Synthesis and Proteins Association with DNA Replication Forks in Budding Yeast.

PubMed

Yu, Chuanhe; Gan, Haiyun; Zhang, Zhiguo

2018-01-01

DNA replication initiates at DNA replication origins after unwinding of double-strand DNA(dsDNA) by replicative helicase to generate single-stranded DNA (ssDNA) templates for the continuous synthesis of leading-strand and the discontinuous synthesis of lagging-strand. Therefore, methods capable of detecting strand-specific information will likely yield insight into the association of proteins at leading and lagging strand of DNA replication forks and the regulation of leading and lagging strand synthesis during DNA replication. The enrichment and Sequencing of Protein-Associated Nascent DNA (eSPAN), which measure the relative amounts of proteins at nascent leading and lagging strands of DNA replication forks, is a step-wise procedure involving the chromatin immunoprecipitation (ChIP) of a protein of interest followed by the enrichment of protein-associated nascent DNA through BrdU immunoprecipitation. The isolated ssDNA is then subjected to strand-specific sequencing. This method can detect whether a protein is enriched at leading or lagging strand of DNA replication forks. In addition to eSPAN, two other strand-specific methods, (ChIP-ssSeq), which detects potential protein-ssDNA binding and BrdU-IP-ssSeq, which can measure synthesis of both leading and lagging strand, were developed along the way. These methods can provide strand-specific and complementary information about the association of the target protein with DNA replication forks as well as synthesis of leading and lagging strands genome wide. Below, we describe the detailed eSPAN, ChIP-ssSeq, and BrdU-IP-ssSeq protocols.

Detection of hydrocarbon microseepage in a rain forest environment (Jurua Gas field, northern Brazil) using Landsat MSS data

DOE Office of Scientific and Technical Information (OSTI.GOV)

Miranda, F.P.; Cunha, F.M.B.

1990-05-01

The Jurua gas field is the first important hydrocarbon accumulation found in the jungle-covered Solimoes basin. The tectonic framework in this area is characterized by a right-lateral transpressional zone (Jurua structural trend). Hydrocarbon traps are anticlines developed along the upthrown block of a reverse fault. The prospective 2,200-m-thick Paleozoic section is unconformably covered by a 2,800-m-thick pile of Mesozoic and Cenozoic continental sediments. Anomalous concentrations of hydrocarbons (C{sub 2}-C{sub 4}) in soil samples are concordantly aligned with the trace of the reverse fault crossing the gas field, indicating that this feature acted as a conduit for hydrocarbon microseepage. Gas-producing wellsmore » are located over a tabular watershed which coincides with the northeast-southwest Jurua structural trend. An unsupervised classification of Landsat MSS data over the gas field area reveals that one spectral class of vegetation is aligned with the Jurua structural trend. Field checking shows that the vegetation near the gas-producing well 1-JR-1-AM is not as dense as the forest outside the limits of the Jurua gas field. Two geologic factors may account for the vegetation anomaly over the gas field. (1) The northeast-southwest tabular watershed corresponds to a Pleistocene erosional surface associated with weathering products such as bauxite and laterite. The resulting soil is impermeable and low in nutrients. (2) The spectral behavior of vegetation may represent the response of plants to long-term anaerobic soil conditions brought about by gas leakage from the Paleozoic reservoir.« less

DOE Office of Scientific and Technical Information (OSTI.GOV)

Golyatina, R. I.; Maiorov, S. A., E-mail: mayorov-sa@mail.ru

The drift velocities of noble-gas and mercury ions in a constant homogeneous electric field are calculated using Monte Carlo simulations. The ion mobility is analyzed as a function of the field strength and gas temperature. The fitting parameters for calculating the drift velocity by the Frost formula at gas temperatures of 4.2, 77, 300, 1000, and 2000 K are obtained. A general approximate formula for the drift velocity as a function of the reduced field and gas temperature is derived.

Mississippi exploration field trials using microbial, radiometrics, free soil gas, and other techniques

DOE Office of Scientific and Technical Information (OSTI.GOV)

Moody, J.S.; Brown, L.R.; Thieling, S.C.

1995-12-31

The Mississippi Office of Geology has conducted field trials using the surface exploration techniques of geomicrobial, radiometrics, and free soil gas. The objective of these trials is to determine if Mississippi oil and gas fields have surface hydrocarbon expression resulting from vertical microseepage migration. Six fields have been surveyed ranging in depth from 3,330 ft to 18,500 ft. The fields differ in trapping styles and hydrocarbon type. The results so far indicate that these fields do have a surface expression and that geomicrobial analysis as well as radiometrics and free soil gas can detect hydrocarbon microseepage from pressurized reservoirs. Allmore » three exploration techniques located the reservoirs independent of depth, hydrocarbon type, or trapping style.« less

Identification of cis-acting elements on positive-strand subgenomic mRNA required for the synthesis of negative-strand counterpart in bovine coronavirus.

PubMed

Yeh, Po-Yuan; Wu, Hung-Yi

2014-07-30

It has been demonstrated that, in addition to genomic RNA, sgmRNA is able to serve as a template for the synthesis of the negative-strand [(-)-strand] complement. However, the cis-acting elements on the positive-strand [(+)-strand] sgmRNA required for (-)-strand sgmRNA synthesis have not yet been systematically identified. In this study, we employed real-time quantitative reverse transcription polymerase chain reaction to analyze the cis-acting elements on bovine coronavirus (BCoV) sgmRNA 7 required for the synthesis of its (-)-strand counterpart by deletion mutagenesis. The major findings are as follows. (1) Deletion of the 5'-terminal leader sequence on sgmRNA 7 decreased the synthesis of the (-)-strand sgmRNA complement. (2) Deletions of the 3' untranslated region (UTR) bulged stem-loop showed no effect on (-)-strand sgmRNA synthesis; however, deletion of the 3' UTR pseudoknot decreased the yield of (-)-strand sgmRNA. (3) Nucleotides positioned from -15 to -34 of the sgmRNA 7 3'-terminal region are required for efficient (-)-strand sgmRNA synthesis. (4) Nucleotide species at the 3'-most position (-1) of sgmRNA 7 is correlated to the efficiency of (-)-strand sgmRNA synthesis. These results together suggest, in principle, that the 5'- and 3'-terminal sequences on sgmRNA 7 harbor cis-acting elements are critical for efficient (-)-strand sgmRNA synthesis in BCoV.

Unification of the Poincaré group with BRST and Parisi-Sourlas supersymmetries

NASA Astrophysics Data System (ADS)

Neveu, A.; West, P.

1986-12-01

The principles of quantum mechanics are used to derive the second-quantized field theory from the classical point particle. The fields of the field theory inevitably depend on two extra bosonic and two extra anticommuting coordinates. Previous treatments have used incorrect choices to fix the gauge for reprametrization invariance. The second-quantized BRST action is invariant under the supergroup IOSp(D, 2/2) which contains the Poincaré group as well as Parisi-Sourlas supersymmetries. One of the extra bosonic coordinates is the remnant for the point particle of a string length. Permanent address: King's College, Strand, London WC2R 2LS, UK.

On the central charge for the W algebras

NASA Astrophysics Data System (ADS)

Hornfeck, K.

1991-02-01

For the W algebra that is built besides by the stress-energy tensor T by one additional field W we translate the (WWW) Jacobi-identity (that restricts in general the allowed values for the central charge) into a set of conditions on the structure constants CWWΦ and CΦWW with quasi-primary fields Φ. For the case where the additional field has half-integer dimension >3/2 we give a restriction on the possible central charges that includes that in this case c must be less than one. Address after 1 November 1990: Department of Mathematics, King's College, Strand, London WC2R 2LS, UK.

Coils of Magnetic Field Lines

NASA Image and Video Library

2017-06-27

A smallish solar filament looks like it collapsed into the sun and set off a minor eruption that hurled plasma into space (June 20, 2017). Then, the disrupted magnetic field immediately began to reorganize itself, hence the bright series of spirals coiling up over that area. The magnetic field lines are made visible in extreme ultraviolet light as charged particles spin along them. Also of interest are the darker, cooler strands of plasma being pulled and twisted at the edge of the sun just below the active region. The activity here is in a 21-hour period. Movies are available at https://photojournal.jpl.nasa.gov/catalog/PIA21764

76 FR 78636 - Southern Star Central Gas Pipeline, Inc.; Supplemental Notice of Intent To Prepare an...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-19

... the storage field. Pursuant to its blanket certificate, within 6 months of the receipt of the... Proposed Alden Gas Storage Field Expansion Project and Request for Comments On Environmental Issues As... environmental impacts of the Alden Gas Storage Field Expansion Project, involving the expansion of the...

Previously unrecognized now-inactive strand of the North Anatolian fault in the Thrace basin

DOE Office of Scientific and Technical Information (OSTI.GOV)

Perincek, D.

1988-08-01

The North Anatolian fault is a major 1,200 km-long transform fault bounding the Anatolian plate to the north. It formed in late middle Miocene time as a broad shear zone with a number of strands splaying westward in a horsetail fashion. Later, movement became localized along the stem, and the southerly and northerly splays became inactive. One such right-lateral, now-inactive splay is the west-northwest-striking Thrace strike-slip fault system, consisting of three subparallel strike-slip faults. From north to south these are the Kirklareli, Lueleburgaz, and Babaeski fault zones, extending {plus minus} 130 km along the strike. The Thrace fault zone probablymore » connected with the presently active northern strand of the North Anatolian fault in the Sea of Marmara in the southeast and may have joined the Plovdiv graben zone in Bulgaria in the northwest. The Thrace basin in which the Thrace fault system is located, is Cenozoic with a sedimentary basin fill from middle Eocene to Pliocene. The Thrace fault system formed in pre-Pliocene time and had become inactive by the Pliocene. Strike-slip fault zones with normal and reverse separation are detected by seismic reflection profiles and subsurface data. Releasing bend extensional structures (e.g., near the town of Lueleburgaz) and restraining bend compressional structures (near Vakiflar-1 well) are abundant on the fault zones. Umurca and Hamitabad fields are en echelon structures on the Lueleburgaz fault zone. The Thrace strike-slip fault system has itself a horsetail shape, the various strands of which become younger southward. The entire system died before the Pliocene, and motion on the North Anatolian fault zone began to be accommodated in the Sea of Marmara region. Thus the Thrace fault system represents the oldest strand of the North Anatolian fault in the west.« less

Energy insurance for Anchorage, Alaska - Beluga river gas field, Cook Inlet

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stone, N.D.; Lindblom, R.G.

1987-05-01

The Beluga River gas field is the primary energy source for Anchorage, Alaska. The field is located 40 mi west of Anchorage astride the northwest shoreline of the Cook Inlet. Gas was discovered in December 1962 by Chevron's Beluga River unit (BRU) 1 well in section 35, T13N, R10W, S.B. and M. There are 16 producing wells in the field capable of a total gas potential of 140,000 MCFD. The current production averages 75,000 MCFD and the field has produced 220 BCF gas. Chevron, Shell, and ARCO have equal interests in the field. The Beluga River unit was formed inmore » 1962 with Chevron as operator. The produced gas is sold to the Chugach Electric Company and the Enstar Gas Company, both Anchorage-based utilities. The gas accumulation is trapped by a doubly plunging, slightly asymmetric anticlinal fold trending northeast-southwest. Gas is found from 3000 to 6000 ft vertical depth in sands within the lower Sterling (Pliocene) and Beluga River (upper Miocene) Formations. Reservoir sands range in thickness from 5 to 85 ft with average porosities of 24 to 30%. The Sterling sands were deposited in broad sand channels in a fluvial-deltaic setting, whereas Beluga sands were deposited in a high-energy fluvial environment in shifting stream courses. The use of the wireline repeat formation tester has aided in correlation, evaluation, and management of the multiple sand reservoirs. New gas sand reservoirs and partly depleted reservoirs are recognized, enabling completion from reservoirs of similar pressures and reducing risks associated with cross flow between reservoirs.« less

Biofilm formation on stainless steel and gold wires for bonded retainers in vitro and in vivo and their susceptibility to oral antimicrobials.

PubMed

Jongsma, Marije A; Pelser, Floris D H; van der Mei, Henny C; Atema-Smit, Jelly; van de Belt-Gritter, Betsy; Busscher, Henk J; Ren, Yijin

2013-05-01

Bonded retainers are used in orthodontics to maintain treatment result. Retention wires are prone to biofilm formation and cause gingival recession, bleeding on probing and increased pocket depths near bonded retainers. In this study, we compare in vitro and in vivo biofilm formation on different wires used for bonded retainers and the susceptibility of in vitro biofilms to oral antimicrobials. Orthodontic wires were exposed to saliva, and in vitro biofilm formation was evaluated using plate counting and live/dead staining, together with effects of exposure to toothpaste slurry alone or followed by antimicrobial mouthrinse application. Wires were also placed intra-orally for 72 h in human volunteers and undisturbed biofilm formation was compared by plate counting and live/dead staining, as well as by denaturing gradient gel electrophoresis for compositional differences in biofilms. Single-strand wires attracted only slightly less biofilm in vitro than multi-strand wires. Biofilms on stainless steel single-strand wires however, were much more susceptible to antimicrobials from toothpaste slurries and mouthrinses than on single-strand gold wires and biofilms on multi-strand wires. Also, in vivo significantly less biofilm was found on single-strand than on multi-strand wires. Microbial composition of biofilms was more dependent on the volunteer involved than on wire type. Biofilms on single-strand stainless steel wires attract less biofilm in vitro and are more susceptible to antimicrobials than on multi-strand wires. Also in vivo, single-strand wires attract less biofilm than multi-strand ones. Use of single-strand wires is preferred over multi-strand wires, not because they attract less biofilm, but because biofilms on single-strand wires are not protected against antimicrobials as in crevices and niches as on multi-strand wires.

Strand displacement by DNA polymerase III occurs through a tau-psi-chi link to single-stranded DNA-binding protein coating the lagging strand template.

PubMed

Yuan, Quan; McHenry, Charles S

2009-11-13

In addition to the well characterized processive replication reaction catalyzed by the DNA polymerase III holoenzyme on single-stranded DNA templates, the enzyme possesses an intrinsic strand displacement activity on flapped templates. The strand displacement activity is distinguished from the single-stranded DNA-templated reaction by a high dependence upon single-stranded DNA binding protein and an inability of gamma-complex to support the reaction in the absence of tau. However, if gamma-complex is present to load beta(2), a truncated tau protein containing only domains III-V will suffice. This truncated protein is sufficient to bind both the alpha subunit of DNA polymerase (Pol) III and chipsi. This is reminiscent of the minimal requirements for Pol III to replicate short single-stranded DNA-binding protein (SSB)-coated templates where tau is only required to serve as a scaffold to hold Pol III and chi in the same complex (Glover, B., and McHenry, C. (1998) J. Biol. Chem. 273, 23476-23484). We propose a model in which strand displacement by DNA polymerase III holoenzyme depends upon a Pol III-tau-psi-chi-SSB binding network, where SSB is bound to the displaced strand, stabilizing the Pol III-template interaction. The same interaction network is probably important for stabilizing the leading strand polymerase interactions with authentic replication forks. The specificity constant (k(cat)/K(m)) for the strand displacement reaction is approximately 300-fold less favorable than reactions on single-stranded templates and proceeds with a slower rate (150 nucleotides/s) and only moderate processivity (approximately 300 nucleotides). PriA, the initiator of replication restart on collapsed or misassembled replication forks, blocks the strand displacement reaction, even if added to an ongoing reaction.

DNA Damage Response and Radiosensitivity of Immune Cells from Subjects Undergoing Confinement in the NASA Human Exploration Research Analog

NASA Technical Reports Server (NTRS)

Moreno-Villanueva, Maria

2017-01-01

The Human Exploration Research Analog (HERA) represents an analog for simulation of isolation, confinement and remote conditions of mission exploration scenarios. HERA aims at investigating team performance and cooperation, reaction to stress, signs of early depression, anxiety and anger and their impact on human health. HERA is a collaborative project involving experts in different fields. Not only psychological but also clinical biomarkers of stress, e.g. adrenaline has been measured. It is known that stress hormones induce DNA strand breaks thus, within this project, my tasks was to determine the level of DNA strand breaks as well as expression of genes involved in DNA damage response in immune cells obtained from HERA subjects. Furthermore, the sensitivity of the cells to ex vivo radiation was also assessed.

Species-specific Typing of DNA Based on Palindrome Frequency Patterns

PubMed Central

Lamprea-Burgunder, Estelle; Ludin, Philipp; Mäser, Pascal

2011-01-01

DNA in its natural, double-stranded form may contain palindromes, sequences which read the same from either side because they are identical to their reverse complement on the sister strand. Short palindromes are underrepresented in all kinds of genomes. The frequency distribution of short palindromes exhibits more than twice the inter-species variance of non-palindromic sequences, which renders palindromes optimally suited for the typing of DNA. Here, we show that based on palindrome frequency, DNA sequences can be discriminated to the level of species of origin. By plotting the ratios of actual occurrence to expectancy, we generate palindrome frequency patterns that allow to cluster different sequences of the same genome and to assign plasmids, and in some cases even viruses to their respective host genomes. This finding will be of use in the growing field of metagenomics. PMID:21429991

Nanoflare Heating of Solar and Stellar Coronae

NASA Technical Reports Server (NTRS)

Klimchuk, James A.

2010-01-01

A combination of observational and theoretical evidence suggests that much, and perhaps most, of the Sun's corona is heated by small unresolved bursts of energy called nanoflares. It seems likely that stellar coronae are heated in a similar fashion. Kanoflares are here taken to mean any impulsive heating that occurs within a magnetic flux strand. Many mechanisms have this property, including waves, but we prefer Parker's picture of tangled magnetic fields. The tangling is caused by turbulent convection at the stellar surface, and magnetic energy is released when the stresses reach a critical level. We suggest that the mechanism of energy release is the "secondary instability" of electric current sheets that are present at the boundaries between misaligned strands. I will discuss the collective evidence for solar and stellar nanoflares and hopefully present new results from the Solar Dynamics Observatory that was just launched.

Isothermal amplification detection of nucleic acids by a double-nicked beacon.

PubMed

Shi, Chao; Zhou, Meiling; Pan, Mei; Zhong, Guilin; Ma, Cuiping

2016-03-01

Isothermal and rapid amplification detection of nucleic acids is an important technology in environmental monitoring, foodborne pathogen detection, and point-of-care clinical diagnostics. Here we have developed a novel method of isothermal signal amplification for single-stranded DNA (ssDNA) detection. The ssDNA target could be used as an initiator, coupled with a double-nicked molecular beacon, to originate amplification cycles, achieving cascade signal amplification. In addition, the method showed good specificity and strong anti-jamming capability. Overall, it is a one-pot and isothermal strand displacement amplification method without the requirement of a stepwise procedure, which greatly simplifies the experimental procedure and decreases the probability of contamination of samples. With its advantages, the method would be very useful to detect nucleic acids in point-of-care or field use. Copyright © 2015 Elsevier Inc. All rights reserved.

Oil and Gas Supply Modeling

NASA Astrophysics Data System (ADS)

Gass, S. I.

1982-05-01

The theoretical and applied state of the art of oil and gas supply models was discussed. The following areas were addressed: the realities of oil and gas supply, prediction of oil and gas production, problems in oil and gas modeling, resource appraisal procedures, forecasting field size and production, investment and production strategies, estimating cost and production schedules for undiscovered fields, production regulations, resource data, sensitivity analysis of forecasts, econometric analysis of resource depletion, oil and gas finding rates, and various models of oil and gas supply.

Abdomen after a Puestow procedure: postoperative CT appearance, complications, and potential pitfalls.

PubMed

Freed, K S; Paulson, E K; Frederick, M G; Keogan, M T; Pappas, T N

1997-06-01

To evaluate the postoperative computed tomographic (CT) appearance, complications, and potential pitfalls after a Puestow procedure (lateral side-to-side pancreaticojejunostomy). Forty CT examinations were performed after the Puestow procedure in 20 patients. Images were retrospectively reviewed by three radiologists. The pancreaticojejunal anastomosis was identified at 30 examinations and was immediately anterior to the pancreatic body or tail. The anastomosis contained fluid or gas on 11 scans and oral contrast material on four scans. On 15 scans, the anastomosis appeared as collapsed bowel without gas, fluid, or oral contrast material. The Roux-en-Y loop was identified on 28 (70%) scans and contained fluid or gas on 16 scans and oral contrast material on six scans. The Roux-en-Y loop appeared as collapsed bowel on six scans. When the anastomosis or Roux-en-Y loop contained fluid and gas, the appearance mimicked that of a pancreatic or parapancreatic abscess. Peripancreatic stranding was present on 28 scans and was due to either ongoing pancreatitis or postoperative change. Complications included 15 transient fluid collections, three abscesses, four pseudocysts, one hematoma, and one small-bowel and Roux-en-Y obstruction. Knowledge of the anatomy after a Puestow procedure is essential for accurate interpretation of CT scans.

Middle and upper Miocene natural gas sands in onshore and offshore Alabama

DOE Office of Scientific and Technical Information (OSTI.GOV)

Mink, R.M.; Mancini, E.A.; Bearden, B.L.

1988-09-01

Thirty Miocene natural gas fields have been established in onshore and offshore Alabama since the discovery of Miocene gas in this area in 1979. These fields have produced over 16 bcf of natural gas from the middle Miocene Amos sand (24 fields) and upper Miocene Luce (3 fields), Escambia (1 field), and Meyer (3 fields) sands. Production from the Amos transgressive sands represents over 92% of the cumulative shallow Miocene natural gas produced in onshore and offshore Alabama. In addition, over 127 bcf of natural gas has been produced from upper Miocene sands in the Chandeleur area. The productive Miocenemore » section in onshore and coastal Alabama is interpreted to present transgressive marine shelf and regressive shoreface sands. The middle Miocene Amos sand bars are the most productive reservoirs of natural gas in onshore and coastal Alabama, principally due to the porous and permeable nature of these transgressive sands and their stratigraphic relationship to the underlying basinal clays in this area. In offshore Alabama the upper Miocene sands become thicker and are generally more porous and permeable than their onshore equivalents. Because of their deeper burial depth in offshore Alabama, these upper Miocene sands are associated with marine clays that are thermally more mature. The combination of reservoir grade lithologies associated with moderately mature petroleum source rocks enhances the natural gas potential of the upper Miocene sands in offshore Alabama.« less

Bite injuries of grey seals (Halichoerus grypus) on harbour porpoises (Phocoena phocoena).

PubMed

Jauniaux, Thierry; Garigliany, Mutien-Marie; Loos, Pauline; Bourgain, Jean-Luc; Bouveroux, Thibaut; Coignoul, Freddy; Haelters, Jan; Karpouzopoulos, Jacky; Pezeril, Sylvain; Desmecht, Daniel

2014-01-01

Bite-like skin lesions on harbour porpoises (Phocoena phocoena) have been suspected to be caused by grey seals (Halichoerus grypus), and a few field observations have been reported. Bite-like skin lesions observed on stranded animals were characterized by two main components: large flaps of loose or missing skin and blubber with frayed edges and puncture lesions. Definitive demonstration of predation by a grey seal was not reported so far in those stranded animals. In this study, five stranded porpoises with bite-like skin lesions were swabbed for genetic investigations. In addition, the head of a recently dead grey seal was used to mimic bite-like skin injuries on a porpoise carcass. Subsequently, the artificial skin injuries were swabbed, along with the gum of the seal used for inflicting them (positive controls). Total DNA was extracted from the swabs and was used to retrieve a fragment of mitochondrial DNA by PCR. Primers were designed to amplify a specific stretch of mitochondrial DNA known to differ between grey seals and porpoises. The amplicon targeted was successfully amplified from the positive control and from two of the stranded porpoises, and grey seal-specific mitochondrial DNA was retrieved from all those samples. We conclude that (1) it is possible to detect grey seal DNA from dead porpoises even after several days in seawater and (2) bite-like skin lesions found on dead porpoises definitively result from grey seals attacks. The attacks are most likely linked with predation although, in a number of cases, scavenging and aggressive behaviour cannot be excluded.

Optimizing the Point-Source Emission Rates and Geometries of Pheromone Mating Disruption Mega-Dispensers.

PubMed

Baker, T C; Myrick, A J; Park, K C

2016-09-01

High-emission-rate "mega-dispensers" have come into increasing use for sex pheromone mating disruption of moth pests over the past two decades. These commercially available dispensers successfully suppress mating and reduce crop damage when they are deployed at very low to moderate densities, ranging from 1 to 5/ha to 100-1000/ha, depending on the dispenser types and their corresponding pheromone emission rates. Whereas traditionally the emission rates for successful commercial mating disruption formulations have been measured in terms of amounts (usually milligram) emitted by the disruptant application per acre or hectare per day, we suggest that emission rates should be measured on a per-dispenser per-minute basis. In addition we suggest, because of our knowledge concerning upwind flight of male moths being dependent on contact with pheromone plume strands, that more attention needs to be paid to optimizing the flux within plume strands that shear off of any mating disruption dispenser's surface. By measuring the emission rates on a per-minute basis and measuring the plume strand concentrations emanating from the dispensers, it may help improve the ability of the dispensers to initiate upwind flight from males and initiate their habituation to the pheromone farther downwind than can otherwise be achieved. In addition, by optimizing plume strand flux by paying attention to the geometries and compactness of mating disruption mega-dispensers may help reduce the cost of mega-dispenser disruption formulations by improving their behavioral efficacy while maintaining field longevity and using lower loading rates per dispenser.

Accurate Quantification of microRNA via Single Strand Displacement Reaction on DNA Origami Motif

PubMed Central

Lou, Jingyu; Li, Weidong; Li, Sheng; Zhu, Hongxin; Yang, Lun; Zhang, Aiping; He, Lin; Li, Can

2013-01-01

DNA origami is an emerging technology that assembles hundreds of staple strands and one single-strand DNA into certain nanopattern. It has been widely used in various fields including detection of biological molecules such as DNA, RNA and proteins. MicroRNAs (miRNAs) play important roles in post-transcriptional gene repression as well as many other biological processes such as cell growth and differentiation. Alterations of miRNAs' expression contribute to many human diseases. However, it is still a challenge to quantitatively detect miRNAs by origami technology. In this study, we developed a novel approach based on streptavidin and quantum dots binding complex (STV-QDs) labeled single strand displacement reaction on DNA origami to quantitatively detect the concentration of miRNAs. We illustrated a linear relationship between the concentration of an exemplary miRNA as miRNA-133 and the STV-QDs hybridization efficiency; the results demonstrated that it is an accurate nano-scale miRNA quantifier motif. In addition, both symmetrical rectangular motif and asymmetrical China-map motif were tested. With significant linearity in both motifs, our experiments suggested that DNA Origami motif with arbitrary shape can be utilized in this method. Since this DNA origami-based method we developed owns the unique advantages of simple, time-and-material-saving, potentially multi-targets testing in one motif and relatively accurate for certain impurity samples as counted directly by atomic force microscopy rather than fluorescence signal detection, it may be widely used in quantification of miRNAs. PMID:23990889

An optimal method for producing low-stress fibre optic cables for astronomy

NASA Astrophysics Data System (ADS)

Murray, Graham; Tamura, Naoyuki; Takato, Naruhisa; Ekpenyong, Paul; Jenkins, Daniel; Leeson, Kim; Trezise, Shaun; Butterley, Timothy; Gunn, James; Ferreira, Decio; Oliveira, Ligia; Sodre, Laerte

2017-09-01

An increasing number of astronomical spectrographs employ optical fibres to collect and deliver light. For integral-field and high multiplex multi-object survey instruments, fibres offer unique flexibility in instrument design by enabling spectrographs to be located remotely from the telescope focal plane where the fibre inputs are deployed. Photon-starved astronomical observations demand optimum efficiency from the fibre system. In addition to intrinsic absorption loss in optical fibres, another loss mechanism, so-called focal ratio degradation (FRD) must be considered. A fundamental cause of FRD is stress, therefore low stress fibre cables that impart minimum FRD are essential. The FMOS fibre instrument for Subaru Telescope employed a highly effective cable solution developed at Durham University. The method has been applied again for the PFS project, this time in collaboration with a company, PPC Broadband Ltd. The process, planetary stranding, is adapted from the manufacture of large fibre-count, large diameter marine telecommunications cables. Fibre bundles describe helical paths through the cable, incorporating additional fibre per unit length. As a consequence fibre stress from tension and bend-induced `race-tracking' is minimised. In this paper stranding principles are explained, covering the fundamentals of stranded cable design. The authors describe the evolution of the stranding production line and the numerous steps in the manufacture of the PFS prototype cable. The results of optical verification tests are presented for each stage of cable production, confirming that the PFS prototype performs exceptionally well. The paper concludes with an outline of future on-telescope test plans.

Highly sensitive and selective microRNA detection based on DNA-bio-bar-code and enzyme-assisted strand cycle exponential signal amplification.

PubMed

Dong, Haifeng; Meng, Xiangdan; Dai, Wenhao; Cao, Yu; Lu, Huiting; Zhou, Shufeng; Zhang, Xueji

2015-04-21

Herein, a highly sensitive and selective microRNA (miRNA) detection strategy using DNA-bio-bar-code amplification (BCA) and Nb·BbvCI nicking enzyme-assisted strand cycle for exponential signal amplification was designed. The DNA-BCA system contains a locked nucleic acid (LNA) modified DNA probe for improving hybridization efficiency, while a signal reported molecular beacon (MB) with an endonuclease recognition site was designed for strand cycle amplification. In the presence of target miRNA, the oligonucleotides functionalized magnetic nanoprobe (MNP-DNA) and gold nanoprobe (AuNP-DNA) with numerous reported probes (RP) can hybridize with target miRNA, respectively, to form a sandwich structure. After sandwich structures were separated from the solution by the magnetic field, the RP were released under high temperature to recognize the MB and cleaved the hairpin DNA to induce the dissociation of RP. The dissociated RP then triggered the next strand cycle to produce exponential fluorescent signal amplification for miRNA detection. Under optimized conditions, the exponential signal amplification system shows a good linear range of 6 orders of magnitude (from 0.3 pM to 3 aM) with limit of detection (LOD) down to 52.5 zM, while the sandwich structure renders the system with high selectivity. Meanwhile, the feasibility of the proposed strategy for cell miRNA detection was confirmed by analyzing miRNA-21 in HeLa lysates. Given the high-performance for miRNA analysis, the strategy has a promising application in biological detection and in clinical diagnosis.

Higher 5-hydroxymethylcytosine identifies immortal DNA strand chromosomes in asymmetrically self-renewing distributed stem cells.

PubMed

Huh, Yang Hoon; Cohen, Justin; Sherley, James L

2013-10-15

Immortal strands are the targeted chromosomal DNA strands of nonrandom sister chromatid segregation, a mitotic chromosome segregation pattern unique to asymmetrically self-renewing distributed stem cells (DSCs). By nonrandom segregation, immortal DNA strands become the oldest DNA strands in asymmetrically self-renewing DSCs. Nonrandom segregation of immortal DNA strands may limit DSC mutagenesis, preserve DSC fate, and contribute to DSC aging. The mechanisms responsible for specification and maintenance of immortal DNA strands are unknown. To discover clues to these mechanisms, we investigated the 5-methylcytosine and 5-hydroxymethylcytosine (5hmC) content on chromosomes in mouse hair follicle DSCs during nonrandom segregation. Although 5-methylcytosine content did not differ significantly, the relative content of 5hmC was significantly higher in chromosomes containing immortal DNA strands than in opposed mitotic chromosomes containing younger mortal DNA strands. The difference in relative 5hmC content was caused by the loss of 5hmC from mortal chromosomes. These findings implicate higher 5hmC as a specific molecular determinant of immortal DNA strand chromosomes. Because 5hmC is an intermediate during DNA demethylation, we propose a ten-eleven translocase enzyme mechanism for both the specification and maintenance of nonrandomly segregated immortal DNA strands. The proposed mechanism reveals a means by which DSCs "know" the generational age of immortal DNA strands. The mechanism is supported by molecular expression data and accounts for the selection of newly replicated DNA strands when nonrandom segregation is initiated. These mechanistic insights also provide a possible basis for another characteristic property of immortal DNA strands, their guanine ribonucleotide dependency.

Prospects of developing the Shtokman and Prirazlomnoe Fields in the Barents Sea

DOE Office of Scientific and Technical Information (OSTI.GOV)

Dubin, I.B.

1994-09-01

Russia, having the world`s largest oil and gas resources on the shelf, exceeding 60 billion tons of hydrocarbons, has hardly begun to develop them. Such a situation developed because more than 95% of the oil and gas resources of the shelf of the Russian Federation are concentrated in arctic and Far Eastern seas with harsh natural and climatic conditions and require large and long-term capital investments. Nine oil and gas fields have been discovered on the shelf of arctic seas, including three unique ones: the Shtokman gas-condensate field in the Barents Sea with gas reserves of category C{sub 1} ofmore » 1.7 trillion m{sup 3} and of category C{sub 2} of 1.3 trillion m{sup 3}, Rusanov gas-condensate field, and the Leningrad gas field in the Kara Sea with estimated natural gas resources up to 4.0 trillion m{sup 3}. Furthermore, an oil field, the Prirazlomnoe, the recoverable reserves of which are estimated to be up to 70 million tons, was discovered in the Perchora Sea. To execute the orders of the government of the Russian Federation, in 1992 the Russian joint-stock company for developing the oil and gas resources of the continental shelf {open_quotes}Rosshelf{close_quotes} was created for exploration of useful resources on the continental shelf, their extraction and transportation, processing, and sale of the products, as well as design, construction, and manufacture of equipment needed for developing the fields on the basis of converting defence enterprises of the northwestern shipbuilding complex and design departments, institutes, organizations, and enterprises related to them.« less

A Novel Technique for Performing Space Based Radiation Dosimetry Using DNA-Results from GRaDEx-I and the Design of GRaDEx-II

NASA Technical Reports Server (NTRS)

Ritter, Joe; Branly, R.; Theodorakis, C.; Bickham, J.; Swartz, C.; Friedfeld, R.; Ackerman, E.; Carruthers, C.; DiGirolamo, A.; Faranda, J.

1999-01-01

Because of the large amounts of cosmic radiation in the space environment relative to that on earth, the effects of radiation on the physiology of astronauts is of major concern. Doses of radiation which can cause acute or chronic biological effects are to be avoided, therefore determination of the amount of radiation exposure encountered during space flight and assessment of its impact on biological systems is critical. Quantifying the radiation dosage and damage to biological systems, especially to humans during repetitive high altitude flight and during long duration space flight is important for several reasons. Radiation can cause altered biosynthesis and long term genotoxicity resulting in cancer and birth defects etc. Radiation damage to biological systems depends in a complex way on incident radiation species and their energy spectra. Typically non-biological, i.e. film or electronic monitoring systems with narrow energy band sensitivity are used to perform dosimetry and then results are extrapolated to biological models. For this reason it may be desirable to perform radiation dosimetry by using biological molecules e.g. DNA or RNA strands as passive sensors. A lightweight genotoxicology experiment was constructed to determine the degree to which in vitro naked DNA extracted from tissues of a variety of vertebrate organisms is damaged by exposure to radiation in a space environment. The DNA is assayed by means of agarose gel electrophoresis to determine damage such as strand breakage caused by high momentum particles and photons, and base oxidation caused by free radicals. The length distribution of DNA fragments is directly correlated with the radiation dose. It is hoped that a low mass, low cost, passive biological system to determine dose response relationship (increase in strand breaks with increase in exposure) can be developed to perform radiation dosimetry in support of long duration space flight, and to predict negative effects on biological systems (e.g. astronauts and greenhouses) in space. The payload was flown in a 2.5 cubic foot Get Away Special (GAS) container through NASA's GAS program. It was subjected to the environment of the space shuttle cargo bay for the duration of the STS-91 mission (9 days). Results of the genotoxicology and radiation dosimetry experiment (GRaDEx-1) as well as the design of an improved follow on payload are presented.

A Novel Technique for Performing Space Based Radiation Dosimetry Using DNA: Results from GRaDEx-I and the Design of GRaDEx-II

NASA Technical Reports Server (NTRS)

Ritter, Joe; Branly, R.; Theodorakis, C.; Bickham, J.; Swartz, C.; Friedfeld, R.; Ackerman, E.; Carruthers, C.; DiGirolamo, A.; Faranda, J.;

SCDC Spanish Curricula Units. Social Science Strand, Unit 4, Grade Two, Teacher's Guide.

ERIC Educational Resources Information Center

Spanish Curricula Development Center, Miami Beach, FL.

The Spanish-English teacher's guide to unit four of the bilingual social science program for second grade students contains instructional activities to expand the child's conceptual field to the neighborhood. Kits 13-16 include assessment activities; each kit is to be used for two to three weeks. Focus, objective, and materials are listed for each…

ICT and Initial Teacher Education: National Policies. OECD Education Working Papers, Number 61

ERIC Educational Resources Information Center

Rizza, Caroline

2011-01-01

This working paper aims to give an overview of the national policies that exist in the field of information and communication technology (ICT) and initial teacher education. Information on this topic was initially gathered via a survey, in the form of a country questionnaire, which was conducted as part of the analytical strand of the the…

Procedure for normalization of cDNA libraries

DOEpatents

Bonaldo, Maria DeFatima; Soares, Marcelo Bento

1997-01-01

This invention provides a method to normalize a cDNA library constructed in a vector capable of being converted to single-stranded circles and capable of producing complementary nucleic acid molecules to the single-stranded circles comprising: (a) converting the cDNA library in single-stranded circles; (b) generating complementary nucleic acid molecules to the single-stranded circles; (c) hybridizing the single-stranded circles converted in step (a) with complementary nucleic acid molecules of step (b) to produce partial duplexes to an appropriate Cot; (e) separating the unhybridized single-stranded circles from the hybridized single-stranded circles, thereby generating a normalized cDNA library.

Vacuum powder injector and method of impregnating fiber with powder

NASA Astrophysics Data System (ADS)

Working, Dennis C.

1993-05-01

A method and apparatus uniformly impregnate stranded material with dry powder such as low solubility, high melt flow polymer powder to produce, for example, composite prepregs. The stranded material is expanded in an impregnation chamber by an influx of air so that the powder, which may enter through the same inlet as the air, penetrates to the center of the stranded material. The stranded material then is contracted for holding the powder therein. The stranded material and powder may be pulled through the impregnation chamber in the same direction by vacuum. Larger particles of powder which do not fully penetrate the stranded material may be combed into the stranded material and powder which does not impregnate the stranded material may be collected and reused.

Vacuum powder injector and method of impregnating fiber with powder

NASA Technical Reports Server (NTRS)

Working, Dennis C. (Inventor)

1993-01-01

A method and apparatus uniformly impregnate stranded material with dry powder such as low solubility, high melt flow polymer powder to produce, for example, composite prepregs. The stranded material is expanded in an impregnation chamber by an influx of air so that the powder, which may enter through the same inlet as the air, penetrates to the center of the stranded material. The stranded material then is contracted for holding the powder therein. The stranded material and powder may be pulled through the impregnation chamber in the same direction by vacuum. Larger particles of powder which do not fully penetrate the stranded material may be combed into the stranded material and powder which does not impregnate the stranded material may be collected and reused.

3' Homologous Free Ends are Required for Stable Joint Molecule Formation by the RecA and Single-Stranded Binding Proteins of Escherichia coli

NASA Astrophysics Data System (ADS)

Konforti, Boyana B.; Davis, Ronald W.

1987-02-01

The RecA protein of Escherichia coli is important for genetic recombination in vivo and can promote synapsis and strand exchange in vitro. The DNA pairing and strand exchange reactions have been well characterized in reactions with circular single strands and linear duplexes, but little is known about these two processes using substrates more characteristic of those likely to exist in the cell. Single-stranded linear DNAs were prepared by separating strands of duplex molecules or by cleaving single-stranded circles at a unique restriction site created by annealing a short defined oligonucleotide to the circle. Analysis by gel electrophoresis and electron microscopy revealed that, in the presence of RecA and single-stranded binding proteins, a free 3' homologous end is essential for stable joint molecule formation between linear single-stranded and circular duplex DNA.

Determining orientation and direction of DNA sequences

DOEpatents

Goodwin, Edwin H.; Meyne, Julianne

2000-01-01

Determining orientation and direction of DNA sequences. A method by which fluorescence in situ hybridization can be made strand specific is described. Cell cultures are grown in a medium containing a halogenated nucleotide. The analog is partially incorporated in one DNA strand of each chromatid. This substitution takes place in opposite strands of the two sister chromatids. After staining with the fluorescent DNA-binding dye Hoechst 33258, cells are exposed to long-wavelength ultraviolet light which results in numerous strand nicks. These nicks enable the substituted strand to be denatured and solubilized by heat, treatment with high or low pH aqueous solutions, or by immersing the strands in 2.times.SSC (0.3M NaCl+0.03M sodium citrate), to name three procedures. It is unnecessary to enzymatically digest the strands using Exo III or another exonuclease in order to excise and solubilize nucleotides starting at the sites of the nicks. The denaturing/solubilizing process removes most of the substituted strand while leaving the prereplication strand largely intact. Hybridization of a single-stranded probe of a tandem repeat arranged in a head-to-tail orientation will result in hybridization only to the chromatid with the complementary strand present.

Single-cell template strand sequencing by Strand-seq enables the characterization of individual homologs.

PubMed

Sanders, Ashley D; Falconer, Ester; Hills, Mark; Spierings, Diana C J; Lansdorp, Peter M

2017-06-01

The ability to distinguish between genome sequences of homologous chromosomes in single cells is important for studies of copy-neutral genomic rearrangements (such as inversions and translocations), building chromosome-length haplotypes, refining genome assemblies, mapping sister chromatid exchange events and exploring cellular heterogeneity. Strand-seq is a single-cell sequencing technology that resolves the individual homologs within a cell by restricting sequence analysis to the DNA template strands used during DNA replication. This protocol, which takes up to 4 d to complete, relies on the directionality of DNA, in which each single strand of a DNA molecule is distinguished based on its 5'-3' orientation. Culturing cells in a thymidine analog for one round of cell division labels nascent DNA strands, allowing for their selective removal during genomic library construction. To preserve directionality of template strands, genomic preamplification is bypassed and labeled nascent strands are nicked and not amplified during library preparation. Each single-cell library is multiplexed for pooling and sequencing, and the resulting sequence data are aligned, mapping to either the minus or plus strand of the reference genome, to assign template strand states for each chromosome in the cell. The major adaptations to conventional single-cell sequencing protocols include harvesting of daughter cells after a single round of BrdU incorporation, bypassing of whole-genome amplification, and removal of the BrdU + strand during Strand-seq library preparation. By sequencing just template strands, the structure and identity of each homolog are preserved.

CTC1-mediated C-strand fill-in is an essential step in telomere length maintenance

PubMed Central

Feng, Xuyang; Hsu, Shih-Jui; Kasbek, Christopher; Chaiken, Mary

2017-01-01

Abstract To prevent progressive telomere shortening as a result of conventional DNA replication, new telomeric DNA must be added onto the chromosome end. The de novo DNA synthesis involves elongation of the G-rich strand of the telomere by telomerase. In human cells, the CST complex (CTC1-STN1-TEN1) also functions in telomere replication. CST first aids in duplication of the telomeric dsDNA. Then after telomerase has extended the G-rich strand, CST facilitates fill-in synthesis of the complementary C-strand. Here, we analyze telomere structure after disruption of human CTC1 and demonstrate that functional CST is essential for telomere length maintenance due to its role in mediating C-strand fill-in. Removal of CTC1 results in elongation of the 3΄ overhang on the G-rich strand. This leads to accumulation of RPA and telomeric DNA damage signaling. G-overhang length increases with time after CTC1 disruption and at early times net G-strand growth is apparent, indicating telomerase-mediated G-strand extension. In contrast, C-strand length decreases continuously, indicating a deficiency in C-strand fill-in synthesis. The lack of C-strand maintenance leads to gradual shortening of the telomeric dsDNA, similar to that observed in cells lacking telomerase. Thus, telomerase-mediated G-strand extension and CST-mediated C-strand fill-in are equally important for telomere length maintenance. PMID:28334750

Persistent organochlorine pollutants and toxaphene congener profiles in bottlenose dolphins (Tursiops truncatus) frequenting the Turtle/Brunswick River Estuary (TBRE) in coastal Georgia, USA.

PubMed

Pulster, Erin L; Smalling, Kelly L; Zolman, Eric; Schwacke, Lori; Maruya, Keith A

2009-07-01

Although the Turtle/Brunswick River Estuary (TBRE) in coastal Georgia (USA) is severely contaminated by persistent organochlorine pollutants (POPs), little information regarding POPs in higher-trophic-level biota in this system is available. In the present study, polychlorinated biphenyls (PCBs), organochlorine pesticides (OCPs; including DDTs, chlordanes, and mirex), and chlorinated monoterpenes (toxaphene) were measured using gas chromatography with electron-capture detection and gas chromatography with electron-capture negative ion mass spectrometry (GC-ECNI-MS) in blubber of free-ranging and stranded bottlenose dolphins (Tursiops truncatus). Mean total PCBs (78.6 +/- 32.4 microg/g lipid) and toxaphene (11.7 +/- 9.3 microg/g lipid) were significantly higher in dolphins sampled in the TBRE than in dolphins stranded near Savannah (GA, USA) 80 to 100 km to the north. Levels of OCPs were several-fold lower than levels of PCBs; moreover, PCBs comprised 81 and 67% of the total POP burden in TBRE and non-TBRE dolphins, respectively. Analyses with GC-ECNI-MS revealed that 2,2,5-endo,6-exo,8,8,9,10-octachlorobornane (P-42a), a major component in technical toxaphene and a major residue congener in local estuarine fish species, was the most abundant chlorobornane in both sets of blubber samples. Mean total POP concentrations (sum of PCBs, OCPs, and toxaphene) approached 100 microg/g lipid for the TBRE animals, well above published total PCB thresholds at which immunosuppresion and/or reproductive anomalies are thought to occur. These results indicate extended utilization of the highly contaminated TBRE as habitat for a group of coastal estuarine dolphins, and they further suggest that these animals may be at risk because of elevated POP concentrations.

Critical current studies of a HTS rectangular coil

NASA Astrophysics Data System (ADS)

Zhong, Z.; Chudy, M.; Ruiz, H. S.; Zhang, X.; Coombs, T.

2017-05-01

Nowadays, superconducting high field magnets are used in numerous applications due to their superior properties. High temperature superconductors (HTS) are usually used for production of circular pancake or racetrack coils. However different geometries of HTS coils might be required for some specific applications. In this study, the HTS coil wound on a rectangular frame was fully characterized in homogeneous DC background field. The study contains measurements of critical current angular dependencies. The critical current of the entire coil and two selected strands under different magnitudes and orientations of external magnetic fields are measured. The critical regions of the coil in different angular regimes are determined. This study brings better understanding of the in- field performance of HTS coils wound on frames with right-angles.

Kalimantan field development hikes gas supply for LNG export

DOE Office of Scientific and Technical Information (OSTI.GOV)

Suharmoko, G.R.

1991-10-14

This paper reports on the development of Tambora and Tunu gas fields in Kalimantan that have increased available gas supply for the export of liquefied natural gas (LNG) from Indonesia. The demand for LNG is increasing in the energy thirsty Far East market. And Indonesia, the world's largest exporter, is keeping pace by expanding the Bontang liquefaction plant in East Kalimantan. A fifth train, with a capacity of around 2.5 million tons/year, began operating in January 1990. Start-up of a sixth train, of identical capacity, is planned for January 1994. The Bontang plant is operated by PT Badak on behalfmore » of Pertamina, the Indonesian state oil and gas mining company. The feed to the fifth train comes primarily from the first-phase development of Total Indonesie's two gas fields, Tambora and Tunu. The sixth train will be fed by a second-phase development of the Tunu field.« less

Effect of Electric Field on Gas Hydrate Nucleation Kinetics: Evidence for the Enhanced Kinetics of Hydrate Nucleation by Negatively Charged Clay Surfaces.

PubMed

Park, Taehyung; Kwon, Tae-Hyuk

2018-03-06

Natural gas hydrates are found widely in oceanic clay-rich sediments, where clay-water interactions have a profound effect on the formation behavior of gas hydrates. However, it remains unclear why and how natural gas hydrates are formed in clay-rich sediments in spite of factors that limit gas hydrate formation, such as small pore size and high salinity. Herein, we show that polarized water molecules on clay surfaces clearly promote gas hydrate nucleation kinetics. When water molecules were polarized with an electric field of 10 4 V/m, gas hydrate nucleation occurred significantly faster with an induction time reduced by 5.8 times. Further, the presence of strongly polarized water layers at the water-gas interface hindered gas uptake and thus hydrate formation, when the electric field was applied prior to gas dissolution. Our findings expand our understanding of the formation habits of naturally occurring gas hydrates in clay-rich sedimentary deposits and provide insights into gas production from natural hydrate deposits.

Electric-field enhanced performance in catalysis and solid-state devices involving gases

DOEpatents

Blackburn, Bryan M.; Wachsman, Eric D.; Van Assche, IV, Frederick Martin

2015-05-19

Electrode configurations for electric-field enhanced performance in catalysis and solid-state devices involving gases are provided. According to an embodiment, electric-field electrodes can be incorporated in devices such as gas sensors and fuel cells to shape an electric field provided with respect to sensing electrodes for the gas sensors and surfaces of the fuel cells. The shaped electric fields can alter surface dynamics, system thermodynamics, reaction kinetics, and adsorption/desorption processes. In one embodiment, ring-shaped electric-field electrodes can be provided around sensing electrodes of a planar gas sensor.

A petroleum discovery-rate forecast revisited-The problem of field growth

USGS Publications Warehouse

Drew, L.J.; Schuenemeyer, J.H.

1992-01-01

A forecast of the future rates of discovery of crude oil and natural gas for the 123,027-km2 Miocene/Pliocene trend in the Gulf of Mexico was made in 1980. This forecast was evaluated in 1988 by comparing two sets of data: (1) the actual versus the forecasted number of fields discovered, and (2) the actual versus the forecasted volumes of crude oil and natural gas discovered with the drilling of 1,820 wildcat wells along the trend between January 1, 1977, and December 31, 1985. The forecast specified that this level of drilling would result in the discovery of 217 fields containing 1.78 billion barrels of oil equivalent; however, 238 fields containing 3.57 billion barrels of oil equivalent were actually discovered. This underestimation is attributed to biases introduced by field growth and, to a lesser degree, the artificially low, pre-1970's price of natural gas that prevented many smaller gas fields from being brought into production at the time of their discovery; most of these fields contained less than 50 billion cubic feet of producible natural gas. ?? 1992 Oxford University Press.

Exploration and development of natural gas, Pattani basin, Gulf of Thailand

DOE Office of Scientific and Technical Information (OSTI.GOV)

Lian, H.M.; Bradley, K.

The geology of the Gulf of Thailand features a series of north-south-trending ridges and linear, fault-bounded basins with a sedimentary section predominantly of upper Tertiary sediments. The Pattani basin, located near the geographic center of the Gulf of Thailand, contains up to 8 km of almost entirely nonmarine fluvial-deltaic sediments. The gas/condensate fields described in this paper are on the west flank of the Pattani basin. Gas reservoirs are thin, randomly distributed sandstone beds occurring between 1200 and 3000 m below sea level. At greater depths, very high temperatures cause a degradation of reservoir properties. The gas fields occur onmore » intensely faulted structures. The high fault density superimposed on the stratigraphic model limits the size of individual gas accumulations. Extensive three-dimensional seismic surveys were essential for delineating and developing these complex fields. An interactive computer system was used to interpret the 23,000 line-km of three-dimensional data. A new era in Thailand began when gas production commenced from Erawan field in August 1981. Baanpot, Satun, and Platong fields came on production between October 1983 and March 1985. In these four fields, 238 development wells have been drilled from 22 platforms. The wells can presently produce 475 MMCFGD, considerably in excess of Thailand's current requirements. The condensate ratios average 40 bbl/mmcf of gas. The commercial limits of each field have yet to be established. The advent of gas production has created a new industry in Thailand, with significant social and economic benefits to the country.« less

Higher 5-hydroxymethylcytosine identifies immortal DNA strand chromosomes in asymmetrically self-renewing distributed stem cells

PubMed Central

Huh, Yang Hoon; Cohen, Justin; Sherley, James L.

2013-01-01

Immortal strands are the targeted chromosomal DNA strands of nonrandom sister chromatid segregation, a mitotic chromosome segregation pattern unique to asymmetrically self-renewing distributed stem cells (DSCs). By nonrandom segregation, immortal DNA strands become the oldest DNA strands in asymmetrically self-renewing DSCs. Nonrandom segregation of immortal DNA strands may limit DSC mutagenesis, preserve DSC fate, and contribute to DSC aging. The mechanisms responsible for specification and maintenance of immortal DNA strands are unknown. To discover clues to these mechanisms, we investigated the 5-methylcytosine and 5-hydroxymethylcytosine (5hmC) content on chromosomes in mouse hair follicle DSCs during nonrandom segregation. Although 5-methylcytosine content did not differ significantly, the relative content of 5hmC was significantly higher in chromosomes containing immortal DNA strands than in opposed mitotic chromosomes containing younger mortal DNA strands. The difference in relative 5hmC content was caused by the loss of 5hmC from mortal chromosomes. These findings implicate higher 5hmC as a specific molecular determinant of immortal DNA strand chromosomes. Because 5hmC is an intermediate during DNA demethylation, we propose a ten-eleven translocase enzyme mechanism for both the specification and maintenance of nonrandomly segregated immortal DNA strands. The proposed mechanism reveals a means by which DSCs “know” the generational age of immortal DNA strands. The mechanism is supported by molecular expression data and accounts for the selection of newly replicated DNA strands when nonrandom segregation is initiated. These mechanistic insights also provide a possible basis for another characteristic property of immortal DNA strands, their guanine ribonucleotide dependency. PMID:24082118

Five-Strand versus Four-Strand Hamstring Tendon Graft Technique for Anterior Cruciate Ligament Reconstruction: A Biomechanical Comparison.

PubMed

Vaillant, Eric R; Parks, Brent G; Camire, Lyn M; Hinton, Richard Y

2017-11-01

The aim of this article is to compare diameter and stiffness, displacement, and strain in a five-strand versus four-strand hamstring graft for anterior cruciate ligament reconstruction. Eight matched pairs of lower extremities underwent four-strand or five-strand hamstring graft reconstruction. Diameter was significantly higher in the five-strand versus the four-strand construct ( p  = 0.002). No significant difference was found between the groups in construct displacement or stiffness. Significantly higher strain was observed in the inner limb versus the outer limb in the four-strand construct ( p  = 0.001) and in the inner limb versus the fifth limb in the 5-strand construct ( p  = 0.004). A fifth limb added to a four-strand hamstring graft significantly increased graft diameter but did not significantly change stiffness or displacement, suggesting that attachment of additional graft material via suture did not provide for full incorporation of the added limb into the graft at time zero. The inner limb in both constructs absorbed significantly greater load than did other limbs. The use of suture to attach additional material to a four-strand hamstring graft may not contribute to improved biomechanical qualities of the graft at time zero. Thieme Medical Publishers 333 Seventh Avenue, New York, NY 10001, USA.

Improving the environmental profile of wood panels via co-production of ethanol and acetic acid.

PubMed

Earles, J Mason; Halog, Anthony; Shaler, Stephen

2011-11-15

The oriented strand board (OSB) biorefinery is an emerging technology that could improve the building, transportation, and chemical sectors' environmental profiles. By adding a hot water extraction stage to conventional OSB panel manufacturing, hemicellulose polysaccharides can be extracted from wood strands and converted to renewably sourced ethanol and acetic acid. Replacing fossil-based gasoline and acetic acid has the potential to reduce greenhouse gas (GHG) emissions, among other possible impacts. At the same time, hemicellulose extraction could improve the environmental profile of OSB panels by reducing the level of volatile organic compounds (VOCs) emitted during manufacturing. In this study, the life cycle significance of such GHG, VOC, and other emission reductions was investigated. A process model was developed based on a mix of laboratory and industrial-level mass and energy flow data. Using these data a life cycle assessment (LCA) model was built. Sensitive process parameters were identified and used to develop a target production scenario for the OSB biorefinery. The findings suggest that the OSB biorefinery's deployment could substantially improve human and ecosystem health via reduction of select VOCs compared to conventionally produced OSB, gasoline, and acetic acid. Technological advancements are needed, however, to achieve desirable GHG reductions.

A Novel Computational Method to Reduce Leaky Reaction in DNA Strand Displacement.

PubMed

Li, Xin; Wang, Xun; Song, Tao; Lu, Wei; Chen, Zhihua; Shi, Xiaolong

2015-01-01

DNA strand displacement technique is widely used in DNA programming, DNA biosensors, and gene analysis. In DNA strand displacement, leaky reactions can cause DNA signals decay and detecting DNA signals fails. The mostly used method to avoid leakage is cleaning up after upstream leaky reactions, and it remains a challenge to develop reliable DNA strand displacement technique with low leakage. In this work, we address the challenge by experimentally evaluating the basic factors, including reaction time, ratio of reactants, and ion concentration to the leakage in DNA strand displacement. Specifically, fluorescent probes and a hairpin structure reporting DNA strand are designed to detect the output of DNA strand displacement, and thus can evaluate the leakage of DNA strand displacement reactions with different reaction time, ratios of reactants, and ion concentrations. From the obtained data, mathematical models for evaluating leakage are achieved by curve derivation. As a result, it is obtained that long time incubation, high concentration of fuel strand, and inappropriate amount of ion concentration can weaken leaky reactions. This contributes to a method to set proper reaction conditions to reduce leakage in DNA strand displacement.

5′CAG and 5′CTG Repeats Create Differential Impediment to the Progression of a Minimal Reconstituted T4 Replisome Depending on the Concentration of dNTPs

PubMed Central

Delagoutte, Emmanuelle; Baldacci, Giuseppe

2011-01-01

Instability of repetitive sequences originates from strand misalignment during repair or replicative DNA synthesis. To investigate the activity of reconstituted T4 replisomes across trinucleotide repeats (TNRs) during leading strand DNA synthesis, we developed a method to build replication miniforks containing a TNR unit of defined sequence and length. Each minifork consists of three strands, primer, leading strand template, and lagging strand template with a 5′ single-stranded (ss) tail. Each strand is prepared independently, and the minifork is assembled by hybridization of the three strands. Using these miniforks and a minimal reconstituted T4 replisome, we show that during leading strand DNA synthesis, the dNTP concentration dictates which strand of the structure-forming 5′CAG/5′CTG repeat creates the strongest impediment to the minimal replication complex. We discuss this result in the light of the known fluctuation of dNTP concentration during the cell cycle and cell growth and the known concentration balance among individual dNTPs. PMID:22096622

Developing Single-Molecule TPM Experiments for Direct Observation of Successful RecA-Mediated Strand Exchange Reaction

PubMed Central

Fan, Hsiu-Fang; Cox, Michael M.; Li, Hung-Wen

2011-01-01

RecA recombinases play a central role in homologous recombination. Once assembled on single-stranded (ss) DNA, RecA nucleoprotein filaments mediate the pairing of homologous DNA sequences and strand exchange processes. We have designed two experiments based on tethered particle motion (TPM) to investigate the fates of the invading and the outgoing strands during E. coli RecA-mediated pairing and strand exchange at the single-molecule level in the absence of force. TPM experiments measure the tethered bead Brownian motion indicative of the DNA tether length change resulting from RecA binding and dissociation. Experiments with beads labeled on either the invading strand or the outgoing strand showed that DNA pairing and strand exchange occurs successfully in the presence of either ATP or its non-hydrolyzable analog, ATPγS. The strand exchange rates and efficiencies are similar under both ATP and ATPγS conditions. In addition, the Brownian motion time-courses suggest that the strand exchange process progresses uni-directionally in the 5′-to-3′ fashion, using a synapse segment with a wide and continuous size distribution. PMID:21765895

Probe measures gas and liquid mass flux in high mass flow ratio two-phase flows

NASA Technical Reports Server (NTRS)

Burick, R. J.

1972-01-01

Deceleration probe constructed of two concentric tubes with separator inlet operates successfully in flow fields where ratio of droplet flow rate to gas flow rate ranges from 1.0 to 20, and eliminates problems of local flow field disturbances and flooding. Probe is effective tool for characterization of liquid droplet/gas spray fields.

SOHO reveals how sunspots take a stranglehold on the Sun

NASA Astrophysics Data System (ADS)

2001-11-01

Bernhard Fleck, ESA's project scientist for SOHO, comments, "The origin and stability of sunspots has been one of the long-standing mysteries in solar physics. I am delighted to see that with SOHO we are beginning to crack this problem." The gas flows around and beneath a sunspot have been detected by a team of scientists in the USA, using the Michelsen Doppler Imager (MDI) on SOHO. The instrument explores the solar interior by detecting natural sound waves at a million points on the Sun's surface. "After many years of contradictory theories about sunspots, MDI on SOHO is at last telling us what really happens," comments Junwei Zhao of Stanford University, California, lead author of a report published in the Astrophysical Journal. Inflows and downflows similar to those now detected with SOHO were envisaged in 1974 by Friedrich Meyer of Germany's Max-Planck- Institut für Physik und Astrophysik, and his colleagues. A similar expectation figured in a theory of sunspots advanced in 1979 by Eugene Parker of Chicago. "Our observation seems to provide strong evidence for both predictions," Zhao says. Sunspots have fascinated scientists since Galileo's time, 400 years ago, when they shattered a belief that the Sun was divinely free of any blemish. As symptoms of intense magnetic activity, sunspots are often associated with solar flares and mass ejections that affect space weather and the Earth itself. The Sun's activity peaks roughly every 11 years, and the latest maximum in the sunspot count occurred in 2000. Even with huge advances in helioseismology, which deduces layers and flows inside the Sun by analysis of sound waves that travel through it and agitate the surface, seeing behind the scenes in sunspots was never going to be easy. The MDI team refined a method of measuring the travel time of sound waves, invented in 1993 by Thomas Duvall of NASA Goddard, called solar tomography. It is like deducing what obstacles cross-country runners have faced, just by seeing in what order the contestants arrive at the finish. Here the runners are packets of sound waves, and the obstacles are local variations in temperature, magnetic fields and gas flows beneath the Sun's surface. "We needed better mathematical tricks," comments Duvall. "So we put together ideas from classical and quantum physics, and also from a recent advance in seismology on the Earth." In an earlier application of solar tomography, the team examined in detail the ante-natal events for an important group of sunspots born on 12 January 1998. They found sound waves beginning to travel faster and faster through the region where sunspots were about to form. Less than half a day elapsed between signs of unusual magnetic activity in the Sun's interior and the appearance of the dark spots on a previously unblemished surface. "Sunspots form when intense magnetic fields break through the visible surface," says Alexander Kosovichev of Stanford. "We could see the magnetic field shooting upwards like a fountain, faster than we expected." Even late on the previous day there was little hint of anything afoot, either at the surface or in the interior. By midnight (Universal Time) a region of strong magnetic field had risen from a depth of 18 000 kilometres and was already half way to the surface, travelling at 4500 km/hr. Sound speeds were increasing above the perturbed zone. By 8:00 a.m. an intense, rope-like magnetic field was in possession of a column of gas 20 000 kilometres wide and reaching almost to the visible surface. In the uppermost layer beneath the surface, the magnetic rope divided itself into strands that made the individual sunspots of the group. Under a large, well-established sunspot, in June 1998, the sound waves revealed a persistent column of hot, magnetised gas rising from deep in the interior. At a depth of 4000 kilometres it spread fingers towards neighbouring parts of the surface where it sustained some smaller sunspots. The magnetic column was not connected to another nearby spot where the magnetic field went in the opposite direction. Immediately below the large spot was a cushion of cooler, less intensely magnetised gas. A closer look at the gas flows, during the development of that June 1998 sunspot, led to the further findings now reported. The inflows and downflows in the immediate vicinity of the sunspot reach downwards for only a few thousand kilometres from the surface, which means less than one per cent of the distance to the Sun's centre. The discovery therefore depended on MDI's unique ability to explore just below the surface. The whirlpool of gas is responsible for the persistence of a sunspot. The cooling due to the magnetic field of the sunspot provokes the down-flow, and the gas disappearing downwards is replaced by more gas flowing inwards towards the spot. It brings with it its own associated magnetic field and prevents the strong magnetic field of the sunspot from dissipating. So the cooling and downflow continue, and the process is self-sustaining. The downflow of gas may also help to explain the puzzling fact that the Sun is actually brighter when it is freckled with dark spots. The VIRGO instrument on SOHO, operated by a Swiss-led team, confirmed the observations of earlier solar spacecraft, showing that sunshine is slightly more intense at sunspot maximum. Douglas Gough of Cambridge University, a leading solar theorist, notes that the downflow of gas seen by MDI on SOHO can redistribute energy bottled up by a sunspot. "What is interesting from the physical point of view is that, being cool, the descending flow is readily able to extract the heat that accumulates beneath the spot," Gough says. "It then spreads the heat away from the sunspot and eventually brings it to the surface of the Sun far from the spot, from where it is radiated into space." Note to editors The SOHO project is an international cooperation between ESA and NASA. The spacecraft was built in Europe for ESA and equipped with instruments by teams of scientists in Europe and the USA. NASA launched SOHO in December 1995, and in 1998 ESA and NASA decided to extend its highly successful operations until 2003.

Gas, water, and oil production from Wattenberg field in the Denver Basin, Colorado

USGS Publications Warehouse

Nelson, Philip H.; Santus, Stephen L.

2011-01-01

Gas, oil, and water production data were compiled from selected wells in two tight gas reservoirs-the Codell-Niobrara interval, comprised of the Codell Sandstone Member of the Carlile Shale and the Niobrara Formation; and the Dakota J interval, comprised mostly of the Muddy (J) Sandstone of the Dakota Group; both intervals are of Cretaceous age-in the Wattenberg field in the Denver Basin of Colorado. Production from each well is represented by two samples spaced five years apart, the first sample typically taken two years after production commenced, which generally was in the 1990s. For each producing interval, summary diagrams and tables of oil-versus-gas production and water-versus-gas production are shown with fluid-production rates, the change in production over five years, the water-gas and oil-gas ratios, and the fluid type. These diagrams and tables permit well-to-well and field-to-field comparisons. Fields producing water at low rates (water dissolved in gas in the reservoir) can be distinguished from fields producing water at moderate or high rates, and the water-gas ratios are quantified. The Dakota J interval produces gas on a per-well basis at roughly three times the rate of the Codell-Niobrara interval. After five years of production, gas data from the second samples show that both intervals produce gas, on average, at about one-half the rate as the first sample. Oil-gas ratios in the Codell-Niobrara interval are characteristic of a retrograde gas and are considerably higher than oil-gas ratios in the Dakota J interval, which are characteristic of a wet gas. Water production from both intervals is low, and records in many wells are discontinuous, particularly in the Codell-Niobrara interval. Water-gas ratios are broadly variable, with some of the variability possibly due to the difficulty of measuring small production rates. Most wells for which water is reported have water-gas ratios exceeding the amount that could exist dissolved in gas at reservoir pressure and temperature. The Codell-Niobrara interval is reported to be overpressured (that is, pressure greater than hydrostatic) whereas the underlying Dakota J interval is underpressured (less than hydrostatic), demonstrating a lack of hydraulic communication between the two intervals despite their proximity over a broad geographical area. The underpressuring in the Dakota J interval has been attributed by others to outcropping strata east of the basin. We agree with this interpretation and postulate that the gas accumulation also may contribute to hydraulic isolation from outcrops immediately west of the basin.

Cause-specific temporal and spatial trends in green sea turtle strandings in the Hawaiian Archipelago (1982-2003)

USGS Publications Warehouse

Chaloupka, Milani; Work, Thierry M.; Balazs, George H.; Murakawa, Shawn K. K.; Morris, Robert

2008-01-01

We investigated cause-specific temporal and spatial trends in sea turtle strandings in the Hawaiian Archipelago. Five species of sea turtle were recorded in 3,861 strandings over a 22-year period (1982–2003). Green turtles comprised 97% of these strandings with size and gender composition reflecting the demographic structure of the resident green turtle population and relative green turtle abundance in Hawaiian waters. The cause of strandings was determined by necropsy based on a complete gross external and internal examination. Totally 75% of the 3,732 green turtle strandings were from Oahu where strandings occur year-round. The most common known cause of the green turtle strandings was the tumour-forming disease, fibropapillomatosis (28%) followed by hook-and-line fishing gear-induced trauma (7%), gillnet fishing gear-induced trauma (5%), boat strike (2.5%), and shark attack (2.7%). Miscellaneous causes comprised 5.4% of strandings whereas 49% of green turtle strandings could not be attributed to any known cause. Green turtle strandings attributable to boat strike were more likely from Kauai and Oahu while fibropapilloma strandings were more likely from Oahu and Maui. Hook-and-line gear strandings were more likely from Oahu due to higher per capita inshore fishing effort. The specific mortality rate (conditional probability) for fibropapillomatosis was 88%, 69% for gillnet gear and 52% for hook-and-line gear. The probability of a dead green turtle stranding increased from 1982 but levelled off by the mid-1990s. The declining mortality risk was because the prevalence and severity of fibropapillomatosis has decreased recently and so has the mortality risk attributable to gillnet gear. Despite exposure to disease and inshore fishing gears, the Hawaiian green turtle stock continues to recover following protection since the late 1970s. Nevertheless, measures to reduce incidental capture of sea turtles in coastal Hawaiian fisheries would be prudent, especially since strandings attributable to hook-and-line fishing gear have increased steadily since 1982.

Gas hydrate environmental monitoring program in the Ulleung Basin, East Sea of Korea

NASA Astrophysics Data System (ADS)

Ryu, Byong-Jae; Chun, Jong-Hwa; McLean, Scott

2013-04-01

As a part of the Korean National Gas Hydrate Program, the Korea Institute of Geoscience and Mineral Resources (KIGAM) has been planned and conducted the environmental monitoring program for the gas hydrate production test in the Ulleung Basin, East Sea of Korea in 2014. This program includes a baseline survey using a KIGAM Seafloor Observation System (KISOS) and R/V TAMHAE II of KIGAM, development of a KIGAM Seafloor Monitoring System (KIMOS), and seafloor monitoring on various potential hazards associated with the dissociated gas from gas hydrates during the production test. The KIGAM also plans to conduct the geophysical survey for determining the change of gas hydrate reservoirs and production-efficiency around the production well before and after the production test. During production test, release of gas dissociated from the gas hydrate to the water column, seafloor deformation, changes in chemical characteristics of bottom water, changes in seafloor turbidity, etc. will be monitored by using the various monitoring instruments. The KIMOS consists of a near-field observation array and a far-field array. The near-field array is constructed with four remote sensor platforms each, and cabled to the primary node. The far-field sensor array will consists of four autonomous instrument pods. A scientific Remotely Operated Vehicle (ROV) will be used to deploy the sensor arrays, and to connect the cables to each field instrument package and a primary node. A ROV will also be tasked to collect the water and/or gas samples, and to identify any gas (bubble) plumes from the seafloor using a high-frequency sector scanning sonar. Power to the near-field instrument packages will be supplied by battery units located on the seafloor near the primary node. Data obtained from the instruments on the near-field array will be logged and downloaded in-situ at the primary node, and transmitted real-time to the support vessel using a ROV. These data will also be transmitted real-time to the drilling vessel via satellite.

Can a double stranded DNA be unzipped by pulling a single strand?: phases of adsorbed DNA.

PubMed

Kapri, Rajeev

2009-04-14

We study the unzipping of a double stranded DNA (dsDNA) by applying an external force on a single strand while leaving the other strand free. We find that the dsDNA can be unzipped to two single strands if the external force exceeds a critical value. We obtain the phase diagram, which is found to be different from the phase diagram of unzipping by pulling both the strands in opposite directions. In the presence of an attractive surface near DNA, the phase diagram gets modified drastically and shows richer surprises including a critical end point and a triple point.

Procedure for normalization of cDNA libraries

DOEpatents

Bonaldo, M.D.; Soares, M.B.

1997-12-30

This invention provides a method to normalize a cDNA library constructed in a vector capable of being converted to single-stranded circles and capable of producing complementary nucleic acid molecules to the single-stranded circles comprising: (a) converting the cDNA library in single-stranded circles; (b) generating complementary nucleic acid molecules to the single-stranded circles; (c) hybridizing the single-stranded circles converted in step (a) with complementary nucleic acid molecules of step (b) to produce partial duplexes to an appropriate Cot; (e) separating the unhybridized single-stranded circles from the hybridized single-stranded circles, thereby generating a normalized cDNA library. 1 fig.

The Stranding Anomaly as Population Indicator: The Case of Harbour Porpoise Phocoena phocoena in North-Western Europe

PubMed Central

Peltier, Helene; Baagøe, Hans J.; Camphuysen, Kees C. J.; Czeck, Richard; Dabin, Willy; Daniel, Pierre; Deaville, Rob; Haelters, Jan; Jauniaux, Thierry; Jensen, Lasse F.; Jepson, Paul D.; Keijl, Guido O.; Siebert, Ursula; Van Canneyt, Olivier; Ridoux, Vincent

2013-01-01

Ecological indicators for monitoring strategies are expected to combine three major characteristics: ecological significance, statistical credibility, and cost-effectiveness. Strategies based on stranding networks rank highly in cost-effectiveness, but their ecological significance and statistical credibility are disputed. Our present goal is to improve the value of stranding data as population indicator as part of monitoring strategies by constructing the spatial and temporal null hypothesis for strandings. The null hypothesis is defined as: small cetacean distribution and mortality are uniform in space and constant in time. We used a drift model to map stranding probabilities and predict stranding patterns of cetacean carcasses under H0 across the North Sea, the Channel and the Bay of Biscay, for the period 1990–2009. As the most common cetacean occurring in this area, we chose the harbour porpoise Phocoena phocoena for our modelling. The difference between these strandings expected under H0 and observed strandings is defined as the stranding anomaly. It constituted the stranding data series corrected for drift conditions. Seasonal decomposition of stranding anomaly suggested that drift conditions did not explain observed seasonal variations of porpoise strandings. Long-term stranding anomalies increased first in the southern North Sea, the Channel and Bay of Biscay coasts, and finally the eastern North Sea. The hypothesis of changes in porpoise distribution was consistent with local visual surveys, mostly SCANS surveys (1994 and 2005). This new indicator could be applied to cetacean populations across the world and more widely to marine megafauna. PMID:23614031

Database documentation of marine mammal stranding and mortality: current status review and future prospects.

PubMed

Chan, Derek K P; Tsui, Henry C L; Kot, Brian C W

2017-11-21

Databases are systematic tools to archive and manage information related to marine mammal stranding and mortality events. Stranding response networks, governmental authorities and non-governmental organizations have established regional or national stranding networks and have developed unique standard stranding response and necropsy protocols to document and track stranded marine mammal demographics, signalment and health data. The objectives of this study were to (1) describe and review the current status of marine mammal stranding and mortality databases worldwide, including the year established, types of database and their goals; and (2) summarize the geographic range included in the database, the number of cases recorded, accessibility, filter and display methods. Peer-reviewed literature was searched, focussing on published databases of live and dead marine mammal strandings and mortality and information released from stranding response organizations (i.e. online updates, journal articles and annual stranding reports). Databases that were not published in the primary literature or recognized by government agencies were excluded. Based on these criteria, 10 marine mammal stranding and mortality databases were identified, and strandings and necropsy data found in these databases were evaluated. We discuss the results, limitations and future prospects of database development. Future prospects include the development and application of virtopsy, a new necropsy investigation tool. A centralized web-accessed database of all available postmortem multimedia from stranded marine mammals may eventually support marine conservation and policy decisions, which will allow the use of marine animals as sentinels of ecosystem health, working towards a 'One Ocean-One Health' ideal.

Geology of Tompkins Hill gas field, Humboldt County, California

DOE Office of Scientific and Technical Information (OSTI.GOV)

Parker, J.

1988-03-01

The Tompkins Hill gas field, located in Humboldt County, California, is the only producing field in the Eel River basin. The field is an anticlinal flexure on the north limb of the Eel River syncline in the central onshore portion of the basin. The Tompkins Hill anticline is doubly plunging and trends east-west. Stratigraphic units present in the field include the Yager, Eel River, and Rio Dell Formations and Scotia Bluffs Sandstone. The Yager occurs below a major unconformity, and forms economic basement. Strata overlying the Eel River, Rio Dell, and Scotia Bluffs represent a progradational basin-fill sequence, including submarinemore » fan, slope, shelf, and littoral deposits. The primary productive interval in the field is within the middle of the Rio Dell and consists of interbedded fine sandstone and mudrock. Portions of the Eel River and upper Rio Dell Formations are also productive. The Tompkins Hill gas field was discovered by the Texas Company in 1937 with the drilling of Eureka 2 in Sec. 22, T3N, R1W. The play was probably based on outcrop mapping and the presence of gas seeps in the area. The primary trapping mechanism in the field is structural, although stratigraphy may have been a factor in constraining gas. To date, 39 producing wells have been drilled and 87.4 bcf of gas, consisting of 98% methane, has been produced. Very minor amounts of condensate are also produced. The source rocks for the gas are uncertain, but both the Yager Formation and strata of the lower Wildcat Group may have contributed.« less

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.

Triplex in-situ hybridization

DOEpatents

Fresco, Jacques R.; Johnson, Marion D.

2002-01-01

Disclosed are methods for detecting in situ the presence of a target sequence in a substantially double-stranded nucleic acid segment, which comprises: a) contacting in situ under conditions suitable for hybridization a substantially double-stranded nucleic acid segment with a detectable third strand, said third strand being capable of hybridizing to at least a portion of the target sequence to form a triple-stranded structure, if said target sequence is present; and b) detecting whether hybridization between the third strand and the target sequence has occured.

Deletions at short direct repeats and base substitutions are characteristic mutations for bleomycin-induced double- and single-strand breaks, respectively, in a human shuttle vector system

NASA Technical Reports Server (NTRS)

Dar, M. E.; Jorgensen, T. J.

1995-01-01

Using the radiomimetic drug, bleomycin, we have determined the mutagenic potential of DNA strand breaks in the shuttle vector pZ189 in human fibroblasts. The bleomycin treatment conditions used produce strand breaks with 3'-phosphoglycolate termini as > 95% of the detectable dose-dependent lesions. Breaks with this end group represent 50% of the strand break damage produced by ionizing radiation. We report that such strand breaks are mutagenic lesions. The type of mutation produced is largely determined by the type of strand break on the plasmid (i.e. single versus double). Mutagenesis studies with purified DNA forms showed that nicked plasmids (i.e. those containing single-strand breaks) predominantly produce base substitutions, the majority of which are multiples, which presumably originate from error-prone polymerase activity at strand break sites. In contrast, repair of linear plasmids (i.e. those containing double-strand breaks) mainly results in deletions at short direct repeat sequences, indicating the involvement of illegitimate recombination. The data characterize the nature of mutations produced by single- and double-strand breaks in human cells, and suggests that deletions at direct repeats may be a 'signature' mutation for the processing of DNA double-strand breaks.

A strand graph semantics for DNA-based computation

PubMed Central

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

2015-01-01

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. PMID:27293306

Streptavidin-coated magnetic beads for DNA strand separation implicate a multitude of problems during cell-SELEX.

PubMed

Paul, Angela; Avci-Adali, Meltem; Ziemer, Gerhard; Wendel, Hans P

2009-09-01

Using whole living cells as a target for SELEX (systematic evolution of ligands by exponential enrichment) experiments represents a promising method to generate cell receptor-specific aptamers. These aptamers have a huge potential in diagnostics, therapeutics, imaging, regenerative medicine, and target validation. During the SELEX for selecting DNA aptamers, one important step is the separation of 2 DNA strands to yield one of the 2 strands as single-stranded DNA aptamer. This is being done routinely by biotin labeling of the complementary DNA strand to the desired aptamer and then separating the DNA strand by using streptavidin-coated magnetic beads. After immobilization of the double-stranded DNA on these magnetic beads and alkaline denaturation, the non-biotinylated strand is being eluted and the biotinylated strand is retarded. Using Western blot analysis, we demonstrated the detachment of covalent-bonded streptavidin from the bead surface after alkaline treatment. The eluates were also contaminated with undesired biotinylated strands. Furthermore, a streptavidin-induced aggregation of target cells was demonstrated by flow cytometry and microscopic methods. Cell-specific enrichment of aptamers was not possible due to clustering and patching effects triggered by streptavidin. Therefore, the use of streptavidin-coated magnetic beads for DNA strand separation should be examined thoroughly, especially for cell-SELEX applications.

Uniform pressures in gas fields (in Spanish)

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bravo, G.

1966-08-01

Throughout the huge Reynosa Field, petroleos Mexicanos (Pemex) is equalizing gas-well pressures to reduce the expense of gas-compressing equipment. This solution was proposed by the Department of Gas and Gasoline. Tests were taken on 4 specially selected wells. The results show production to be much less than the potential; by equalizing pressure, production is increased at less cost.

Tensile and dimensional properties of wood strands made from plantation southern pine lumber

Treesearch

Qinglin Wu; Zhiyong Cai; Jong N. Lee

2005-01-01

Working stresses and performance of strand composite lumber largely depend upon the properties of each individual strand. Southern pine strands from plantation lumber grown in southern Louisiana were investigated in this study in order to understand strand behaviors. The effects of hot-pressing and resin application on tensile modulus, strength, and dimensional...

A novel negative-stranded RNA virus mediates sex ratio in its parasitoid host

PubMed Central

Wang, Beibei; Yan, Zhichao; Hong, Jian; Werren, John H.; Song, Qisheng

2017-01-01

Parasitoid wasps are important natural enemies of arthropod hosts in natural and agricultural ecosystems and are often associated with viruses or virion-like particles. Here, we report a novel negative-stranded RNA virus from a parasitoid wasp (Pteromalus puparum). The complete viral genome is 12,230 nucleotides in length, containing five non-overlapping, linearly arranged open reading frames. Phylogenetically, the virus clusters with and is a novel member of the mononegaviral family Nyamiviridae, here designated as Pteromalus puparum negative-strand RNA virus 1 (PpNSRV-1). PpNSRV-1 is present in various tissues and life stages of the parasitoid wasp, and is transmitted vertically through infected females and males. Virus infections in field populations of P. puparum wasps ranged from 16.7 to 37.5%, without linearly correlating with temperature. PpNSRV-1 increased adult longevity and impaired several fitness parameters of the wasp, but had no influence on successful parasitism. Strikingly, PpNSRV-1 mediated the offspring sex ratio by decreasing female offspring numbers. RNA interference knockdown of virus open reading frame I eliminated these PpNSRV-1-induced effects. Thus, we infer that PpNSRV-1 has complex effects on its insect host including sex ratio distortion towards males, as well as possible mutualistic benefits through increasing wasp longevity. PMID:28278298

Self-reference and random sampling approach for label-free identification of DNA composition using plasmonic nanomaterials.

PubMed

Freeman, Lindsay M; Pang, Lin; Fainman, Yeshaiahu

2018-05-09

The analysis of DNA has led to revolutionary advancements in the fields of medical diagnostics, genomics, prenatal screening, and forensic science, with the global DNA testing market expected to reach revenues of USD 10.04 billion per year by 2020. However, the current methods for DNA analysis remain dependent on the necessity for fluorophores or conjugated proteins, leading to high costs associated with consumable materials and manual labor. Here, we demonstrate a potential label-free DNA composition detection method using surface-enhanced Raman spectroscopy (SERS) in which we identify the composition of cytosine and adenine within single strands of DNA. This approach depends on the fact that there is one phosphate backbone per nucleotide, which we use as a reference to compensate for systematic measurement variations. We utilize plasmonic nanomaterials with random Raman sampling to perform label-free detection of the nucleotide composition within DNA strands, generating a calibration curve from standard samples of DNA and demonstrating the capability of resolving the nucleotide composition. The work represents an innovative way for detection of the DNA composition within DNA strands without the necessity of attached labels, offering a highly sensitive and reproducible method that factors in random sampling to minimize error.

Applying discursive approaches to health psychology.

PubMed

Seymour-Smith, Sarah

2015-04-01

The aim of this paper is to outline the contribution of two strands of discursive research, glossed as 'macro' and 'micro,' to the field of health psychology. A further goal is to highlight some contemporary debates in methodology associated with the use of interview data versus more naturalistic data in qualitative health research. Discursive approaches provide a way of analyzing talk as a social practice that considers how descriptions are put together and what actions they achieve. A selection of recent examples of discursive research from one applied area of health psychology, studies of diet and obesity, are drawn upon in order to illustrate the specifics of both strands. 'Macro' discourse work in psychology incorporates a Foucauldian focus on the way that discourses regulate subjectivities, whereas the concept of interpretative repertoires affords more agency to the individual: both are useful for identifying the cultural context of talk. Both 'macro' and 'micro' strands focus on accountability to varying degrees. 'Micro' Discursive Psychology, however, pays closer attention to the sequential organization of constructions and focuses on naturalistic settings that allow for the inclusion of an analysis of the health professional. Diets are typically depicted as an individual responsibility in mainstream health psychology, but discursive research highlights how discourses are collectively produced and bound up with social practices. (c) 2015 APA, all rights reserved).

RPA homologs and ssDNA processing during meiotic recombination.

PubMed

Ribeiro, Jonathan; Abby, Emilie; Livera, Gabriel; Martini, Emmanuelle

2016-06-01

Meiotic homologous recombination is a specialized process that involves homologous chromosome pairing and strand exchange to guarantee proper chromosome segregation and genetic diversity. The formation and repair of DNA double-strand breaks (DSBs) during meiotic recombination differs from those during mitotic recombination in that the homologous chromosome rather than the sister chromatid is the preferred repair template. The processing of single-stranded DNA (ssDNA) formed on intermediate recombination structures is central to driving the specific outcomes of DSB repair during meiosis. Replication protein A (RPA) is the main ssDNA-binding protein complex involved in DNA metabolism. However, the existence of RPA orthologs in plants and the recent discovery of meiosis specific with OB domains (MEIOB), a widely conserved meiosis-specific RPA1 paralog, strongly suggest that multiple RPA complexes evolved and specialized to subdivide their roles during DNA metabolism. Here we review ssDNA formation and maturation during mitotic and meiotic recombination underlying the meiotic specific features. We describe and discuss the existence and properties of MEIOB and multiple RPA subunits in plants and highlight how they can provide meiosis-specific fates to ssDNA processing during homologous recombination. Understanding the functions of these RPA homologs and how they interact with the canonical RPA subunits is of major interest in the fields of meiosis and DNA repair.

RNA signal amplifier circuit with integrated fluorescence output.

PubMed

Akter, Farhima; Yokobayashi, Yohei

2015-05-15

We designed an in vitro signal amplification circuit that takes a short RNA input that catalytically activates the Spinach RNA aptamer to produce a fluorescent output. The circuit consists of three RNA strands: an internally blocked Spinach aptamer, a fuel strand, and an input strand (catalyst), as well as the Spinach aptamer ligand 3,5-difluoro-4-hydroxylbenzylidene imidazolinone (DFHBI). The input strand initially displaces the internal inhibitory strand to activate the fluorescent aptamer while exposing a toehold to which the fuel strand can bind to further displace and recycle the input strand. Under a favorable condition, one input strand was able to activate up to five molecules of the internally blocked Spinach aptamer in 185 min at 30 °C. The simple RNA circuit reported here serves as a model for catalytic activation of arbitrary RNA effectors by chemical triggers.

Separation of 1-23-kb complementary DNA strands by urea-agarose gel electrophoresis.

PubMed

Hegedüs, Eva; Kókai, Endre; Kotlyar, Alexander; Dombrádi, Viktor; Szabó, Gábor

2009-09-01

Double-stranded (ds), as well as denatured, single-stranded (ss) DNA samples can be analyzed on urea-agarose gels. Here we report that after denaturation by heat in the presence of 8 M urea, the two strands of the same ds DNA fragment of approximately 1-20-kb size migrate differently in 1 M urea containing agarose gels. The two strands are readily distinguished on Southern blots by ss-specific probes. The different migration of the two strands could be attributed to their different, base composition-dependent conformation impinging on the electrophoretic mobility of the ss molecules. This phenomenon can be exploited for the efficient preparation of strand-specific probes and for the separation of the complementary DNA strands for subsequent analysis, offering a new tool for various cell biological research areas.

Activation Energies for Dissociation of Double Strand Oligonucleotide Anions: Evidence for Watson–Crick Base Pairing in Vacuo

PubMed Central

Schnier, Paul D.; Klassen, John S.; Strittmatter, Eric F.; Williams*, Evan R.

2005-01-01

The dissociation kinetics of a series of complementary and noncomplementary DNA duplexes, (TGCA)23−, (CCGG)23−, (AATTAAT)23−, (CCGGCCG)23−, A7·T73−, A7·A73−, T7·T73−, and A7·C73− were investigated using blackbody infrared radiative dissociation in a Fourier transform mass spectrometer. From the temperature dependence of the unimolecular dissociation rate constants, Arrhenius activation parameters in the zero-pressure limit are obtained. Activation energies range from 1.2 to 1.7 eV, and preexponential factors range from 1013 to 1019 s−1. Dissociation of the duplexes results in cleavage of the noncovalent bonds and/or cleavage of covalent bonds leading to loss of a neutral nucleobase followed by backbone cleavage producing sequence-specific (a – base) and w ions. Four pieces of evidence are presented which indicate that Watson–Crick (WC) base pairing is preserved in complementary DNA duplexes in the gas phase: i. the activation energy for dissociation of the complementary dimer, A7·T73−, to the single strands is significantly higher than that for the related noncomplementary A7·A73− and T7·T73− dimers, indicating a stronger interaction between strands with a specific base sequence, ii. extensive loss of neutral adenine occurs for A7·A73− and A7·C73− but not for A7·T73− consistent with this process being shut down by WC hydrogen bonding, iii. a correlation is observed between the measured activation energy for dissociation to single strands and the dimerization enthalpy (−ΔHd) in solution, and iv. molecular dynamics carried out at 300 and 400 K indicate that WC base pairing is preserved for A7·T73− duplex, although the helical structure is essentially lost. In combination, these results provide strong evidence that WC base pairing can exist in the complete absence of solvent. PMID:16498487

A simple example of a classical gauge transformation

NASA Technical Reports Server (NTRS)

Whitten, R. C.

1983-01-01

Attention is given to the manner in which the interaction of a gravitational field with a diffusing gas is induced by a gauge transformation. Since the gas can be thought of as a field, the diffusion process may be represented by a Lagrangian density with the symmetry property of invariance under translation. While this property is lost when the field interacts with a static gravitational field, it is formally restored when an appropriate gauge transformation is performed. This ascription of field properties to a gas offers an illuminating illustration of the coupling of matter to a gauge field within the context of classical mechanics.

Effect of CO on the field emission properties of tetrapod zinc oxide cathode.

PubMed

Wang, Jinchan; Zhang, Xiaobing; Lei, Wei; Mao, Fuming; Cui, Yunkang; Xiao, Mei

2012-08-01

Tetrapod zinc oxide (T-ZnO), being a kind of nano-material, has large specific surface area and surface binding energy, which will make it sensitive to the ambient gas condition. So the field emission properties will be influenced by the gas adsorption when being applied as the cathode materials of field emission devices. Carbon monoxide is the main residual gas in T-ZnO field emission devices. In this paper, carbon monoxide was introduced into a field emission device with T-ZnO emitters. The field emission currents of tetrapod ZnO were compared before and after exposure to CO.

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.

Homing endonucleases: from basics to therapeutic applications.

PubMed

Marcaida, Maria J; Muñoz, Inés G; Blanco, Francisco J; Prieto, Jesús; Montoya, Guillermo

2010-03-01

Homing endonucleases (HE) are double-stranded DNAses that target large recognition sites (12-40 bp). HE-encoding sequences are usually embedded in either introns or inteins. Their recognition sites are extremely rare, with none or only a few of these sites present in a mammalian-sized genome. However, these enzymes, unlike standard restriction endonucleases, tolerate some sequence degeneracy within their recognition sequence. Several members of this enzyme family have been used as templates to engineer tools to cleave DNA sequences that differ from their original wild-type targets. These custom HEs can be used to stimulate double-strand break homologous recombination in cells, to induce the repair of defective genes with very low toxicity levels. The use of tailored HEs opens up new possibilities for gene therapy in patients with monogenic diseases that can be treated ex vivo. This review provides an overview of recent advances in this field.

Heating of the Solar Corona and its Loops

NASA Technical Reports Server (NTRS)

Klimchuk, James A.

2009-01-01

At several million degrees, the solar corona is more than two orders of magnitude hotter than the underlying solar surface. The reason for these extreme conditions has been a puzzle for decades and is considered one of the fundamental problems in astrophysics. Much of the coronal plasma is organized by the magnetic field into arch-like structures called loops. Recent observational and theoretical advances have led to great progress in understanding the nature of these loops. In particular, we now believe they are bundles of unresolved magnetic strands that are heated by storms of impulsive energy bursts called nanoflares. Turbulent convection at the solar surface shuffles the footpoints of the strands and causes them to become tangled. A nanoflare occurs when the magnetic stresses reach a critical threshold, probably by way of a mechanism called the secondary instability. I will describe our current state of knowledge concerning the corona, its loops, and how they are heated.

IC(B,T,STRAIN) Characterisation of a Nb3Sn Internal Tin Strand with Enhanced Specification for Use in Fusion Conductors

NASA Astrophysics Data System (ADS)

Pasztor, G.; Bruzzone, P.

2004-06-01

The dc performance of a recently produced internal tin route Nb3Sn strand with enhanced specification is studied extensively and compared with predecessor wires manufactured by the suppliers for the ITER Model Coils in 1996. The wire has been selected for use in a full size, developmental cable-in-conduit conductor sample, which is being tested in the SULTAN Test Facility. The critical current, Ic, and the index of the current/voltage characteristic, n, are measured over a broad range of field and temperature, using ITER standard sample holders, made of TiAlV grooved cylinders. The behavior of Ic versus applied tensile strain is also investigated at 4.2 K and 12 T, on straight specimens. Scaling law parameters are drawn from the fit of the experimental results. The implications of the test results to the design of the fusion conductors are discussed.

Inactivation, DNA double strand break induction and their rejoining in bacterial cells irradiated with heavy ions

NASA Technical Reports Server (NTRS)

Schaefer, M.; Zimmermann, H.; Schmitz, C.

1994-01-01

Besides inactivation one of the major interests in our experiments is to study the primary damage in the DNA double strand breaks (DSB) after heavy ion irradiation. These damages lead not only to cell death but also under repair activities to mutations. In further experiments we have investigated the inactivation with two different strains of Deinococcus radiodurans (R1, Rec 30) and the induction of DSB as well as the rejoining of DSB in stationary cells of E. coli (strain B/r) irradiated with radiations of different quality. In the latter case irradiations were done so that the cell survival was roughly at the same level. We measured the DSB using the pulse field gelelectrophoresis which allows to separate between intact (circular) and damaged (linear) DNA. The irradiated cells were transferred to NB medium and incubated for different times to allow rejoining.

Empowerment through education and science: three intersecting strands in the career of Griffith Edwards.

PubMed

Crome, Ilana

2015-07-01

This paper describes three important strands in the career of Griffith Edwards that define him as a leader and an innovator. Believing that education and science were critical for the development of addiction as a profession and as a field of inquiry, his approach was multi-faceted: educating all doctors to appreciate the fundamental issues in addiction; training psychiatrists in the complexity of 'dual diagnosis' and specific specialist intervention; and teaching that addiction could be a chronic condition which required care management over the life course. These three inter-related areas are directly related to the need for a range of practitioners to have an understanding of addiction so that patients can be properly managed. The greater our understanding of the nature of addiction behaviour, the more likely the potential to optimize treatment and train practitioners from different professional disciplines. © 2015 Society for the Study of Addiction.

Biological nano-functionalization of titanium-based biomaterial surfaces: a flexible toolbox

PubMed Central

Beutner, René; Michael, Jan; Schwenzer, Bernd; Scharnweber, Dieter

2010-01-01

Surface functionalization with bioactive molecules (BAMs) on a nanometre scale is a main field in current biomaterial research. The immobilization of a vast number of substances and molecules, ranging from inorganic calcium phosphate phases up to peptides and proteins, has been investigated throughout recent decades. However, in vitro and in vivo results are heterogeneous. This may be at least partially attributed to the limits of the applied immobilization methods. Therefore, this paper highlights, in the first part, advantages and limits of the currently applied methods for the biological nano-functionalization of titanium-based biomaterial surfaces. The second part describes a new immobilization system recently developed in our groups. It uses the nanomechanical fixation of at least partially single-stranded nucleic acids (NAs) into an anodic titanium oxide layer as an immobilization principle and their hybridization ability for the functionalization of the surface with BAMs conjugated to the respective complementary NA strands. PMID:19889692

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

... Wire Strand from the People's Republic of China: Notice of Amended Final Affirmative Countervailing... issuing a countervailing duty order on pre-stressed concrete steel wire strand (PC strand) from the People... determination of material injury to a U.S. industry. See Pre-Stressed Concrete Steel Wire Strand from the People...

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…

A Novel Computational Method to Reduce Leaky Reaction in DNA Strand Displacement

PubMed Central

Li, Xin; Wang, Xun; Song, Tao; Lu, Wei; Chen, Zhihua; Shi, Xiaolong

2015-01-01

DNA strand displacement technique is widely used in DNA programming, DNA biosensors, and gene analysis. In DNA strand displacement, leaky reactions can cause DNA signals decay and detecting DNA signals fails. The mostly used method to avoid leakage is cleaning up after upstream leaky reactions, and it remains a challenge to develop reliable DNA strand displacement technique with low leakage. In this work, we address the challenge by experimentally evaluating the basic factors, including reaction time, ratio of reactants, and ion concentration to the leakage in DNA strand displacement. Specifically, fluorescent probes and a hairpin structure reporting DNA strand are designed to detect the output of DNA strand displacement, and thus can evaluate the leakage of DNA strand displacement reactions with different reaction time, ratios of reactants, and ion concentrations. From the obtained data, mathematical models for evaluating leakage are achieved by curve derivation. As a result, it is obtained that long time incubation, high concentration of fuel strand, and inappropriate amount of ion concentration can weaken leaky reactions. This contributes to a method to set proper reaction conditions to reduce leakage in DNA strand displacement. PMID:26491602

Transitional Cell Carcinoma of the Urinary Bladder in a Beluga Whale (Delphinapterus leucas)

PubMed Central

Martineau, D.; Lagacé, A.; Massé, R.; Morin, M.; Béland, P.

1985-01-01

A transitional cell carcinoma of the urinary bladder was found in a beluga whale stranded in the St. Lawrence middle estuary. Various organs of this animal were submitted to high resolution gas chromatography coupled with mass spectrometry analysis. High frequency of urinary bladder cancer in the human population of the same area and the presence of carcinogenic compounds in the marine environment of this animal are discussed. Concurrent isolation of Edwardsiella tarda from various organs of this whale is also reported. ImagesFigure 1.Figure 2.Figure 3.Figure 4.Figure 5.Figure 6.Figure 7.Figure 8. PMID:17422578

OIL AND GAS FIELD EMISSIONS SURVEY

EPA Science Inventory

The report gives results of an oil and gas field emissions survey. The production segment of the oil and gas industry has been identified as a source category that requires the development of more reliable emissions inventory methodologies. The overall purpose of the project was ...

Electromagnetic Fields Exposure Limits

DTIC Science & Technology

2018-01-01

analysis, synthesis, integration and validation of knowledge derived through the scientific method. In NATO, S&T is addressed using different...Panel • NMSG NATO Modelling and Simulation Group • SAS System Analysis and Studies Panel • SCI Systems Concepts and Integration Panel • SET... integrity or morphology. They later also failed to find a lack of direct DNA damage in human blood (strand breaks, alkali-labile sites, and incomplete

The Secret Is in the Processing: A Study of Levels of Explicit Computerized Feedback in Heritage and L2 Learners of Spanish

ERIC Educational Resources Information Center

Zamora, Celia Chomon

2017-01-01

The field of Instructed Second Language Acquisition (ISLA) has expressed interest in pursuing a research agenda that expands the current heritage language (HL) strand of research to investigate how this heterogeneous population re-learns their family language, and how this experience differs from that of second language (L2) learners. This…

Controlled growth of well-aligned GaS nanohornlike structures and their field emission properties.

PubMed

Sinha, Godhuli; Panda, Subhendu K; Datta, Anuja; Chavan, Padmakar G; Shinde, Deodatta R; More, Mahendra A; Joag, D S; Patra, Amitava

2011-06-01

Here, we report the synthesis of vertically aligned gallium sulfide (GaS) nanohorn arrays using simple vapor-liquid-solid (VLS) method. The morphologies of GaS nano and microstructures are tuned by controlling the temperature and position of the substrate with respect to the source material. A plausible mechanism for the controlled growth has been proposed. It is important to note that the turn-on field value of GaS nanohorns array is found to be the low turn-on field 4.2 V/μm having current density of 0.1 μA/cm(2). The striking feature of the field emission behavior of the GaS nanohorn arrays is that the average emission current remains nearly constant over long time without any degradation. © 2011 American Chemical Society

Investigation of critical burning of fuel droplets

NASA Technical Reports Server (NTRS)

Allison, C. B.; Canada, G. S.; Faeth, G. M.

1972-01-01

Measurements were made on the burning of liquid hydrazine, MMH, and UDMH in a combustion gas environment. The experimental range of these tests involved gas temperatures of 1660-2530 K, oxygen concentrations of 0-42% by mass and droplet diameters (employing both droplets and porous spheres) of 0.11-1.91 cm. at atmospheric pressure. A simplified hybrid combustion theory was developed which was found to correlate the present results as well as the experimental measurements of other investigators. Measurements were also made of the monopropellant strand burning rates and liquid surface temperatures of a number of nitrate ester fuels and hydrazine at elevated pressures. The temperature measurements for the nitrate esters were found to be in good agreement with a theoretical model which allowed for gas solubility in the liquid phase at high pressures. Experimental results were also obtained on the burning rates and liquid surface temperatures of a number of paraffin and alcohol fuels burning in air pressures up to 72 atm. For these tests, the fuels were burned from porous spheres in a natural convection environment. Initial findings on a pressurized flat flame burner are also described as well as the design of an oscillatory combustion apparatus to test the response of burning liquid fuels.

Mechanical behaviors of multi-filament twist superconducting strand under tensile and cyclic loading

NASA Astrophysics Data System (ADS)

Wang, Xu; Li, Yingxu; Gao, Yuanwen

2016-01-01

The superconducting strand, serving as the basic unit cell of the cable-in-conduit-conductors (CICCs), is a typical multi-filament twist composite which is always subjected to a cyclic loading under the operating condition. Meanwhile, the superconducting material Nb3Sn in the strand is sensitive to strain frequently relating to the performance degradation of the superconductivity. Therefore, a comprehensive study on the mechanical behavior of the strand helps understanding the superconducting performance of the strained Nb3Sn strands. To address this issue, taking the LMI (internal tin) strand as an example, a three-dimensional structural finite element model, named as the Multi-filament twist model, of the strand with the real configuration of the LMI strand is built to study the influences of the plasticity of the component materials, the twist of the filament bundle, the initial thermal residual stress and the breakage and its evolution of the filaments on the mechanical behaviors of the strand. The effective properties of superconducting filament bundle with random filament breakage and its evolution versus strain are obtained based on the damage theory of fiber-reinforced composite materials proposed by Curtin and Zhou. From the calculation results of this model, we find that the occurrence of the hysteresis loop in the cyclic loading curve is determined by the reverse yielding of the elastic-plastic materials in the strand. Both the initial thermal residual stress in the strand and the pitch length of the filaments have significant impacts on the axial and hysteretic behaviors of the strand. The damage of the filaments also affects the axial mechanical behavior of the strand remarkably at large axial strain. The critical current of the strand is calculated by the scaling law with the results of the Multi-filament twist model. The predicted results of the Multi-filament twist model show an acceptable agreement with the experiment.

Molecular investigation of evaporation of biodroplets containing single-strand DNA on graphene surface.

PubMed

Akbari, Fahimeh; Foroutan, Masumeh

2018-02-14

In this study, the water droplet behaviour of four different types of single-strand DNA with homogeneous base sequence on a graphene substrate during evaporation of the droplet was investigated using molecular dynamics (MD) simulation. The simulation results indicated that the evaporation depended on the DNA sequence. The observed changes can be divided into four parts: (i) vaporization mode, (ii) evaporation flux, (iii) mechanism of single-strand placement on the surface, and (iv) consideration of remaining single strands after evaporation. Our simulation observations indicated different evaporation modes for thymine biodroplets as compared to those for other biodroplets. The evaporation of the thymine biodroplets occurred with an increase in the contact angle, while that of the other biodroplets occur in a constant contact angle mode. Moreover, thymine biodroplets generate the lowest contact line compared to other single strands, and it is always placed far away from the centre of the droplets during evaporation. Investigating variations in the evaporation flux shows that thymine has the highest evaporation flux and guanine has the lowest. Moreover, during initial evaporation, the flux of evaporation increases at the triple point of the biodroplets containing thymine single strands, while it decreases in the other biodroplets. The following observation was obtained from the study of the placement of single strands on the substrate: guanine and thymine interacted slower than other single strands during evaporation with graphene, adenine single strand had a higher folding during evaporation, and guanine single strand showed the lowest end-to-end distance. The investigation of single-strand DNA after evaporation shows that adenine produces the most stable structure at the end of evaporation. In addition, cytosine is the most stretched single-strand DNA due to its lack of internal π-π stacking and hydrogen bonding. Therefore, cytosine single strand is more accessible for use in microarrays to detect target single strands.

Correlated Template-Switching Events during Minus-Strand DNA Synthesis: a Mechanism for High Negative Interference during Retroviral Recombination

PubMed Central

Anderson, Jeffrey A.; Teufel, Ronald J.; Yin, Philip D.; Hu, Wei-Shau

1998-01-01

Two models for the mechanism of retroviral recombination have been proposed: forced copy choice (minus-strand recombination) and strand displacement-assimilation (plus-strand recombination). Each minus-strand recombination event results in one template switch, whereas each plus-strand recombination event results in two template switches. Recombinant proviruses with one and more than one template switches were previously observed. Recombinants with one template switch were generated by minus-strand recombination, while recombinants containing more than one template switch may have been generated by plus-strand recombination or by correlated minus-strand recombination. We recently observed that retroviral recombination exhibits high negative interference whereby the frequency of recombinants containing multiple template-switching events is higher than expected. To delineate the mechanism that generates recombinants with more than one template switch, we devised a system that permits only minus-strand recombination. Two highly homologous vectors, WH204 and WH221, containing eight different restriction site markers were used. The primer binding site (PBS) of WH221 was deleted; although reverse transcription cannot initiate from WH221 RNA, it can serve as a template for DNA synthesis in heterozygotic virions. After one round of retroviral replication, the structures of the recombinant proviruses were examined. Recombinants containing two, three, four, and five template switches were observed at 1.4-, 10-, 65-, and 50-fold-higher frequencies, respectively, than expected. This indicates that minus-strand recombination events are correlated and can generate proviruses with multiple template switches efficiently. The frequencies of recombinants containing multiple template switches were similar to those observed in the previous system, which allowed both minus- and plus-strand recombination. Thus, the previously reported high negative interference during retroviral recombination can be caused by correlated template switches during minus-strand DNA synthesis. In addition, all examined recombinants contained an intact PBS, indicating that most of the plus-strand DNA transfer occurs after completion of the strong-stop DNA. PMID:9445017

Replication of tobacco mosaic virus RNA.

PubMed Central

Buck, K W

1999-01-01

The replication of tobacco mosaic virus (TMV) RNA involves synthesis of a negative-strand RNA using the genomic positive-strand RNA as a template, followed by the synthesis of positive-strand RNA on the negative-strand RNA templates. Intermediates of replication isolated from infected cells include completely double-stranded RNA (replicative form) and partly double-stranded and partly single-stranded RNA (replicative intermediate), but it is not known whether these structures are double-stranded or largely single-stranded in vivo. The synthesis of negative strands ceases before that of positive strands, and positive and negative strands may be synthesized by two different polymerases. The genomic-length negative strand also serves as a template for the synthesis of subgenomic mRNAs for the virus movement and coat proteins. Both the virus-encoded 126-kDa protein, which has amino-acid sequence motifs typical of methyltransferases and helicases, and the 183-kDa protein, which has additional motifs characteristic of RNA-dependent RNA polymerases, are required for efficient TMV RNA replication. Purified TMV RNA polymerase also contains a host protein serologically related to the RNA-binding subunit of the yeast translational initiation factor, eIF3. Study of Arabidopsis mutants defective in RNA replication indicates that at least two host proteins are needed for TMV RNA replication. The tomato resistance gene Tm-1 may also encode a mutant form of a host protein component of the TMV replicase. TMV replicase complexes are located on the endoplasmic reticulum in close association with the cytoskeleton in cytoplasmic bodies called viroplasms, which mature to produce 'X bodies'. Viroplasms are sites of both RNA replication and protein synthesis, and may provide compartments in which the various stages of the virus mutiplication cycle (protein synthesis, RNA replication, virus movement, encapsidation) are localized and coordinated. Membranes may also be important for the configuration of the replicase with respect to initiation of RNA synthesis, and synthesis and release of progeny single-stranded RNA. PMID:10212941

Sulfolobus chromatin proteins modulate strand displacement by DNA polymerase B1

PubMed Central

Sun, Fei; Huang, Li

2013-01-01

Strand displacement by a DNA polymerase serves a key role in Okazaki fragment maturation, which involves displacement of the RNA primer of the preexisting Okazaki fragment into a flap structure, and subsequent flap removal and fragment ligation. We investigated the role of Sulfolobus chromatin proteins Sso7d and Cren7 in strand displacement by DNA polymerase B1 (PolB1) from the hyperthermophilic archaeon Sulfolobus solfataricus. PolB1 showed a robust strand displacement activity and was capable of synthesizing thousands of nucleotides on a DNA-primed 72-nt single-stranded circular DNA template. This activity was inhibited by both Sso7d and Cren7, which limited the flap length to 3–4 nt at saturating concentrations. However, neither protein inhibited RNA displacement on an RNA-primed single-stranded DNA minicircle by PolB1. Strand displacement remained sensitive to modulation by the chromatin proteins when PolB1 was in association with proliferating cell nuclear antigen. Inhibition of DNA instead of RNA strand displacement by the chromatin proteins is consistent with the finding that double-stranded DNA was more efficiently bound and stabilized than an RNA:DNA duplex by these proteins. Our results suggest that Sulfolobus chromatin proteins modulate strand displacement by PolB1, permitting efficient removal of the RNA primer while inhibiting excessive displacement of the newly synthesized DNA strand during Okazaki fragment maturation. PMID:23821667

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.

One-Dimensional Nanostructure Field-Effect Sensors for Gas Detection

PubMed Central

Zhao, Xiaoli; Cai, Bin; Tang, Qingxin; Tong, Yanhong; Liu, Yichun

2014-01-01

Recently; one-dimensional (1D) nanostructure field-effect transistors (FETs) have attracted much attention because of their potential application in gas sensing. Micro/nanoscaled field-effect sensors combine the advantages of 1D nanostructures and the characteristic of field modulation. 1D nanostructures provide a large surface area-volume ratio; which is an outstanding advantage for gas sensors with high sensitivity and fast response. In addition; the nature of the single crystals is favorable for the studies of the response mechanism. On the other hand; one main merit of the field-effect sensors is to provide an extra gate electrode to realize the current modulation; so that the sensitivity can be dramatically enhanced by changing the conductivity when operating the sensors in the subthreshold regime. This article reviews the recent developments in the field of 1D nanostructure FET for gas detection. The sensor configuration; the performance as well as their sensing mechanism are evaluated. PMID:25090418

Using DNA origami nanostructures to determine absolute cross sections for UV photon-induced DNA strand breakage.

PubMed

Vogel, Stefanie; Rackwitz, Jenny; Schürman, Robin; Prinz, Julia; Milosavljević, Aleksandar R; Réfrégiers, Matthieu; Giuliani, Alexandre; Bald, Ilko

2015-11-19

We have characterized ultraviolet (UV) photon-induced DNA strand break processes by determination of absolute cross sections for photoabsorption and for sequence-specific DNA single strand breakage induced by photons in an energy range from 6.50 to 8.94 eV. These represent the lowest-energy photons able to induce DNA strand breaks. Oligonucleotide targets are immobilized on a UV transparent substrate in controlled quantities through attachment to DNA origami templates. Photon-induced dissociation of single DNA strands is visualized and quantified using atomic force microscopy. The obtained quantum yields for strand breakage vary between 0.06 and 0.5, indicating highly efficient DNA strand breakage by UV photons, which is clearly dependent on the photon energy. Above the ionization threshold strand breakage becomes clearly the dominant form of DNA radiation damage, which is then also dependent on the nucleotide sequence.

Mechanism of asymmetric polymerase assembly at the eukaryotic replication fork

PubMed Central

Georgescu, Roxana E; Langston, Lance; Yao, Nina Y; Yurieva, Olga; Zhang, Dan; Finkelstein, Jeff; Agarwal, Tani; O’Donnell, Mike E

2015-01-01

Eukaryotes use distinct polymerases for leading- and lagging-strand replication, but how they target their respective strands is uncertain. We reconstituted Saccharomyces cerevisiae replication forks and found that CMG helicase selects polymerase (Pol) ε to the exclusion of Pol δ on the leading strand. Even if Pol δ assembles on the leading strand, Pol ε rapidly replaces it. Pol δ–PCNA is distributive with CMG, in contrast to its high stability on primed ssDNA. Hence CMG will not stabilize Pol δ, instead leaving the leading strand accessible for Pol ε and stabilizing Pol ε. Comparison of Pol ε and Pol δ on a lagging-strand model DNA reveals the opposite. Pol δ dominates over excess Pol ε on PCNA-primed ssDNA. Thus, PCNA strongly favors Pol δ over Pol ε on the lagging strand, but CMG over-rides and flips this balance in favor of Pol ε on the leading strand. PMID:24997598

Crude oil as a stranding cause among loggerhead sea turtles (Caretta caretta) in the Canary Islands, Spain (1998-2011).

PubMed

Camacho, María; Calabuig, Pascual; Luzardo, Octavio P; Boada, Luis D; Zumbado, Manuel; Orós, Jorge

2013-07-01

We report the number of strandings caused by crude oil among loggerhead turtles (Caretta caretta) in the Canary Islands between 1998 and 2011 and analyze the impact of the designation of the Canary Islands as a Particularly Sensitive Sea Area (PSSA) in 2005. Among 1,679 stranded loggerhead turtles, 52 turtles stranded due to crude oil (3.1%). The survival rate of the turtles stranded by crude oil was 88%. All turtles that died because of crude oil stranding had signs of ingestion of crude oil and lesions, included esophageal impaction, necrotizing gastroenteritis, necrotizing hepatitis, and tubulonephrosis. The number of strandings caused by crude oil after 2005 was significantly lower than it was before 2006. We show that the designation of the Canary Islands as a PSSA in 2005 by the International Maritime Organization was associated with a reduction of sea turtle strandings caused by crude oil.

Development of strand burner for solid propellant burning rate studies

NASA Astrophysics Data System (ADS)

Aziz, A.; Mamat, R.; Ali, W. K. Wan

2013-12-01

It is well-known that a strand burner is an apparatus that provides burning rate measurements of a solid propellant at an elevated pressure in order to obtain the burning characteristics of a propellant. This paper describes the facilities developed by author that was used in his studies. The burning rate characteristics of solid propellant have be evaluated over five different chamber pressures ranging from 1 atm to 31 atm using a strand burner. The strand burner has a mounting stand that allows the propellant strand to be mounted vertically. The strand was ignited electrically using hot wire, and the burning time was recorded by electronic timer. Wire technique was used to measure the burning rate. Preliminary results from these techniques are presented. This study shows that the strand burner can be used on propellant strands to obtain accurate low pressure burning rate data.

Extended Minus-Strand DNA as Template for R-U5-Mediated Second-Strand Transfer in Recombinational Rescue of Primer Binding Site-Modified Retroviral Vectors

PubMed Central

Mikkelsen, Jacob Giehm; Lund, Anders H.; Dybkær, Karen; Duch, Mogens; Pedersen, Finn Skou

1998-01-01

We have previously demonstrated recombinational rescue of primer binding site (PBS)-impaired Akv murine leukemia virus-based vectors involving initial priming on endogenous viral sequences and template switching during cDNA synthesis to obtain PBS complementarity in second-strand transfer of reverse transcription (Mikkelsen et al., J. Virol. 70:1439–1447, 1996). By use of the same forced recombination system, we have now found recombinant proviruses of different structures, suggesting that PBS knockout vectors may be rescued through initial priming on endogenous virus RNA, read-through of the mutated PBS during minus-strand synthesis, and subsequent second-strand transfer mediated by the R-U5 complementarity of the plus strand and the extended minus-strand DNA acceptor template. Mechanisms for R-U5-mediated second-strand transfer and its possible role in retrovirus replication and evolution are discussed. PMID:9499117

Dynamics of Leading-strand Lesion Skipping by the Replisome

PubMed Central

Yeeles, Joseph T.P.; Marians, Kenneth J.

2013-01-01

SUMMARY The E. coli replisome stalls transiently when it encounters a lesion in the leading-strand template, skipping over the damage by reinitiating replication at a new primer synthesized downstream by the primase. We report here that template unwinding and lagging-strand synthesis continue downstream of the lesion at a reduced rate after replisome stalling, that one replisome is capable of skipping multiple lesions, and that the rate limiting steps of replication restart involve the synthesis and activation of the new primer downstream. We also find little support for the concept that polymerase uncoupling, where extensive lagging-strand synthesis proceeds downstream in the absence of leading-strand synthesis, involves physical separation of the leading-strand polymerase from the replisome. Instead, our data indicate that extensive uncoupled replication likely results from a failure of the leading-strand polymerase still associated with the DNA helicase and the lagging-strand polymerase that are proceeding downstream to reinitiate synthesis. PMID:24268579

The Ties that Bind? Galactic Magnetic Fields and Ram Pressure Stripping

NASA Astrophysics Data System (ADS)

Tonnesen, Stephanie; Stone, James

2014-11-01

One process affecting gas-rich cluster galaxies is ram pressure stripping (RPS), i.e., the removal of galactic gas through direct interaction with the intracluster medium (ICM). Galactic magnetic fields may have an important impact on the stripping rate and tail structure. We run the first magnetohydrodynamic (MHD) simulations of RPS that include a galactic magnetic field, using 159 pc resolution throughout our entire domain in order to resolve mixing throughout the tail. We find very little difference in the total amount of gas removed from the unmagnetized and magnetized galaxies, although a magnetic field with a radial component will initially accelerate stripped gas more quickly. In general, we find that magnetic fields in the disk lead to slower velocities in the stripped gas near the disk and faster velocities farther from the disk. We also find that magnetic fields in the galactic gas lead to larger unmixed structures in the tail. Finally, we discuss whether ram pressure stripped tails can magnetize the ICM. We find that the total magnetic energy density grows as the tail lengthens, likely through turbulence. There are μG-strength fields in the tail in all of our MHD runs, which survive to at least 100 kpc from the disk (the edge of our simulated region), indicating that the area-filling factor of magnetized tails in a cluster could be large.

The ties that bind? Galactic magnetic fields and ram pressure stripping

DOE Office of Scientific and Technical Information (OSTI.GOV)

Tonnesen, Stephanie; Stone, James, E-mail: stonnes@astro.princeton.edu, E-mail: jstone@astro.princeton.edu

One process affecting gas-rich cluster galaxies is ram pressure stripping (RPS), i.e., the removal of galactic gas through direct interaction with the intracluster medium (ICM). Galactic magnetic fields may have an important impact on the stripping rate and tail structure. We run the first magnetohydrodynamic (MHD) simulations of RPS that include a galactic magnetic field, using 159 pc resolution throughout our entire domain in order to resolve mixing throughout the tail. We find very little difference in the total amount of gas removed from the unmagnetized and magnetized galaxies, although a magnetic field with a radial component will initially acceleratemore » stripped gas more quickly. In general, we find that magnetic fields in the disk lead to slower velocities in the stripped gas near the disk and faster velocities farther from the disk. We also find that magnetic fields in the galactic gas lead to larger unmixed structures in the tail. Finally, we discuss whether ram pressure stripped tails can magnetize the ICM. We find that the total magnetic energy density grows as the tail lengthens, likely through turbulence. There are μG-strength fields in the tail in all of our MHD runs, which survive to at least 100 kpc from the disk (the edge of our simulated region), indicating that the area-filling factor of magnetized tails in a cluster could be large.« less

Land subsidence caused by withdrawal of oil and gas in the Gulf coastal plain - The Houston, Texas, case history

DOE Office of Scientific and Technical Information (OSTI.GOV)

Holzer, T.L.

1990-09-01

The extensive network of geodetic leveling lines in the Houston-Galveston, Texas, area, where at least 110 oil and gas fields have been developed, provides the most comprehensive opportunity in the Gulf Coast to search for the occurrence of land subsidence caused by withdrawal of oil and gas. Although the evaluation is complicated by regional subsidence caused by a decline of ground-water level in aquifers beneath the area, subsidence caused by oil and gas withdrawal can be examined by searching for local increases of subsidence at oil and gas fields crossed by leveling lines. Twenty-nine fields are crossed by lines withmore » repeated leveling surveys. Subsidence profiles across these fields indicate local increases of subsidence at six fields-Alco-Mag, Chocolate Bayou, Goose Creek, Hastings, Mykawa, and South Houston. Although ground-water withdrawal is undoubtedly the most important factor contributing to the total subsidence at each field, oil and gas withdrawal may be partly responsible for the local increases. Except for Chocolate Bayou, the volume of petroleum production at each field was sufficient to account for the increase. The volume of petroleum production, however, in general is not a reliable index for predicting the local increase because land within many fields with significant production did not show local increases of subsidence. With the exception of the 1 m subsidence caused by petroleum withdrawal at Goose Creek (1917-1925), local increases of subsidence were less than 0.3 m.« less

Topological signatures of interstellar magnetic fields - I. Betti numbers and persistence diagrams

NASA Astrophysics Data System (ADS)

Makarenko, Irina; Shukurov, Anvar; Henderson, Robin; Rodrigues, Luiz F. S.; Bushby, Paul; Fletcher, Andrew

2018-04-01

The interstellar medium (ISM) is a magnetized system in which transonic or supersonic turbulence is driven by supernova explosions. This leads to the production of intermittent, filamentary structures in the ISM gas density, whilst the associated dynamo action also produces intermittent magnetic fields. The traditional theory of random functions, restricted to second-order statistical moments (or power spectra), does not adequately describe such systems. We apply topological data analysis (TDA), sensitive to all statistical moments and independent of the assumption of Gaussian statistics, to the gas density fluctuations in a magnetohydrodynamic simulation of the multiphase ISM. This simulation admits dynamo action, so produces physically realistic magnetic fields. The topology of the gas distribution, with and without magnetic fields, is quantified in terms of Betti numbers and persistence diagrams. Like the more standard correlation analysis, TDA shows that the ISM gas density is sensitive to the presence of magnetic fields. However, TDA gives us important additional information that cannot be obtained from correlation functions. In particular, the Betti numbers per correlation cell are shown to be physically informative. Magnetic fields make the ISM more homogeneous, reducing the abundance of both isolated gas clouds and cavities, with a stronger effect on the cavities. Remarkably, the modification of the gas distribution by magnetic fields is captured by the Betti numbers even in regions more than 300 pc from the mid-plane, where the magnetic field is weaker and correlation analysis fails to detect any signatures of magnetic effects.

Natural gas production and anomalous geothermal gradients of the deep Tuscaloosa Formation

USGS Publications Warehouse

Burke, Lauri

2011-01-01

For the largest producing natural gas fields in the onshore Gulf of Mexico Basin, the relation between temperature versus depth was investigated. Prolific natural gas reservoirs with the highest temperatures were found in the Upper Cretaceous downdip Tuscaloosa trend in Louisiana. Temperature and production trends from the deepest field, Judge Digby field, in Pointe Coupe Parish, Louisiana, were investigated to characterize the environment of natural gas in the downdip Tuscaloosa trend. The average production depth in the Judge Digby field is approximately 22,000 ft. Temperatures as high as 400 degrees F are typically found at depth in Judge Digby field and are anomalously low when compared to temperature trends extrapolated to similar depths regionally. At 22,000 ft, the minimum and maximum temperatures for all reservoirs in Gulf Coast producing gas fields are 330 and 550 degrees F, respectively; the average temperature is 430 degrees F. The relatively depressed geothermal gradients in the Judge Digby field may be due to high rates of sediment preservation, which may have delayed the thermal equilibration of the sediment package with respect to the surrounding rock. Analyzing burial history and thermal maturation indicates that the deep Tuscaloosa trend in the Judge Digby field is currently in the gas generation window. Using temperature trends as an exploration tool may have important implications for undiscovered hydrocarbons at greater depths in currently producing reservoirs, and for settings that are geologically analogous to the Judge Digby fiel

Tensile and thickness swelling properties of strands from Southern hardwoods and Southern pine : effect of hot-pressing and resin application

Treesearch

Zhiyong Cai; Qinglin Wu; Guangping Han; Jong N. Lee

2007-01-01

Tensile and the moisture-induced thickness swelling properties of wood strands are among the most fundamental parameters in modeling and predicting engineering constants of strand-based composites such as oriented strandboard (OSB). The effects of hot-pressing and resin-curing on individual strand properties were investigated in this study. Strands from four Louisiana-...

Flow fields of low pressure vent exhausts

NASA Technical Reports Server (NTRS)

Scialdone, John J.

1990-01-01

The flow field produced by low pressure gas vents are described based on experimental data obtained from tests in a large vacuum chamber. The gas density, pressure, and flux at any location in the flow field are calculated based on the vent plume description and the knowledge of the flow rate and velocity of the venting gas. The same parameters and the column densities along a specified line of sight traversing the plume are also obtained and shown by a computer generated graphical representation. The fields obtained with a radically scanning Pitot probe within the exhausting gas are described by a power of the cosine function, the mass rate, and the distance from the exit port. The field measurements were made for gas at pressures ranging from 2 to 50 torr venting from pipe fittings with diameters to 3/16 to 1-1/2 inches I.D. (4.76 to 38.1 mm). The N2 mass flow rates ranged from 2E-4 to 3.7E-1 g/s.

Flow fields of low pressure vent exhausts

NASA Technical Reports Server (NTRS)

Scialdone, John J.

1989-01-01

The flow field produced by low pressure gas vents are described based on experimental data obtained from tests in a large vacuum chamber. The gas density, pressure, and flux at any location in the flow field are calculated based on the vent plume description and the knowledge of the flow rate and velocity of the venting gas. The same parameters and the column densities along a specified line of sight traversing the plume are also obtained and shown by a computer-generated graphical representation. The fields obtained with a radially scanning Pitot probe within the exhausting gas are described by a power of the cosine function, the mass rate and the distance from the exit port. The field measurements were made for gas at pressures ranging from 2 to 50 torr venting from pipe fittings with diameters of 3/16 inch to 1-1/2 inches I.D. (4.76 mm to 38.1 mm). The N(2) mass flow rates ranged from 2E-4 to 3.7E-1 g/s.

Improvement of spin-exchange optical pumping of xenon-129 using in situ NMR measurement in ultra-low magnetic field

NASA Astrophysics Data System (ADS)

Takeda, Shun; Kumagai, Hiroshi

2018-02-01

Hyperpolarized (HP) noble gas has attracted attention in NMR / MRI. In an ultra-low magnetic field, the effectiveness of signal enhancement by HP noble gas should be required because reduction of the signal intensity is serious. One method of generating HP noble gas is spin exchange optical pumping which uses selective excitation of electrons of alkali metal vapor and spin transfer to nuclear spin by collision to noble gas. Although SEOP does not require extreme cooling or strong magnetic field, generally it required large-scale equipment including high power light source to generate HP noble gas with high efficiency. In this study, we construct a simply generation system of HP xenon-129 by SEOP with an ultralow magnetic field (up to 1 mT) and small-scale light source (about 1W). In addition, we measure in situ NMR signal at the same time, and then examine efficient conditions for SEOP in ultra-low magnetic fields.

Cellular nucleic acid binding protein binds G-rich single-stranded nucleic acids and may function as a nucleic acid chaperone.

PubMed

Armas, Pablo; Nasif, Sofía; Calcaterra, Nora B

2008-02-15

Cellular nucleic acid binding protein (CNBP) is a small single-stranded nucleic acid binding protein made of seven Zn knuckles and an Arg-Gly rich box. CNBP is strikingly conserved among vertebrates and was reported to play broad-spectrum functions in eukaryotic cells biology. Neither its biological function nor its mechanisms of action were elucidated yet. The main goal of this work was to gain further insights into the CNBP biochemical and molecular features. We studied Bufo arenarum CNBP (bCNBP) binding to single-stranded nucleic acid probes representing the main reported CNBP putative targets. We report that, although bCNBP is able to bind RNA and single-stranded DNA (ssDNA) probes in vitro, it binds RNA as a preformed dimer whereas both monomer and dimer are able to bind to ssDNA. A systematic analysis of variant probes shows that the preferred bCNBP targets contain unpaired guanosine-rich stretches. These data expand the knowledge about CNBP binding stoichiometry and begins to dissect the main features of CNBP nucleic acid targets. Besides, we show that bCNBP presents a highly disordered predicted structure and promotes the annealing and melting of nucleic acids in vitro. These features are typical of proteins that function as nucleic acid chaperones. Based on these data, we propose that CNBP may function as a nucleic acid chaperone through binding, remodeling, and stabilizing nucleic acids secondary structures. This novel CNBP biochemical activity broadens the field of study about its biological function and may be the basis to understand the diverse ways in which CNBP controls gene expression. Copyright 2007 Wiley-Liss, Inc.

Nanoparticles Affect PCR Primarily via Surface Interactions with PCR Components: Using Amino-Modified Silica-Coated Magnetic Nanoparticles as a Main Model.

PubMed

Bai, Yalong; Cui, Yan; Paoli, George C; Shi, Chunlei; Wang, Dapeng; Shi, Xianming

2015-06-24

Nanomaterials have been widely reported to affect the polymerase chain reaction (PCR). However, many studies in which these effects were observed were not comprehensive, and many of the proposed mechanisms have been primarily speculative. In this work, we used amino-modified silica-coated magnetic nanoparticles (ASMNPs, which can be collected very easily using an external magnetic field) as a model and compared them with gold nanoparticles (AuNPs, which have been studied extensively) to reveal the mechanisms by which nanoparticles affect PCR. We found that nanoparticles affect PCR primarily by binding to PCR components: (1) inhibition, (2) specifity, and (3) efficiency and yield of PCR are impacted. (1) Excess nanomaterials inhibit PCR by adsorbing to DNA polymerase, Mg(2+), oligonucleotide primers, or DNA templates. Nanoparticle surface-active groups are particularly important to this effect. (2, a) Nanomaterials do not inhibit nonspecific amplification products caused by false priming as previously surmised. It was shown that relatively low concentrations of nanoparticles inhibited the amplification of long amplicons, and increasing the amount of nanoparticles inhibited the amplification of short amplicons. This concentration phenomenon appears to be the result of the formation of "joints" upon the adsorption of ASMNPs to DNA templates. (b) Nanomaterials are able to inhibit nonspecific amplification products due to incomplete amplification by preferably adsorbing single-stranded incomplete amplification products. (3) Some types of nanomaterials, such as AuNPs, enhance the efficiency and yield of PCR because these types of nanoparticles can adsorb to single-stranded DNA more strongly than to double-stranded DNA. This behavior assists in the rapid and thorough denaturation of double-stranded DNA templates. Therefore, the interaction between the surface of nanoparticles and PCR components is sufficient to explain most of the effects of nanoparticles on PCR.

Geometric Patterns for Neighboring Bases Near the Stacked State in Nucleic Acid Strands.

PubMed

Sedova, Ada; Banavali, Nilesh K

2017-03-14

Structural variation in base stacking has been analyzed frequently in isolated double helical contexts for nucleic acids, but not as often in nonhelical geometries or in complex biomolecular environments. In this study, conformations of two neighboring bases near their stacked state in any environment are comprehensively characterized for single-strand dinucleotide (SSD) nucleic acid crystal structure conformations. An ensemble clustering method is used to identify a reduced set of representative stacking geometries based on pairwise distances between select atoms in consecutive bases, with multiple separable conformational clusters obtained for categories divided by nucleic acid type (DNA/RNA), SSD sequence, stacking face orientation, and the presence or absence of a protein environment. For both DNA and RNA, SSD conformations are observed that are either close to the A-form, or close to the B-form, or intermediate between the two forms, or further away from either form, illustrating the local structural heterogeneity near the stacked state. Among this large variety of distinct conformations, several common stacking patterns are observed between DNA and RNA, and between nucleic acids in isolation or in complex with proteins, suggesting that these might be stable stacking orientations. Noncanonical face/face orientations of the two bases are also observed for neighboring bases in the same strand, but their frequency is much lower, with multiple SSD sequences across categories showing no occurrences of such unusual stacked conformations. The resulting reduced set of stacking geometries is directly useful for stacking-energy comparisons between empirical force fields, prediction of plausible localized variations in single-strand structures near their canonical states, and identification of analogous stacking patterns in newly solved nucleic acid containing structures.

Gas block mechanism for water removal in fuel cells

DOEpatents

Issacci, Farrokh; Rehg, Timothy J.

2004-02-03

The present invention is directed to apparatus and method for cathode-side disposal of water in an electrochemical fuel cell. There is a cathode plate. Within a surface of the plate is a flow field comprised of interdigitated channels. During operation of the fuel cell, cathode gas flows by convection through a gas diffusion layer above the flow field. Positioned at points adjacent to the flow field are one or more porous gas block mediums that have pores sized such that water is sipped off to the outside of the flow field by capillary flow and cathode gas is blocked from flowing through the medium. On the other surface of the plate is a channel in fluid communication with each porous gas block mediums. The method for water disposal in a fuel cell comprises installing the cathode plate assemblies at the cathode sides of the stack of fuel cells and manifolding the single water channel of each of the cathode plate assemblies to the coolant flow that feeds coolant plates in the stack.

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

Low-field MRI of laser polarized noble gas

NASA Technical Reports Server (NTRS)

Tseng, C. H.; Wong, G. P.; Pomeroy, V. R.; Mair, R. W.; Hinton, D. P.; Hoffmann, D.; Stoner, R. E.; Hersman, F. W.; Cory, D. G.; Walsworth, R. L.

1998-01-01

NMR images of laser polarized 3He gas were obtained at 21 G using a simple, homebuilt instrument. At such low fields magnetic resonance imaging (MRI) of thermally polarized samples (e.g., water) is not practical. Low-field noble gas MRI has novel scientific, engineering, and medical applications. Examples include portable systems for diagnosis of lung disease, as well as imaging of voids in porous media and within metallic systems.

Record development expected in Indonesia and Malaysia. [Extensive survey of oil and gas developments

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1975-08-15

Crude production from the countries of Indonesia, Australia, Brunei, Malaysia, and New Zealand averaged 2,043,866 bpd in 1974, a 1.2 percent decrease from 1973 average rates. Several new fields in Kalimantan, Java, and Sumatra were put onstream, and the prolific new 100,000-bpd Walio field in Irian Jaya was tapped. Australian crude production, primarily from Bass Strait fields, slipped to 386,127 bpd. The Australian government told of plans for the country's huge natural gas potential and a preliminary schedule was proposed for a multi-billion-dollar North West Shelf program involving Woodside-Burmah. In Brunei, Shell continued development of new offshore fields; but crudemore » production dropped to 192,708 bpd in 1974, from 229,277 bpd in 1973. Emphasis was on adding gas wells to the big Southwest Ampa offshore field; gas production increased last year to an estimated 500 MMcfd. At the start of 1975-before politics interfered-Malaysia was headed for a significant production increase. New Zealand intensified exploration with addition of the Penrod 74 semi-submersible, and a 400-foot, 12-well platform is under construction for the huge Maui gas field. Papua New Guinea is slowly approaching independence from Australia and exploration increased in the Gulf of Papua around Phillips' earlier gas discoveries.« less

[Results of flexor tendon sutures of the fingers with 2-strand (40 tendons) and 4-strand (64 tendons) core sutures].

PubMed

Winkel, R; Kalbhenn, O; Hoffmann, R

2012-06-01

This retrospective examination compares the results of finger flexor tendon sutures with 2 strands and 4 strands. It was checked, whether and how 2 more strands influenced the rupture rate, the movement of the finger and the contentment of the patients. From 1996 to 2000 for the core suture of the flexor tendon of fingers we used 2 strands. 35 patients with 40 tendon sutures of 73 patients were examined. From 2001 to 2005 we used for the core suture 2 loop threads. 53 patients with 64 tendon sutures from a total of 111 patients were examined. At least 12 months had passed between operation and the examination. The rupture rate and the range of movement of each finger joint and the total mobility of the affected fingers were evaluated. Each case was compared to the uninjured opposite hand. The functional result was judged according to the score of Buck-Gramcko. The patient's contentment was recorded by the DASH (disability of arm, shoulder and hand) score. Effects of gender, age, accompanying injuries, zone of the injury and their influence on the results were analysed. The Buck-Gramcko score showed in the 2-strand group a distribution from summarised 70% "excellent" and "good" and 30% "fair" and "poor". In the 4-strand-group the relation was 93.7% "excellent" and "good", 6.3% "fair", one "poor". In the 2-strand group 2/40 (5%) of the tendon sutures ruptured, in the 4-strand group 1/64 (1.6%) ruptured. The average DASH value in the 2-strands-group was 16.6/100, in the 4-strands-group 18.1/100 when 0 is the best possible result and 100 the worst. The patient judgement in the 2-strand group was summarised to 70% for "excellent" and "good" and 30% "fair" and "poor". In the 4-strand group the patient's judgment was summarised in 75% "excellent" and "good" and in 25% "fair". The results of flexor tendon sutures with 4-strand core sutures have been superior to the results with 2-strand core suture according to range of motion of the fingers (P <0.005). © Georg Thieme Verlag KG Stuttgart · New York.

A novel single fluorophore-labeled double-stranded oligonucleotide probe for fluorescence-enhanced nucleic acid detection based on the inherent quenching ability of deoxyguanosine bases and competitive strand-displacement reaction.

PubMed

Zhang, Yingwei; Tian, Jingqi; Li, Hailong; Wang, Lei; Sun, Xuping

2012-01-01

We develop a novel single fluorophore-labeled double-stranded oligonucleotide (OND) probe for rapid, nanostructure-free, fluorescence-enhanced nucleic acid detection for the first time. We further demonstrate such probe is able to well discriminate single-base mutation in nucleic acid. The design takes advantage of an inherent quenching ability of guanine bases. The short strand of the probe is designed with an end-labeled fluorophore that is placed adjacent to two guanines as the quencher located on the long opposite strand, resulting in great quenching of dye fluorescence. In the presence of a target complementary to the long strand of the probe, a competitive strand-displacement reaction occurs and the long strand forms a more stable duplex with the target, resulting in the two strands of the probe being separated from each other. As a consequence of this displacement, the fluorophore and the quencher are no longer in close proximity and dye fluorescence increases, signaling the presence of target.

Geological notes, Boory field, Cameron County, Texas

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stapp, W.L.

1981-12-01

The gas fields of the Lower Miocene sands of Cameron County have gained enough maturity in their production experience to afford a consideration of their performance and characteristics. The Holy Beach field in the Laguna Madre has produced over 100 billion cu ft of gas, and others have produced over 25 billion; several are smaller. The characteristics of these fields include the modest cost of drilling in the range of pays 3000 ft to 7500 ft depth, and the small area of production, with several pay sands, usually a few feet thick but being very porous (over 30%) and permeablemore » (streaks of over 800 md). A fairly dry gas is produced with normal pressures. The Boory field may be singled out as a small but interesting field in this trend. It was found in 1973 and produced 4-1/2 billion cu ft of gas from a 310-acre area with 8 pay sands in depths 4750 to 6200 ft depth. The field was abandoned in 1980.« less

Growth Stimulation of Biological Cells and Tissue by Electromagnetic Fields and Uses Thereof

NASA Technical Reports Server (NTRS)

Wolf, David A. (Inventor); Goodwin, Thomas J. (Inventor)

2002-01-01

The present invention provides systems for growing two or three dimensional mammalian cells within a culture medium facilitated by an electromagnetic field, and preferably, a time varying electromagnetic field. The cells, and culture medium are contained within a fixed or rotating culture vessel, and the electromagnetic field is emitted from at least one electrode. In one embodiment, the electrode is spaced from the vessel. The invention further provides methods to promote neural tissue regeneration by means of culturing the neural cells in the claimed system. In one embodiment, neuronal cells are grown within longitudinally extending tissue strands extending axially along and within electrodes comprising electrically conductive channels or guides through which a time varying electrical current is conducted, the conductive channels being positioned within a culture medium.

Growth stimulation of biological cells and tissue by electromagnetic fields and uses thereof

NASA Technical Reports Server (NTRS)

Wolf, David A. (Inventor); Goodwin, Thomas J. (Inventor)

2004-01-01

The present invention provides systems for growing two or three dimensional mammalian cells within a culture medium facilitated by an electromagnetic field, and preferably, a time varying electromagnetic field. The cells and culture medium are contained within a fixed or rotating culture vessel, and the electromagnetic field is emitted from at least one electrode. In one embodiment, the electrode is spaced from the vessel. The invention further provides methods to promote neural tissue regeneration by means of culturing the neural cells in the claimed system. In one embodiment, neuronal cells are grown within longitudinally extending tissue strands extending axially along and within electrodes comprising electrically conductive channels or guides through which a time varying electrical current is conducted, the conductive channels being positioned within a culture medium.

Petroleum system and production characteristics of the Muddy (J) Sandstone (Lower Cretaceous) Wattenberg continuous gas field, Denver basin, Colorado

USGS Publications Warehouse

Higley, D.K.; Cox, D.O.; Weimer, R.J.

2003-01-01

Wattenberg field is a continuous-type gas accumulation. Estimated ultimate recovery from current wells is 1.27 tcf of gas from the Lower Cretaceous Muddy (J) Sandstone. Mean gas resources that have the potential to be added to these reserves in the next 30 yr are 1.09 tcf; this will be primarily through infill drilling to recover a greater percentage of gas in place and to drain areas that are isolated because of geologic compartmentalization. Greatest gas production from the Muddy (J) Sandstone in Wattenberg field occurs (1) from within the most permeable and thickest intervals of Fort Collins Member delta-front and nearshore-marine sandstones, (2) to a lesser extent from the Horsetooth Member valley-fill channel sandstones, (3) in association with a large thermal anomaly that is delineated by measured temperatures in wells and by vitrinite reflectance contours of 0.9% and greater, (4) in proximity to the bounding Mowry, Graneros, and Skull Creek shales that are the hydrocarbon source rocks and reservoir seals, and (5) between the Lafayette and Longmont right-lateral wrench fault zones (WFZs) with secondary faults that act as conduits in areas of the field. The axis of greatest gas production is north 25 to 35?? northeast, which parallels the basin axis. Recurrent movement along five right-lateral WFZs that crosscut Wattenberg field shifted the Denver basin axis to the northeast and influenced depositional and erosional patterns of the reservoir and seal intervals. Levels of thermal maturity within the Wattenberg field are anomalously high compared to other areas of the Denver basin. The Wattenberg field thermal anomaly may be due to upward movement of fluids along faults associated with probable igneous intrusions. Areas of anomalous high heat flow within the field correlate with an increased and variable gas-oil ratio.

Correlation Between Geological Stuctures and Gas Hydrate amount Offshore the South Shetland Island — Preliminary Results

NASA Astrophysics Data System (ADS)

Loreto, M. F.; Tinivella, U.; Accaino, F.; Giustiniani, M.

2010-05-01

Sediments of the accretionary prism, present along the continental margin of the Peninsula Antarctica SW of Elephant Island, are filled by gas hydrates as evidenced by a strong BSR. A multidisciplinary geophysical dataset, represented by seismic data, multibeam, chirp profiles, CTD and core samples, was acquired during three oceanographic cruises. The estimation of gas hydrate and free gas concentrations is based on the P-wave velocity analysis. In order to extract a detailed and reliable velocity field, we have developed and optimized a procedure that includes the pre-stack depth migration to determine, iteratively and with a layer stripping approach method, the velocity field and the depth-migrated seismic section. The final velocity field is then translated in terms of gas hydrate and free gas amounts by using theoretical approaches. Several seismic sections have been processed in the investigated area. The final 2D velocity sections have been translated in gas-phase concentration sections, considering the gas distribution within sediments both uniformly and patchly distributed. The free gas layer is locally present and, consequently, the base of the free gas reflector was identified only in some lines or part of them. The hydrate layer shows important lateral variations of hydrate concentration in correspondence of geological features, such as faults and folds. The intense fluid migration along faults and different fluid accumulation in correspondence of geological structures can control the gas hydrate concentration and modify the geothermal field in the surrounding area.

Offshore Earthquakes Do Not Influence Marine Mammal Stranding Risk on the Washington and Oregon Coasts.

PubMed

Grant, Rachel A; Savirina, Anna; Hoppitt, Will

2018-01-26

The causes of marine mammals stranding on coastal beaches are not well understood, but may relate to topography, currents, wind, water temperature, disease, toxic algal blooms, and anthropogenic activity. Offshore earthquakes are a source of intense sound and disturbance and could be a contributing factor to stranding probability. We tested the hypothesis that the probability of marine mammal stranding events on the coasts of Washington and Oregon, USA is increased by the occurrence of offshore earthquakes in the nearby Cascadia subduction zone. The analysis carried out here indicated that earthquakes are at most, a very minor predictor of either single, or large (six or more animals) stranding events, at least for the study period and location. We also tested whether earthquakes inhibit stranding and again, there was no link. Although we did not find a substantial association of earthquakes with strandings in this study, it is likely that there are many factors influencing stranding of marine mammals and a single cause is unlikely to be responsible. Analysis of a subset of data for which detailed descriptions were available showed that most live stranded animals were pups, calves, or juveniles, and in the case of dead stranded mammals, the commonest cause of death was trauma, disease, and emaciation.

Optical Properties of Laminarin Using Terahertz Time-Domain Spectroscopy (abstract)

NASA Astrophysics Data System (ADS)

Shin, Hee Jun; Maeng, Inhee; Oh, Seung Jae; Kim, Sung In; Kim, Ha Won; Son, Joo-Hiuk

2009-04-01

Terahertz spectroscopy is important in the study of biomolecular structure because the vibration and rotation energy of large molecules such as DNA, proteins, and polysaccharides are laid in terahertz regions. Terahertz time-domain spectroscopy (THz-TDS), using terahertz pulses generated and detected by femto-second pulses laser, has been used in the study of biomolecular dynamics, as well as carrier dynamics of semiconductors. Laminarin is a polysaccharide of glucose in brown algae. It is made up of β(1-3)-glucan and β(1-6)-glucan. β-glucan is an anticancer material that activates the immune reaction of human cells and inhibits proliferation of cancer cells. β-glucan with a single-strand structure has been reported to activate the immune reaction to a greater extent than β-glucan with a triple-strand helix structure. We used THz-TDS to characterize the difference between single-strand and triple-strand β-glucan. We obtained single-strand β-glucan by chemical treatment of triple-strand β-glucan. We measured the frequency dependent optical constants of Laminarin using THz-TDS. Power absorption of the triple-strand helix is larger than the single-strand helix in terahertz regions. The refractive index of the triple-strand helix is also larger than that of the single-strand helix.

Investigation of laser polarized xenon magnetic resonance

NASA Technical Reports Server (NTRS)

Walsworth, Ronald L.

1998-01-01

Ground-based investigations of a new biomedical diagnostic technology: nuclear magnetic resonance of laser polarized noble gas are addressed. The specific research tasks discussed are: (1) Development of a large-scale noble gas polarization system; (2) biomedical investigations using laser polarized noble gas in conventional (high magnetic field) NMR systems; and (3) the development and application of a low magnetic field system for laser polarized noble gas NMR.

Field based geothermal exploration: Structural controls in the Tarutung Basin/North Central Sumatra (Indonesia)

NASA Astrophysics Data System (ADS)

Nukman, M.; Moeck, I.

2012-04-01

The Tarutung Basin is one of several basins along the prominent Sumatra Fault System (SFS) which represents a dextral strike slip fault zone segmented into individual fault strands. The basins are located at right-stepping transfer. The Tarutung Basin hosts geothermal manifestations such as hot springs and travertines indicating a geothermal system with some decent potential in the subsurface. As part of geothermal exploration, field geology is investigated focusing on how the structural setting controls the thermal manifestation distribution. A complex fault pattern is now newly mapped and evidences sinistral faults striking E-W (Silangkitang), normal faults striking SE-NW at the eastern strand of Tarutung Basin (Sitompul) and normal faults striking NW-SE at the western strand of the basin (Sitaka). These structures form an angle greater than 450 with respect to the current maximum principal stress which is oriented in N-S. Secondary sinistral shear fractures identified as antithetic Riedel shears can be correlated with hot spring locations at Silangkitang, forming an angle of 500 with respect to the current maximum stress. A large angle of normal fault and antithetic Riedel shear trend with respect to the current maximum stress direction indicates that the structures have been rotated. Unidentified dextral strike slip faults might exist at the eastern strand of Tarutung Basin to accommodate the clockwise rotation between the eastern boundary of the basin and the NW-SE striking normal fault of Panabungan. Normal faults striking parallel with the SFS East of the basin are interpreted as dilatational jogs caused by the clockwise rotated block movement with respect to the NW-SE fault trend sinistral shear along ENE-WSW faults. Silicified pryroclastics in association with large discharge at hot springs at these NW-SE striking normal faults support this hypothesis. As proposed by Nivinkovich (1976) and Nishimura (1986) Sumatra has rotated 20° clockwise since the last two million years due to the increase in sea-floor spreading rate of the Indian-Australian plate. The combination of regional clockwise rotation of Sumatra with local clockwise rotation caused by simple shear along the dextral SFS might generate the complex fault pattern which controls fluid flow of thermal water and placement of hot springs. Acknowledgements : Deutscher Akademischer Austausch Dienst, DAAD. German Ministry for Education and Research, BMBF. Badan Geologi - KESDM Bandung, Indonesia.

High strength kiloampere Bi 2Sr 2CaCu 2O x cables for high-field magnet applications

DOE PAGES

Shen, Tengming; Li, Pei; Jiang, Jianyi; ...

2015-04-17

Multifilamentary Ag-sheathed Bi 2Sr 2CaCu 2O x (Bi-2212) wire can carry sufficient critical current density J c for the development of powerful superconducting magnets. But, the range of its applications is limited by the low mechanical strength of the Ag/Bi-2212 strand. A potential solution is to cable Ag/Bi-2212 wire with high-strength materials that are compatible with the Bi-2212 heat treatment in an oxygen atmosphere. Past attempts have not always been successful, because the high-strength materials reacted with Bi-2212 wires, significantly reducing their J c. We examined the nature of reactions occurring when Ag/Bi-2212 wires are heat-treated in direct contact withmore » several commonly used high-strength alloys and a new Fe-Cr-Al alloy. INCONEL X750 and INCONEL 600 resulted in significant J c loss, whereas Ni80-Cr caused little or no J c loss; however, all of them formed chromium oxide that subsequently reacted with silver, creating cracks in the silver sheath. We found that Fe-Cr-Al did not show significant reactions with Ag/Bi-2212 strands. Scanning electron microscopy (SEM) and energy dispersive x-ray (EDS) examinations revealed that the Fe-Cr-Al alloy benefits from the formation of a uniform, crack-free, continuous alumina layer on its surface that does not react with Ag and that helps minimize the Cu loss found with INCONEL X750 and INCONEL 600. We then fabricated prototype 6-around-1 cables with six Bi-2212 strands twisted and transposed around an Fe-Cr-Al alloy core coated with TiO 2. After standard 1 bar melt processing, the cable retained 100% of the total current-carrying capability of its strands, and, after a 10 bar overpressure processing, the cable reached a total current of 1025 A at 4.2 K and 10 T. Tensile tests showed that Fe-Cr-Al becomes brittle after being cooled to 4.2 K, whereas INCONEL X750 remains ductile and retains a modulus of 183 GPa. Finally. we proposed new cable designs that take advantage of the chemical compatibility of Fe-Cr-Al and high strength of INCONEL X750 for various high-field magnet applications.« less

Watson-Crick Base Pair Radical Cation as a Model for Oxidative Damage in DNA.

PubMed

Feketeová, Linda; Chan, Bun; Khairallah, George N; Steinmetz, Vincent; Maitre, Philippe; Radom, Leo; O'Hair, Richard A J

2017-07-06

The deleterious cellular effects of ionizing radiation are well-known, but the mechanisms causing DNA damage are poorly understood. The accepted molecular events involve initial oxidation and deprotonation at guanine sites, triggering hydrogen atom abstraction reactions from the sugar moieties, causing DNA strand breaks. Probing the chemistry of the initially formed radical cation has been challenging. Here, we generate, spectroscopically characterize, and examine the reactivity of the Watson-Crick nucleobase pair radical cation in the gas phase. We observe rich chemistry, including proton transfer between the bases and propagation of the radical site in deoxyguanosine from the base to the sugar, thus rupturing the sugar. This first example of a gas-phase model system providing molecular-level details on the chemistry of an ionized DNA base pair paves the way toward a more complete understanding of molecular processes induced by radiation. It also highlights the role of radical propagation in chemistry, biology, and nanotechnology.

Evaporation of LOX under supercritical and subcritical conditions

NASA Technical Reports Server (NTRS)

Yang, A. S.; Hsieh, W. H.; Kuo, K. K.; Brown, J. J.

1993-01-01

The evaporation of LOX under supercritical and subcritical conditions was studied experimentally and theoretically. In experiments, the evaporation rate and surface temperature were measured for LOX strand vaporizing in helium environments at pressures ranging from 5 to 68 atmospheres. Gas sampling and chromatography analysis were also employed to profile the gas composition above the LOX surface for the purpose of model validation. A comprehensive theoretical model was formulated and solved numerically to simulate the evaporation process of LOX at high pressures. The model was based on the conservation equations of mass, momentum, energy, and species concentrations for a multicomponent system, with consideration of gravitational body force, solubility of ambient gases in liquid, and variable thermophysical properties. Good agreement between predictions and measured oxygen mole fraction profiles was obtained. The effect of pressure on the distribution of the Lewis number, as well as the effect of variable diffusion coefficient, were further examined to elucidate the high-pressure transport behavior exhibited in the LOX vaporization process.

Geological probability calculation of new gas discoveries in wider area of Ivana and Ika Gas Fields, Northern Adriatic, Croatia

NASA Astrophysics Data System (ADS)

Tomislav, Malvić; Josipa, Velić; Režić, Mate

2016-09-01

There are eleven reservoirs in Ivana Gas Field and they are composed of Pleistocene sands, silt sands and siltstones, developed in dominant clays and marls depositional sequences. Ika Gas Field is the only field in Adriatic with gas accumulated in carbonate rocks, which are the deepest reservoir of the total four reservoirs. A carbonate reservoir is defined with tectonical and erosional unconformity, which is placed between Mesozoic and Pliocene rocks. The three younger Ika reservoirs are composed of Pleistocene sands, silt sands and siltstones that are laminated into clays and marls. The goal of our study was to assess the `Probability Of Success' (POS) of finding new gas accumulations within the marginal area of those two fields, either in the form of Mesozoic rocks or Pleistocene deposits. The assessment was successfully completed using the Microsoft Excel POS table for the analyzed areas in the Croatian part of the Po Depression, namely, Northern Adriatic. The methodology was derived and adapted from a similar POS calculation, which was originally used to calculate the geological probability of hydrocarbon discoveries in the Croatian part of the Pannonian Basin System (CPBS).

Optimization of gas condensate Field A development on the basis of "reservoir - gathering facilities system" integrated model

NASA Astrophysics Data System (ADS)

Demidova, E. A.; Maksyutina, O. V.

2015-02-01

It is known that many gas condensate fields are challenged with liquid loading and condensate banking problems. Therefore, gas production is declining with time. In this paper hydraulic fracturing treatment was considered as a method to improve the productivity of wells and consequently to exclude the factors that lead to production decline. This paper presents the analysis of gas condensate Field A development optimization with the purpose of maintaining constant gas production at the 2013 level for 8 years taking into account mentioned factors . To optimize the development of the filed, an integrated model was created. The integrated model of the field implies constructing the uniform model of the field consisting of the coupling models of the reservoir, wells and surface facilities. This model allowed optimizing each of the elements of the model separately and also taking into account the mutual influence of these elements. Using the integrated model, five development scenarios were analyzed and an optimal scenario was chosen. The NPV of this scenario equals 7,277 mln RUR, cumulative gas production - 12,160.6 mln m3, cumulative condensate production - 1.8 mln tons.

The Impact of Turtle Excluder Devices and Fisheries Closures on Loggerhead and Kemp's Ridley Strandings in the Western Gulf of Mexico

USGS Publications Warehouse

Lewison, R.L.; Crowder, L.B.; Shaver, D.J.

2003-01-01

The Sea Turtle Stranding and Salvage Network has been monitoring turtle strandings for more than 20 years in the United States. High numbers of strandings in the early to mid-1980s prompted regulations to require turtle excluder devices (TEDs) on shrimping vessels (trawlers). Following year-round TED implementation in 1991, however, stranding levels in the Gulf of Mexico increased. We evaluated the efficacy of TEDs and other management actions (e.g., fisheries closures) on loggerhead (Caretta caretta) and Kemp's ridley (Lepidochelys kempii) turtle populations by analyzing a long-term, stranding data set from the western Gulf of Mexico. Our analyses suggest that both sea turtle population growth and shrimping activity have contributed to the observed increase in strandings. Compliance with regulations requiring turtle excluder devices was a significant factor in accounting for annual stranding variability: low compliance was correlated with high levels of strandings. Our projections suggest that improved compliance with TED regulations will reduce strandings to levels that, in conjunction with other protective measures, should promote population recoveries for loggerhead and Kemp's ridley turtles. Local, seasonal fisheries closures, concurrent with TED enforcement, could reduce strandings to even lower levels. A seasonal closure adjacent to a recently established Kemp's ridley nesting beach may also reduce mortality of nesting adults and thus promote long-term population persistence by fostering the establishment of a robust secondary nesting site.

Habitat loss and modification due to gas development in the Fayetteville shale.

PubMed

Moran, Matthew D; Cox, A Brandon; Wells, Rachel L; Benichou, Chloe C; McClung, Maureen R

2015-06-01

Hydraulic fracturing and horizontal drilling have become major methods to extract new oil and gas deposits, many of which exist in shale formations in the temperate deciduous biome of the eastern United States. While these technologies have increased natural gas production to new highs, they can have substantial environmental effects. We measured the changes in land use within the maturing Fayetteville Shale gas development region in Arkansas between 2001/2002 and 2012. Our goal was to estimate the land use impact of these new technologies in natural gas drilling and predict future consequences for habitat loss and fragmentation. Loss of natural forest in the gas field was significantly higher compared to areas outside the gas field. The creation of edge habitat, roads, and developed areas was also greater in the gas field. The Fayetteville Shale gas field fully developed about 2% of the natural habitat within the region and increased edge habitat by 1,067 linear km. Our data indicate that without shale gas activities, forest cover would have increased slightly and edge habitat would have decreased slightly, similar to patterns seen recently in many areas of the southern U.S. On average, individual gas wells fully developed about 2.5 ha of land and modified an additional 0.5 ha of natural forest. Considering the large number of wells drilled in other parts of the eastern U.S. and projections for new wells in the future, shale gas development will likely have substantial negative effects on forested habitats and the organisms that depend upon them.

Point-of-Care Assay of Telomerase Activity at Single-Cell Level via Gas Pressure Readout.

PubMed

Wang, Yanjun; Yang, Luzhu; Li, Baoxin; Yang, Chaoyong James; Jin, Yan

2017-08-15

Detection of telomerase activity at the single-cell level is one of the central challenges in cancer diagnostics and therapy. Herein, we describe a facile and reliable point-of-care testing (POCT) strategy for detection of telomerase activity via a portable pressure meter. Telomerase primer (TS) was immobilized onto the surface of magnetic beads (MBs), and then was elongated to a long single-stranded DNA by telomerase. The elongated (TTAGGG) n repeat unit hybridized with several short PtNP-functionalized complementary DNA (PtNPs-cDNA), which specifically enriched PtNPs onto the surfaces of magnetic beads (MBs), which were separated using a magnet. Then, nanoparticle-catalyzed gas-generation reaction converted telomerase activity into significant change in gas pressure. Because of the self-amplification of telomerase and enrichment by magnetic separation, the diluted telomerase equivalent to a single HeLa cell was facilely detected. More importantly, the telomerase in the lysate of 1 HeLa cell can be reliably detected by monitoring change in gas pressure, indicating that it is feasible and possible to study differences between individual cells. The difference in relative activity between different kinds of cancer cells was easily and sensitively studied. Study of inhibition of telomerase activity demonstrated that our method has great potential in screening of telomerase-targeted antitumor drugs as well as in clinical diagnosis.

Photochemical Acceleration of DNA Strand Displacement by Using Ultrafast DNA Photo-crosslinking.

PubMed

Nakamura, Shigetaka; Hashimoto, Hirokazu; Kobayashi, Satoshi; Fujimoto, Kenzo

2017-10-18

DNA strand displacement is an essential reaction in genetic recombination, biological processes, and DNA nanotechnology. In particular, various DNA nanodevices enable complicated calculations. However, it takes time before the output is obtained, so acceleration of DNA strand displacement is required for a rapid-response DNA nanodevice. Herein, DNA strand displacement by using DNA photo-crosslinking to accelerate this displacement is evaluated. The DNA photo-crosslinking of 3-cyanovinylcarbazole ( CNV K) was accelerated at least 20 times, showing a faster DNA strand displacement. The rate of photo-crosslinking is a key factor and the rate of DNA strand displacement is accelerated through ultrafast photo-crosslinking. The rate of DNA strand displacement was regulated by photoirradiation energy. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Public Use Land Requirements, Tennessee Colony Lake.

DTIC Science & Technology

1972-03-30

source of pollution by oil and oil field brines. If these and existing gas fields continue to operate, oil -pumping and storage stations and oil and gas ...the lake and large numbers can be expected to visit this area. The land is in the middle of the Cayuga oil field and there are many oil and gas ...Project Area Geographic boundary and physiographic classification The Trinity River meanders south- southeast through Freestone, Anderson, Navarro and

40 CFR 122.26 - Storm water discharges (applicable to State NPDES programs, see § 123.25).

Code of Federal Regulations, 2014 CFR

2014-07-01

... field activities or operations associated with oil and gas exploration, production, processing, or...) of this section. Discharges of sediment from construction activities associated with oil and gas... operators of oil and gas field activities or operations to implement and maintain Best Management Practices...

40 CFR 122.26 - Storm water discharges (applicable to State NPDES programs, see § 123.25).

Code of Federal Regulations, 2012 CFR

2012-07-01

... field activities or operations associated with oil and gas exploration, production, processing, or...) of this section. Discharges of sediment from construction activities associated with oil and gas... operators of oil and gas field activities or operations to implement and maintain Best Management Practices...

Breakdown voltage reduction by field emission in multi-walled carbon nanotubes based ionization gas sensor

DOE Office of Scientific and Technical Information (OSTI.GOV)

Saheed, M. Shuaib M.; Muti Mohamed, Norani; Arif Burhanudin, Zainal, E-mail: zainabh@petronas.com.my

2014-03-24

Ionization gas sensors using vertically aligned multi-wall carbon nanotubes (MWCNT) are demonstrated. The sharp tips of the nanotubes generate large non-uniform electric fields at relatively low applied voltage. The enhancement of the electric field results in field emission of electrons that dominates the breakdown mechanism in gas sensor with gap spacing below 14 μm. More than 90% reduction in breakdown voltage is observed for sensors with MWCNT and 7 μm gap spacing. Transition of breakdown mechanism, dominated by avalanche electrons to field emission electrons, as decreasing gap spacing is also observed and discussed.

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. All rights reserved.

Long-Term Seasonal and Interannual Patterns of Marine Mammal Strandings in Subtropical Western South Atlantic

PubMed Central

Prado, Jonatas H. F.; Mattos, Paulo H.; Silva, Kleber G.; Secchi, Eduardo R.

2016-01-01

Understanding temporal patterns of marine mammal occurrence is useful for establishing conservation strategies. We used a 38 yr-long dataset spanning 1976 to 2013 to describe temporal patterns and trends in marine mammal strandings along a subtropical stretch of the east coast of South America. This region is influenced by a transitional zone between tropical and temperate waters and is considered an important fishing ground off Brazil. Generalized Additive Models were used to evaluate the temporal stranding patterns of the most frequently stranded species. Forty species were documented in 12,540 stranding events. Franciscana (n = 4,574), South American fur seal, (n = 3,419), South American sea lion (n = 2,049), bottlenose dolphins (n = 293) and subantarctic fur seal (n = 219) were the most frequently stranded marine mammals. The seasonality of strandings of franciscana and bottlenose dolphin coincided with periods of higher fishing effort and strandings of South American and subantarctic fur seals with post-reproductive dispersal. For South American sea lion the seasonality of strandings is associated with both fishing effort and post-reproductive dispersal. Some clear seasonal patterns were associated with occurrence of cold- (e.g. subantarctic fur seal) and warm-water (e.g. rough-toothed dolphin) species in winter and summer, respectively. Inter-annual increases in stranding rate were observed for franciscana and South American fur seal and these are likely related to increased fishing effort and population growth, respectively. For subantarctic fur seal the stranding rate showed a slight decline while for bottlenose dolphin it remained steady. No significant year to year variation in stranding rate was observed for South American sea lion. The slight decrease in frequency of temperate/polar marine mammals and the increased occurrence of subtropical/tropical species since the late 1990s might be associated with environmental changes linked to climate change. This long-term study indicates that temporal stranding patterns of marine mammals might be explained by either fishing-related or environmental factors. PMID:26814667

Long-Term Seasonal and Interannual Patterns of Marine Mammal Strandings in Subtropical Western South Atlantic.

PubMed

Prado, Jonatas H F; Mattos, Paulo H; Silva, Kleber G; Secchi, Eduardo R

2016-01-01

Understanding temporal patterns of marine mammal occurrence is useful for establishing conservation strategies. We used a 38 yr-long dataset spanning 1976 to 2013 to describe temporal patterns and trends in marine mammal strandings along a subtropical stretch of the east coast of South America. This region is influenced by a transitional zone between tropical and temperate waters and is considered an important fishing ground off Brazil. Generalized Additive Models were used to evaluate the temporal stranding patterns of the most frequently stranded species. Forty species were documented in 12,540 stranding events. Franciscana (n = 4,574), South American fur seal, (n = 3,419), South American sea lion (n = 2,049), bottlenose dolphins (n = 293) and subantarctic fur seal (n = 219) were the most frequently stranded marine mammals. The seasonality of strandings of franciscana and bottlenose dolphin coincided with periods of higher fishing effort and strandings of South American and subantarctic fur seals with post-reproductive dispersal. For South American sea lion the seasonality of strandings is associated with both fishing effort and post-reproductive dispersal. Some clear seasonal patterns were associated with occurrence of cold- (e.g. subantarctic fur seal) and warm-water (e.g. rough-toothed dolphin) species in winter and summer, respectively. Inter-annual increases in stranding rate were observed for franciscana and South American fur seal and these are likely related to increased fishing effort and population growth, respectively. For subantarctic fur seal the stranding rate showed a slight decline while for bottlenose dolphin it remained steady. No significant year to year variation in stranding rate was observed for South American sea lion. The slight decrease in frequency of temperate/polar marine mammals and the increased occurrence of subtropical/tropical species since the late 1990s might be associated with environmental changes linked to climate change. This long-term study indicates that temporal stranding patterns of marine mammals might be explained by either fishing-related or environmental factors.

Long-term trends in oil and gas discovery rates in lower 48 United States

DOE Office of Scientific and Technical Information (OSTI.GOV)

Woods, T.J.

1985-09-01

The Gas Research Institute (GRI), in association with Energy and Environmental Analysis, Inc. (EEA), has developed a data base characterizing the discovered oil and gas fields in the lower 48 United States. The number of fields in this data base reported to have been discovered since 1947 substantially exceeds the count presented in the AAPG survey of new-field discoveries since 1947. The greatest relative difference between the field counts is for fields larger than 10 million bbl of oil equivalent (BOE) (AAPG Class C fields or larger). Two factors contribute to the difference in reported discoveries by field size. First,more » the AAPG survey does not capture all new-field discoveries, particularly in the offshore. Second, the AAPG survey does not update field sizes past 6 years after the field discovery date. Because of reserve appreciation to discovered fields, discovery-trend data based on field-size data should be used with caution, particularly when field-size estimates have not been updated for a substantial period of time. Based on the GRI/EEA data base, the major decline in the discovery rates of large, new oil and gas fields in the lower 48 United States appears to have ended by the early 1960s. Since then, discovery rates seem to have improved. Thus, the outlook for future discoveries of large fields may be much better than previously believed.« less

Strand development and splice device : final report, February 3, 2009.

DOT National Transportation Integrated Search

2010-02-01

"A new device for gripping prestressing strands was developed and tested. The device could provide a means of anchoring the terminal end of a strand in order to provide a mechanism for developing bonded strand at the service limit state, to provide t...

Replicase activity of purified recombinant protein P2 of double-stranded RNA bacteriophage phi6.

PubMed

Makeyev, E V; Bamford, D H

2000-01-04

In nature, synthesis of both minus- and plus-sense RNA strands of all the known double-stranded RNA viruses occurs in the interior of a large protein assembly referred to as the polymerase complex. In addition to other proteins, the complex contains a putative polymerase possessing characteristic sequence motifs. However, none of the previous studies has shown template-dependent RNA synthesis directly with an isolated putative polymerase protein. In this report, recombinant protein P2 of double-stranded RNA bacteriophage phi6 was purified and demonstrated in an in vitro enzymatic assay to act as the replicase. The enzyme efficiently utilizes phage-specific, positive-sense RNA substrates to produce double-stranded RNA molecules, which are formed by newly synthesized, full-length minus-strands base paired with the plus-strand templates. P2-catalyzed replication is also shown to be very effective with a broad range of heterologous single-stranded RNA templates. The importance and implications of these results are discussed.

Review of the findings of the Ignik Sikumi CO2-CH4 gas hydrate exchange field trial

DOE Office of Scientific and Technical Information (OSTI.GOV)

Anderson, Brian J.; Boswell, Ray; Collett, Tim S.

The Ignik Sikumi Gas Hydrate Exchange Field Trial was conducted by ConocoPhillips in partnership with the U.S. Department of Energy, the Japan Oil, Gas, and Metals National Corporation, and the U.S. Geological Survey within the Prudhoe Bay Unit on the Alaska North Slope (ANS) during 2011 and 2012. The 2011 field program included drilling the vertical test well and performing extensive wireline logging through a thick section of gas-hydrate-bearing sand reservoirs that provided substantial new insight into the nature of ANS gas hydrate occurrences. The 2012 field program involved an extended, scientific field trial conducted within a single vertical wellmore » (“huff-and-puff” design) through three primary operational phases: 1) injection of a gaseous phase mixture of CO2, N2, and chemical tracers; 2) flowback conducted at down-hole pressures above the stability threshold for native CH4-hydrate, and 3) extended (30-days) flowback at pressures below the stability threshold of native CH4-hydrate. Ignik Sikumi represents the first field investigation of gas hydrate response to chemical injection, and the longest-duration field reservoir response experiment yet conducted. Full descriptions of the operations and data collected have been fully reported by ConocoPhillips and are available to the science community. The 2011 field program indicated the presence of free water within the gas hydrate reservoir, a finding with significant implications to the design of the exchange trial – most notably the use of a mixed gas injectant. While this decision resulted in a complex chemical environment within the reservoir that greatly tests current experimental and modeling capabilities – without such a mixture, it is apparent that injection could not have been achieved. While interpretation of the field data are continuing, the primary scientific findings and implications of the program are: 1) gas hydrate destabilizing is self-limiting, dispelling any notion of the potential for uncontrolled destabilization; 2) wells must be carefully designed to enable rapid remediation of well-bore blockages that will occur during any cessation in operations; 3) appropriate gas mixes can be successfully injected into hydrate-bearing reservoirs; 4) sand production can be well-managed through standard engineering controls; 5) reservoir heat exchange during depressurization was much more favorable than expected – mitigating concerns for near-well-bore freezing and enabling consideration of more aggressive pressure reduction and; 6) CO2-CH4 exchange can be accomplished in natural reservoirs. The next steps in evaluation of exchange technology should feature multiple well applications; however such field programs will require extensive preparatory experimental and numerical modeling studies and will likely be a secondary priority to further field testing of production through depressurization.« less

Offshore Earthquakes Do Not Influence Marine Mammal Stranding Risk on the Washington and Oregon Coasts

PubMed Central

Grant, Rachel A.; Savirina, Anna

2018-01-01

Simple Summary Marine mammals stranding on coastal beaches is not unusual. However, there appears to be no single cause for this, with several causes being probable, such as starvation, contact with humans (for example boat strike or entanglement with fishing gear), disease, and parasitism. We evaluated marine mammal stranding off the Washington and Oregon coasts and looked at offshore earthquakes as a possible contributing factor. Our analysis showed that offshore earthquakes did not make marine mammals more likely to strand. We also analysed a subset of data from the north of Washington State and found that non-adult animals made up a large proportion of stranded animals, and for dead animals the commonest cause of death was disease, traumatic injury, or starvation. Abstract The causes of marine mammals stranding on coastal beaches are not well understood, but may relate to topography, currents, wind, water temperature, disease, toxic algal blooms, and anthropogenic activity. Offshore earthquakes are a source of intense sound and disturbance and could be a contributing factor to stranding probability. We tested the hypothesis that the probability of marine mammal stranding events on the coasts of Washington and Oregon, USA is increased by the occurrence of offshore earthquakes in the nearby Cascadia subduction zone. The analysis carried out here indicated that earthquakes are at most, a very minor predictor of either single, or large (six or more animals) stranding events, at least for the study period and location. We also tested whether earthquakes inhibit stranding and again, there was no link. Although we did not find a substantial association of earthquakes with strandings in this study, it is likely that there are many factors influencing stranding of marine mammals and a single cause is unlikely to be responsible. Analysis of a subset of data for which detailed descriptions were available showed that most live stranded animals were pups, calves, or juveniles, and in the case of dead stranded mammals, the commonest cause of death was trauma, disease, and emaciation. PMID:29373509

Preliminary Prioritization of California Oil and Gas Fields for Regional Groundwater Monitoring Based on Intensity of Petroleum Resource Development and Proximity to Groundwater Resources

NASA Astrophysics Data System (ADS)

Davis, T. A.; Landon, M. K.; Bennett, G.

2016-12-01

The California State Water Resources Control Board is collaborating with the U.S. Geological Survey to implement a Regional Monitoring Program (RMP) to assess where and to what degree groundwater resources may be at risk of contamination from oil and gas development activities including stimulation, well integrity issues, produced water ponds, and underground injection. A key issue in the implementation of the RMP is that the state has 487 onshore oil fields covering 8,785 square kilometers but detailed characterization work can only be done in a few oil fields annually. The first step in the RMP is to prioritize fields using available data that indicate potential risk to groundwater from oil and gas development, including vertical proximity of groundwater and oil/gas resources, density of petroleum and water wells, and volume of water injected in oil fields. This study compiled data for these factors, computed summary metrics for each oil field, analyzed statewide distributions of summary metrics, used those distributions to define relative categories of potential risk for each factor, and combined these into an overall priority ranking. Aggregated results categorized 22% (107 fields) of the total number of onshore oil and gas fields in California as high priority, 23% as moderate priority, and 55% as low priority. On an area-weighted basis, 41% of the fields ranked high, 30% moderate, and 29% low, highlighting that larger fields tend to have higher potential risk because of greater intensity of development, sometimes coupled with closer proximity to groundwater. More than half of the fields ranked as high priority were located in the southern Central Valley or the Los Angeles Basin. The prioritization does not represent an assessment of groundwater risk from oil and gas development; rather, such assessments are planned to follow based on detailed analysis of data from the RMP near the oil fields selected for study in the future.

Extraction of contaminants from a gas

DOEpatents

Babko-Malyi, Sergei

2000-01-01

A method of treating industrial gases to remove contaminants is disclosed. Ions are generated in stream of injectable gas. These ions are propelled through the contaminated gas as it flows through a collection unit. An electric field is applied to the contaminated gas. The field causes the ions to move through the contaminated gases, producing electrical charges on the contaminants. The electrically charged contaminants are then collected at one side of the electric field. The injectable gas is selected to produce ions which will produce reactions with particular contaminants. The process is thus capable of removing particular contaminants. The process does not depend on diffusion as a transport mechanism and is therefore suitable for removing contaminants which exist in very low concentrations.

Apparatus for extraction of contaminants from a gas

DOEpatents

Babko-Malyi, Sergei

2001-01-01

A method of treating industrial gases to remove contaminants is disclosed. Ions are generated in stream of injectable gas. These ions are propelled through the contaminated gas as it flows through a collection unit. An electric field is applied to the contaminated gas. The field causes the ions to move through the contaminated gases, producing electrical charges on the contaminants. The electrically charged contaminants are then collected at one side of the electric field. The injectable gas is selected to produce ions which will produce reactions with particular contaminants. The process is thus capable of removing particular contaminants. The process does not depend on diffusion as a transport mechanism and is therefore suitable for removing contaminants which exist in very low concentrations.

A Single Polyaniline Nanofiber Field Effect Transistor and Its Gas Sensing Mechanisms

PubMed Central

Chen, Dajing; Lei, Sheng; Chen, Yuquan

2011-01-01

A single polyaniline nanofiber field effect transistor (FET) gas sensor fabricated by means of electrospinning was investigated to understand its sensing mechanisms and optimize its performance. We studied the morphology, field effect characteristics and gas sensitivity of conductive nanofibers. The fibers showed Schottky and Ohmic contacts based on different electrode materials. Higher applied gate voltage contributes to an increase in gas sensitivity. The nanofiber transistor showed a 7% reversible resistance change to 1 ppm NH3 with 10 V gate voltage. The FET characteristics of the sensor when exposed to different gas concentrations indicate that adsorption of NH3 molecules reduces the carrier mobility in the polyaniline nanofiber. As such, nanofiber-based sensors could be promising for environmental and industrial applications. PMID:22163969

Libya: World Oil Report 1991

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1991-08-01

This paper reports that Libya is moving forward with plans to sell most of its crude as refined products and should have the capacity to handle most of its production, about 1.3 million bpd, by the mid-90s. Production was increased after the Iraqi invasion of Kuwait, and peak capacity could be over 1.5 million bopd. Exploration pace is still increasing but U.S. sanctions have taken their toll. Gas projects are advancing as officials push to develop and utilize more domestic gas reserves. Libya has commissioned a new gas processing plant in Sahl gas field in Sirte basin and plans aremore » under way for development of Tahaddi field, Libya's largest gas field with 9 Tcf.« less

Cetacean beachings correlate with geomagnetic disturbances in Earth's magnetosphere: an example of how astronomical changes impact the future of life

NASA Astrophysics Data System (ADS)

Ferrari, Thomas E.

2017-04-01

The beaching and stranding of whales and dolphins around the world has been mystifying scientists for centuries. Although many theories have been proposed, few are substantiated by unequivocal statistical evidence. Advances in the field of animal magnetoreception have established that many organisms, including cetaceans, have an internal `compass,' which they use for orientation when traveling long distances. Astrobiology involves not only the origin and distribution of life in the universe, but also the scientific study of how extraterrestrial conditions affect evolution of life on planet Earth. The focus of this study is how cetacean life is influenced by disturbances in its environment that originate from an astrological phenomenon - in the present study that involves solar flares and cetacean beachings. Solar storms are caused by major coronal eruptions on the Sun. Upon reaching Earth, they cause disturbances in Earth's normally stable magnetosphere. Unable to follow an accurate magnetic bearing under such circumstances, cetaceans lose their compass reading while travelling and, depending on their juxtaposition and nearness to land, eventually beach themselves. (1) This hypothesis was supported by six separate, independent surveys of beachings: (A) in the Mediterranean Sea, (B) the northern Gulf of Mexico, (C) the east and (D) west coasts of the USA and two surveys (E and F) from around the world. When the six surveys were pooled (1614 strandings), a highly significant correlation (R 2 = 0.981) of when strandings occurred with when major geomagnetic disturbances in Earth's magnetosphere occurred was consistent with this hypothesis. (2) Whale and dolphin strandings in the northern Gulf of Mexico and the east coast of the USA were correlated (R 2 = 0.919, R 2 = 0.924) with the number of days before and after a geomagnetic storm. (3) Yearly strandings were correlated with annual geomagnetic storm days. (4) Annual beachings of cetaceans from 1998 to 2012 were linearly correlated (R 2 = 0.751) with frequency of annual sunspot numbers. Thus, consistently strong statistical correlation evidence indicates that an astronomical phenomenon - solar flares - can cause cetaceans to change their behaviour and become disoriented, which eventually causes them to swim onto a shore and beach themselves.

Process of infection with bacteriophage phi chi 174. XL. Viral DNA replication of phi chi 174 mutants blocked in progeny single-stranded DNA synthesis.

PubMed Central

Fukuda, A; Sinsheimer, R L

1976-01-01

Mutation in several different cistrons of bacteriophage phi chi 174 blocks net progeny single-stranded DNA synthesis at the late period of infection (15). For the study of the functions of these cistrons in single-stranded DNA synthesis, asymmetric replication of replicative form DNA was examined at the late period of infection with amber mutants of these cistrons. While the normal, rapid process of asymmetric single-stranded viral DNA synthesis is blocked at the late period of these mutant infections, an asymmetric synthesis of the viral strand of replicative-form DNA is observed in this period, though at a reduced level, together with degradation of prelabeled viral strand. Some intermediate replicative-form molecules were also detected. Asymmetric synthesis of the viral strand of replicative-form DNA at the late period of phi chi infection is completely inhibited in the presence of a low concentration (35mug/ml) of chloramphenicol (which also blocks net single-stranded viral DNA synthesis). These results are discussed in terms of the possible role of the specific viral proteins for normal single-stranded DNA synthesis. PMID:1255871

Improving strand pairing prediction through exploring folding cooperativity

PubMed Central

Jeong, Jieun; Berman, Piotr; Przytycka, Teresa M.

2008-01-01

The topology of β-sheets is defined by the pattern of hydrogen-bonded strand pairing. Therefore, predicting hydrogen bonded strand partners is a fundamental step towards predicting β-sheet topology. At the same time, finding the correct partners is very difficult due to long range interactions involved in strand pairing. Additionally, patterns of aminoacids observed in β-sheet formations are very general and therefore difficult to use for computational recognition of specific contacts between strands. In this work, we report a new strand pairing algorithm. To address above mentioned difficulties, our algorithm attempts to mimic elements of the folding process. Namely, in addition to ensuring that the predicted hydrogen bonded strand pairs satisfy basic global consistency constraints, it takes into account hypothetical folding pathways. Consistently with this view, introducing hydrogen bonds between a pair of strands changes the probabilities of forming hydrogen bonds between other pairs of strand. We demonstrate that this approach provides an improvement over previously proposed algorithms. We also compare the performance of this method to that of a global optimization algorithm that poses the problem as integer linear programming optimization problem and solves it using ILOG CPLEX™ package. PMID:18989036

From "Somatic Scandals" to "A Constant Potential for Violence"? The Culture of Dissection, Brain-Based Learning, and the Rewriting/Rewiring of "The Child"

ERIC Educational Resources Information Center

Baker, Bernadette

2015-01-01

Within educational research across Europe and the US, one of the most rapidly traveling discourses and highly funded pursuits of the moment is brain-based learning (BBL). BBL is an approach to curriculum and pedagogical decision-making that is located within the new field of educational neuroscience. In some strands of BBL research the structure…

Stagnation point flow of wormlike micellar solutions in a microfluidic cross-slot device: effects of surfactant concentration and ionic environment.

PubMed

Haward, Simon J; McKinley, Gareth H

2012-03-01

We employ the techniques of microparticle image velocimetry and full-field birefringence microscopy combined with mechanical measurements of the pressure drop to perform a detailed characterization of the extensional rheology and elastic flow instabilities observed for a range of wormlike micellar solutions flowing through a microfluidic cross-slot device. As the flow rate through the device is increased, the flow first bifurcates from a steady symmetric to a steady asymmetric configuration characterized by a birefringent strand of highly aligned micellar chains oriented along the shear-free centerline of the flow field. At higher flow rates the flow becomes three dimensional and time dependent and is characterized by aperiodic spatiotemporal fluctuations of the birefringent strand. The extensional properties and critical conditions for the onset of flow instabilities in the fluids are highly dependent on the fluid formulation (surfactant concentration and ionic strength) and the resulting changes in the linear viscoelasticity and nonlinear shear rheology of the fluids. By combining the measurements of critical conditions for the flow transitions with the viscometric material properties and the degree of shear-thinning characterizing each test fluid, it is possible to construct a stability diagram for viscoelastic flow of complex fluids in the cross-slot geometry.

Test of 60 kA coated conductor cable prototypes for fusion magnets

NASA Astrophysics Data System (ADS)

Uglietti, D.; Bykovsky, N.; Sedlak, K.; Stepanov, B.; Wesche, R.; Bruzzone, P.

2015-12-01

Coated conductors could be promising materials for the fabrication of the large magnet systems of future fusion devices. Two prototype conductors (flat cables in steel conduits), each about 2 m long, were manufactured using coated conductor tapes (4 mm wide) from Super Power and SuperOx, with a total tape length of 1.6 km. Each flat cable is assembled from 20 strands, each strand consisting of a stack of 16 tapes surrounded by two half circular copper profiles, twisted and soldered. The tapes were measured at 12 T and 4.2 K and the results of the measurements were used for the assessment of the conductor electromagnetic properties at low temperature and high field. The two conductors were assembled together in a sample that was tested in the European Dipole (EDIPO) facility. The current sharing temperatures of the two conductors were measured at background fields from 8 T up to 12 T and for currents from 30 kA up to 70 kA: the measured values are within a few percent of the values expected from the measurements on tapes (short samples). After electromagnetic cycling, T cs at 12 T and 50 kA decreased from about 12 K to 11 K (about 10%), corresponding to less than 3% of I c.

Arc Deflection Length Affected by Transverse Rotating Magnetic Field with Lateral Gas

NASA Astrophysics Data System (ADS)

Shiino, Toru; Ishii, Yoko; Yamamoto, Shinji; Iwao, Toru; High Current Energy Laboratory (HiCEL) Team

2016-10-01

Gas metal arc welding using shielding gas is often used in the welding industry. However, the arc deflection affected by lateral gas is problem because of inappropriate heat transfer. Shielding gas is used in order to prevent the instability affected by the arc deflection. However, the shielding gas causes turbulence, then blowhole of weld defect occurs because the arc affected by the instability is contaminated by the air. Thus, the magnetic field is applied to the arc in order to stabilize the arc using low amount of shielding gas. The method of applying the transverse rotating magnetic field (RMF) to the arc is one of the methods to prevent the arc instability. The RMF drives the arc because of electromagnetic force. The driven arc is considered to be prevented to arc deflection of lateral gas because the arc is restrained by the magnetic field because of the driven arc. In addition, it is assume the RMF prevented to the arc deflection of lateral gas from the multiple directions. In this paper, the arc deflection length affected by the RMF with lateral gas was elucidated in order to know the effect of the RMF for arc stabilization. Specifically, the arc deflection length affected by the magnetic frequency and the magnetic flux density is measured by high speed video camera. As a result, the arc deflection length decreases with increasing magnetic frequency, and the arc deflection length increases with increasing the magnetic flux density.

The Human DNA glycosylases NEIL1 and NEIL3 Excise Psoralen-Induced DNA-DNA Cross-Links in a Four-Stranded DNA Structure.

PubMed

Martin, Peter R; Couvé, Sophie; Zutterling, Caroline; Albelazi, Mustafa S; Groisman, Regina; Matkarimov, Bakhyt T; Parsons, Jason L; Elder, Rhoderick H; Saparbaev, Murat K

2017-12-12

Interstrand cross-links (ICLs) are highly cytotoxic DNA lesions that block DNA replication and transcription by preventing strand separation. Previously, we demonstrated that the bacterial and human DNA glycosylases Nei and NEIL1 excise unhooked psoralen-derived ICLs in three-stranded DNA via hydrolysis of the glycosidic bond between the crosslinked base and deoxyribose sugar. Furthermore, NEIL3 from Xenopus laevis has been shown to cleave psoralen- and abasic site-induced ICLs in Xenopus egg extracts. Here we report that human NEIL3 cleaves psoralen-induced DNA-DNA cross-links in three-stranded and four-stranded DNA substrates to generate unhooked DNA fragments containing either an abasic site or a psoralen-thymine monoadduct. Furthermore, while Nei and NEIL1 also cleave a psoralen-induced four-stranded DNA substrate to generate two unhooked DNA duplexes with a nick, NEIL3 targets both DNA strands in the ICL without generating single-strand breaks. The DNA substrate specificities of these Nei-like enzymes imply the occurrence of long uninterrupted three- and four-stranded crosslinked DNA-DNA structures that may originate in vivo from DNA replication fork bypass of an ICL. In conclusion, the Nei-like DNA glycosylases unhook psoralen-derived ICLs in various DNA structures via a genuine repair mechanism in which complex DNA lesions can be removed without generation of highly toxic double-strand breaks.

Efficient and simpler method to construct normalized cDNA libraries with improved representations of full-length cDNAs

DOEpatents

Soares, Marcelo Bento; Bonaldo, Maria de Fatima

1998-01-01

This invention provides a method to normalize a cDNA library comprising: (a) constructing a directionally cloned library containing cDNA inserts wherein the insert is capable of being amplified by polymerase chain reaction; (b) converting a double-stranded cDNA library into single-stranded DNA circles; (c) generating single-stranded nucleic acid molecules complementary to the single-stranded DNA circles converted in step (b) by polymerase chain reaction with appropriate primers; (d) hybridizing the single-stranded DNA circles converted in step (b) with the complementary single-stranded nucleic acid molecules generated in step (c) to produce partial duplexes to an appropriate Cot; and (e) separating the unhybridized single-stranded DNA circles from the hybridized DNA circles, thereby generating a normalized cDNA library. This invention also provides a method to normalize a cDNA library wherein the generating of single-stranded nucleic acid molecules complementary to the single-stranded DNA circles converted in step (b) is by excising cDNA inserts from the double-stranded cDNA library; purifying the cDNA inserts from cloning vectors; and digesting the cDNA inserts with an exonuclease. This invention further provides a method to construct a subtractive cDNA library following the steps described above. This invention further provides normalized and/or subtractive cDNA libraries generated by the above methods.

Method for introducing unidirectional nested deletions

DOEpatents

Dunn, J.J.; Quesada, M.A.; Randesi, M.

1999-07-27

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 has 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. 1 fig.

Efficient and simpler method to construct normalized cDNA libraries with improved representations of full-length cDNAs

DOEpatents

Soares, M.B.; Fatima Bonaldo, M. de

1998-12-08

This invention provides a method to normalize a cDNA library comprising: (a) constructing a directionally cloned library containing cDNA inserts wherein the insert is capable of being amplified by polymerase chain reaction; (b) converting a double-stranded cDNA library into single-stranded DNA circles; (c) generating single-stranded nucleic acid molecules complementary to the single-stranded DNA circles converted in step (b) by polymerase chain reaction with appropriate primers; (d) hybridizing the single-stranded DNA circles converted in step (b) with the complementary single-stranded nucleic acid molecules generated in step (c) to produce partial duplexes to an appropriate Cot; and (e) separating the unhybridized single-stranded DNA circles from the hybridized DNA circles, thereby generating a normalized cDNA library. This invention also provides a method to normalize a cDNA library wherein the generating of single-stranded nucleic acid molecules complementary to the single-stranded DNA circles converted in step (b) is by excising cDNA inserts from the double-stranded cDNA library; purifying the cDNA inserts from cloning vectors; and digesting the cDNA inserts with an exonuclease. This invention further provides a method to construct a subtractive cDNA library following the steps described above. This invention further provides normalized and/or subtractive cDNA libraries generated by the above methods. 25 figs.

Radioresistance of GGG Sequences to Prompt Strand Break Formation from Direct-Type Radiation Damage

PubMed Central

Black, Paul J.; Miller, Adam S.; Hayes, Jeffrey J.

2016-01-01

Purpose As humans, we are constantly exposed to ionizing radiation from natural, man-made and cosmic sources which can damage DNA, leading to deleterious effects including cancer incidence. In this work we introduce a method to monitor strand breaks resulting from damage due to the direct effect of ionizing radiation and provide evidence for sequence-dependent effects leading to strand breaks. Materials and methods To analyze only DNA strand breaks caused by radiation damage due to the direct effect of ionizing radiation, we combined an established technique to generate dehydrated DNA samples with a technique to analyze single strand breaks on short oligonucleotide sequences via denaturing gel electrophoresis. Results We find that direct damage primarily results in a reduced number of strand breaks in guanine triplet regions (GGG) when compared to isolated guanine (G) bases with identical flanking base context. In addition, we observe strand break behavior possibly indicative of protection of guanine bases when flanked by pyrimidines, and sensitization of guanine to strand break when flanked by adenine (A) bases in both isolated G and GGG cases. Conclusions These observations provide insight into the strand break behavior in GGG regions damaged via the direct effect of ionizing radiation. In addition, this could be indicative of DNA sequences that are naturally more susceptible to strand break due to the direct effect of ionizing radiation. PMID:27349757

Method for introducing unidirectional nested deletions

DOEpatents

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

1999-07-27

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.

Colorimetric detection with aptamer-gold nanoparticle conjugates coupled to an android-based color analysis application for use in the field.

PubMed

Smith, Joshua E; Griffin, Daniel K; Leny, Juliann K; Hagen, Joshua A; Chávez, Jorge L; Kelley-Loughnane, Nancy

2014-04-01

The feasibility of using aptamer-gold nanoparticle conjugates (Apt-AuNPs) to design colorimetric assays for in the field detection of small molecules was investigated. An assay to detect cocaine was designed using two clones of a known cocaine-binding aptamer. The assay was based on the AuNPs difference in affinity for single-stranded DNA (non-binding) and double stranded DNA (target bound). In the first assay, a commonly used design was followed, in which the aptamer and target were incubated to allow binding followed by exposure to the AuNPs. Interactions between the non-bound analytes and the AuNPs surface resulted in a number of false positives. The assay was redesigned by incubating the AuNPs and the aptamer prior to target addition to passivate the AuNPs surface. The adsorbed aptamer was able to bind the target while preventing non-specific interactions. The assay was validated with a number of masking and cutting agents and other controlled substances showing minimal false positives. Studies to improve the assay performance in the field were performed, showing that assay activity could be preserved for up to 2 months. To facilitate the assay analysis, an android application for automatic colorimetric characterization was developed. The application was validated by challenging the assay with cocaine standards of different concentrations, and comparing the results to a conventional plate reader, showing outstanding agreement. Finally, the rapid identification of cocaine in mixtures mimicking street samples was demonstrated. This work established that Apt-AuNPs can be used to design robust assays to be used in the field. Copyright © 2013 Elsevier B.V. All rights reserved.

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.

Stable loop in the crystal structure of the intercalated four-stranded cytosine-rich metazoan telomere

NASA Technical Reports Server (NTRS)

Kang, C.; Berger, I.; Lockshin, C.; Ratliff, R.; Moyzis, R.; Rich, A.

1995-01-01

In most metazoans, the telomeric cytosine-rich strand repeating sequence is d(TAACCC). The crystal structure of this sequence was solved to 1.9-A resolution. Four strands associate via the cytosine-containing parts to form a four-stranded intercalated structure held together by C.C+ hydrogen bonds. The base-paired strands are parallel to each other, and the two duplexes are intercalated into each other in opposite orientations. One TAA end forms a highly stabilized loop with the 5' thymine Hoogsteen-base-paired to the third adenine. The 5' end of this loop is in close proximity to the 3' end of one of the other intercalated cytosine strands. Instead of being entirely in a DNA duplex, this structure suggests the possibility of an alternative conformation for the cytosine-rich telomere strands.

Alternating Field Electronanofluidization

NASA Astrophysics Data System (ADS)

Espin, M. J.; Valverde, J. M.; Quintanilla, M. A. S.; Castellanos, A.

2009-06-01

The use of fluidized beds to remove submicron particles from gases has been investigated since 1949. High efficiency removal was achieved in the 1970's by imposing an electric field on a fluidized bed of semi-insulating granules that were able to collect the charged pollutant entrained in the fluidizing gas. In spite of their extended use nowadays, the collection efficiency of electrofluidized beds (EFB) is still hindered by gas bypassing associated to gas bubbling and the consequent requirement of too high gas flow and pressure drop. In this paper we report on the electromechanical behavior of an EFB of insulating nanoparticles. When fluidized by gas, these nanoparticles form extremely porous light agglomerates of size of the order of hundreds of microns that allow for a highly expanded nonbubbling fluidized state at reduced gas flow. It is found that fluidization uniformity and bed expansion are additionally enhanced by an imposed AC electric field for field oscillation frequencies of several tens of hertzs and field strengths of the order of 1 kV/cm. For oscillation frequencies of the order of hertzs, or smaller, bed expansion is hindered due to electrophoretic deposition of the agglomerates onto the vessel walls, whereas for oscillation frequencies of the order of kilohertzs, or larger, electrophoresis is nullified and bed expansion is not affected. According to a proposed model, the size of nanoparticle agglomerates stems from the balance between shear, which depends on field strength, and van der Waals forces. The optimum field strength for enhancing bed expansion produces an electric force on the agglomerates similar to their weight force, while the oscillation velocity of the agglomerates is similar to the gas velocity.

Full spatial-field visualization of gas temperature in an air micro-glow discharge by calibrated Schlieren photography

NASA Astrophysics Data System (ADS)

Xiong, Qing; Xu, Le; Wang, Xia; Xiong, Lin; Huang, Qinghua; Chen, Qiang; Wang, Jingang; Peng, Wenxiong; Li, Jiarui

2018-03-01

Gas temperature is an important basic parameter for both fundamental research and applications of plasmas. In this work, efforts were made to visualize the full spatial field of gas temperature (T g) in a microdischarge with sharp T g gradients by a method of calibrated Schlieren (CS) photography. Compared to other two typical diagnostic approaches, optical emission spectroscopy (OES) and Rayleigh scattering, the proposed CS method exhibits the ability to capture the whole field of gas temperature using a single Schlieren image, even the discharge is of non-luminous zones like Faraday dark space (FDS). The image shows that the T g field in the studied micro-glow air discharge expands quickly with the increase of discharge currents, especially in the cathode region. The two-dimensional maps of gas temperature display a ‘W-shape’ with sharp gradients in both areas of negative and positive glows, slightly arched distributions in the positive column, and cooling zones in the FDS. The obtained T g fields show similar patterns to that of the discharge luminance. With an increase in discharge currents, more electric energy is dissipated by heating air gas and inducing constriction of the low-temperature FDS. Except in the vicinities of electrode boundaries, due to the interference from optical diffraction, the estimated gas temperature distributions are of acceptable accuracy, confirmed by the approaches of OES and UV Rayleigh scattering.

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 I c. At a strand current of 1.3I c 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 1.3I c) 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 Nb 3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.« less

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 I c. At a strand current of 1.3I c 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 1.3I c ) 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 Nb 3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.« less

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

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

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 I c. At a strand current of 1.3I c 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 1.3I c) 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 Nb 3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.« less

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

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

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 I c. At a strand current of 1.3I c 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 1.3I c ) 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 Nb 3Sn based accelerator cables) would make the coupling components comparable in size to the hysteretic components.« less

Quality control mechanisms exclude incorrect polymerases from the eukaryotic replication fork

PubMed Central

Schauer, Grant D.; O’Donnell, Michael E.

2017-01-01

The eukaryotic genome is primarily replicated by two DNA polymerases, Pol ε and Pol δ, that function on the leading and lagging strands, respectively. Previous studies have established recruitment mechanisms whereby Cdc45-Mcm2-7-GINS (CMG) helicase binds Pol ε and tethers it to the leading strand, and PCNA (proliferating cell nuclear antigen) binds tightly to Pol δ and recruits it to the lagging strand. The current report identifies quality control mechanisms that exclude the improper polymerase from a particular strand. We find that the replication factor C (RFC) clamp loader specifically inhibits Pol ε on the lagging strand, and CMG protects Pol ε against RFC inhibition on the leading strand. Previous studies show that Pol δ is slow and distributive with CMG on the leading strand. However, Saccharomyces cerevisiae Pol δ–PCNA is a rapid and processive enzyme, suggesting that CMG may bind and alter Pol δ activity or position it on the lagging strand. Measurements of polymerase binding to CMG demonstrate Pol ε binds CMG with a Kd value of 12 nM, but Pol δ binding CMG is undetectable. Pol δ, like bacterial replicases, undergoes collision release upon completing replication, and we propose Pol δ–PCNA collides with the slower CMG, and in the absence of a stabilizing Pol δ–CMG interaction, the collision release process is triggered, ejecting Pol δ on the leading strand. Hence, by eviction of incorrect polymerases at the fork, the clamp machinery directs quality control on the lagging strand and CMG enforces quality control on the leading strand. PMID:28069954

CMG helicase and DNA polymerase ε form a functional 15-subunit holoenzyme for eukaryotic leading-strand DNA replication.

PubMed

Langston, Lance D; Zhang, Dan; Yurieva, Olga; Georgescu, Roxana E; Finkelstein, Jeff; Yao, Nina Y; Indiani, Chiara; O'Donnell, Mike E

2014-10-28

DNA replication in eukaryotes is asymmetric, with separate DNA polymerases (Pol) dedicated to bulk synthesis of the leading and lagging strands. Pol α/primase initiates primers on both strands that are extended by Pol ε on the leading strand and by Pol δ on the lagging strand. The CMG (Cdc45-MCM-GINS) helicase surrounds the leading strand and is proposed to recruit Pol ε for leading-strand synthesis, but to date a direct interaction between CMG and Pol ε has not been demonstrated. While purifying CMG helicase overexpressed in yeast, we detected a functional complex between CMG and native Pol ε. Using pure CMG and Pol ε, we reconstituted a stable 15-subunit CMG-Pol ε complex and showed that it is a functional polymerase-helicase on a model replication fork in vitro. On its own, the Pol2 catalytic subunit of Pol ε is inefficient in CMG-dependent replication, but addition of the Dpb2 protein subunit of Pol ε, known to bind the Psf1 protein subunit of CMG, allows stable synthesis with CMG. Dpb2 does not affect Pol δ function with CMG, and thus we propose that the connection between Dpb2 and CMG helps to stabilize Pol ε on the leading strand as part of a 15-subunit leading-strand holoenzyme we refer to as CMGE. Direct binding between Pol ε and CMG provides an explanation for specific targeting of Pol ε to the leading strand and provides clear mechanistic evidence for how strand asymmetry is maintained in eukaryotes.

CMG helicase and DNA polymerase ε form a functional 15-subunit holoenzyme for eukaryotic leading-strand DNA replication

PubMed Central

Langston, Lance D.; Zhang, Dan; Yurieva, Olga; Georgescu, Roxana E.; Finkelstein, Jeff; Yao, Nina Y.; Indiani, Chiara; O’Donnell, Mike E.

2014-01-01

DNA replication in eukaryotes is asymmetric, with separate DNA polymerases (Pol) dedicated to bulk synthesis of the leading and lagging strands. Pol α/primase initiates primers on both strands that are extended by Pol ε on the leading strand and by Pol δ on the lagging strand. The CMG (Cdc45-MCM-GINS) helicase surrounds the leading strand and is proposed to recruit Pol ε for leading-strand synthesis, but to date a direct interaction between CMG and Pol ε has not been demonstrated. While purifying CMG helicase overexpressed in yeast, we detected a functional complex between CMG and native Pol ε. Using pure CMG and Pol ε, we reconstituted a stable 15-subunit CMG–Pol ε complex and showed that it is a functional polymerase–helicase on a model replication fork in vitro. On its own, the Pol2 catalytic subunit of Pol ε is inefficient in CMG-dependent replication, but addition of the Dpb2 protein subunit of Pol ε, known to bind the Psf1 protein subunit of CMG, allows stable synthesis with CMG. Dpb2 does not affect Pol δ function with CMG, and thus we propose that the connection between Dpb2 and CMG helps to stabilize Pol ε on the leading strand as part of a 15-subunit leading-strand holoenzyme we refer to as CMGE. Direct binding between Pol ε and CMG provides an explanation for specific targeting of Pol ε to the leading strand and provides clear mechanistic evidence for how strand asymmetry is maintained in eukaryotes. PMID:25313033

Generation of coherent terahertz radiation in ultrafast laser-gas interactionsa)

NASA Astrophysics Data System (ADS)

Kim, Ki-Yong

2009-05-01

The generation of intense terahertz radiation in ultrafast laser-gas interactions is studied on a basis of transient electron current model. When an ultrashort pulse laser's fundamental and its second harmonic fields are mixed to ionize a gas, a nonvanishing, directional photoelectron current can be produced, which simultaneously emits terahertz radiation in the far field. Here, the generation mechanism is examined with an analytic derivation and numerical simulations, in which tunneling ionization and subsequent electron motion in the combined laser field play a key role. In the simulations, three types of laser-gas interactions are considered: (i) mixing the fundamental and its second harmonic fields, (ii) mixing nonharmonic, two-color fields, and (iii) focusing single-color, few-cycle pulses. In these interactions, terahertz generation and other nonlinear effects driven by the transient current are investigated. In particular, anticorrelation between terahertz and second (or third) harmonic generation is observed and analyzed.

English Language Arts Curriculum Guide, Intermediate Elementary Level: Grade 4.

ERIC Educational Resources Information Center

Saporito, Leo C., Ed.; And Others

Prepared for use in grade four, this language arts curriculum guide bases its reading strand on "Roads to Everywhere" (Ginn 100), the English strand on "Roberts English Series" (Harcourt), the spelling strand on "Sound and Sense in Spelling" (Harcourt), and the handwriting strand on "Better Handwriting for…

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

... DEPARTMENT OF COMMERCE International Trade Administration [A-549-820] Prestressed Concrete Steel Wire Strand From Thailand: Correction to Notice of Opportunity To Request Administrative Review AGENCY... prestressed concrete steel wire strand (``PC Strand'') from Thailand. See Antidumping or Countervailing Duty...

75 FR 4104 - Prestressed Concrete Steel Wire Strand From China

Federal Register 2010, 2011, 2012, 2013, 2014

2010-01-26

... Concrete Steel Wire Strand From China AGENCY: United States International Trade Commission. ACTION... wire strand, provided for in subheading 7312.10.30 of the Harmonized Tariff Schedule of the United... merchandise as PC strand, produced from wire of nonstainless, non-galvanized steel, which is suitable for use...

Near-field microscopy and fluorescence spectroscopy: application to chromosomes labelled with different fluorophores.

PubMed

Mahieu-Williame, L; Falgayrettes, P; Nativel, L; Gall-Borrut, P; Costa, L; Salehzada, T; Bisbal, C

2010-04-01

We have coupled a spectrophotometer with a scanning near-field optical microscope to obtain, with a single scan, simultaneously scanning near-field optical microscope fluorescence images at different wavelengths as well as topography and transmission images. Extraction of the fluorescence spectra enabled us to decompose the different wavelengths of the fluorescence signals which normally overlap. We thus obtained images of the different fluorescence emissions of acridine orange bound to single or double stranded nucleic acids in human metaphase chromosomes before and after DNAse I or RNAse A treatment. The analysis of these images allowed us to visualize some specific chromatin areas where RNA is associated with DNA showing that such a technique could be used to identify multiple components within a cell.

Termination of a Magnetized Plasma on a Neutral Gas: The End of the Plasma

NASA Astrophysics Data System (ADS)

Cooper, C. M.; Gekelman, W.

2013-06-01

Experiments are performed at the Enormous Toroidal Plasma Device at UCLA to study the neutral boundary layer (NBL) between a magnetized plasma and a neutral gas along the direction of a confining magnetic field. This is the first experiment to measure plasma termination within a neutral gas without the presence of a wall or obstacle. A magnetized, current-free helium plasma created by a lanthanum hexaboride (LaB6) cathode terminates entirely within a neutral helium gas. The plasma is weakly ionized (ne/nn˜1%) and collisional λn≪Lplasma. The NBL occurs where the plasma pressure equilibrates with the neutral gas pressure, consistent with a pressure balance model. It is characterized by a field-aligned ambipolar electric field, developing self-consistently to maintain a current-free termination of the plasma on the neutral gas. Probes are inserted into the plasma to measure the plasma density, flow, temperature, current, and potential. These measurements confirm the presence of the ambipolar field and the pressure equilibration model of the NBL.

Soil Gas Sampling

EPA Pesticide Factsheets

Field Branches Quality System and Technical Procedures: This document describes general and specific procedures, methods and considerations to be used and observed when collecting soil gas samples for field screening or laboratory analysis.

Stark effect spectrophone for continuous absorption spectra monitoring. [a technique for gas analysis

NASA Technical Reports Server (NTRS)

Kavaya, M. J. (Inventor)

1981-01-01

A Stark effect spectrophone using a pulsed or continuous wave laser having a beam with one or more absorption lines of a constituent of an unknown gas is described. The laser beam is directed through windows of a closed cell while the unknown gas to be modified flows continuously through the cell between electric field plates disposed in the cell on opposite sides of the beam path through the cell. When the beam is pulsed, energy absorbed by the gas increases at each point along the beam path according to the spectral lines of the constituents of the gas for the particular field strengths at those points. The pressure measurement at each point during each pulse of energy yields a plot of absorption as a function of electric field for simultaneous detection of the gas constituents. Provision for signal averaging and modulation is included.

Fuel cell water transport

DOEpatents

Vanderborgh, Nicholas E.; Hedstrom, James C.

1990-01-01

The moisture content and temperature of hydrogen and oxygen gases is regulated throughout traverse of the gases in a fuel cell incorporating a solid polymer membrane. At least one of the gases traverses a first flow field adjacent the solid polymer membrane, where chemical reactions occur to generate an electrical current. A second flow field is located sequential with the first flow field and incorporates a membrane for effective water transport. A control fluid is then circulated adjacent the second membrane on the face opposite the fuel cell gas wherein moisture is either transported from the control fluid to humidify a fuel gas, e.g., hydrogen, or to the control fluid to prevent excess water buildup in the oxidizer gas, e.g., oxygen. Evaporation of water into the control gas and the control gas temperature act to control the fuel cell gas temperatures throughout the traverse of the fuel cell by the gases.

Formation of Large Regular Satellites of Giant Planets in an Extended Gaseous Nebula. 2; Satellite Migration And Survival

NASA Technical Reports Server (NTRS)

Mosqueira, I.; Estrada, P. R.

2000-01-01

Using an optically thick inner disk and an extended, optically thin outer disk as described in Mosqueira and Estrada, we compute the torque as a function of position in the subnebula, and show that although the torque exerted on the satellite is generally negative, which leads to inward migration as expected, there are regions of the disk where the torque is positive. For our model these regions of positive torque correspond roughly to the locations of Callisto and Iapetus. Though the outer location of zero torque depends on the (unknown) size of the transition region between the inner and outer disks, the result that Saturn's is found much farther out (at approximately 3r(sub c, sup S) where r(sub c, sup S) is Saturn's centrifugal radius) than Jupiter's (at approximately 2r(sub c, sup J), where r(sub c, sup J) is Jupiter's centrifugal radius) is mostly due to Saturn's less massive outer disk, and larger Hill radius. For a satellite to survive in the disk the timescale of satellite migration must be longer than the timescale for gas dissipation. For large satellites (approximately 1000 km) migration is dominated by the gas torque. We consider the possibility that the feedback reaction of the gas disk caused by the redistribution of gas surface density around satellites with masses larger than the inertial mass causes a large drop in the drift velocity of such objects, thus improving the likelihood that they will be left stranded following gas dissipation. We adapt the inviscid inertial mass criterion to include gas drag, and m-dependent non-local deposition of angular momentum.

Yeast Pif1 Accelerates Annealing of Complementary DNA Strands

PubMed Central

2015-01-01

Pif1 is a helicase involved in the maintenance of nuclear and mitochondrial genomes in eukaryotes. Here we report a new activity of Saccharomyces cerevisiae Pif1, annealing of complementary DNA strands. We identified preferred substrates for annealing as those that generate a duplex product with a single-stranded overhang relative to a blunt end duplex. Importantly, we show that Pif1 can anneal DNA in the presence of ATP and Mg2+. Pif1-mediated annealing also occurs in the presence of single-stranded DNA binding proteins. Additionally, we show that partial duplex substrates with 3′-single-stranded overhangs such as those generated during double-strand break repair can be annealed by Pif1. PMID:25393406

Yeast Pif1 accelerates annealing of complementary DNA strands.

PubMed

Ramanagoudr-Bhojappa, Ramanagouda; Byrd, Alicia K; Dahl, Christopher; Raney, Kevin D

2014-12-09

Pif1 is a helicase involved in the maintenance of nuclear and mitochondrial genomes in eukaryotes. Here we report a new activity of Saccharomyces cerevisiae Pif1, annealing of complementary DNA strands. We identified preferred substrates for annealing as those that generate a duplex product with a single-stranded overhang relative to a blunt end duplex. Importantly, we show that Pif1 can anneal DNA in the presence of ATP and Mg(2+). Pif1-mediated annealing also occurs in the presence of single-stranded DNA binding proteins. Additionally, we show that partial duplex substrates with 3'-single-stranded overhangs such as those generated during double-strand break repair can be annealed by Pif1.

Determinants of host species range in plant viruses.

PubMed

Moury, Benoît; Fabre, Frédéric; Hébrard, Eugénie; Froissart, Rémy

2017-04-01

Prediction of pathogen emergence is an important field of research, both in human health and in agronomy. Most studies of pathogen emergence have focused on the ecological or anthropic factors involved rather than on the role of intrinsic pathogen properties. The capacity of pathogens to infect a large set of host species, i.e. to possess a large host range breadth (HRB), is tightly linked to their emergence propensity. Using an extensive plant virus database, we found that four traits related to virus genome or transmission properties were strongly and robustly linked to virus HRB. Broader host ranges were observed for viruses with single-stranded genomes, those with three genome segments and nematode-transmitted viruses. Also, two contrasted groups of seed-transmitted viruses were evidenced. Those with a single-stranded genome had larger HRB than non-seed-transmitted viruses, whereas those with a double-stranded genome (almost exclusively RNA) had an extremely small HRB. From the plant side, the family taxonomic rank appeared as a critical threshold for virus host range, with a highly significant increase in barriers to infection between plant families. Accordingly, the plant-virus infectivity matrix shows a dual structure pattern: a modular pattern mainly due to viruses specialized to infect plants of a given family and a nested pattern due to generalist viruses. These results contribute to a better prediction of virus host jumps and emergence risks.

Fabrication and characterization of disordered polymer optical fibers for transverse Anderson localization of light.

PubMed

Karbasi, Salman; Frazier, Ryan J; Mirr, Craig R; Koch, Karl W; Mafi, Arash

2013-07-29

We develop and characterize a disordered polymer optical fiber that uses transverse Anderson localization as a novel waveguiding mechanism. The developed polymer optical fiber is composed of 80,000 strands of poly (methyl methacrylate) (PMMA) and polystyrene (PS) that are randomly mixed and drawn into a square cross section optical fiber with a side width of 250 μm. Initially, each strand is 200 μm in diameter and 8-inches long. During the mixing process of the original fiber strands, the fibers cross over each other; however, a large draw ratio guarantees that the refractive index profile is invariant along the length of the fiber for several tens of centimeters. The large refractive index difference of 0.1 between the disordered sites results in a small localized beam radius that is comparable to the beam radius of conventional optical fibers. The input light is launched from a standard single mode optical fiber using the butt-coupling method and the near-field output beam from the disordered fiber is imaged using a 40X objective and a CCD camera. The output beam diameter agrees well with the expected results from the numerical simulations. The disordered optical fiber presented in this work is the first device-level implementation of 2D Anderson localization, and can potentially be used for image transport and short-haul optical communication systems.

Fabrication and Characterization of Disordered Polymer Optical Fibers for Transverse Anderson Localization of Light

PubMed Central

Karbasi, Salman; Frazier, Ryan J.; Mirr, Craig R.; Koch, Karl W.; Mafi, Arash

2013-01-01

We develop and characterize a disordered polymer optical fiber that uses transverse Anderson localization as a novel waveguiding mechanism. The developed polymer optical fiber is composed of 80,000 strands of poly (methyl methacrylate) (PMMA) and polystyrene (PS) that are randomly mixed and drawn into a square cross section optical fiber with a side width of 250 μm. Initially, each strand is 200 μm in diameter and 8-inches long. During the mixing process of the original fiber strands, the fibers cross over each other; however, a large draw ratio guarantees that the refractive index profile is invariant along the length of the fiber for several tens of centimeters. The large refractive index difference of 0.1 between the disordered sites results in a small localized beam radius that is comparable to the beam radius of conventional optical fibers. The input light is launched from a standard single mode optical fiber using the butt-coupling method and the near-field output beam from the disordered fiber is imaged using a 40X objective and a CCD camera. The output beam diameter agrees well with the expected results from the numerical simulations. The disordered optical fiber presented in this work is the first device-level implementation of 2D Anderson localization, and can potentially be used for image transport and short-haul optical communication systems. PMID:23929276

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

Ghosh, A.

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 groupmore » 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.« less

76 FR 78938 - Carpinteria Offshore Field Redevelopment Project-Developmental Drilling Into the Carpinteria...

Federal Register 2010, 2011, 2012, 2013, 2014

2011-12-20

... DEPARTMENT OF THE INTERIOR Bureau of Ocean Energy Management Carpinteria Offshore Field Redevelopment Project--Developmental Drilling Into the Carpinteria Offshore Field Oil and Gas Reserves... Lands Commission (CSLC) intend to jointly review a proposal to develop offshore oil and gas resources...

Neogene Gas Total Petroleum System -- Neogene Nonassociated Gas Assessment Unit of the San Joaquin Basin Province: Chapter 22 in Petroleum systems and geologic assessment of oil and gas in the San Joaquin Basin Province, California

USGS Publications Warehouse

Hosford Scheirer, Allegra; Magoon, Leslie B.

2009-01-01

The Neogene Nonassociated Gas Assessment Unit (AU) of the Neogene Total Petroleum System consists of nonassociated gas accumulations in Pliocene marine and brackish-water sandstone located in the south and central San Joaquin Basin Province (Rudkin, 1968). Traps consist mainly of stratigraphic lenses in low-relief, elongate domes that trend northwest-southeast. Reservoir rocks typically occur as sands that pinch out at shallow depths (1,000 to 7,500 feet) within the Etchegoin and San Joaquin Formations. Map boundaries of the assessment unit are shown in figures 22.1 and 22.2; this assessment unit replaces the Pliocene Nonassociated Gas play 1001 (shown by purple line in fig. 22.1) considered by the U.S. Geological Survey (USGS) in its 1995 National Assessment (Beyer, 1996). The AU is drawn to include all existing fields containing nonassociated gas accumulations in the Pliocene to Pleistocene section, as was done in the 1995 assessment, but it was greatly expanded to include adjacent areas believed to contain similar source and reservoir rock relationships. Stratigraphically, the AU extends from the topographic surface to the base of the Etchegoin Formation (figs. 22.3 and 22.4). The boundaries of the AU explicitly exclude gas accumulations in Neogene rocks on the severely deformed west side of the basin and gas accumulations in underlying Miocene rocks; these resources, which primarily consist of a mixture of mostly thermogenic and some biogenic gas, are included in two other assessment units. Lillis and others (this volume, chapter 10) discuss the geochemical characteristics of biogenic gas in the San Joaquin Basin Province. Primary fields in the assessment unit are defined as those containing hydrocarbon resources greater than the USGS minimum threshold for assessment—3 billion cubic feet (BCF) of gas; secondary fields contain smaller volumes of gas but constitute a significant show of hydrocarbons. Although 12 fields meet the 3 BCF criterion for inclusion in the AU, only 5 fields were considered at the time of assessment.

Mechanism for accurate, protein-assisted DNA annealing by Deinococcus radiodurans DdrB

PubMed Central

Sugiman-Marangos, Seiji N.; Weiss, Yoni M.; Junop, Murray S.

2016-01-01

Accurate pairing of DNA strands is essential for repair of DNA double-strand breaks (DSBs). How cells achieve accurate annealing when large regions of single-strand DNA are unpaired has remained unclear despite many efforts focused on understanding proteins, which mediate this process. Here we report the crystal structure of a single-strand annealing protein [DdrB (DNA damage response B)] in complex with a partially annealed DNA intermediate to 2.2 Å. This structure and supporting biochemical data reveal a mechanism for accurate annealing involving DdrB-mediated proofreading of strand complementarity. DdrB promotes high-fidelity annealing by constraining specific bases from unauthorized association and only releases annealed duplex when bound strands are fully complementary. To our knowledge, this mechanism provides the first understanding for how cells achieve accurate, protein-assisted strand annealing under biological conditions that would otherwise favor misannealing. PMID:27044084

Review of hydraulic fracture mapping using advanced accelerometer-based receiver systems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Warpinski, N.R.; Uhl, J.E.; Engler, B.P.

Hydraulic fracturing is an important tool for natural gas and oil exploitation, but its optimization has been impeded by an inability to observe how the fracture propagates and what its overall dimensions are. The few experiments in which fractures have been exposed through coring or mineback have shown that hydraulic fractures are complicated multi-stranded structures that may behave much differently than currently predicted by models. It is clear that model validation, fracture optimization, problem identification and solution, and field development have all been encumbered by the absence of any ground truth information on fracture behavior in field applications. The solutionmore » to this problem is to develop techniques to image the hydraulic fracture in situ from either the surface, the treatment well, or offset wells. Several diagnostic techniques have been available to assess individual elements of the fracture geometry, but most of these techniques have limitations on their usefulness. For example, tracers and temperature logs can only measure fracture height at the wellbore, well testing and production history matching provide a productive length which may or may not be different from the true fracture length, and tiltmeters can provide accurate information on azimuth and type of fracture (horizontal or vertical), but length and height can only be extracted from a non-unique inversion of the data. However, there is a method, the microseismic technique, which possesses the potential for imaging the entire hydraulic fracture and, more importantly, its growth history. This paper discusses application of advanced technology to the microseismic method in order to provide detailed accurate images of fractures and their growth processes.« less

Electrical characterization of gold-DNA-gold structures in presence of an external magnetic field by means of I-V curve analysis.

PubMed

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

2012-01-01

This work presents an experimental study of gold-DNA-gold structures in the presence and absence of external magnetic fields with strengths less than 1,200.00 mT. The DNA strands, extracted by standard method were used to fabricate a Metal-DNA-Metal (MDM) structure. Its electric behavior when subjected to a magnetic field was studied through its current-voltage (I-V) curve. Acquisition of the I-V curve demonstrated that DNA as a semiconductor exhibits diode behavior in the MDM structure. The current versus magnetic field strength followed a decreasing trend because of a diminished mobility in the presence of a low magnetic field. This made clear that an externally imposed magnetic field would boost resistance of the MDM structure up to 1,000.00 mT and for higher magnetic field strengths we can observe an increase in potential barrier in MDM junction. The magnetic sensitivity indicates the promise of using MDM structures as potential magnetic sensors.

Electrical Characterization of Gold-DNA-Gold Structures in Presence of an External Magnetic Field by Means of I–V Curve Analysis

PubMed Central

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

2012-01-01

This work presents an experimental study of gold-DNA-gold structures in the presence and absence of external magnetic fields with strengths less than 1,200.00 mT. The DNA strands, extracted by standard method were used to fabricate a Metal-DNA-Metal (MDM) structure. Its electric behavior when subjected to a magnetic field was studied through its current-voltage (I–V) curve. Acquisition of the I–V curve demonstrated that DNA as a semiconductor exhibits diode behavior in the MDM structure. The current versus magnetic field strength followed a decreasing trend because of a diminished mobility in the presence of a low magnetic field. This made clear that an externally imposed magnetic field would boost resistance of the MDM structure up to 1,000.00 mT and for higher magnetic field strengths we can observe an increase in potential barrier in MDM junction. The magnetic sensitivity indicates the promise of using MDM structures as potential magnetic sensors. PMID:22737025

Optical sensor of magnetic fields

DOEpatents

Butler, M.A.; Martin, S.J.

1986-03-25

An optical magnetic field strength sensor for measuring the field strength of a magnetic field comprising a dilute magnetic semi-conductor probe having first and second ends, longitudinally positioned in the magnetic field for providing Faraday polarization rotation of light passing therethrough relative to the strength of the magnetic field. Light provided by a remote light source is propagated through an optical fiber coupler and a single optical fiber strand between the probe and the light source for providing a light path therebetween. A polarizer and an apparatus for rotating the polarization of the light is provided in the light path and a reflector is carried by the second end of the probe for reflecting the light back through the probe and thence through the polarizer to the optical coupler. A photo detector apparatus is operably connected to the optical coupler for detecting and measuring the intensity of the reflected light and comparing same to the light source intensity whereby the magnetic field strength may be calculated.

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

Federal Register 2010, 2011, 2012, 2013, 2014

2010-06-28

... Concrete Steel Wire Strand From China; Determinations On the basis of the record \\1\\ developed in the... prestressed concrete steel wire strand (PC strand), provided for in subheading 7312.10.30 of the Harmonized... Spring Wire Corp. (Bedford Heights, OH); Insteel Wire Products Co. (Mt. Airy, NC); and Sumiden Wire...

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…

Probe and method for DNA detection

DOEpatents

Yeh, Hsin-Chih; Werner, James Henry; Sharma, Jaswinder Kumar; Martinez, Jennifer Suzanne

2013-07-02

A hybridization probe containing two linear strands of DNA lights up upon hybridization to a target DNA using silver nanoclusters that have been templated onto one of the DNA strands. Hybridization induces proximity between the nanoclusters on one strand and an overhang on the other strand, which results in enhanced fluorescence emission from the nanoclusters.

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, 1990...

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, 1990...

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, 1990...

Action of CMG with strand-specific DNA blocks supports an internal unwinding mode for the eukaryotic replicative helicase

PubMed Central

Langston, Lance; O’Donnell, Mike

2017-01-01

Replicative helicases are ring-shaped hexamers that encircle DNA for duplex unwinding. The currently accepted view of hexameric helicase function is by steric exclusion, where the helicase encircles one DNA strand and excludes the other, acting as a wedge with an external DNA unwinding point during translocation. Accordingly, strand-specific blocks only affect these helicases when placed on the tracking strand, not the excluded strand. We examined the effect of blocks on the eukaryotic CMG and, contrary to expectations, blocks on either strand inhibit CMG unwinding. A recent cryoEM structure of yeast CMG shows that duplex DNA enters the helicase and unwinding occurs in the central channel. The results of this report inform important aspects of the structure, and we propose that CMG functions by a modified steric exclusion process in which both strands enter the helicase and the duplex unwinding point is internal, followed by exclusion of the non-tracking strand. DOI: http://dx.doi.org/10.7554/eLife.23449.001 PMID:28346143

Improved silencing properties using small internally segmented interfering RNAs

PubMed Central

Bramsen, Jesper B.; Laursen, Maria B.; Damgaard, Christian K.; Lena, Suzy W.; Ravindra Babu, B.; Wengel, Jesper; Kjems, Jørgen

2007-01-01

RNA interference is mediated by small interfering RNAs (siRNAs) that upon incorporation into the RNA-induced silencing complex (RISC) can target complementary mRNA for degradation. Standard siRNA design usually feature a 19–27 base pair contiguous double-stranded region that is believed to be important for RISC incorporation. Here, we describe a novel siRNA design composed of an intact antisense strand complemented with two shorter 10–12 nt sense strands. This three-stranded construct, termed small internally segmented interfering RNA (sisiRNA), is highly functional demonstrating that an intact sense strand is not a prerequisite for RNA interference. Moreover, when using the sisiRNA design only the antisense strand is functional in activated RISC thereby completely eliminating unintended mRNA targeting by the sense strand. Interestingly, the sisiRNA design supports the function of chemically modified antisense strands, which are non-functional within the context of standard siRNA designs. This suggests that the sisiRNA design has a clear potential of improving the pharmacokinetic properties of siRNA in vivo. PMID:17726057

Fundamental Design based on Current Distribution in Coaxial Multi-Layer Cable-in-Conduit Conductor

NASA Astrophysics Data System (ADS)

Hamajima, Takataro; Tsuda, Makoto; Yagai, Tsuyoshi; Takahata, Kazuya; Imagawa, Shinsaku

An imbalanced current distribution is often observed in cable-in-conduit (CIC) superconductors which are composed of multi-staged, triplet type sub-cables, and hence deteriorates the performance of the coils. Therefore, since it is very important to obtain a homogeneous current distribution in the superconducting strands, we propose a coaxial multi-layer type CIC conductor. We use a circuit model for all layers in the coaxial multi-layer CIC conductor, and derive a generalized formula governing the current distribution as explicit functions of the superconductor construction parameters, such as twist pitch, twist direction, radius of each layer, and number of superconducting (SC) strands and copper (Cu) strands. We apply the formula to design the coaxial multi-layer CIC which has the same number of SC strands and Cu strands of the CIC for Central Solenoid of ITER. We can design three kinds of the coaxial multi-layer CIC depending on distribution of SC and Cu strands on all layers. It is shown that the SC strand volume should be optimized as a function of SC and Cu strand distribution on the layers.

Sub-Ensemble Monitoring of DNA Strand Displacement Using Multiparameter Single-Molecule FRET.

PubMed

Baltierra-Jasso, Laura E; Morten, Michael J; Magennis, Steven W

2018-03-05

Non-enzymatic DNA strand displacement is an important mechanism in dynamic DNA nanotechnology. Here, we show that the large parameter space that is accessible by single-molecule FRET is ideal for the simultaneous monitoring of multiple reactants and products of DNA strand exchange reactions. We monitored the strand displacement from double-stranded DNA (dsDNA) by single-stranded DNA (ssDNA) at 37 °C; the data were modelled as a second-order reaction approaching equilibrium, with a rate constant of 10 m -1  s -1 . We also followed the displacement from a DNA three-way junction (3WJ) by ssDNA. The presence of three internal mismatched bases in the middle of the invading strand did not prevent displacement from the 3WJ, but reduced the second-order rate constant by about 50 %. We attribute strand exchange in the dsDNA and 3WJ to a zero-toehold pathway from the blunt-ended duplex arms. The single-molecule approach demonstrated here will be useful for studying complex DNA networks. © 2018 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Variation of mutational burden in healthy human tissues suggests non-random strand segregation and allows measuring somatic mutation rates.

PubMed

Werner, Benjamin; Sottoriva, Andrea

2018-06-01

The immortal strand hypothesis poses that stem cells could produce differentiated progeny while conserving the original template strand, thus avoiding accumulating somatic mutations. However, quantitating the extent of non-random DNA strand segregation in human stem cells remains difficult in vivo. Here we show that the change of the mean and variance of the mutational burden with age in healthy human tissues allows estimating strand segregation probabilities and somatic mutation rates. We analysed deep sequencing data from healthy human colon, small intestine, liver, skin and brain. We found highly effective non-random DNA strand segregation in all adult tissues (mean strand segregation probability: 0.98, standard error bounds (0.97,0.99)). In contrast, non-random strand segregation efficiency is reduced to 0.87 (0.78,0.88) in neural tissue during early development, suggesting stem cell pool expansions due to symmetric self-renewal. Healthy somatic mutation rates differed across tissue types, ranging from 3.5 × 10-9/bp/division in small intestine to 1.6 × 10-7/bp/division in skin.

Linear nicking endonuclease-mediated strand-displacement DNA amplification.

PubMed

Joneja, Aric; Huang, Xiaohua

2011-07-01

We describe a method for linear isothermal DNA amplification using nicking endonuclease-mediated strand displacement by a DNA polymerase. The nicking of one strand of a DNA target by the endonuclease produces a primer for the polymerase to initiate synthesis. As the polymerization proceeds, the downstream strand is displaced into a single-stranded form while the nicking site is also regenerated. The combined continuous repetitive action of nicking by the endonuclease and strand-displacement synthesis by the polymerase results in linear amplification of one strand of the DNA molecule. We demonstrate that DNA templates up to 5000 nucleotides can be linearly amplified using a nicking endonuclease with 7-bp recognition sequence and Sequenase version 2.0 in the presence of single-stranded DNA binding proteins. We also show that a mixture of three templates of 500, 1000, and 5000 nucleotides in length is linearly amplified with the original molar ratios of the templates preserved. Moreover, we demonstrate that a complex library of hydrodynamically sheared genomic DNA from bacteriophage lambda can be amplified linearly. Copyright © 2011 Elsevier Inc. All rights reserved.

Linear nicking endonuclease-mediated strand displacement DNA amplification

PubMed Central

Joneja, Aric; Huang, Xiaohua

2011-01-01

We describe a method for linear isothermal DNA amplification using nicking endonuclease-mediated strand displacement by a DNA polymerase. The nicking of one strand of a DNA target by the endonuclease produces a primer for the polymerase to initiate synthesis. As the polymerization proceeds, the downstream strand is displaced into a single-stranded form while the nicking site is also regenerated. The combined continuous repetitive action of nicking by the endonuclease and strand displacement synthesis by the polymerase results in linear amplification of one strand of the DNA molecule. We demonstrate that DNA templates up to five thousand nucleotides can be linearly amplified using a nicking endonuclease with seven base-pair recognition sequence and Sequenase version 2.0 in the presence of single-stranded DNA binding proteins. We also show that a mixture of three templates of 500, 1000, and 5000 nucleotides in length are linearly amplified with the original molar ratios of the templates preserved. Moreover, we demonstrate that a complex library of hydrodynamically sheared genomic DNA from bacteriophage lambda can be amplified linearly. PMID:21342654

Biomedical Investigations with Laser-Polarized Noble Gas Magnetic Resonance

NASA Technical Reports Server (NTRS)

Walsworth, Ronald L.

2003-01-01

We pursued advanced technology development of laser-polarized noble gas nuclear magnetic resonance (NMR) as a novel biomedical imaging tool for ground-based and eventually space-based application. This new multidisciplinary technology enables high-resolution gas-space magnetic resonance imaging (MRI)-e.g., of lung ventilation-as well as studies of tissue perfusion. In addition, laser-polarized noble gases (3He and 129Xe) do not require a large magnetic field for sensitive detection, opening the door to practical MRI at very low magnetic fields with an open, lightweight, and low-power device. We pursued two technology development specific aims: (1) development of low-field (less than 0.01 T) noble gas MRI of humans; and (2) development of functional MRI of the lung using laser-polarized noble gas and related techniques.

Interstrand cross-links arising from strand breaks at true abasic sites in duplex DNA

PubMed Central

Yang, Zhiyu; Price, Nathan E.; Johnson, Kevin M.

2017-01-01

Abstract Interstrand cross-links are exceptionally bioactive DNA lesions. Endogenous generation of interstrand cross-links in genomic DNA may contribute to aging, neurodegeneration, and cancer. Abasic (Ap) sites are common lesions in genomic DNA that readily undergo spontaneous and amine-catalyzed strand cleavage reactions that generate a 2,3-didehydro-2,3-dideoxyribose sugar remnant (3’ddR5p) at the 3’-terminus of the strand break. Interestingly, this strand scission process leaves an electrophilic α,β-unsaturated aldehyde residue embedded within the resulting nicked duplex. Here we present evidence that 3’ddR5p derivatives generated by spermine-catalyzed strand cleavage at Ap sites in duplex DNA can react with adenine residues on the opposing strand to generate a complex lesion consisting of an interstrand cross-link adjacent to a strand break. The cross-link blocks DNA replication by ϕ29 DNA polymerase, a highly processive polymerase enzyme that couples synthesis with strand displacement. This suggests that 3’ddR5p-derived cross-links have the potential to block critical cellular DNA transactions that require strand separation. LC-MS/MS methods developed herein provide powerful tools for studying the occurrence and properties of these cross-links in biochemical and biological systems. PMID:28531327

The economics of stranded investment - a two-way street

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cearley, R.; McKinzie, L.

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 welfaremore » 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.« less

Repairing the sickle cell mutation. I. Specific covalent binding of a photoreactive third strand to the mutated base pair.

PubMed

Broitman, S; Amosova, O; Dolinnaya, N G; Fresco, J R

1999-07-30

A DNA third strand with a 3'-psoralen substituent was designed to form a triplex with the sequence downstream of the T.A mutant base pair of the human sickle cell beta-globin gene. Triplex-mediated psoralen modification of the mutant T residue was sought as an approach to gene repair. The 24-nucleotide purine-rich target sequence switches from one strand to the other and has four pyrimidine interruptions. Therefore, a third strand sequence favorable to two triplex motifs was used, one parallel and the other antiparallel to it. To cope with the pyrimidine interruptions, which weaken third strand binding, 5-methylcytosine and 5-propynyluracil were used in the third strand. Further, a six residue "hook" complementary to an overhang of a linear duplex target was added to the 5'-end of the third strand via a T(4) linker. In binding to the overhang by Watson-Crick pairing, the hook facilitates triplex formation. This third strand also binds specifically to the target within a supercoiled plasmid. The psoralen moiety at the 3'-end of the third strand forms photoadducts to the targeted T with high efficiency. Such monoadducts are known to preferentially trigger reversion of the mutation by DNA repair enzymes.