Reconstruction of cysteine biosynthesis using engineered cysteine-free enzymes.

PubMed

Fujishima, Kosuke; Wang, Kendrick M; Palmer, Jesse A; Abe, Nozomi; Nakahigashi, Kenji; Endy, Drew; Rothschild, Lynn J

2018-01-29

Amino acid biosynthesis pathways observed in nature typically require enzymes that are made with the amino acids they produce. For example, Escherichia coli produces cysteine from serine via two enzymes that contain cysteine: serine acetyltransferase (CysE) and O-acetylserine sulfhydrylase (CysK/CysM). To solve this chicken-and-egg problem, we substituted alternate amino acids in CysE, CysK and CysM for cysteine and methionine, which are the only two sulfur-containing proteinogenic amino acids. Using a cysteine-dependent auxotrophic E. coli strain, CysE function was rescued by cysteine-free and methionine-deficient enzymes, and CysM function was rescued by cysteine-free enzymes. CysK function, however, was not rescued in either case. Enzymatic assays showed that the enzymes responsible for rescuing the function in CysE and CysM also retained their activities in vitro. Additionally, substitution of the two highly conserved methionines in CysM decreased but did not eliminate overall activity. Engineering amino acid biosynthetic enzymes to lack the so-produced amino acids can provide insights into, and perhaps eventually fully recapitulate via a synthetic approach, the biogenesis of biotic amino acids.

Reconstruction of Cysteine Biosynthesis Using Engineered Cysteine-Free and Methionine-Free Enzymes

NASA Technical Reports Server (NTRS)

Wang, Kendrick; Fujishima, Kosuke; Abe, Nozomi; Nakahigashi, Kenji; Endy, Drew; Rothschild, Lynn J.

2016-01-01

Ten of the proteinogenic amino acids can be generated abiotically while the remaining thirteen require biology for their synthesis. Paradoxically, the biosynthesis pathways observed in nature require enzymes that are made with the amino acids they produce. For example, Escherichia coli produces cysteine from serine via two enzymes that contain cysteine. Here, we substituted alternate amino acids for cysteine and also methionine, which is biosynthesized from cysteine, in serine acetyl transferase (CysE) and O-acetylserine sulfhydrylase (CysM). CysE function was rescued by cysteine-and-methionine-free enzymes and CysM function was rescued by cysteine-free enzymes. Structural modeling suggests that methionine stabilizes CysM and is present in the active site of CysM. Cysteine is not conserved among CysE and CysM protein orthologs, suggesting that cysteine is not functionally important for its own synthesis. Engineering biosynthetic enzymes that lack the amino acids being synthesized provides insights into the evolution of amino acid biosynthesis and pathways for bioengineering.

Intrinsic non-commutativity of closed string theory

DOE PAGES

Freidel, Laurent; Leigh, Robert G.; Minic, Djordje

2017-09-14

We show that the proper interpretation of the cocycle operators appearing in the physical vertex operators of compactified strings is that the closed string target is noncommutative. We track down the appearance of this non-commutativity to the Polyakov action of the at closed string in the presence of translational monodromies (i.e., windings). Here, in view of the unexpected nature of this result, we present detailed calculations from a variety of points of view, including a careful understanding of the consequences of mutual locality in the vertex operator algebra, as well as a detailed analysis of the symplectic structure of themore » Polyakov string. Finally, we also underscore why this non-commutativity was not emphasized previously in the existing literature. This non-commutativity can be thought of as a central extension of the zero-mode operator algebra, an effect set by the string length scale $-$ it is present even in trivial backgrounds. Clearly, this result indicates that the α'→0 limit is more subtle than usually assumed.« less

Intrinsic non-commutativity of closed string theory

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

Freidel, Laurent; Leigh, Robert G.; Minic, Djordje

We show that the proper interpretation of the cocycle operators appearing in the physical vertex operators of compactified strings is that the closed string target is noncommutative. We track down the appearance of this non-commutativity to the Polyakov action of the at closed string in the presence of translational monodromies (i.e., windings). Here, in view of the unexpected nature of this result, we present detailed calculations from a variety of points of view, including a careful understanding of the consequences of mutual locality in the vertex operator algebra, as well as a detailed analysis of the symplectic structure of themore » Polyakov string. Finally, we also underscore why this non-commutativity was not emphasized previously in the existing literature. This non-commutativity can be thought of as a central extension of the zero-mode operator algebra, an effect set by the string length scale $-$ it is present even in trivial backgrounds. Clearly, this result indicates that the α'→0 limit is more subtle than usually assumed.« less

Electron string phenomenon: physics and use

NASA Astrophysics Data System (ADS)

Donets, Evgeny D.

2004-01-01

Electron string phenomenon arises as a result of phase transition of a state of multiply reflected electron beam to this new discovered state of one component electron plasma and can be easily observed in the reflex mode of EBIS operation. The transition goes via a strong instability, which causes considerable electron energy spread, which in its turn suppresses the instability. Electron string state is a stationary state of hot pure electron plasma, which is heated by injected electron beam and cooled because of electron loses. Electron string is quiet in broad regions of experimental parameters, so that it is used for confinement and ionization of positive ions by electron impact to highly charge states similar to electron beams in EBIS. Application of electron strings instead of electron beams for ion production allows to save about 99% of electric power of electron beam and simultaneously to improve reliability of an ion source considerably. The JINR EBIS `Krion-2' in the string mode of operation is used for production of N7+, Ar16+ and Fe24+ ion beams and their acceleration to relativistic energies on the facility of the JINR super conducting one turn injection synchrotron `Nuklotron'. The tubular electron string possibly can exist and it is under study now theoretically and experiments are prepared now. Estimations show that a Tubular Electron String Ion Source (TESIS) could have up to three orders of magnitude higher ion output then a Linear one (LESIS). In frames of nuclear astrophysics electron strings can be used for research of fusion nuclear reactions at low energies in conditions when both beam and target nuclei do not carry orbital electrons. The project NARITA — Nuclear Astrophysics Researches in an Ion Trap Apparatus is proposed. Polarization effects also can be studied.

Synthesis of Protein Bioconjugates via Cysteine-maleimide Chemistry.

PubMed

Mason, Alexander F; Thordarson, Pall

2016-07-20

The chemical linking or bioconjugation of proteins to fluorescent dyes, drugs, polymers and other proteins has a broad range of applications, such as the development of antibody drug conjugates (ADCs) and nanomedicine, fluorescent microscopy and systems chemistry. For many of these applications, specificity of the bioconjugation method used is of prime concern. The Michael addition of maleimides with cysteine(s) on the target proteins is highly selective and proceeds rapidly under mild conditions, making it one of the most popular methods for protein bioconjugation. We demonstrate here the modification of the only surface-accessible cysteine residue on yeast cytochrome c with a ruthenium(II) bisterpyridine maleimide. The protein bioconjugation is verified by gel electrophoresis and purified by aqueous-based fast protein liquid chromatography in 27% yield of isolated protein material. Structural characterization with MALDI-TOF MS and UV-Vis is then used to verify that the bioconjugation is successful. The protocol shown here is easily applicable to other cysteine - maleimide coupling of proteins to other proteins, dyes, drugs or polymers.

String resistance detector

NASA Technical Reports Server (NTRS)

Hall, A. Daniel (Inventor); Davies, Francis J. (Inventor)

2007-01-01

Method and system are disclosed for determining individual string resistance in a network of strings when the current through a parallel connected string is unknown and when the voltage across a series connected string is unknown. The method/system of the invention involves connecting one or more frequency-varying impedance components with known electrical characteristics to each string and applying a frequency-varying input signal to the network of strings. The frequency-varying impedance components may be one or more capacitors, inductors, or both, and are selected so that each string is uniquely identifiable in the output signal resulting from the frequency-varying input signal. Numerical methods, such as non-linear regression, may then be used to resolve the resistance associated with each string.

Michael acceptor containing drugs are a novel class of 5-lipoxygenase inhibitor targeting the surface cysteines C416 and C418.

PubMed

Maucher, Isabelle V; Rühl, Michael; Kretschmer, Simon B M; Hofmann, Bettina; Kühn, Benjamin; Fettel, Jasmin; Vogel, Anja; Flügel, Karsten T; Manolikakes, Georg; Hellmuth, Nadine; Häfner, Ann-Kathrin; Golghalyani, Vahid; Ball, Ann-Katrin; Piesche, Matthias; Matrone, Carmela; Geisslinger, Gerd; Parnham, Michael J; Karas, Michael; Steinhilber, Dieter; Roos, Jessica; Maier, Thorsten J

2017-02-01

Recently, we published that nitro-fatty acids (NFA) are potent electrophilic molecules which inhibit 5-lipoxygenase (5-LO) by interacting catalytically with cysteine residues next to a substrate entry channel. The electrophilicity is derived from an intramolecular Michael acceptor moiety consisting of an electron-withdrawing group in close proximity to a double bond. The potential of the Michael acceptor moiety to interact with functionally relevant cysteines of proteins potentially renders them effective and sustained enzyme activity modulators. We screened a large library of naturally derived and synthetic electrophilic compounds to investigate whether other types of Michael acceptor containing drugs suppress 5-LO enzyme activity. The activity was measured by assessing the effect on the 5-LO product formation of intact human polymorphonuclear leukocytes. We demonstrated that a number of structurally different compounds were suppressive in the activity assays and showed that Michael acceptors of the quinone and nitro-alkene group produced the strongest inhibition of 5-LO product formation. Reactivity with the catalytically relevant cysteines 416 and 418 was confirmed using mutated recombinant 5-LO and mass spectrometric analysis (MALDI-MS). In the present study, we show for the first time that a number of well-recognized naturally occurring or synthetic anti-inflammatory compounds carrying a Michael acceptor, such as thymoquinone (TQ), the paracetamol metabolite NAPQI, the 5-LO inhibitor AA-861, and bardoxolone methyl (also known as RTA 402 or CDDO-methyl ester) are direct covalent 5-LO enzyme inhibitors that target the catalytically relevant cysteines 416 and 418. Copyright © 2016 Elsevier Inc. All rights reserved.

The "Magic" String

ERIC Educational Resources Information Center

Hoover, Todd F.

2010-01-01

The "Magic" String is a discrepant event that includes a canister with what appears to be the end of two strings protruding from opposite sides of it. Due to the way the strings are attached inside the canister, it appears as if the strings can magically switch the way they are connected. When one string end is pulled, the observer's expectation…

A string theory which isn't about strings

NASA Astrophysics Data System (ADS)

Lee, Kanghoon; Rey, Soo-Jong; Rosabal, J. A.

2017-11-01

Quantization of closed string proceeds with a suitable choice of worldsheet vacuum. A priori, the vacuum may be chosen independently for left-moving and right-moving sectors. We construct ab initio quantized bosonic string theory with left-right asymmetric worldsheet vacuum and explore its consequences and implications. We critically examine the validity of new vacuum and carry out first-quantization using standard operator formalism. Remarkably, the string spectrum consists only of a finite number of degrees of freedom: string gravity (massless spin-two, Kalb-Ramond and dilaton fields) and two massive spin-two Fierz-Pauli fields. The massive spin-two fields have negative norm, opposite mass-squared, and provides a Lee-Wick type extension of string gravity. We compute two physical observables: tree-level scattering amplitudes and one-loop cosmological constant. Scattering amplitude of four dilatons is shown to be a rational function of kinematic invariants, and in D = 26 factorizes into contributions of massless spin-two and a pair of massive spin-two fields. The string one loop partition function is shown to perfectly agree with one loop Feynman diagram of string gravity and two massive spin-two fields. In particular, it does not exhibit modular invariance. We critically compare our construction with recent studies and contrast differences.

Identification of novel malarial cysteine protease inhibitors using structure-based virtual screening of a focused cysteine protease inhibitor library.

PubMed

Shah, Falgun; Mukherjee, Prasenjit; Gut, Jiri; Legac, Jennifer; Rosenthal, Philip J; Tekwani, Babu L; Avery, Mitchell A

2011-04-25

Malaria, in particular that caused by Plasmodium falciparum , is prevalent across the tropics, and its medicinal control is limited by widespread drug resistance. Cysteine proteases of P. falciparum , falcipain-2 (FP-2) and falcipain-3 (FP-3), are major hemoglobinases, validated as potential antimalarial drug targets. Structure-based virtual screening of a focused cysteine protease inhibitor library built with soft rather than hard electrophiles was performed against an X-ray crystal structure of FP-2 using the Glide docking program. An enrichment study was performed to select a suitable scoring function and to retrieve potential candidates against FP-2 from a large chemical database. Biological evaluation of 50 selected compounds identified 21 diverse nonpeptidic inhibitors of FP-2 with a hit rate of 42%. Atomic Fukui indices were used to predict the most electrophilic center and its electrophilicity in the identified hits. Comparison of predicted electrophilicity of electrophiles in identified hits with those in known irreversible inhibitors suggested the soft-nature of electrophiles in the selected target compounds. The present study highlights the importance of focused libraries and enrichment studies in structure-based virtual screening. In addition, few compounds were screened against homologous human cysteine proteases for selectivity analysis. Further evaluation of structure-activity relationships around these nonpeptidic scaffolds could help in the development of selective leads for antimalarial chemotherapy.

String-driven inflation

NASA Technical Reports Server (NTRS)

Turok, Neil

1988-01-01

It is argued that, in fundamental string theories, as one traces the universe back in time a point is reached when the expansion rate is so fast that the rate of string creation due to quantum effects balances the dilution of the string density due to the expansion. One is therefore led into a phase of constant string density and an exponentially expanding universe. Fundamental strings therefore seem to lead naturally to inflation.

String Things.

ERIC Educational Resources Information Center

Mesa Public Schools, AZ.

Designed for music educators instructing grades 4 through 8 in string instruments, this Mesa (Arizona) public schools guide presents information on the string curriculum, orchestras, and practicing. The goals and objectives for string instruments delineate grade levels and how student skills will be verified. Following 17 curriculum goal tests,…

Biotin Switch Assays for Quantitation of Reversible Cysteine Oxidation.

PubMed

Li, R; Kast, J

2017-01-01

Thiol groups in protein cysteine residues can be subjected to different oxidative modifications by reactive oxygen/nitrogen species. Reversible cysteine oxidation, including S-nitrosylation, S-sulfenylation, S-glutathionylation, and disulfide formation, modulate multiple biological functions, such as enzyme catalysis, antioxidant, and other signaling pathways. However, the biological relevance of reversible cysteine oxidation is typically underestimated, in part due to the low abundance and high reactivity of some of these modifications, and the lack of methods to enrich and quantify them. To facilitate future research efforts, this chapter describes detailed procedures to target the different modifications using mass spectrometry-based biotin switch assays. By switching the modification of interest to a biotin moiety, these assays leverage the high affinity between biotin and avidin to enrich the modification. The use of stable isotope labeling and a range of selective reducing agents facilitate the quantitation of individual as well as total reversible cysteine oxidation. The biotin switch assay has been widely applied to the quantitative analysis of S-nitrosylation in different disease models and is now also emerging as a valuable research tool for other oxidative cysteine modifications, highlighting its relevance as a versatile, robust strategy for carrying out in-depth studies in redox proteomics. © 2017 Elsevier Inc. All rights reserved.

Cysteine Catabolism and Cysteine Desulfhydrase (CdsH/STM0458) in Salmonella enterica Serovar Typhimurium

PubMed Central

Oguri, Tamiko; Schneider, Barbara

2012-01-01

Cysteine is potentially toxic and can affect diverse functions such as oxidative stress, antibiotic resistance, and swarming motility. The contribution of cysteine catabolism in modulating responses to cysteine has not been examined, in part because the genes have not been identified and mutants lacking these genes have not been isolated or characterized. We identified the gene for a previously described cysteine desulfhydrase, which we designated cdsH (formerly STM0458). We also identified a divergently transcribed gene that regulates cdsH expression, which we designated cutR (formerly ybaO, or STM0459). CdsH appears to be the major cysteine-degrading and sulfide-producing enzyme aerobically but not anaerobically. Mutants with deletions of cdsH and ybaO exhibited increased sensitivity to cysteine toxicity and altered swarming motility but unaltered cysteine-enhanced antibiotic resistance and survival in macrophages. PMID:22685283

The String Stability of a Trajectory-Based Interval Management Algorithm in the Midterm Airspace

NASA Technical Reports Server (NTRS)

Swieringa, Kurt A.

2015-01-01

NASA's first Air Traffic Management (ATM) Technology Demonstration (ATD-1) was created to facilitate the transition of mature ATM technologies from the laboratory to operational use. The technologies selected for demonstration are the Traffic Management Advisor with Terminal Metering (TMA-TM), which provides precise time-based scheduling in the terminal airspace; Controller Managed Spacing (CMS), which provides terminal controllers with decision support tools enabling precise schedule conformance; and Interval Management (IM), which consists of flight deck automation that enables aircraft to achieve or maintain a precise spacing interval behind a target aircraft. As the percentage of IM equipped aircraft increases, controllers may provide IM clearances to sequences, or strings, of IM-equipped aircraft. It is important for these strings to maintain stable performance. This paper describes an analytic analysis of the string stability of the latest version of NASA's IM algorithm and a fast-time simulation designed to characterize the string performance of the IM algorithm. The analytic analysis showed that the spacing algorithm has stable poles, indicating that a spacing error perturbation will be reduced as a function of string position. The fast-time simulation investigated IM operations at two airports using constraints associated with the midterm airspace, including limited information of the target aircraft's intended speed profile and limited information of the wind forecast on the target aircraft's route. The results of the fast-time simulation demonstrated that the performance of the spacing algorithm is acceptable for strings of moderate length; however, there is some degradation in IM performance as a function of string position.

Pointless strings

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

Periwal, V.

1988-01-01

The author proves that bosonic string perturbation theory diverges and is not Borel summable. This is an indication of a non-perturbative instability of the bosonic string vacuum. He formulates two-dimensional sigma models in terms of algebras of functions. He extends this formulation to general C* algebras. He illustrates the utility of these algebraic notions by calculating some determinants of interest in the study of string propagation in orbifold backgrounds. He studies the geometry of spaces of field theories and show that the vanishing of the curvature of the natural Gel'fand-Naimark-Segal metric on such spaces is exactly the strong associativity conditionmore » of the operator product expansion.He shows that string scattering amplitudes arise as invariants of renormalization, when he formulates renormalization in terms of rescalings of the metric on the string world-sheet.« less

Primary hepatocytes from mice lacking cysteine dioxygenase show increased cysteine concentrations and higher rates of metabolism of cysteine to hydrogen sulfide and thiosulfate

PubMed Central

Jurkowska, Halina; Roman, Heather B.; Hirschberger, Lawrence L.; Sasakura, Kiyoshi; Nagano, Tetsuo; Hanaoka, Kenjiro; Krijt, Jakub

2016-01-01

The oxidation of cysteine in mammalian cells occurs by two routes: a highly regulated direct oxidation pathway in which the first step is catalyzed by cysteine dioxygenase (CDO) and by desulfhydration-oxidation pathways in which the sulfur is released in a reduced oxidation state. To assess the effect of a lack of CDO on production of hydrogen sulfide (H2S) and thiosulfate (an intermediate in the oxidation of H2S to sulfate) and to explore the roles of both cystathionine γ-lyase (CTH) and cystathionine β-synthase (CBS) in cysteine desulfhydration by liver, we investigated the metabolism of cysteine in hepatocytes isolated from Cdo1-null and wild-type mice. Hepatocytes from Cdo1-null mice produced more H2S and thiosulfate than did hepatocytes from wild-type mice. The greater flux of cysteine through the cysteine desulfhydration reactions catalyzed by CTH and CBS in hepatocytes from Cdo1-null mice appeared to be the consequence of their higher cysteine levels, which were due to the lack of CDO and hence lack of catabolism of cysteine by the cysteinesulfinate-dependent pathways. Both CBS and CTH appeared to contribute substantially to cysteine desulfhydration, with estimates of 56 % by CBS and 44 % by CTH in hepatocytes from wild-type mice, and 63 % by CBS and 37 % by CTH in hepatocytes from Cdo1-null mice. PMID:24609271

Synthetic siRNAs effectively target cystein protease 12 and α-actinin transcripts in Trichomonas vaginalis.

PubMed

Ravaee, Roya; Ebadi, Parimah; Hatam, Gholamreza; Vafafar, Arghavan; Ghahramani Seno, Mohammad Mahdi

2015-10-01

The flagellated protozoan Trichomonas vaginalis (T. vaginalis) causes trichomoniasis, a reproductive tract infection, in humans. Trichomoniasis is the most common non-viral sexually transmitted disease worldwide. In addition to direct consequences such as infertility and abortion, there are indications that trichomoniasis favours development of prostate cancer and it has also been associated with increased risk of spreading human immunodeficiency virus and papillomavirus infections. Reports from around the world show that the rate of drug resistance in T. vaginalis is increasing, and therefore new therapeutic approaches have to be developed. Studying molecular biology of T. vaginalis will be quite helpful in identifying new drugable targets. RNAi is a powerful technique which allows biologist to specifically target gene products (i.e. mRNA) helping them in unravelling gene functions and biology of systems. However, due to lack of some parts of the required intrinsic RNAi machinery, the RNAi system is not functional in all orders of life. Here, by using synthetic siRNAs targeting two genes, i.e. α-actinin and cystein protease 12 (cp12), we demonstrate T. vaginalis cells are amenable to RNAi experiments conducted by extrinsic siRNAs. Electroporation of siRNAs targeting α-actinin or cp12 into T. vaginalis cells resulted in, respectively, 48-67% and 33-72% downregulation of the cognate transcripts compared to the T. vaginalis cells received siRNAs targeting GL2 luciferase as a control. This finding is helpful in that it demonstrates the potential of using extrinsically induced RNAi in studies on molecular biology of T. vaginalis such as those aiming at identifying new drug targets. Copyright © 2015 Elsevier Inc. All rights reserved.

Thiol trapping and metabolic redistribution of sulfur metabolites enable cells to overcome cysteine overload

PubMed Central

Deshpande, Anup Arunrao; Bhatia, Muskan; Laxman, Sunil; Bachhawat, Anand Kumar

2017-01-01

Cysteine is an essential requirement in living organisms. However, due to its reactive thiol side chain, elevated levels of intracellular cysteine can be toxic and therefore need to be rapidly eliminated from the cellular milieu. In mammals and many other organisms, excess cysteine is believed to be primarily eliminated by the cysteine dioxygenase dependent oxidative degradation of cysteine, followed by the removal of the oxidative products. However, other mechanisms of tackling excess cysteine are also likely to exist, but have not thus far been explored. In this study, we use Saccharomyces cerevisiae, which naturally lacks a cysteine dioxygenase, to investigate mechanisms for tackling cysteine overload. Overexpressing the high affinity cysteine transporter, YCT1, enabled yeast cells to rapidly accumulate high levels of intracellular cysteine. Using targeted metabolite analysis, we observe that cysteine is initially rapidly interconverted to non-reactive cystine in vivo. A time course revealed that cells systematically convert excess cysteine to inert thiol forms; initially to cystine, and subsequently to cystathionine, S-Adenosyl-L-homocysteine (SAH) and S-Adenosyl L-methionine (SAM), in addition to eventually accumulating glutathione (GSH) and polyamines. Microarray based gene expression studies revealed the upregulation of arginine/ornithine biosynthesis a few hours after the cysteine overload, and suggest that the non-toxic, non-reactive thiol based metabolic products are eventually utilized for amino acid and polyamine biogenesis, thereby enabling cell growth. Thus, cells can handle potentially toxic amounts of cysteine by a combination of thiol trapping, metabolic redistribution to non-reactive thiols and subsequent consumption for anabolism. PMID:28435838

Optimized deep-targeted proteotranscriptomic profiling reveals unexplored Conus toxin diversity and novel cysteine frameworks

PubMed Central

Lavergne, Vincent; Harliwong, Ivon; Jones, Alun; Miller, David; Taft, Ryan J.; Alewood, Paul F.

2015-01-01

Cone snails are predatory marine gastropods characterized by a sophisticated venom apparatus responsible for the biosynthesis and delivery of complex mixtures of cysteine-rich toxin peptides. These conotoxins fold into small highly structured frameworks, allowing them to potently and selectively interact with heterologous ion channels and receptors. Approximately 2,000 toxins from an estimated number of >70,000 bioactive peptides have been identified in the genus Conus to date. Here, we describe a high-resolution interrogation of the transcriptomes (available at www.ddbj.nig.ac.jp) and proteomes of the diverse compartments of the Conus episcopatus venom apparatus. Using biochemical and bioinformatic tools, we found the highest number of conopeptides yet discovered in a single Conus specimen, with 3,305 novel precursor toxin sequences classified into 9 known superfamilies (A, I1, I2, M, O1, O2, S, T, Z), and identified 16 new superfamilies showing unique signal peptide signatures. We were also able to depict the largest population of venom peptides containing the pharmacologically active C-C-CC-C-C inhibitor cystine knot and CC-C-C motifs (168 and 44 toxins, respectively), as well as 208 new conotoxins displaying odd numbers of cysteine residues derived from known conotoxin motifs. Importantly, six novel cysteine-rich frameworks were revealed which may have novel pharmacology. Finally, analyses of codon usage bias and RNA-editing processes of the conotoxin transcripts demonstrate a specific conservation of the cysteine skeleton at the nucleic acid level and provide new insights about the origin of sequence hypervariablity in mature toxin regions. PMID:26150494

Hammered Strings

NASA Astrophysics Data System (ADS)

Rossing, Thomas D.

In the next three chapters we consider the science of hammered string instruments. In this chapter, we present a brief discussion of vibrating strings excited by a hard or soft hammer. Chapter 20 discusses the most important hammered string instrument, the piano - probably the most versatile and popular of all musical instruments. Chapter 21 discusses hammered dulcimers, especially the American folk dulcimer.

Subfamily-Specific Fluorescent Probes for Cysteine Proteases Display Dynamic Protease Activities during Seed Germination.

PubMed

Lu, Haibin; Chandrasekar, Balakumaran; Oeljeklaus, Julian; Misas-Villamil, Johana C; Wang, Zheming; Shindo, Takayuki; Bogyo, Matthew; Kaiser, Markus; van der Hoorn, Renier A L

2015-08-01

Cysteine proteases are an important class of enzymes implicated in both developmental and defense-related programmed cell death and other biological processes in plants. Because there are dozens of cysteine proteases that are posttranslationally regulated by processing, environmental conditions, and inhibitors, new methodologies are required to study these pivotal enzymes individually. Here, we introduce fluorescence activity-based probes that specifically target three distinct cysteine protease subfamilies: aleurain-like proteases, cathepsin B-like proteases, and vacuolar processing enzymes. We applied protease activity profiling with these new probes on Arabidopsis (Arabidopsis thaliana) protease knockout lines and agroinfiltrated leaves to identify the probe targets and on other plant species to demonstrate their broad applicability. These probes revealed that most commercially available protease inhibitors target unexpected proteases in plants. When applied on germinating seeds, these probes reveal dynamic activities of aleurain-like proteases, cathepsin B-like proteases, and vacuolar processing enzymes, coinciding with the remobilization of seed storage proteins. © 2015 American Society of Plant Biologists. All Rights Reserved.

Simultaneous electrochemical determination of L-cysteine and L-cysteine disulfide at carbon ionic liquid electrode.

PubMed

Safavi, Afsaneh; Ahmadi, Raheleh; Mahyari, Farzaneh Aghakhani

2014-04-01

A linear sweep voltammetric method is used for direct simultaneous determination of L-cysteine and L-cysteine disulfide (cystine) based on carbon ionic liquid electrode. With carbon ionic liquid electrode as a high performance electrode, two oxidation peaks for L-cysteine (0.62 V) and L-cysteine disulfide (1.3 V) were observed with a significant separation of about 680 mV (vs. Ag/AgCl) in phosphate buffer solution (pH 6.0). The linear ranges were obtained as 1.0-450 and 5.0-700 μM and detection limits were estimated to be 0.298 and 4.258 μM for L-cysteine and L-cysteine disulfide, respectively. This composite electrode was applied for simultaneous determination of L-cysteine and L-cysteine disulfide in two real samples, artificial urine and nutrient broth. Satisfactory results were obtained which clearly indicate the applicability of the proposed electrode for simultaneous determination of these compounds in complex matrices.

String mediated phase transitions

NASA Technical Reports Server (NTRS)

Copeland, ED; Haws, D.; Rivers, R.; Holbraad, S.

1988-01-01

It is demonstrated from first principles how the existence of string-like structures can cause a system to undergo a phase transition. In particular, the role of topologically stable cosmic string in the restoration of spontaneously broken symmetries is emphasized. How the thermodynamic properties of strings alter when stiffness and nearest neighbor string-string interactions are included is discussed.

A novel role for methyl cysteinate, a cysteine derivative, in cesium accumulation in Arabidopsis thaliana

PubMed Central

Adams, Eri; Miyazaki, Takae; Hayaishi-Satoh, Aya; Han, Minwoo; Kusano, Miyako; Khandelia, Himanshu; Saito, Kazuki; Shin, Ryoung

2017-01-01

Phytoaccumulation is a technique to extract metals from soil utilising ability of plants. Cesium is a valuable metal while radioactive isotopes of cesium can be hazardous. In order to establish a more efficient phytoaccumulation system, small molecules which promote plants to accumulate cesium were investigated. Through chemical library screening, 14 chemicals were isolated as ‘cesium accumulators’ in Arabidopsis thaliana. Of those, methyl cysteinate, a derivative of cysteine, was found to function within the plant to accumulate externally supplemented cesium. Moreover, metabolite profiling demonstrated that cesium treatment increased cysteine levels in Arabidopsis. The cesium accumulation effect was not observed for other cysteine derivatives or amino acids on the cysteine metabolic pathway tested. Our results suggest that methyl cysteinate, potentially metabolised from cysteine, binds with cesium on the surface of the roots or inside plant cells and improve phytoaccumulation. PMID:28230101

How to simulate global cosmic strings with large string tension

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

Klaer, Vincent B.; Moore, Guy D., E-mail: vklaer@theorie.ikp.physik.tu-darmstadt.de, E-mail: guy.moore@physik.tu-darmstadt.de

Global string networks may be relevant in axion production in the early Universe, as well as other cosmological scenarios. Such networks contain a large hierarchy of scales between the string core scale and the Hubble scale, ln( f {sub a} / H ) ∼ 70, which influences the network dynamics by giving the strings large tensions T ≅ π f {sub a} {sup 2} ln( f {sub a} / H ). We present a new numerical approach to simulate such global string networks, capturing the tension without an exponentially large lattice.

Coulomb string tension, asymptotic string tension, and the gluon chain

DOE PAGES

Greensite, Jeff; Szczepaniak, Adam P.

2015-02-01

We compute, via numerical simulations, the non-perturbative Coulomb potential and position-space ghost propagator in pure SU(3) gauge theory in Coulomb gauge. We find that that the Coulomb potential scales nicely in accordance with asymptotic freedom, that the Coulomb potential is linear in the infrared, and that the Coulomb string tension is about four times larger than the asymptotic string tension. We explain how it is possible that the asymptotic string tension can be lower than the Coulomb string tension by a factor of four.

Cosmic strings

NASA Technical Reports Server (NTRS)

Bennett, David P.

1988-01-01

Cosmic strings are linear topological defects which are predicted by some grand unified theories to form during a spontaneous symmetry breaking phase transition in the early universe. They are the basis for the only theories of galaxy formation aside from quantum fluctuations from inflation based on fundamental physics. In contrast to inflation, they can also be observed directly through gravitational lensing and their characterisitc microwave background anisotropy. It was recently discovered that details of cosmic string evolution are very differnt from the so-called standard model that was assumed in most of the string-induced galaxy formation calculations. Therefore, the details of galaxy formation in the cosmic string models are currently very uncertain.

Soft Cysteine Signaling Network: The Functional Significance of Cysteine in Protein Function and the Soft Acids/Bases Thiol Chemistry That Facilitates Cysteine Modification.

PubMed

Wible, Ryan S; Sutter, Thomas R

2017-03-20

The unique biophysical and electronic properties of cysteine make this molecule one of the most biologically critical amino acids in the proteome. The defining sulfur atom in cysteine is much larger than the oxygen and nitrogen atoms more commonly found in the other amino acids. As a result of its size, the valence electrons of sulfur are highly polarizable. Unique protein microenvironments favor the polarization of sulfur, thus increasing the overt reactivity of cysteine. Here, we provide a brief overview of the endogenous generation of reactive oxygen and electrophilic species and specific examples of enzymes and transcription factors in which the oxidation or covalent modification of cysteine in those proteins modulates their function. The perspective concludes with a discussion of cysteine chemistry and biophysics, the hard and soft acids and bases model, and the proposal of the Soft Cysteine Signaling Network: a hypothesis proposing the existence of a complex signaling network governed by layered chemical reactivity and cross-talk in which the chemical modification of reactive cysteine in biological networks triggers the reorganization of intracellular biochemistry to mitigate spikes in endogenous or exogenous oxidative or electrophilic stress.

Cosmic strings and the microwave sky. I - Anisotropy from moving strings

NASA Technical Reports Server (NTRS)

Stebbins, Albert

1988-01-01

A method is developed for calculating the component of the microwave anisotropy around cosmic string loops due to their rapidly changing gravitational fields. The method is only valid for impact parameters from the string much smaller than the horizon size at the time the photon passes the string. The method makes it possible to calculate the temperature pattern around arbitrary string configurations numerically in terms of one-dimensional integrals. This method is applied to temperature jump across a string, confirming and extending previous work. It is also applied to cusps and kinks on strings, and to determining the temperature pattern far from a strong loop. The temperature pattern around a few loop configurations is explicitly calculated. Comparisons with the work of Brandenberger et al. (1986) indicates that they have overestimated the MBR anisotropy from gravitational radiation emitted from loops.

Cysteine-Zn2+ complexes: unique molecular switches for inducible nitric oxide synthase-derived NO.

PubMed

Kröncke, K D

2001-11-01

Nitric oxide (NO) in the low nanomolar range acts as a transcellular messenger molecule to initiate regulatory and physiological responses in nearby target cells via binding to the soluble guanylate cyclase heme moiety. Higher NO concentrations, as synthesized by the inducible NO synthase (iNOS) during inflammatory processes, show additional effects: NO may react with O2, yielding nitrogen oxides like N2O3 that are able to nitrosate thiols. A variety of proteins involved in very different functions of the cell contain cysteine-Zn2+ complexes. Effects of NO on different proteins containing cysteine-Zn2+ domains and playing essential roles during transcription, protein folding, and proteolysis are discussed. It is suggested that iNOS-derived NO acts as a signal molecule targeting cysteine-Zn2+ linkages, thus enabling cells to react toward nitrosative stress.

Constraint Reasoning Over Strings

NASA Technical Reports Server (NTRS)

Koga, Dennis (Technical Monitor); Golden, Keith; Pang, Wanlin

2003-01-01

This paper discusses an approach to representing and reasoning about constraints over strings. We discuss how many string domains can often be concisely represented using regular languages, and how constraints over strings, and domain operations on sets of strings, can be carried out using this representation.

Multiflavor string-net models

NASA Astrophysics Data System (ADS)

Lin, Chien-Hung

2017-05-01

We generalize the string-net construction to multiple flavors of strings, each of which is labeled by the elements of an Abelian group Gi. The same flavor of strings can branch, while different flavors of strings can cross one another and thus they form intersecting string nets. We systematically construct the exactly soluble lattice Hamiltonians and the ground-state wave functions for the intersecting string-net condensed phases. We analyze the braiding statistics of the low-energy quasiparticle excitations and find that our model can realize all the topological phases as the string-net model with group G =∏iGi . In this respect, our construction provides various ways of building lattice models which realize topological order G , corresponding to different partitions of G and thus different flavors of string nets. In fact, our construction concretely demonstrates the Künneth formula by constructing various lattice models with the same topological order. As an example, we construct the G =Z2×Z2×Z2 string-net model which realizes a non-Abelian topological phase by properly intersecting three copies of toric codes.

Tilted string cosmologies

NASA Astrophysics Data System (ADS)

Clancy, Dominic; Feinstein, Alexander; Lidsey, James E.; Tavakol, Reza

1999-04-01

Global symmetries of the string effective action are employed to generate tilted, homogeneous Bianchi type VIh string cosmologies from a previously known stiff perfect fluid solution to Einstein gravity. The dilaton field is not constant on the surfaces of homogeneity. The future asymptotic state of the models is interpreted as a plane wave and is itself an exact solution to the string equations of motion to all orders in the inverse string tension. An inhomogeneous generalization of the Bianchi type III model is also found.

p-adic string theories provide lattice Discretization to the ordinary string worldsheet.

PubMed

Ghoshal, Debashis

2006-10-13

A class of models called p-adic strings is useful in understanding the tachyonic instability of string theory. These are found to be empirically related to the ordinary strings in the p-->1 limit. We propose that these models provide discretization for the string worldsheet and argue that the limit is naturally thought of as a continuum limit in the sense of the renormalization group.

p-adic String Theories Provide Lattice Discretization to the Ordinary String Worldsheet

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

Ghoshal, Debashis

2006-10-13

A class of models called p-adic strings is useful in understanding the tachyonic instability of string theory. These are found to be empirically related to the ordinary strings in the p{yields}1 limit. We propose that these models provide discretization for the string worldsheet and argue that the limit is naturally thought of as a continuum limit in the sense of the renormalization group.

The Birth of String Theory

NASA Astrophysics Data System (ADS)

Cappelli, Andrea; Castellani, Elena; Colomo, Filippo; Di Vecchia, Paolo

2012-04-01

Part I. Overview: 1. Introduction and synopsis; 2. Rise and fall of the hadronic string G. Veneziano; 3. Gravity, unification, and the superstring J. H. Schwarz; 4. Early string theory as a challenging case study for philosophers E. Castellani; Part II. The Prehistory: The Analytic S-Matrix: 5. Introduction to Part II; 6. Particle theory in the sixties: from current algebra to the Veneziano amplitude M. Ademollo; 7. The path to the Veneziano model H. R. Rubinstein; 8. Two-component duality and strings P. G. O. Freund; 9. Note on the prehistory of string theory M. Gell-Mann; Part III. The Dual Resonance Model: 10. Introduction to Part III; 11. From the S-matrix to string theory P. Di Vecchia; 12. Reminiscence on the birth of string theory J. A. Shapiro; 13. Personal recollections D. Amati; 14. Early string theory at Fermilab and Rutgers L. Clavelli; 15. Dual amplitudes in higher dimensions: a personal view C. Lovelace; 16. Personal recollections on dual models R. Musto; 17. Remembering the 'supergroup' collaboration F. Nicodemi; 18. The '3-Reggeon vertex' S. Sciuto; Part IV. The String: 19. Introduction to Part IV; 20. From dual models to relativistic strings P. Goddard; 21. The first string theory: personal recollections L. Susskind; 22. The string picture of the Veneziano model H. B. Nielsen; 23. From the S-matrix to string theory Y. Nambu; 24. The analogue model for string amplitudes D. B. Fairlie; 25. Factorization in dual models and functional integration in string theory S. Mandelstam; 26. The hadronic origins of string theory R. C. Brower; Part V. Beyond the Bosonic String: 27. Introduction to Part V; 28. From dual fermion to superstring D. I. Olive; 29. Dual models with fermions: memoirs of an early string theorist P. Ramond; 30. Personal recollections A. Neveu; 31. Aspects of fermionic dual models E. Corrigan; 32. The dual quark models K. Bardakci and M. B. Halpern; 33. Remembering the dawn of relativistic strings J.-L. Gervais; 34. Early string theory in

Critical string from non-Abelian vortex in four dimensions

DOE PAGES

Shifman, M.; Yung, A.

2015-09-25

In a class of non-Abelian solitonic vortex strings supported in certain N = 2 super-Yang–Mills theories we search for the vortex which can behave as a critical fundamental string. We use the Polchinski–Strominger criterion of the ultraviolet completeness. We identify an appropriate four-dimensional bulk theory: it has the U(2) gauge group, the Fayet–Iliopoulos term and four flavor hypermultiplets. It supports semilocal vortices with the world-sheet theory for orientational (size) moduli described by the weighted CP(2,2) model. The latter is superconformal. Its target space is six-dimensional. The overall Virasoro central charge is critical. Lastly, we show that the world-sheet theory onmore » the vortex supported in this bulk model is the bona fide critical string.« less

String theory--the physics of string-bending and other electric guitar techniques.

PubMed

Grimes, David Robert

2014-01-01

Electric guitar playing is ubiquitous in practically all modern music genres. In the hands of an experienced player, electric guitars can sound as expressive and distinct as a human voice. Unlike other more quantised instruments where pitch is a discrete function, guitarists can incorporate micro-tonality and, as a result, vibrato and sting-bending are idiosyncratic hallmarks of a player. Similarly, a wide variety of techniques unique to the electric guitar have emerged. While the mechano-acoustics of stringed instruments and vibrating strings are well studied, there has been comparatively little work dedicated to the underlying physics of unique electric guitar techniques and strings, nor the mechanical factors influencing vibrato, string-bending, fretting force and whammy-bar dynamics. In this work, models for these processes are derived and the implications for guitar and string design discussed. The string-bending model is experimentally validated using a variety of strings and vibrato dynamics are simulated. The implications of these findings on the configuration and design of guitars is also discussed.

String Theory - The Physics of String-Bending and Other Electric Guitar Techniques

PubMed Central

Grimes, David Robert

2014-01-01

Electric guitar playing is ubiquitous in practically all modern music genres. In the hands of an experienced player, electric guitars can sound as expressive and distinct as a human voice. Unlike other more quantised instruments where pitch is a discrete function, guitarists can incorporate micro-tonality and, as a result, vibrato and sting-bending are idiosyncratic hallmarks of a player. Similarly, a wide variety of techniques unique to the electric guitar have emerged. While the mechano-acoustics of stringed instruments and vibrating strings are well studied, there has been comparatively little work dedicated to the underlying physics of unique electric guitar techniques and strings, nor the mechanical factors influencing vibrato, string-bending, fretting force and whammy-bar dynamics. In this work, models for these processes are derived and the implications for guitar and string design discussed. The string-bending model is experimentally validated using a variety of strings and vibrato dynamics are simulated. The implications of these findings on the configuration and design of guitars is also discussed. PMID:25054880

Fermentative Production of Cysteine by Pantoea ananatis

PubMed Central

Takumi, Kazuhiro; Ziyatdinov, Mikhail Kharisovich; Samsonov, Viktor

2016-01-01

ABSTRACT Cysteine is a commercially important amino acid; however, it lacks an efficient fermentative production method. Due to its cytotoxicity, intracellular cysteine levels are stringently controlled via several regulatory modes. Managing its toxic effects as well as understanding and deregulating the complexities of regulation are crucial for establishing the fermentative production of cysteine. The regulatory modes include feedback inhibition of key metabolic enzymes, degradation, efflux pumps, and the transcriptional regulation of biosynthetic genes by a master cysteine regulator, CysB. These processes have been extensively studied using Escherichia coli for overproducing cysteine by fermentation. In this study, we genetically engineered Pantoea ananatis, an emerging host for the fermentative production of bio-based materials, to identify key factors required for cysteine production. According to this and our previous studies, we identified a major cysteine desulfhydrase gene, ccdA (formerly PAJ_0331), involved in cysteine degradation, and the cysteine efflux pump genes cefA and cefB (formerly PAJ_3026 and PAJ_p0018, respectively), which may be responsible for downregulating the intracellular cysteine level. Our findings revealed that ccdA deletion and cefA and cefB overexpression are crucial factors for establishing fermentative cysteine production in P. ananatis and for obtaining a higher cysteine yield when combined with genes in the cysteine biosynthetic pathway. To our knowledge, this is the first demonstration of cysteine production in P. ananatis, which has fundamental implications for establishing overproduction in this microbe. IMPORTANCE The efficient production of cysteine is a major challenge in the amino acid fermentation industry. In this study, we identified cysteine efflux pumps and degradation pathways as essential elements and genetically engineered Pantoea ananatis, an emerging host for the fermentative production of bio-based materials, to

Fermentative Production of Cysteine by Pantoea ananatis.

PubMed

Takumi, Kazuhiro; Ziyatdinov, Mikhail Kharisovich; Samsonov, Viktor; Nonaka, Gen

2017-03-01

Cysteine is a commercially important amino acid; however, it lacks an efficient fermentative production method. Due to its cytotoxicity, intracellular cysteine levels are stringently controlled via several regulatory modes. Managing its toxic effects as well as understanding and deregulating the complexities of regulation are crucial for establishing the fermentative production of cysteine. The regulatory modes include feedback inhibition of key metabolic enzymes, degradation, efflux pumps, and the transcriptional regulation of biosynthetic genes by a master cysteine regulator, CysB. These processes have been extensively studied using Escherichia coli for overproducing cysteine by fermentation. In this study, we genetically engineered Pantoea ananatis , an emerging host for the fermentative production of bio-based materials, to identify key factors required for cysteine production. According to this and our previous studies, we identified a major cysteine desulfhydrase gene, ccdA (formerly PAJ_0331), involved in cysteine degradation, and the cysteine efflux pump genes cefA and cefB (formerly PAJ_3026 and PAJ_p0018, respectively), which may be responsible for downregulating the intracellular cysteine level. Our findings revealed that ccdA deletion and cefA and cefB overexpression are crucial factors for establishing fermentative cysteine production in P. ananatis and for obtaining a higher cysteine yield when combined with genes in the cysteine biosynthetic pathway. To our knowledge, this is the first demonstration of cysteine production in P. ananatis , which has fundamental implications for establishing overproduction in this microbe. IMPORTANCE The efficient production of cysteine is a major challenge in the amino acid fermentation industry. In this study, we identified cysteine efflux pumps and degradation pathways as essential elements and genetically engineered Pantoea ananatis , an emerging host for the fermentative production of bio-based materials, to

Drill string enclosure

DOEpatents

Jorgensen, D.K.; Kuhns, D.J.; Wiersholm, O.; Miller, T.A.

1993-03-02

The drill string enclosure consists of six component parts, including; a top bracket, an upper acrylic cylinder, an acrylic drill casing guide, a lower acrylic cylinder, a bottom bracket, and three flexible ducts. The upper acrylic cylinder is optional based upon the drill string length. The drill string enclosure allows for an efficient drill and sight operation at a hazardous waste site.

Drill string enclosure

DOEpatents

Jorgensen, Douglas K.; Kuhns, Douglass J.; Wiersholm, Otto; Miller, Timothy A.

1993-01-01

The drill string enclosure consists of six component parts, including; a top bracket, an upper acrylic cylinder, an acrylic drill casing guide, a lower acrylic cylinder, a bottom bracket, and three flexible ducts. The upper acrylic cylinder is optional based upon the drill string length. The drill string enclosure allows for an efficient drill and sight operation at a hazardous waste site.

Neuronal growth on L- and D-cysteine self-assembled monolayers reveals neuronal chiral sensitivity.

PubMed

Baranes, Koby; Moshe, Hagay; Alon, Noa; Schwartz, Shmulik; Shefi, Orit

2014-05-21

Studying the interaction between neuronal cells and chiral molecules is fundamental for the design of novel biomaterials and drugs. Chirality influences all biological processes that involve intermolecular interaction. One common method used to study cellular interactions with different enantiomeric targets is the use of chiral surfaces. Based on previous studies that demonstrated the importance of cysteine in the nervous system, we studied the effect of L- and D-cysteine on single neuronal growth. L-Cysteine, which normally functions as a neuromodulator or a neuroprotective antioxidant, causes damage at elevated levels, which may occur post trauma. In this study, we grew adult neurons in culture enriched with L- and D-cysteine as free compounds or as self-assembled monolayers of chiral surfaces and examined the effect on the neuronal morphology and adhesion. Notably, we have found that exposure to the L-cysteine enantiomer inhibited, and even prevented, neuronal attachment more severely than exposure to the D-cysteine enantiomer. Atop the L-cysteine surfaces, neuronal growth was reduced and degenerated. Since the cysteine molecules were attached to the surface via the thiol groups, the neuronal membrane was exposed to the molecular chiral site. Thus, our results have demonstrated high neuronal chiral sensitivity, revealing chiral surfaces as indirect regulators of neuronal cells and providing a reference for studying chiral drugs.

Enhancement of thioredoxin/glutaredoxin-mediated L-cysteine synthesis from S-sulfocysteine increases L-cysteine production in Escherichia coli

PubMed Central

2012-01-01

Background Escherichia coli has two L-cysteine biosynthetic pathways; one is synthesized from O-acetyl L-serine (OAS) and sulfate by L-cysteine synthase (CysK), and another is produced via S-sulfocysteine (SSC) from OAS and thiosulfate by SSC synthase (CysM). SSC is converted into L-cysteine and sulfite by an uncharacterized reaction. As thioredoxins (Trx1 and Trx2) and glutaredoxins (Grx1, Grx2, Grx3, Grx4, and NrdH) are known as reductases of peptidyl disulfides, overexpression of such reductases might be a good way for improving L-cysteine production to accelerate the reduction of SSC in E. coli. Results Because the redox enzymes can reduce the disulfide that forms on proteins, we first tested whether these enzymes catalyze the reduction of SSC to L-cysteine. All His-tagged recombinant enzymes, except for Grx4, efficiently convert SSC into L-cysteine in vitro. Overexpression of Grx1 and NrdH enhanced a 15-40% increase in the E. coliL-cysteine production. On the other hand, disruption of the cysM gene cancelled the effect caused by the overexpression of Grx1 and NrdH, suggesting that its improvement was due to the efficient reduction of SSC under the fermentative conditions. Moreover, L-cysteine production in knockout mutants of the sulfite reductase genes (ΔcysI and ΔcysJ) and the L-cysteine synthase gene (ΔcysK) each decreased to about 50% of that in the wild-type strain. Interestingly, there was no significant difference in L-cysteine production between wild-type strain and gene deletion mutant of the upstream pathway of sulfite (ΔcysC or ΔcysH). These results indicate that sulfite generated from the SSC reduction is available as the sulfur source to produce additional L-cysteine molecule. It was finally found that in the E. coliL-cysteine producer that co-overexpress glutaredoxin (NrdH), sulfite reductase (CysI), and L-cysteine synthase (CysK), there was the highest amount of L-cysteine produced per cell. Conclusions In this work, we showed that Grx1 and

Biological roles of cysteine proteinases in the pathogenesis of Trichomonas vaginalis

PubMed Central

Hernández, Hilda M.; Marcet, Ricardo; Sarracent, Jorge

2014-01-01

Human trichomonosis, infection with Trichomonas vaginalis, is the most common non-viral sexually transmitted disease in the world. The host-parasite interaction and pathophysiological processes of trichomonosis remain incompletely understood. This review focuses on the advancements reached in the area of the pathogenesis of T. vaginalis, especially in the role of the cysteine proteinases. It highlights various approaches made in this field and lists a group of trichomonad cysteine proteinases involved in diverse processes such as invasion of the mucous layer, cytoadherence, cytotoxicity, cytoskeleton disruption of red blood cells, hemolysis, and evasion of the host immune response. A better understanding of the biological roles of cysteine proteinases in the pathogenesis of this parasite could be used in the identification of new chemotherapeutic targets. An additional advantage could be the development of a vaccine in order to reduce transmission of T. vaginalis. PMID:25348828

Cysteine oxidation impairs systemic glucocorticoid responsiveness in children with difficult-to-treat asthma.

PubMed

Stephenson, Susan T; Brown, Lou Ann S; Helms, My N; Qu, Hongyan; Brown, Sheena D; Brown, Milton R; Fitzpatrick, Anne M

2015-08-01

The mechanisms underlying glucocorticoid responsiveness are largely unknown. Although redox regulation of the glucocorticoid receptor (GR) has been reported, it has not been studied in asthmatic patients. We characterized systemic cysteine oxidation and its association with inflammatory and clinical features in healthy children and children with difficult-to-treat asthma. We hypothesized that cysteine oxidation would be associated with increased markers of oxidative stress and inflammation, increased features of asthma severity, decreased clinically defined glucocorticoid responsiveness, and impaired GR function. PBMCs were collected from healthy children (n = 16) and children with asthma (n = 118) aged 6 to 17 years. Children with difficult-to-treat asthma underwent glucocorticoid responsiveness testing with intramuscular triamcinolone. Cysteine, cystine, and inflammatory chemokines and reactive oxygen species generation were quantified, and expression and activity of the GR were assessed. Cysteine oxidation was present in children with difficult-to-treat asthma and accompanied by increased reactive oxygen species generation and increased CCL3 and CXCL1 mRNA expression. Children with the greatest extent of cysteine oxidation had more features of asthma severity, including poorer symptom control, greater medication use, and less glucocorticoid responsiveness despite inhaled glucocorticoid therapy. Cysteine oxidation also modified the GR protein by decreasing available sulfhydryl groups and decreasing nuclear GR expression and activity. A highly oxidized cysteine redox state promotes a posttranslational modification of the GR that might inhibit its function. Given that cysteine oxidation is prevalent in children with difficult-to-treat asthma, the cysteine redox state might represent a potential therapeutic target for restoration of glucocorticoid responsiveness in this population. Copyright © 2015 American Academy of Allergy, Asthma & Immunology. Published by

EEG based topography analysis in string recognition task

NASA Astrophysics Data System (ADS)

Ma, Xiaofei; Huang, Xiaolin; Shen, Yuxiaotong; Qin, Zike; Ge, Yun; Chen, Ying; Ning, Xinbao

2017-03-01

Vision perception and recognition is a complex process, during which different parts of brain are involved depending on the specific modality of the vision target, e.g. face, character, or word. In this study, brain activities in string recognition task compared with idle control state are analyzed through topographies based on multiple measurements, i.e. sample entropy, symbolic sample entropy and normalized rhythm power, extracted from simultaneously collected scalp EEG. Our analyses show that, for most subjects, both symbolic sample entropy and normalized gamma power in string recognition task are significantly higher than those in idle state, especially at locations of P4, O2, T6 and C4. It implies that these regions are highly involved in string recognition task. Since symbolic sample entropy measures complexity, from the perspective of new information generation, and normalized rhythm power reveals the power distributions in frequency domain, complementary information about the underlying dynamics can be provided through the two types of indices.

Subsurface drill string

DOEpatents

Casper, William L [Rigby, ID; Clark, Don T [Idaho Falls, ID; Grover, Blair K [Idaho Falls, ID; Mathewson, Rodney O [Idaho Falls, ID; Seymour, Craig A [Idaho Falls, ID

2008-10-07

A drill string comprises a first drill string member having a male end; and a second drill string member having a female end configured to be joined to the male end of the first drill string member, the male end having a threaded portion including generally square threads, the male end having a non-threaded extension portion coaxial with the threaded portion, and the male end further having a bearing surface, the female end having a female threaded portion having corresponding female threads, the female end having a non-threaded extension portion coaxial with the female threaded portion, and the female end having a bearing surface. Installation methods, including methods of installing instrumented probes are also provided.

Resolving Partial Name Mentions Using String Metrics

DTIC Science & Technology

2007-12-01

Ladin) Pair 5: ( Franz Liszt , Franz Listz) These examples typically require one or two string edits to revert from the source to the target name...0.9556 Franz Listz Franz Liszt 2 0.1818 9 franz listz|fran z lisz 0.8182 0.9697 0.9818 The Levenshtein distance metric gives some indication of

Device for balancing parallel strings

DOEpatents

Mashikian, Matthew S.

1985-01-01

A battery plant is described which features magnetic circuit means in association with each of the battery strings in the battery plant for balancing the electrical current flow through the battery strings by equalizing the voltage across each of the battery strings. Each of the magnetic circuit means generally comprises means for sensing the electrical current flow through one of the battery strings, and a saturable reactor having a main winding connected electrically in series with the battery string, a bias winding connected to a source of alternating current and a control winding connected to a variable source of direct current controlled by the sensing means. Each of the battery strings is formed by a plurality of batteries connected electrically in series, and these battery strings are connected electrically in parallel across common bus conductors.

L-Cysteine Metabolism and Fermentation in Microorganisms.

PubMed

Takagi, Hiroshi; Ohtsu, Iwao

L-Cysteine is an important amino acid both biologically and commercially. Although most amino acids are industrially produced by microbial fermentation, L-cysteine has been mainly produced by protein hydrolysis. Due to environmental and safety problems, synthetic or biotechnological products have been preferred in the market. Here, we reviewed L-cysteine metabolism, including biosynthesis, degradation, and transport, and biotechnological production (including both enzymatic and fermentation processes) of L-cysteine. The metabolic regulation of L-cysteine including novel sulfur metabolic pathways found in microorganisms is also discussed. Recent advancement in biochemical studies, genome sequencing, structural biology, and metabolome analysis has enabled us to use various approaches to achieve direct fermentation of L-cysteine from glucose. For example, worldwide companies began to supply L-cysteine and its derivatives produced by bacterial fermentation. These companies successfully optimized the original metabolism of their private strains. Basically, a combination of three factors should be required for improving L-cysteine fermentation: that is, (1) enhancing biosynthesis: overexpression of the altered cysE gene encoding feedback inhibition-insensitive L-serine O-acetyltransferase (SAT), (2) weakening degradation: knockout of the genes encoding L-cysteine desulfhydrases, and (3) exploiting export system: overexpression of the gene involved in L-cysteine transport. Moreover, we found that "thiosulfate" is much more effective sulfur source than commonly used "sulfate" for L-cysteine production in Escherichia coli, because thiosulfate is advantageous for saving consumption of NADPH and relating energy molecules.

Cysteine Cathepsins in Human Carious Dentin

PubMed Central

Nascimento, F.D.; Minciotti, C.L.; Geraldeli, S.; Carrilho, M.R.; Pashley, D.H.; Tay, F.R.; Nader, H.B.; Salo, T.; Tjäderhane, L.; Tersariol, I.L.S.

2011-01-01

Matrix metalloproteinases (MMPs) are important in dentinal caries, and analysis of recent data demonstrates the presence of other collagen-degrading enzymes, cysteine cathepsins, in human dentin. This study aimed to examine the presence, source, and activity of cysteine cathepsins in human caries. Cathepsin B was detected with immunostaining. Saliva and dentin cysteine cathepsin and MMP activities on caries lesions were analyzed spectrofluorometrically. Immunostaining demonstrated stronger cathepsins B in carious than in healthy dentin. In carious dentin, cysteine cathepsin activity increased with increasing depth and age in chronic lesions, but decreased with age in active lesions. MMP activity decreased with age in both active and chronic lesions. Salivary MMP activities were higher in patients with active than chronic lesions and with increasing lesion depth, while cysteine cathepsin activities showed no differences. The results indicate that, along with MMPs, cysteine cathepsins are important, especially in active and deep caries. PMID:21248362

Hydroball string sensing system

DOEpatents

Hurwitz, Michael J.; Ekeroth, Douglas E.; Squarer, David

1991-01-01

A hydroball string sensing system for a nuclear reactor that includes stainless tubes positioned to guide hydroball strings into and out of the nuclear reactor core. A sensor such as an ultrasonic transducer transmitter and receiver is positioned outside of the nuclear reactor core and adjacent to the tube. The presence of an object such a bullet member positioned at an end a hydroball string, or any one of the hydroballs interrupts the transmission of ultrasound from the transmitter to the receiver. Alternatively, if the bullet member and hydroballs include a ferritic material, either a Hall effect sensor or other magnetic field sensors such as a magnetic field rate of change sensor can be used to detect the location and position of a hydroball string. Placing two sensors along the tube with a known distance between the sensors enables the velocity of a hydroball string to be determined. This determined velocity can be used to control the flow rate of a fluid within the tube so as to control the velocity of the hydroball string.

Cysteine sensing by plasmons of silver nanocubes

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

Elfassy, Eitan, E-mail: eitan.elfassi@gmail.com; Mastai, Yitzhak, E-mail: Yitzhak.Mastai@biu.ac.il; Salomon, Adi, E-mail: adi.salomon@biu.ac.il

2016-09-15

Noble metal nanoparticles are considered to be valuable nanostructures in the field of sensors due to their spectral response sensitivity to small changes in the surrounding refractive index which enables them to detect a small amount of molecules. In this research, we use silver nanocubes of about 50 nm length to detect low concentrations of cysteine, a semi-essential amino acid. Following cysteine adsorption onto the nanocubes, a redshift in the plasmonic modes was observed, enabling the detection of cysteine down to 10 µM and high sensitivity of about 125 nm/RIU (refractive index units). Furthermore, we found that multilayer adsorption ofmore » cysteine leads to the stabilization of the silver nanocubes. The cysteine growth onto the nanocubes was also characterized by high-resolution transmission electron microscopy (HR-TEM). - Highlights: • Silver nanocubes (50 nm length) are used to detect low concentrations of cysteine. • A redshift in the plasmonic modes was observed following cysteine adsorption onto the nanocubes. • The cysteine growth onto the nanocubes is also characterized by TEM.« less

Dualities in String Cosmology

NASA Astrophysics Data System (ADS)

Meissner, K. A.

We describe in this chapter a set of duality symmetries present in the string-inspired theory of gravity coupled to the dilaton. These dualities are the cornerstones of String Cosmology, which provides alternatives to the usual inflation scenario. The crucial role of Prof. Gabriele Veneziano in the discovery and the development of string dualities is described and emphasized.

On the Dynamical Behavior of the Cysteine Dioxygenase-l-Cysteine Complex in the Presence of Free Dioxygen and l-Cysteine.

PubMed

Pietra, Francesco

2017-11-01

In this work, viable models of cysteine dioxygenase (CDO) and its complex with l-cysteine dianion were built for the first time, under strict adherence to the crystal structure from X-ray diffraction studies, for all atom molecular dynamics (MD). Based on the CHARMM36 FF, the active site, featuring an octahedral dummy Fe(II) model, allowed us observing water exchange, which would have escaped attention with the more popular bonded models. Free dioxygen (O 2 ) and l-cysteine, added at the active site, could be observed being expelled toward the solvating medium under Random Accelerated Molecular Dynamics (RAMD) along major and minor pathways. Correspondingly, free dioxygen (O 2 ), added to the solvating medium, could be observed to follow the same above pathways in getting to the active site under unbiased MD. For the bulky l-cysteine, 600 ns of trajectory were insufficient for protein penetration, and the molecule was stuck at the protein borders. These models pave the way to free energy studies of ligand associations, devised to better clarify how this cardinal enzyme behaves in human metabolism. © 2017 Wiley-VHCA AG, Zurich, Switzerland.

Cosmological cosmic strings

NASA Technical Reports Server (NTRS)

Gregory, Ruth

1988-01-01

The effect of an infinite cosmic string on a cosmological background is investigated. It is found that the metric is approximately a scaled version of the empty space string metric, i.e., conical in nature. Results are used to place bounds on the amount of cylindrical gravitational radiation currently emitted by such a string. The gravitational radiation equations are then analyzed explicitly and it is shown that even initially large disturbances are rapidly damped as the expansion proceeds. The implications of the gravitational radiation background and the limitations of the quadrupole formula are discussed.

Current balancing for battery strings

DOEpatents

Galloway, James H.

1985-01-01

A battery plant is described which features magnetic circuit means for balancing the electrical current flow through a pluraliircuitbattery strings which are connected electrically in parallel. The magnetic circuit means is associated with the battery strings such that the conductors carrying the electrical current flow through each of the battery strings pass through the magnetic circuit means in directions which cause the electromagnetic fields of at least one predetermined pair of the conductors to oppose each other. In an alternative embodiment, a low voltage converter is associated with each of the battery strings for balancing the electrical current flow through the battery strings.

Rethinking Cysteine Protective Groups: S-Alkylsulfonyl-l-Cysteines for Chemoselective Disulfide Formation.

PubMed

Schäfer, Olga; Huesmann, David; Muhl, Christian; Barz, Matthias

2016-12-12

The ability to reversibly cross-link proteins and peptides grants the amino acid cysteine its unique role in nature as well as in peptide chemistry. We report a novel class of S-alkylsulfonyl-l-cysteines and N-carboxy anhydrides (NCA) thereof for peptide synthesis. The S-alkylsulfonyl group is stable against amines and thus enables its use under Fmoc chemistry conditions and the controlled polymerization of the corresponding NCAs yielding well-defined homo- as well as block co-polymers. Yet, thiols react immediately with the S-alkylsulfonyl group forming asymmetric disulfides. Therefore, we introduce the first reactive cysteine derivative for efficient and chemoselective disulfide formation in synthetic polypeptides, thus bypassing additional protective group cleavage steps. © 2016 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

NanoStringNormCNV: pre-processing of NanoString CNV data.

PubMed

Sendorek, Dorota H; Lalonde, Emilie; Yao, Cindy Q; Sabelnykova, Veronica Y; Bristow, Robert G; Boutros, Paul C

2018-03-15

The NanoString System is a well-established technology for measuring RNA and DNA abundance. Although it can estimate copy number variation, relatively few tools support analysis of these data. To address this gap, we created NanoStringNormCNV, an R package for pre-processing and copy number variant calling from NanoString data. This package implements algorithms for pre-processing, quality-control, normalization and copy number variation detection. A series of reporting and data visualization methods support exploratory analyses. To demonstrate its utility, we apply it to a new dataset of 96 genes profiled on 41 prostate tumour and 24 matched normal samples. NanoStringNormCNV is implemented in R and is freely available at http://labs.oicr.on.ca/boutros-lab/software/nanostringnormcnv. paul.boutros@oicr.on.ca. Supplementary data are available at Bioinformatics online.

Hairy strings

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

Sahakian, Vatche

Zero modes of the world-sheet spinors of a closed string can source higher order moments of the bulk supergravity fields. In this work, we analyze various configurations of closed strings focusing on the imprints of the quantized spinor vacuum expectation values onto the tails of bulk fields. We identify supersymmetric arrangements for which all multipole charges vanish; while for others, we find that one is left with Neveu-Schwarz-Neveu-Schwarz, and Ramond-Ramond dipole and quadrupole moments. Our analysis is exhaustive with respect to all the bosonic fields of the bulk and to all higher order moments. We comment on the relevance ofmore » these results to entropy computations of hairy black holes of a single charge or more, and to open/closed string duality.« less

Factorization of chiral string amplitudes

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

Huang, Yu-tin; Siegel, Warren; Yuan, Ellis Ye

We re-examine a closed-string model defined by altering the boundary conditions for one handedness of two-dimensional propagators in otherwise-standard string theory. We evaluate the amplitudes using Kawai-Lewellen-Tye factorization into open-string amplitudes. The only modification to standard string theory is effectively that the spacetime Minkowski metric changes overall sign in one open-string factor. This cancels all but a finite number of states: as found in earlier approaches, with enough supersymmetry (e.g., type II) the tree amplitudes reproduce those of the massless truncation of ordinary string theory. However, we now find for the other cases that additional fields, formerly thought to bemore » auxiliary, describe new spin-2 states at the two adjacent mass levels (tachyonic and tardyonic). The tachyon is always a ghost, but can be avoided in the heterotic case.« less

Factorization of chiral string amplitudes

DOE PAGES

Huang, Yu-tin; Siegel, Warren; Yuan, Ellis Ye

2016-09-16

We re-examine a closed-string model defined by altering the boundary conditions for one handedness of two-dimensional propagators in otherwise-standard string theory. We evaluate the amplitudes using Kawai-Lewellen-Tye factorization into open-string amplitudes. The only modification to standard string theory is effectively that the spacetime Minkowski metric changes overall sign in one open-string factor. This cancels all but a finite number of states: as found in earlier approaches, with enough supersymmetry (e.g., type II) the tree amplitudes reproduce those of the massless truncation of ordinary string theory. However, we now find for the other cases that additional fields, formerly thought to bemore » auxiliary, describe new spin-2 states at the two adjacent mass levels (tachyonic and tardyonic). The tachyon is always a ghost, but can be avoided in the heterotic case.« less

Perturbations from strings don't look like strings!

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Stebbins, Albert

1991-01-01

A systematic analysis is challenging popular ideas about perturbation from cosmic strings. One way in which the picture has changed is reviewed. It is concluded that, while the scaling properties of cosmic strings figure significantly in the analysis, care must be taken when thinking in terms of single time snapshots. The process of seeding density perturbations is not fundamentally localized in time, and this fact can wash out many of the details which appear in a single snapshot.

Evolution of cosmic string networks

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Turok, Neil

1989-01-01

A discussion of the evolution and observable consequences of a network of cosmic strings is given. A simple model for the evolution of the string network is presented, and related to the statistical mechanics of string networks. The model predicts the long string density throughout the history of the universe from a single parameter, which researchers calculate in radiation era simulations. The statistical mechanics arguments indicate a particular thermal form for the spectrum of loops chopped off the network. Detailed numerical simulations of string networks in expanding backgrounds are performed to test the model. Consequences for large scale structure, the microwave and gravity wave backgrounds, nucleosynthesis and gravitational lensing are calculated.

Finite-g Strings

NASA Astrophysics Data System (ADS)

Vicedo, Benoit

2008-10-01

In view of one day proving the AdS/CFT correspondence, a deeper understanding of string theory on certain curved backgrounds such as AdS_5xS^5 is required. In this dissertation we make a step in this direction by focusing on RxS^3. It was discovered in recent years that string theory on AdS_5xS^5 admits a Lax formulation. However, the complete statement of integrability requires not only the existence of a Lax formulation, but also that the resulting integrals of motion are in pairwise involution. This idea is central to the first part of this thesis. Exploiting this integrability we apply algebro-geometric methods to string theory on RxS^3 and obtain the general finite-gap solution. The construction is based on an invariant algebraic curve previously found in the AdS_5xS^5 case. However, encoding the dynamics of the solution requires specification of additional marked points. By restricting the symplectic structure of the string to this algebro-geometric data we derive the action-angle variables of the system. We then perform a first-principle semiclassical quantisation of string theory on RxS^3 as a toy model for strings on AdS_5xS^5. The result is exactly what one expects from the dual gauge theory perspective, namely the underlying algebraic curve discretises in a natural way. We also derive a general formula for the fluctuation energies around the generic finite-gap solution. The ideas used can be generalised to AdS_5xS^5.

Constraints on cosmic strings due to black holes formed from collapsed cosmic string loops

NASA Technical Reports Server (NTRS)

Caldwell, R. R.; Gates, Evalyn

1993-01-01

The cosmological features of primordial black holes formed from collapsed cosmic string loops are studied. Observational restrictions on a population of primordial black holes are used to restrict f, the fraction of cosmic string loops which collapse to form black holes, and mu, the cosmic string mass-per-unit length. Using a realistic model of cosmic strings, we find the strongest restriction on the parameters f and mu is due to the energy density in 100MeV photons radiated by the black holes. We also find that inert black hole remnants cannot serve as the dark matter. If earlier, crude estimates of f are reliable, our results severely restrict mu, and therefore limit the viability of the cosmic string large-scale structure scenario.

Atypical Thioredoxins in Poplar: The Glutathione-Dependent Thioredoxin-Like 2.1 Supports the Activity of Target Enzymes Possessing a Single Redox Active Cysteine1[W

PubMed Central

Chibani, Kamel; Tarrago, Lionel; Gualberto, José Manuel; Wingsle, Gunnar; Rey, Pascal; Jacquot, Jean-Pierre; Rouhier, Nicolas

2012-01-01

Plant thioredoxins (Trxs) constitute a complex family of thiol oxidoreductases generally sharing a WCGPC active site sequence. Some recently identified plant Trxs (Clot, Trx-like1 and -2, Trx-lilium1, -2, and -3) display atypical active site sequences with altered residues between the two conserved cysteines. The transcript expression patterns, subcellular localizations, and biochemical properties of some representative poplar (Populus spp.) isoforms were investigated. Measurements of transcript levels for the 10 members in poplar organs indicate that most genes are constitutively expressed. Using transient expression of green fluorescent protein fusions, Clot and Trx-like1 were found to be mainly cytosolic, whereas Trx-like2.1 was located in plastids. All soluble recombinant proteins, except Clot, exhibited insulin reductase activity, although with variable efficiencies. Whereas Trx-like2.1 and Trx-lilium2.2 were efficiently regenerated both by NADPH-Trx reductase and glutathione, none of the proteins were reduced by the ferredoxin-Trx reductase. Only Trx-like2.1 supports the activity of plastidial thiol peroxidases and methionine sulfoxide reductases employing a single cysteine residue for catalysis and using a glutathione recycling system. The second active site cysteine of Trx-like2.1 is dispensable for this reaction, indicating that the protein possesses a glutaredoxin-like activity. Interestingly, the Trx-like2.1 active site replacement, from WCRKC to WCGPC, suppresses its capacity to use glutathione as a reductant but is sufficient to allow the regeneration of target proteins employing two cysteines for catalysis, indicating that the nature of the residues composing the active site sequence is crucial for substrate selectivity/recognition. This study provides another example of the cross talk existing between the glutathione/glutaredoxin and Trx-dependent pathways. PMID:22523226

Cosmic strings and galaxy formation

NASA Technical Reports Server (NTRS)

Bertschinger, Edmund

1989-01-01

The cosmogonical model proposed by Zel'dovich and Vilenkin (1981), in which superconducting cosmic strings act as seeds for the origin of structure in the universe, is discussed, summarizing the results of recent theoretical investigations. Consideration is given to the formation of cosmic strings, the microscopic structure of strings, gravitational effects, cosmic string evolution, and the formation of galaxies and large-scale structure. Simulation results are presented in graphs, and several outstanding issues are listed and briefly characterized.

L-Cysteine metabolism and its nutritional implications.

PubMed

Yin, Jie; Ren, Wenkai; Yang, Guan; Duan, Jielin; Huang, Xingguo; Fang, Rejun; Li, Chongyong; Li, Tiejun; Yin, Yulong; Hou, Yongqing; Kim, Sung Woo; Wu, Guoyao

2016-01-01

L-Cysteine is a nutritionally semiessential amino acid and is present mainly in the form of L-cystine in the extracellular space. With the help of a transport system, extracellular L-cystine crosses the plasma membrane and is reduced to L-cysteine within cells by thioredoxin and reduced glutathione (GSH). Intracellular L-cysteine plays an important role in cellular homeostasis as a precursor for protein synthesis, and for production of GSH, hydrogen sulfide (H(2)S), and taurine. L-Cysteine-dependent synthesis of GSH has been investigated in many pathological conditions, while the pathway for L-cysteine metabolism to form H(2)S has received little attention with regard to prevention and treatment of disease in humans. The main objective of this review is to highlight the metabolic pathways of L-cysteine catabolism to GSH, H(2)S, and taurine, with special emphasis on therapeutic and nutritional use of L-cysteine to improve the health and well-being of animals and humans. © 2015 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

The Future of Cysteine Cathepsins in Disease Management.

PubMed

Kramer, Lovro; Turk, Dušan; Turk, Boris

2017-10-01

Since the discovery of the key role of cathepsin K in bone resorption, cysteine cathepsins have been investigated by pharmaceutical companies as drug targets. The first clinical results from targeting cathepsins by activity-based probes and substrates are paving the way for the next generation of molecular diagnostic imaging, whereas the majority of antibody-drug conjugates currently in clinical trials depend on activation by cathepsins. Finally, cathepsins have emerged as suitable vehicles for targeted drug delivery. It is therefore timely to review the future of cathepsins in drug discovery. We focus here on inflammation-associated diseases because dysregulation of the immune system accompanied by elevated cathepsin activity is a common feature of these conditions. Copyright © 2017 Elsevier Ltd. All rights reserved.

Covalent inhibitors: an opportunity for rational target selectivity.

PubMed

Lagoutte, Roman; Patouret, Remi; Winssinger, Nicolas

2017-08-01

There is a resurging interest in compounds that engage their target through covalent interactions. Cysteine's thiol is endowed with enhanced reactivity, making it the nucleophile of choice for covalent engagement with a ligand aligning an electrophilic trap with a cysteine residue in a target of interest. The paucity of cysteine in the proteome coupled to the fact that closely related proteins do not necessarily share a given cysteine residue enable a level of unprecedented rational target selectivity. The recent demonstration that a lysine's amine can also be engaged covalently with a mild electrophile extends the potential of covalent inhibitors. The growing database of protein structures facilitates the discovery of covalent inhibitors while the advent of proteomic technologies enables a finer resolution in the selectivity of covalently engaged proteins. Here, we discuss recent examples of discovery and design of covalent inhibitors. Copyright © 2017 Elsevier Ltd. All rights reserved.

Surface operators from M -strings

NASA Astrophysics Data System (ADS)

Mori, Hironori; Sugimoto, Yuji

2017-01-01

It has been found that surface operators have a significant role in Alday-Gaiotto-Tachikawa (AGT) relation. This duality is an outstanding consequence of M -theory, but it is actually encoded into the brane web for which the topological string can work. From this viewpoint, the surface defect in AGT relation is geometrically engineered as a toric brane realization. Also, there is a class of the brane configuration in M -theory called M -strings which can be translated into the language of the topological string. In this work, we propose a new M -string configuration which can realize AGT relation in the presence of the surface defect by utilizing the geometric transition in the refined topological string.

Minimal string theories and integrable hierarchies

NASA Astrophysics Data System (ADS)

Iyer, Ramakrishnan

Well-defined, non-perturbative formulations of the physics of string theories in specific minimal or superminimal model backgrounds can be obtained by solving matrix models in the double scaling limit. They provide us with the first examples of completely solvable string theories. Despite being relatively simple compared to higher dimensional critical string theories, they furnish non-perturbative descriptions of interesting physical phenomena such as geometrical transitions between D-branes and fluxes, tachyon condensation and holography. The physics of these theories in the minimal model backgrounds is succinctly encoded in a non-linear differential equation known as the string equation, along with an associated hierarchy of integrable partial differential equations (PDEs). The bosonic string in (2,2m-1) conformal minimal model backgrounds and the type 0A string in (2,4 m) superconformal minimal model backgrounds have the Korteweg-de Vries system, while type 0B in (2,4m) backgrounds has the Zakharov-Shabat system. The integrable PDE hierarchy governs flows between backgrounds with different m. In this thesis, we explore this interesting connection between minimal string theories and integrable hierarchies further. We uncover the remarkable role that an infinite hierarchy of non-linear differential equations plays in organizing and connecting certain minimal string theories non-perturbatively. We are able to embed the type 0A and 0B (A,A) minimal string theories into this single framework. The string theories arise as special limits of a rich system of equations underpinned by an integrable system known as the dispersive water wave hierarchy. We find that there are several other string-like limits of the system, and conjecture that some of them are type IIA and IIB (A,D) minimal string backgrounds. We explain how these and several other string-like special points arise and are connected. In some cases, the framework endows the theories with a non

Worldsheet factorization for twistor-strings

NASA Astrophysics Data System (ADS)

Adamo, Tim

2014-04-01

We study the multiparticle factorization properties of two worldsheet theories which — at tree-level — describe the scattering of massless particles in four dimensions: the Berkovits-Witten twistor-string for = 4 super-Yang-Mills coupled to = 4 conformal supergravity, and the Skinner twistor-string for = 8 supergravity. By considering these string-like theories, we can study factorization at the level of the worldsheet before any Wick contractions or integrals have been performed; this is much simpler than considering the factorization properties of the amplitudes themselves. In Skinner's twistor-string this entails the addition of worldsheet gravity as well as a formalism that represents all external states in a manifestly symmetric way, which we develop explicitly at genus zero. We confirm that the scattering amplitudes of Skinner's theory, as well as the gauge theory amplitudes for the planar sector of the Berkovits-Witten theory, factorize appropriately at genus zero. In the non-planar sector, we find behavior indicative of conformal gravity in the Berkovits-Witten twistor-string. We contrast factorization in twistor-strings with the story in ordinary string theory, and also make some remarks on higher genus factorization and disconnected prescriptions.

Embellished String Prints. Cover Story.

ERIC Educational Resources Information Center

Smith, Mary Ruth

1999-01-01

Focuses on a printmaking activity in which students create embellished string prints using the relief process of string glued to chip board. Explains that string prints can easily be embellished with oil pastels. Provides a description of the procedure and a list of materials and methods. (CMK)

Cosmic string catalysis of skyrmion decay

NASA Technical Reports Server (NTRS)

Gregory, Ruth; Davis, Anne-Christine; Brandenberger, Robert

1988-01-01

The Callan-Witten picture is developed for monopole catalyzed skyrmion decay in order to analyze the corresponding cosmic string scenario. It is discovered that cosmic strings (both ordinary and superconducting) can catalyze proton decay, but that this catalysis only occurs on the scale of the core of the string. In order to do this we have to develop a vortex model for the superconducting string. An argument is also given for the difference in the enhancement factors for monopoles and strings.

Dynamical AdS strings across horizons

DOE PAGES

Ishii, Takaaki; Murata, Keiju

2016-03-01

We examine the nonlinear classical dynamics of a fundamental string in anti-deSitter spacetime. The string is dual to the flux tube between an external quark-antiquark pair in $N = 4$ super Yang-Mills theory. We perturb the string by shaking the endpoints and compute its time evolution numerically. We find that with sufficiently strong perturbations the string continues extending and plunges into the Poincare´ horizon. In the evolution, effective horizons are also dynamically created on the string worldsheet. The quark and antiquark are thus causally disconnected, and the string transitions to two straight strings. The forces acting on the endpoints vanishmore » with a power law whose slope depends on the perturbations. Lastly, the condition for this transition to occur is that energy injection exceeds the static energy between the quark-antiquark pair.« less

Black string in dRGT massive gravity

NASA Astrophysics Data System (ADS)

Tannukij, Lunchakorn; Wongjun, Pitayuth; Ghosh, Suchant G.

2017-12-01

We present a cylindrically symmetric solution, both charged and uncharged, which is known as a black string solution to the nonlinear ghost-free massive gravity found by de Rham, Gabadadze, and Tolley (dRGT). This "dRGT black string" can be thought of as a generalization of the black string solution found by Lemos. Moreover, the dRGT black string solution includes other classes of black string solution such as the monopole-black string ones since the graviton mass contributes to the global monopole term as well as the cosmological-constant term. To investigate the solution, we compute mass, temperature, and entropy of the dRGT black string. We found that the existence of the graviton mass drastically affects the thermodynamics of the black string. Furthermore, the Hawking-Page phase transition is found to be possible for the dRGT black string as well as the charged dRGT black string. The dRGT black string solution is thermodynamically stable for r>r_c with negative thermodynamical potential and positive heat capacity while it is unstable for r

Blends of cysteine-containing proteins

NASA Astrophysics Data System (ADS)

Barone, Justin

2005-03-01

Many agricultural wastes are made of proteins such as keratin, lactalbumin, gluten, and albumin. These proteins contain the amino acid cysteine. Cysteine allows for the formation of inter-and intra-molecular sulfur-sulfur bonds. Correlations are made between the properties of films made from the proteins and the amino acid sequence. Blends of cysteine-containing proteins show possible synergies in physical properties at intermediate concentrations. FT-IR spectroscopy shows increased hydrogen bonding at intermediate concentrations suggesting that this contributes to increased physical properties. DSC shows limited miscibility and the formation of new crystalline phases in the blends suggesting that this too contributes.

Elliptic genus of E-strings

NASA Astrophysics Data System (ADS)

Kim, Joonho; Kim, Seok; Lee, Kimyeong; Park, Jaemo; Vafa, Cumrun

2017-09-01

We study a family of 2d N=(0, 4) gauge theories which describes at low energy the dynamics of E-strings, the M2-branes suspended between a pair of M5 and M9 branes. The gauge theory is engineered using a duality with type IIA theory, leading to the D2-branes suspended between an NS5-brane and 8 D8-branes on an O8-plane. We compute the elliptic genus of this family of theories, and find agreement with the known results for single and two E-strings. The partition function can in principle be computed for arbitrary number of E-strings, and we compute them explicitly for low numbers. We test our predictions against the partially known results from topological strings, as well as from the instanton calculus of 5d Sp(1) gauge theory. Given the relation to topological strings, our computation provides the all genus partition function of the refined topological strings on the canonical bundle over 1/2K3.

Experimental observation of Bethe strings

NASA Astrophysics Data System (ADS)

Wang, Zhe; Wu, Jianda; Yang, Wang; Bera, Anup Kumar; Kamenskyi, Dmytro; Islam, A. T. M. Nazmul; Xu, Shenglong; Law, Joseph Matthew; Lake, Bella; Wu, Congjun; Loidl, Alois

2018-02-01

Almost a century ago, string states—complex bound states of magnetic excitations—were predicted to exist in one-dimensional quantum magnets. However, despite many theoretical studies, the experimental realization and identification of string states in a condensed-matter system have yet to be achieved. Here we use high-resolution terahertz spectroscopy to resolve string states in the antiferromagnetic Heisenberg-Ising chain SrCo2V2O8 in strong longitudinal magnetic fields. In the field-induced quantum-critical regime, we identify strings and fractional magnetic excitations that are accurately described by the Bethe ansatz. Close to quantum criticality, the string excitations govern the quantum spin dynamics, whereas the fractional excitations, which are dominant at low energies, reflect the antiferromagnetic quantum fluctuations. Today, Bethe’s result is important not only in the field of quantum magnetism but also more broadly, including in the study of cold atoms and in string theory; hence, we anticipate that our work will shed light on the study of complex many-body systems in general.

Peptide-formation on cysteine-containing peptide scaffolds

NASA Technical Reports Server (NTRS)

Chu, B. C.; Orgel, L. E.

1999-01-01

Monomeric cysteine residues attached to cysteine-containing peptides by disulfide bonds can be activated by carbonyldiimidazole. If two monomeric cysteine residues, attached to a 'scaffold' peptide Gly-Cys-Glyn-Cys-Glu10, (n = 0, 1, 2, 3) are activated, they react to form the dipeptide Cys-Cys. in 25-65% yield. Similarly, the activation of a cysteine residue attached to the 'scaffold' peptide Gly-Cys-Gly-Glu10 in the presence of Arg5 leads to the formation of Cys-Arg5 in 50% yield. The significance of these results for prebiotic chemistry is discussed.

std::string Append

DTIC Science & Technology

2015-10-01

UNCLASSIFIED AD-E403 689 Technical Report ARWSE-TR-14026 STD::STRING APPEND Tom Nealis...DATES COVERED (From – To) 4. TITLE AND SUBTITLE STD::STRING APPEND 5a. CONTRACT NUMBER 5b. GRANT NUMBER 5c. PROGRAM ELEMENT NUMBER 6...DISTRIBUTION/AVAILABILITY STATEMENT Approved for public release; distribution is unlimited. 13. SUPPLEMENTARY NOTES 14. ABSTRACT Appending

L-cysteine reversibly inhibits glucose-induced biphasic insulin secretion and ATP production by inactivating PKM2.

PubMed

Nakatsu, Daiki; Horiuchi, Yuta; Kano, Fumi; Noguchi, Yoshiyuki; Sugawara, Taichi; Takamoto, Iseki; Kubota, Naoto; Kadowaki, Takashi; Murata, Masayuki

2015-03-10

Increase in the concentration of plasma L-cysteine is closely associated with defective insulin secretion from pancreatic β-cells, which results in type 2 diabetes (T2D). In this study, we investigated the effects of prolonged L-cysteine treatment on glucose-stimulated insulin secretion (GSIS) from mouse insulinoma 6 (MIN6) cells and from mouse pancreatic islets, and found that the treatment reversibly inhibited glucose-induced ATP production and resulting GSIS without affecting proinsulin and insulin synthesis. Comprehensive metabolic analyses using capillary electrophoresis time-of-flight mass spectrometry showed that prolonged L-cysteine treatment decreased the levels of pyruvate and its downstream metabolites. In addition, methyl pyruvate, a membrane-permeable form of pyruvate, rescued L-cysteine-induced inhibition of GSIS. Based on these results, we found that both in vitro and in MIN6 cells, L-cysteine specifically inhibited the activity of pyruvate kinase muscle isoform 2 (PKM2), an isoform of pyruvate kinases that catalyze the conversion of phosphoenolpyruvate to pyruvate. L-cysteine also induced PKM2 subunit dissociation (tetramers to dimers/monomers) in cells, which resulted in impaired glucose-induced ATP production for GSIS. DASA-10 (NCGC00181061, a substituted N,N'-diarylsulfonamide), a specific activator for PKM2, restored the tetramer formation and the activity of PKM2, glucose-induced ATP production, and biphasic insulin secretion in L-cysteine-treated cells. Collectively, our results demonstrate that impaired insulin secretion due to exposure to L-cysteine resulted from its direct binding and inactivation of PKM2 and suggest that PKM2 is a potential therapeutic target for T2D.

Molecular Dynamic Simulation and Inhibitor Prediction of Cysteine Synthase Structured Model as a Potential Drug Target for Trichomoniasis

PubMed Central

Singh, Satendra; Singh, Atul Kumar; Gautam, Budhayash

2013-01-01

In our presented research, we made an attempt to predict the 3D model for cysteine synthase (A2GMG5_TRIVA) using homology-modeling approaches. To investigate deeper into the predicted structure, we further performed a molecular dynamics simulation for 10 ns and calculated several supporting analysis for structural properties such as RMSF, radius of gyration, and the total energy calculation to support the predicted structured model of cysteine synthase. The present findings led us to conclude that the proposed model is stereochemically stable. The overall PROCHECK G factor for the homology-modeled structure was −0.04. On the basis of the virtual screening for cysteine synthase against the NCI subset II molecule, we present the molecule 1-N, 4-N-bis [3-(1H-benzimidazol-2-yl) phenyl] benzene-1,4-dicarboxamide (ZINC01690699) having the minimum energy score (−13.0 Kcal/Mol) and a log P value of 6 as a potential inhibitory molecule used to inhibit the growth of T. vaginalis infection. PMID:24073401

Evolution of cosmic string networks

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Turok, Neil

1989-01-01

Results on cosmic strings are summarized including: (1) the application of non-equilibrium statistical mechanics to cosmic string evolution; (2) a simple one scale model for the long strings which has a great deal of predictive power; (3) results from large scale numerical simulations; and (4) a discussion of the observational consequences of our results. An upper bound on G mu of approximately 10(-7) emerges from the millisecond pulsar gravity wave bound. How numerical uncertainties affect this are discussed. Any changes which weaken the bound would probably also give the long strings the dominant role in producing observational consequences.

Ghost vertices for the bosonic string using the group-theoretic approach to string theory

NASA Astrophysics Data System (ADS)

Freeman, M. D.; West, P.

1988-04-01

The N-string tree-level scattering vertices for the bosonic string are extended to include anticommuting (ghost) oscillators. These vertices behave correctly under the action of the BRST charge Q and reproduce the known results for the scattering of physical states. This work is an application of the group-theoretic approach to string theory. Permanent address: Mathematics Department, King's College, Strand, London WC2R 2LS, UK.

Integrated hydraulic booster/tool string technology for unfreezing of stuck downhole strings in horizontal wells

NASA Astrophysics Data System (ADS)

Tian, Q. Z.

2017-12-01

It is common to use a jarring tool to unfreeze stuck downhole string. However, in a horizontal well, influenced by the friction caused by the deviated section, jarring effect is poor; on the other hand, the forcing point can be located in the horizontal section by a hydraulic booster and the friction can be reduced, but it is time-consuming and easy to break downhole string using a large-tonnage and constant pull force. A hydraulic booster - jar tool string has been developed for unfreezing operation in horizontal wells. The technical solution involves three elements: a two-stage parallel spring cylinder structure for increasing the energy storage capacity of spring accelerators; multiple groups of spring accelerators connected in series to increase the working stroke; a hydraulic booster intensifying jarring force. The integrated unfreezing tool string based on these three elements can effectively overcome the friction caused by a deviated borehole, and thus unfreeze a stuck string with the interaction of the hydraulic booster and the mechanical jar which form an alternatively dynamic load. Experimental results show that the jarring performance parameters of the hydraulic booster-jar unfreezing tool string for the horizontal wells are in accordance with original design requirements. Then field technical parameters were developed based on numerical simulation and experimental data. Field application shows that the hydraulic booster-jar unfreezing tool string is effective to free stuck downhole tools in a horizontal well, and it reduces hook load by 80% and lessens the requirement of workover equipment. This provides a new technology to unfreeze stuck downhole string in a horizontal well.

Mass Spectrometric Analysis of l-Cysteine Metabolism: Physiological Role and Fate of l-Cysteine in the Enteric Protozoan Parasite Entamoeba histolytica

PubMed Central

Jeelani, Ghulam; Sato, Dan; Soga, Tomoyoshi; Watanabe, Haruo

2014-01-01

ABSTRACT l-Cysteine is essential for virtually all living organisms, from bacteria to higher eukaryotes. Besides having a role in the synthesis of virtually all proteins and of taurine, cysteamine, glutathione, and other redox-regulating proteins, l-cysteine has important functions under anaerobic/microaerophilic conditions. In anaerobic or microaerophilic protozoan parasites, such as Entamoeba histolytica, l-cysteine has been implicated in growth, attachment, survival, and protection from oxidative stress. However, a specific role of this amino acid or related metabolic intermediates is not well understood. In this study, using stable-isotope-labeled l-cysteine and capillary electrophoresis-time of flight mass spectrometry, we investigated the metabolism of l-cysteine in E. histolytica. [U-13C3, 15N]l-cysteine was rapidly metabolized into three unknown metabolites, besides l-cystine and l-alanine. These metabolites were identified as thiazolidine-4-carboxylic acid (T4C), 2-methyl thiazolidine-4-carboxylic acid (MT4C), and 2-ethyl-thiazolidine-4-carboxylic acid (ET4C), the condensation products of l-cysteine with aldehydes. We demonstrated that these 2-(R)-thiazolidine-4-carboxylic acids serve for storage of l-cysteine. Liberation of l-cysteine occurred when T4C was incubated with amebic lysates, suggesting enzymatic degradation of these l-cysteine derivatives. Furthermore, T4C and MT4C significantly enhanced trophozoite growth and reduced intracellular reactive oxygen species (ROS) levels when it was added to cultures, suggesting that 2-(R)-thiazolidine-4-carboxylic acids are involved in the defense against oxidative stress. PMID:25370494

Spontaneous knotting of an agitated string.

PubMed

Raymer, Dorian M; Smith, Douglas E

2007-10-16

It is well known that a jostled string tends to become knotted; yet the factors governing the "spontaneous" formation of various knots are unclear. We performed experiments in which a string was tumbled inside a box and found that complex knots often form within seconds. We used mathematical knot theory to analyze the knots. Above a critical string length, the probability P of knotting at first increased sharply with length but then saturated below 100%. This behavior differs from that of mathematical self-avoiding random walks, where P has been proven to approach 100%. Finite agitation time and jamming of the string due to its stiffness result in lower probability, but P approaches 100% with long, flexible strings. We analyzed the knots by calculating their Jones polynomials via computer analysis of digital photos of the string. Remarkably, almost all were identified as prime knots: 120 different types, having minimum crossing numbers up to 11, were observed in 3,415 trials. All prime knots with up to seven crossings were observed. The relative probability of forming a knot decreased exponentially with minimum crossing number and Möbius energy, mathematical measures of knot complexity. Based on the observation that long, stiff strings tend to form a coiled structure when confined, we propose a simple model to describe the knot formation based on random "braid moves" of the string end. Our model can qualitatively account for the observed distribution of knots and dependence on agitation time and string length.

Strings on plane-waves and spin chains on orbifolds

NASA Astrophysics Data System (ADS)

Sadri, Darius

This thesis covers a number of topics in string theory focusing on various aspects of the AdS/CFT duality in various guises and regimes. In the first chapter we present a self-contained review of the Plane-wave/super-Yang-Mills duality. This duality is a specification of the usual AdS/CFT correspondence in the "Penrose limit". In chapter two we study the most general parallelizable pp-wave backgrounds which are non-dilatonic solutions in the NS-NS sector of type IIA and IIB string theories. We demonstrate that parallelizable pp-wave backgrounds are necessarily homogeneous plane-waves, and that a large class of homogeneous plane-waves are parallelizable, stating the necessary conditions. Quantization of string modes, their compactification and behaviour under T-duality are also studied, as are BPS Dp-branes on such backgrounds. In chapter three we consider giant gravitons on the maximally supersymmetric plane-wave background. We deduce the low energy effective light-cone Hamiltonian of the three-sphere giant graviton, and place sources in this effective gauge theory. Although non-vanishing net electric charge configurations are disallowed by Gauss' law, electric dipoles can be formed. From the string theory point of view these dipoles can be understood as open strings piercing the three-sphere, giving a two dimensional (worldsheet) description of giant gravitons. Chapter four presents some new ideas regarding the relation between super-conformal gauge theories and string theories with three-dimensional target spaces, possible relations of these systems to Hamiltonian lattice gauge theories, and integrable spin chains. We consider N = 1, D = 4 superconformal SU( N)px q Yang-Mills theories dual to AdS5 x S5/Zp x Zq orbifolds. We show that a specific sector of this dilatation operator can be thought of as the transfer matrix for a three-dimensional statistical mechanical system, which in turn is equivalent to a 2 + 1-dimensional string theory where the spatial slices

Gödel universes in string theory

NASA Astrophysics Data System (ADS)

Barrow, John D.; Dabrowski, Mariusz P.

1998-11-01

We show that homogeneous Gödel spacetimes need not contain closed timelike curves in low-energy-effective string theories. We find exact solutions for the Gödel metric in string theory for the full O(α') action including both dilaton and axion fields. The results are valid for bosonic, heterotic and super-strings. To first order in the inverse string tension α', these solutions display a simple relation between the angular velocity of the Gödel universe, Ω, and the inverse string tension of the form α'=1/Ω2 in the absence of the axion field. The generalization of this relationship is also found when the axion field is present.

Remarks on entanglement entropy in string theory

NASA Astrophysics Data System (ADS)

Balasubramanian, Vijay; Parrikar, Onkar

2018-03-01

Entanglement entropy for spatial subregions is difficult to define in string theory because of the extended nature of strings. Here we propose a definition for bosonic open strings using the framework of string field theory. The key difference (compared to ordinary quantum field theory) is that the subregion is chosen inside a Cauchy surface in the "space of open string configurations." We first present a simple calculation of this entanglement entropy in free light-cone string field theory, ignoring subtleties related to the factorization of the Hilbert space. We reproduce the answer expected from an effective field theory point of view, namely a sum over the one-loop entanglement entropies corresponding to all the particle-excitations of the string, and further show that the full string theory regulates ultraviolet divergences in the entanglement entropy. We then revisit the question of factorization of the Hilbert space by analyzing the covariant phase-space associated with a subregion in Witten's covariant string field theory. We show that the pure gauge (i.e., BRST exact) modes in the string field become dynamical at the entanglement cut. Thus, a proper definition of the entropy must involve an extended Hilbert space, with new stringy edge modes localized at the entanglement cut.

An ACC Design Method for Achieving Both String Stability and Ride Comfort

NASA Astrophysics Data System (ADS)

Yamamura, Yoshinori; Seto, Yoji; Nishira, Hikaru; Kawabe, Taketoshi

An investigation was made of a method for designing adaptive cruise control (ACC) so as to achieve a headway distance response that feels natural to the driver while at the same time obtaining high levels of both string stability and ride comfort. With this design method, the H∞ norm is adopted as the index of string stability. Additionally, two norms are introduced for evaluating ride comfort and natural vehicle behavior. The relationship between these three norms and headway distance response characteristics was analyzed, and an evaluation method was established for achieving high levels of the various performance characteristics required of ACC. An ACC system designed with this method was evaluated in driving tests conducted on a proving ground course, and the results confirmed that it achieved the targeted levels of string stability, ride comfort and natural vehicle behavior.

Electrons initiate efficient formation of hydroperoxides from cysteine.

PubMed

Gebicki, Janusz M

2016-09-01

Amino acid and protein hydroperoxides can constitute a significant hazard if formed in vivo. It has been suggested that cysteine can form hydroperoxides after intramolecular hydrogen transfer to the commonly produced cysteine sulfur-centered radical. The resultant cysteine-derived carbon-centered radicals can react with oxygen at almost diffusion-controlled rate, forming peroxyl radicals which can oxidize other molecules and be reduced to hydroperoxides in the process. No cysteine hydroperoxides have been found so far. In this study, dilute air-saturated cysteine solutions were exposed to radicals generated by ionizing radiation and the hydroperoxides measured by an iodide assay. Of the three primary radicals present, the hydroxyl, hydrogen atoms and hydrated electrons, the first two were ineffective. However, electrons did initiate the generation of hydroperoxides by removing the -SH group and forming cysteine-derived carbon radicals. Under optimal conditions, 100% of the electrons reacting with cysteine produced the hydroperoxides with a 1:1 stoichiometry. Maximum hydroperoxide yields were at pH 5.5, with fairly rapid decline under more acid or alkaline conditions. The hydroperoxides were stable between pH 3 and 7.5, and decomposed in alkaline solutions. The results suggest that formation of cysteine hydroperoxides initiated by electrons is an unlikely event under physiological conditions.

Parameters optimization defined by statistical analysis for cysteine-dextran radiolabeling with technetium tricarbonyl core.

PubMed

Núñez, Eutimio Gustavo Fernández; Faintuch, Bluma Linkowski; Teodoro, Rodrigo; Wiecek, Danielle Pereira; da Silva, Natanael Gomes; Papadopoulos, Minas; Pelecanou, Maria; Pirmettis, Ioannis; de Oliveira Filho, Renato Santos; Duatti, Adriano; Pasqualini, Roberto

2011-04-01

The objective of this study was the development of a statistical approach for radiolabeling optimization of cysteine-dextran conjugates with Tc-99m tricarbonyl core. This strategy has been applied to the labeling of 2-propylene-S-cysteine-dextran in the attempt to prepare a new class of tracers for sentinel lymph node detection, and can be extended to other radiopharmaceuticals for different targets. The statistical routine was based on three-level factorial design. Best labeling conditions were achieved. The specific activity reached was 5 MBq/μg. Crown Copyright © 2011. Published by Elsevier Ltd. All rights reserved.

Aspects of some dualities in string theory

NASA Astrophysics Data System (ADS)

Kim, Bom Soo

AdS/CFT correspondence in string theory has changed landscape of the theoretical physics. Through this celebrated duality between gravity theory and field theory, one can investigate analytically strongly coupled gauge theories such as Quantum Chromodynamics (QCD) in terms of weakly coupled string theory such as supergravity theory and vice versa. In the first part of this thesis we used this duality to construct a new type of nonlocal field theory, called Puff Field Theory, in terms of D3 branes in type IIB string theory with a geometric twist. In addition to the strong-weak duality of AdS/CFT, there also exists a weak-weak duality, called Twistor String Theory. Twistor technique is successfully used to calculate the SYM scattering amplitude in an elegant fashion. Yet, the progress in the string theory side was hindered by a non-unitary conformal gravity. We extend the Twistor string theory by introducing mass terms, in the second part of the thesis. A chiral mass term is identified as a vacuum expectation value of a conformal supergravity field and is tied with the breaking of the conformal symmetry of gravity. As a prime candidate for a quantum theory of gravity, string theory revealed many promising successes such as counting the number of microstates in supersymmetric Black Holes thermodynamics and resolution of timelike and null singularities, to name a few. Yet, the fundamental string and M-theroy formulations are not yet available. Various string theories without gravity, such as Non-Commutative Open String (NCOS) and Open Membrane (OM) theories, are very nice playground to investigate the fundamental structure of string and M-theory without the complication of gravity. In the last part of the thesis, simpler Non-Relativistic String Theories are constructed and investigated. One important motivation for those theories is related to the connection between Non-Relativistic String Theories and Non-critical String Theories through the bosonization of betagamma

Ga2O3 photocatalyzed on-line tagging of cysteine to facilitate peptide mass fingerprinting.

PubMed

Qiao, Liang; Su, Fangzheng; Bi, Hongyan; Girault, Hubert H; Liu, Baohong

2011-09-01

β-Ga(2)O(3) is a wide-band-gap semiconductor having strong oxidation ability under light irradiation. Herein, the steel target plates modified with β-Ga(2)O(3) nanoparticles have been developed to carry out in-source photo-catalytic oxidative reactions for online peptide tagging during laser desorption/ionization mass spectrometry (LDI-MS) analysis. Under UV laser irradiation, β-Ga(2)O(3) can catalyze the photo-oxidation of 2-methoxyhydroquinone added to a sample mixture to 2-methoxy benzoquinone that can further react with the thiol groups of cysteine residues by Michael addition reaction. The tagging process leads to appearance of pairs of peaks with an m/z shift of 138.1Th. This online labelling strategy is demonstrated to be sensitive and efficient with a detection-limit at femtomole level. Using the strategy, the information on cysteine content in peptides can be obtained together with peptide mass, therefore constraining the database searching for an advanced identification of cysteine-containing proteins from protein mixtures. The current peptide online tagging method can be important for specific analysis of cysteine-containing proteins especially the low-abundant ones that cannot be completely isolated from other high-abundant non-cysteine-proteins. Copyright © 2011 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Charting the landscape of supercritical string theory.

PubMed

Hellerman, Simeon; Swanson, Ian

2007-10-26

Special solutions of string theory in supercritical dimensions can interpolate in time between theories with different numbers of spacetime dimensions and different amounts of world sheet supersymmetry. These solutions connect supercritical string theories to the more familiar string duality web in ten dimensions and provide a precise link between supersymmetric and purely bosonic string theories. Dimension quenching and c duality appear to be natural concepts in string theory, giving rise to large networks of interconnected theories.

Silk gland-specific proteinase inhibitor serpin16 from the Bombyx mori shows cysteine proteinase inhibitory activity.

PubMed

Guo, Peng-Chao; Dong, Zhaoming; Xiao, Li; Li, Tao; Zhang, Yan; He, Huawei; Xia, Qingyou; Zhao, Ping

2015-01-30

Serpins (serine proteinase inhibitors) are widely distributed in different species and are well known for their inhibitory activities towards serine proteinases. Here, we report the functional characterization of Bombyx mori serpin16. Expression analysis showed that serpin16 was specifically expressed at high levels in the silk gland at both the transcriptional and translational levels. Moreover, homology modeling and multi-sequence alignment suggested that serpin16 had a canonical serpin fold, but it contained a unique reactive center loop, which was obviously shorter than that of typical serpins. Inhibitory activity analyses revealed that the target proteinase of serpin18 is a cysteine proteinase, rather than a serine proteinase. Furthermore, a Michaelis complex model of serpin16 with its target proteinase was constructed to explain the structural basis of how serpin16 recognizes the cysteine proteinase and its target specificity. Copyright © 2014 Elsevier Inc. All rights reserved.

Studying critical string emerging from non-Abelian vortex in four dimensions

DOE PAGES

Koroteev, P.; Shifman, M.; Yung, A.

2016-05-26

Recently a special vortex string was found in a class of soliton vortices supported in four-dimensional Yang–Mills theories that under certain conditions can become infinitely thin and can be interpreted as a critical ten-dimensional string. The appropriate bulk Yang–Mills theory has the U(2) gauge group and the Fayet–Iliopoulos term. It supports semilocal non-Abelian vortices with the world-sheet theory for orientational and size moduli described by the weighted CP(2,2) model. Here, the full target space ismore » $$\\mathbb R$$ 4 x Y 6 where is a non-compact Calabi–Yau space.« less

Whiteheadian Actual Entitities and String Theory

NASA Astrophysics Data System (ADS)

Bracken, Joseph A.

2012-06-01

In the philosophy of Alfred North Whitehead, the ultimate units of reality are actual entities, momentary self-constituting subjects of experience which are too small to be sensibly perceived. Their combination into "societies" with a "common element of form" produces the organisms and inanimate things of ordinary sense experience. According to the proponents of string theory, tiny vibrating strings are the ultimate constituents of physical reality which in harmonious combination yield perceptible entities at the macroscopic level of physical reality. Given that the number of Whiteheadian actual entities and of individual strings within string theory are beyond reckoning at any given moment, could they be two ways to describe the same non-verifiable foundational reality? For example, if one could establish that the "superject" or objective pattern of self- constitution of an actual entity vibrates at a specific frequency, its affinity with the individual strings of string theory would be striking. Likewise, if one were to claim that the size and complexity of Whiteheadian 'societies" require different space-time parameters for the dynamic interrelationship of constituent actual entities, would that at least partially account for the assumption of 10 or even 26 instead of just 3 dimensions within string theory? The overall conclusion of this article is that, if a suitably revised understanding of Whiteheadian metaphysics were seen as compatible with the philosophical implications of string theory, their combination into a single world view would strengthen the plausibility of both schemes taken separately. Key words: actual entities, subject/superjects, vibrating strings, structured fields of activity, multi-dimensional physical reality.

Characterization of a Recombinant Cathepsin B-Like Cysteine Peptidase from Diaphorina citri Kuwayama (Hemiptera: Liviidae): A Putative Target for Control of Citrus Huanglongbing.

PubMed

Ferrara, Taíse Fernanda da Silva; Schneider, Vanessa Karine; Kishi, Luciano Takeshi; Carmona, Adriana Karaoglanovic; Alves, Marcio Fernando Madureira; Belasque-Júnior, Jose; Rosa, José César; Hunter, Wayne Brian; Henrique-Silva, Flávio; Soares-Costa, Andrea

2015-01-01

Huanglonbing (HLB) is one of the most destructive disease affecting citrus plants. The causal agent is associated with the phloem-limited bacterium Candidatus Liberibacter asiaticus (CLas) and the psyllid Diaphorina citri, vector of disease, that transmits the bacterium associated with HLB. The control of disease can be achieved by suppressing either the bacterium or the vector. Among the control strategies for HLB disease, one of the widely used consists in controlling the enzymes of the disease vector, Diaphorina citri. The insect Diaphorina citri belongs to the order Hemiptera, which frequently have cysteine peptidases in the gut. The importance of this class of enzymes led us to search for enzymes in the D. citri transcriptome for the establishment of alternatives strategies for HLB control. In this study, we reported the identification and characterization of a cathepsin B-like cysteine peptidase from D. citri (DCcathB). DCcathB was recombinantly expressed in Pichia pastoris, presenting a molecular mass of approximately 50 kDa. The enzyme hydrolyzed the fluorogenic substrate Z-F-R-AMC (Km = 23.5 μM) and the selective substrate for cathepsin B, Z-R-R-AMC (Km = 6.13 μM). The recombinant enzyme was inhibited by the cysteine protease inhibitors E64 (IC50 = 0.014 μM) and CaneCPI-4 (Ki = 0.05 nM) and by the selective cathepsin B inhibitor CA-074 (IC50 = 0.095 nM). RT-qPCR analysis revealed that the expression of the DCcathB in nymph and adult was approximately 9-fold greater than in egg. Moreover, the expression of this enzyme in the gut was 175-fold and 3333-fold higher than in the remaining tissues and in the head, respectively, suggesting that DCcathB can be a target for HLB control.

Characterization of a Recombinant Cathepsin B-Like Cysteine Peptidase from Diaphorina citri Kuwayama (Hemiptera: Liviidae): A Putative Target for Control of Citrus Huanglongbing

PubMed Central

Kishi, Luciano Takeshi; Carmona, Adriana Karaoglanovic; Alves, Marcio Fernando Madureira; Belasque-Júnior, Jose; Rosa, José César; Hunter, Wayne Brian; Henrique-Silva, Flávio; Soares-Costa, Andrea

2015-01-01

Huanglonbing (HLB) is one of the most destructive disease affecting citrus plants. The causal agent is associated with the phloem-limited bacterium Candidatus Liberibacter asiaticus (CLas) and the psyllid Diaphorina citri, vector of disease, that transmits the bacterium associated with HLB. The control of disease can be achieved by suppressing either the bacterium or the vector. Among the control strategies for HLB disease, one of the widely used consists in controlling the enzymes of the disease vector, Diaphorina citri. The insect Diaphorina citri belongs to the order Hemiptera, which frequently have cysteine peptidases in the gut. The importance of this class of enzymes led us to search for enzymes in the D. citri transcriptome for the establishment of alternatives strategies for HLB control. In this study, we reported the identification and characterization of a cathepsin B-like cysteine peptidase from D. citri (DCcathB). DCcathB was recombinantly expressed in Pichia pastoris, presenting a molecular mass of approximately 50 kDa. The enzyme hydrolyzed the fluorogenic substrate Z-F-R-AMC (K m = 23.5 μM) and the selective substrate for cathepsin B, Z-R-R-AMC (K m = 6.13 μM). The recombinant enzyme was inhibited by the cysteine protease inhibitors E64 (IC50 = 0.014 μM) and CaneCPI-4 (Ki = 0.05 nM) and by the selective cathepsin B inhibitor CA-074 (IC50 = 0.095 nM). RT-qPCR analysis revealed that the expression of the DCcathB in nymph and adult was approximately 9-fold greater than in egg. Moreover, the expression of this enzyme in the gut was 175-fold and 3333-fold higher than in the remaining tissues and in the head, respectively, suggesting that DCcathB can be a target for HLB control. PMID:26717484

Divergent unprotected peptide macrocyclisation by palladium-mediated cysteine arylation.

PubMed

Rojas, Anthony J; Zhang, Chi; Vinogradova, Ekaterina V; Buchwald, Nathan H; Reilly, John; Pentelute, Bradley L; Buchwald, Stephen L

2017-06-01

Macrocyclic peptides are important therapeutic candidates due to their improved physicochemical properties in comparison to their linear counterparts. Here we detail a method for a divergent macrocyclisation of unprotected peptides by crosslinking two cysteine residues with bis-palladium organometallic reagents. These synthetic intermediates are prepared in a single step from commercially available aryl bis-halides. Two bioactive linear peptides with cysteine residues at i , i + 4 and i , i + 7 positions, respectively, were cyclised to introduce a diverse array of aryl and bi-aryl linkers. These two series of macrocyclic peptides displayed similar linker-dependent lipophilicity, phospholipid affinity, and unique volume of distributions. Additionally, one of the bioactive peptides showed target binding affinity that was predominantly affected by the length of the linker. Collectively, this divergent strategy allowed rapid and convenient access to various aryl linkers, enabling the systematic evaluation of the effect of appending unit on the medicinal properties of macrocyclic peptides.

The global cysteine peptidase landscape in parasites

PubMed Central

Atkinson, Holly J; Babbitt, Patricia C; Sajid, Mohammed

2013-01-01

The accumulation of sequenced genomes has expanded the already sizeable population of cysteine peptidases from parasites. Characterization of a few of these enzymes has ascribed key roles to peptidases in parasite life cycles and also shed light on mechanisms of pathogenesis. Here, we discuss recent observations on the physiological activities of cysteine peptidases of parasitic organisms, paired with a global view of all cysteine peptidases from the MEROPS database grouped by similarity. This snapshot of the landscape of parasite cysteine peptidases is complex and highly populated, which suggests that expansion of research beyond the few ‘model’ parasite peptidases is now timely. PMID:19854678

Experimenting with string musical instruments

NASA Astrophysics Data System (ADS)

LoPresto, Michael C.

2012-03-01

What follows are several investigations involving string musical instruments developed for and used in a Science of Sound & Light course. The experiments make use of a guitar, orchestral string instruments and data collection and graphing software. They are designed to provide students with concrete examples of how mathematical formulae, when used in physics, represent reality that can actually be observed, in this case, the operation of string musical instruments.

E(lementary)-strings in six-dimensional heterotic F-theory

NASA Astrophysics Data System (ADS)

Choi, Kang-Sin; Rey, Soo-Jong

2017-09-01

Using E-strings, we can analyze not only six-dimensional superconformal field theories but also probe vacua of non-perturabative heterotic string. We study strings made of D3-branes wrapped on various two-cycles in the global F-theory setup. We claim that E-strings are elementary in the sense that various combinations of E-strings can form M-strings as well as heterotic strings and new kind of strings, called G-strings. Using them, we show that emissions and combinations of heterotic small instantons generate most of known six-dimensional superconformal theories, their affinizations and little string theories. Taking account of global structure of compact internal geometry, we also show that special combinations of E-strings play an important role in constructing six-dimensional theories of D- and E-types. We check global consistency conditions from anomaly cancellation conditions, both from five-branes and strings, and show that they are given in terms of elementary E-string combinations.

Final Report: "Strings 2014"

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

Witten, Edward

2015-10-21

The Strings 2014 meeting was held at Princeton University June 23-27, 2014, co-sponsored by Princeton University and the Institute for Advanced Study. The goal of the meeting was to provide a stimulating and up-to-date overview of research in string theory and its relations to other areas of physics and mathematics, ranging from geometry to quantum field theory, condensed matter physics, and more. This brief report lists committee members and speakers but contains no scientific information. Note that the talks at Strings 2014 were videotaped and are available on the conference website: http://physics.princeton.edustrings2014/Talk_titles.shtml.

Entamoeba histolytica cysteine proteases cleave the MUC2 mucin in its C-terminal domain and dissolve the protective colonic mucus gel

PubMed Central

Lidell, Martin E.; Moncada, Darcy M.; Chadee, Kris; Hansson, Gunnar C.

2006-01-01

In order for the protozoan parasite Entamoeba histolytica (E.h.) to cause invasive intestinal and extraintestinal infection, which leads to significant morbidity and mortality, it must disrupt the protective mucus layer by a previously unknown mechanism. We hypothesized that cysteine proteases secreted from the amoeba disrupt the mucin polymeric network, thereby overcoming the protective mucus barrier. The MUC2 mucin is the major structural component of the colonic mucus gel. Heavily O-glycosylated and protease-resistant mucin domains characterize gel-forming mucins. Their N- and C-terminal cysteine-rich domains are involved in mucin polymerization, and these domains are likely to be targeted by proteases because they are less glycosylated, thereby exposing their peptide chains. By treating recombinant cysteine-rich domains of MUC2 with proteases from E.h. trophozoites, we showed that the C-terminal domain was specifically targeted at two sites by cysteine proteases, whereas the N-terminal domain was resistant to proteolysis. The major cleavage site is predicted to depolymerize the MUC2 polymers, thereby disrupting the protective mucus gel. The ability of the cysteine proteases to dissolve mucus gels was confirmed by treating mucins from a MUC2-producing cell line with amoeba proteases. These findings suggest a major role for E.h. cysteine proteases in overcoming the protective mucus barrier in the pathogenesis of invasive amoebiasis. In this report, we identify a specific cleavage mechanism used by an enteric pathogen to disrupt the polymeric nature of the mucin gel. PMID:16754877

Entamoeba histolytica cysteine proteases cleave the MUC2 mucin in its C-terminal domain and dissolve the protective colonic mucus gel.

PubMed

Lidell, Martin E; Moncada, Darcy M; Chadee, Kris; Hansson, Gunnar C

2006-06-13

In order for the protozoan parasite Entamoeba histolytica (E.h.) to cause invasive intestinal and extraintestinal infection, which leads to significant morbidity and mortality, it must disrupt the protective mucus layer by a previously unknown mechanism. We hypothesized that cysteine proteases secreted from the amoeba disrupt the mucin polymeric network, thereby overcoming the protective mucus barrier. The MUC2 mucin is the major structural component of the colonic mucus gel. Heavily O-glycosylated and protease-resistant mucin domains characterize gel-forming mucins. Their N- and C-terminal cysteine-rich domains are involved in mucin polymerization, and these domains are likely to be targeted by proteases because they are less glycosylated, thereby exposing their peptide chains. By treating recombinant cysteine-rich domains of MUC2 with proteases from E.h. trophozoites, we showed that the C-terminal domain was specifically targeted at two sites by cysteine proteases, whereas the N-terminal domain was resistant to proteolysis. The major cleavage site is predicted to depolymerize the MUC2 polymers, thereby disrupting the protective mucus gel. The ability of the cysteine proteases to dissolve mucus gels was confirmed by treating mucins from a MUC2-producing cell line with amoeba proteases. These findings suggest a major role for E.h. cysteine proteases in overcoming the protective mucus barrier in the pathogenesis of invasive amoebiasis. In this report, we identify a specific cleavage mechanism used by an enteric pathogen to disrupt the polymeric nature of the mucin gel.

String Formatting Considered Harmful for Novice Programmers

ERIC Educational Resources Information Center

Hughes, Michael C.; Jadud, Matthew C.; Rodrigo, Ma. Mercedes T.

2010-01-01

In Java, "System.out.printf" and "String.format" consume a specialised kind of string commonly known as a format string. In our study of first-year students at the Ateneo de Manila University, we discovered that format strings present a substantial challenge for novice programmers. Focusing on their first laboratory we found…

Spin chains and string theory.

PubMed

Kruczenski, Martin

2004-10-15

Recently, an important test of the anti de Sitter/conformal field theory correspondence has been done using rotating strings with two angular momenta. We show that such a test can be described more generally as the agreement between two actions: one a low energy description of a spin chain appearing in the field theory side, and the other a limit of the string action in AdS5xS5. This gives a map between the mean value of the spin in the boundary theory and the position of the string in the bulk, and shows how a string action can emerge from a gauge theory in the large-N limit.

Cysteine Biosynthesis Controls Serratia marcescens Phospholipase Activity

PubMed Central

Anderson, Mark T.; Mitchell, Lindsay A.

2017-01-01

ABSTRACT Serratia marcescens causes health care-associated opportunistic infections that can be difficult to treat due to a high incidence of antibiotic resistance. One of the many secreted proteins of S. marcescens is the PhlA phospholipase enzyme. Genes involved in the production and secretion of PhlA were identified by screening a transposon insertion library for phospholipase-deficient mutants on phosphatidylcholine-containing medium. Mutations were identified in four genes (cyaA, crp, fliJ, and fliP) that are involved in the flagellum-dependent PhlA secretion pathway. An additional phospholipase-deficient isolate harbored a transposon insertion in the cysE gene encoding a predicted serine O-acetyltransferase required for cysteine biosynthesis. The cysE requirement for extracellular phospholipase activity was confirmed using a fluorogenic phospholipase substrate. Phospholipase activity was restored to the cysE mutant by the addition of exogenous l-cysteine or O-acetylserine to the culture medium and by genetic complementation. Additionally, phlA transcript levels were decreased 6-fold in bacteria lacking cysE and were restored with added cysteine, indicating a role for cysteine-dependent transcriptional regulation of S. marcescens phospholipase activity. S. marcescens cysE mutants also exhibited a defect in swarming motility that was correlated with reduced levels of flhD and fliA flagellar regulator gene transcription. Together, these findings suggest a model in which cysteine is required for the regulation of both extracellular phospholipase activity and surface motility in S. marcescens. IMPORTANCE Serratia marcescens is known to secrete multiple extracellular enzymes, but PhlA is unusual in that this protein is thought to be exported by the flagellar transport apparatus. In this study, we demonstrate that both extracellular phospholipase activity and flagellar function are dependent on the cysteine biosynthesis pathway. Furthermore, a disruption of cysteine

Mass spectrometric analysis of L-cysteine metabolism: physiological role and fate of L-cysteine in the enteric protozoan parasite Entamoeba histolytica.

PubMed

Jeelani, Ghulam; Sato, Dan; Soga, Tomoyoshi; Watanabe, Haruo; Nozaki, Tomoyoshi

2014-11-04

L-cysteine is essential for virtually all living organisms, from bacteria to higher eukaryotes. Besides having a role in the synthesis of virtually all proteins and of taurine, cysteamine, glutathione, and other redox-regulating proteins, L-cysteine has important functions under anaerobic/microaerophilic conditions. In anaerobic or microaerophilic protozoan parasites, such as Entamoeba histolytica, L-cysteine has been implicated in growth, attachment, survival, and protection from oxidative stress. However, a specific role of this amino acid or related metabolic intermediates is not well understood. In this study, using stable-isotope-labeled L-cysteine and capillary electrophoresis-time of flight mass spectrometry, we investigated the metabolism of L-cysteine in E. histolytica. [U-(13)C3, (15)N]L-cysteine was rapidly metabolized into three unknown metabolites, besides L-cystine and L-alanine. These metabolites were identified as thiazolidine-4-carboxylic acid (T4C), 2-methyl thiazolidine-4-carboxylic acid (MT4C), and 2-ethyl-thiazolidine-4-carboxylic acid (ET4C), the condensation products of L-cysteine with aldehydes. We demonstrated that these 2-(R)-thiazolidine-4-carboxylic acids serve for storage of L-cysteine. Liberation of L-cysteine occurred when T4C was incubated with amebic lysates, suggesting enzymatic degradation of these L-cysteine derivatives. Furthermore, T4C and MT4C significantly enhanced trophozoite growth and reduced intracellular reactive oxygen species (ROS) levels when it was added to cultures, suggesting that 2-(R)-thiazolidine-4-carboxylic acids are involved in the defense against oxidative stress. Amebiasis is a human parasitic disease caused by the protozoan parasite Entamoeba histolytica. In this parasite, L-cysteine is the principal low-molecular-weight thiol and is assumed to play a significant role in supplying the amino acid during trophozoite invasion, particularly when the parasites move from the anaerobic intestinal lumen to highly

The IRC7 gene encodes cysteine desulphydrase activity and confers on yeast the ability to grow on cysteine as a nitrogen source.

PubMed

Santiago, Margarita; Gardner, Richard C

2015-07-01

Although cysteine desulphydrase activity has been purified and characterized from Saccharomyces cerevisiae, the gene encoding this activity in vivo has never been defined. We show that the full-length IRC7 gene, encoded by the YFR055W open reading frame, encodes a protein with cysteine desulphydrase activity. Irc7p purified to homogeneity is able to utilize l-cysteine as a substrate, producing pyruvate and hydrogen sulphide as products of the reaction. Purified Irc7p also utilized l-cystine and some other cysteine conjugates, but not l-cystathionine or l-methionine, as substrates. We further show that, in vivo, the IRC7 gene is both necessary and sufficient for yeast to grow on l-cysteine as a nitrogen source, and that overexpression of the gene results in increased H2 S production. Strains overexpressing IRC7 are also hypersensitive to a toxic analogue, S-ethyl-l-cysteine. While IRC7 has been identified as playing a critical role in converting cysteine conjugates to volatile thiols that are important in wine aroma, its biological role in yeast cells is likely to involve regulation of cysteine and redox homeostasis. Copyright © 2015 John Wiley & Sons, Ltd.

Segmented strings in AdS 3

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

Callebaut, Nele; Gubser, Steven S.; Samberg, Andreas

We study segmented strings in flat space and in AdS 3. In flat space, these well known classical motions describe strings which at any instant of time are piecewise linear. In AdS 3, the worldsheet is composed of faces each of which is a region bounded by null geodesics in an AdS 2 subspace of AdS 3. The time evolution can be described by specifying the null geodesic motion of kinks in the string at which two segments are joined. The outcome of collisions of kinks on the worldsheet can be worked out essentially using considerations of causality. We studymore » several examples of closed segmented strings in AdS 3 and find an unexpected quasi-periodic behavior. Here, we also work out a WKB analysis of quantum states of yo-yo strings in AdS 5 and find a logarithmic term reminiscent of the logarithmic twist of string states on the leading Regge trajectory.« less

Segmented strings in AdS 3

DOE PAGES

Callebaut, Nele; Gubser, Steven S.; Samberg, Andreas; ...

2015-11-17

We study segmented strings in flat space and in AdS 3. In flat space, these well known classical motions describe strings which at any instant of time are piecewise linear. In AdS 3, the worldsheet is composed of faces each of which is a region bounded by null geodesics in an AdS 2 subspace of AdS 3. The time evolution can be described by specifying the null geodesic motion of kinks in the string at which two segments are joined. The outcome of collisions of kinks on the worldsheet can be worked out essentially using considerations of causality. We studymore » several examples of closed segmented strings in AdS 3 and find an unexpected quasi-periodic behavior. Here, we also work out a WKB analysis of quantum states of yo-yo strings in AdS 5 and find a logarithmic term reminiscent of the logarithmic twist of string states on the leading Regge trajectory.« less

Mechanical Properties of Nylon Harp Strings.

PubMed

Lynch-Aird, Nicolas; Woodhouse, Jim

2017-05-04

Monofilament nylon strings with a range of diameters, commercially marketed as harp strings, have been tested to establish their long-term mechanical properties. Once a string had settled into a desired stress state, the Young's modulus was measured by a variety of methods that probe different time-scales. The modulus was found to be a strong function of testing frequency and also a strong function of stress. Strings were also subjected to cyclical variations of temperature, allowing various thermal properties to be measured: the coefficient of linear thermal expansion and the thermal sensitivities of tuning, Young's modulus and density. The results revealed that the particular strings tested are divided into two groups with very different properties: stress-strain behaviour differing by a factor of two and some parametric sensitivities even having the opposite sign. Within each group, correlation studies allowed simple functional fits to be found to the key properties, which have the potential to be used in automated tuning systems for harp strings.

Probes of the catalytic site of cysteine dioxygenase.

PubMed

Chai, Sergio C; Bruyere, John R; Maroney, Michael J

2006-06-09

The first major step of cysteine catabolism, the oxidation of cysteine to cysteine sulfinic acid, is catalyzed by cysteine dioxygenase (CDO). In the present work, we utilize recombinant rat liver CDO and cysteine derivatives to elucidate structural parameters involved in substrate recognition and x-ray absorption spectroscopy to probe the interaction of the active site iron center with cysteine. Kinetic studies using cysteine structural analogs show that most are inhibitors and that a terminal functional group bearing a negative charge (e.g. a carboxylate) is required for binding. The substrate-binding site has no stringent restrictions with respect to the size of the amino acid. Lack of the amino or carboxyl groups at the alpha-carbon does not prevent the molecules from interacting with the active site. In fact, cysteamine is shown to be a potent activator of the enzyme without being a substrate. CDO was also rendered inactive upon complexation with the metal-binding inhibitors azide and cyanide. Unlike many non-heme iron dioxygenases that employ alpha-keto acids as cofactors, CDO was shown to be the only dioxygenase known to be inhibited by alpha-ketoglutarate.

Comparisons of l-cysteine and d-cysteine toxicity in 4-week repeated-dose toxicity studies of rats receiving daily oral administration.

PubMed

Shibui, Yusuke; Sakai, Ryosei; Manabe, Yasuhiro; Masuyama, Takeshi

2017-07-01

Two 4-week repeated-dose toxicity studies were conducted to evaluate the potential toxicity of l-cysteine and d-cysteine. In one study, three groups of 6 male rats were each administered l-cysteine once daily by gavage at doses of 500, 1,000, or 2,000 mg/kg/day for 28 consecutive days. The control group was administered a 0.5% methylcellulose vehicle solution. The other study followed a similar protocol except that the experimental groups received d-cysteine. Toxicological observations showed that the l-cysteine-treated groups exhibited renal injuries such as basophilic tubules with eosinophilic material in the lumen, and there were increased numbers of basophilic tubules in all treated groups. In 1,000 or 2,000 mg/kg/day-treated groups, salivation and necropsy findings indicative of focal erosion in the stomach mucosa were found. Increases in reticulocyte counts were observed in the 2,000 mg/kg/day-treated group. Toxicological findings obtained for the d-cysteine-treated groups included anemia and renal injuries such as basophilic tubules with eosinophilic material in the lumen, increased numbers of basophilic tubules, and crystal deposition in the medulla in the 2,000 mg/kg/day-treated group. Additional findings included sperm granuloma in the epididymis, necropsy findings suggestive of focal erosion in the stomach mucosa, and salivation in the 1,000 or 2,000 mg/kg/day-treated groups. One rat in the 2,000 mg/kg/day-treated group died due to renal failure. In conclusion, the no-observed-adverse-effect levels (NOAELs) were estimated to be less than 500 mg/kg/day for l-cysteine and 500 mg/kg/day for d-cysteine under our study conditions. The toxicological profiles were similar for l-cysteine and d-cysteine; however, there were slight differences in the dose responses. The mechanisms underlying these differences remain to be determined.

High-Yield Site-Specific Conjugation of Fibroblast Growth Factor 1 with Monomethylauristatin E via Cysteine Flanked by Basic Residues.

PubMed

Lobocki, Michal; Zakrzewska, Malgorzata; Szlachcic, Anna; Krzyscik, Mateusz A; Sokolowska-Wedzina, Aleksandra; Otlewski, Jacek

2017-07-19

Site-specific conjugation is a leading trend in the development of protein conjugates, including antibody-drug conjugates (ADCs), suitable for targeted cancer therapy. Here, we present a very efficient strategy for specific attachment of a cytotoxic drug to fibroblast growth factor 1 (FGF1), a natural ligand of FGF receptors (FGFRs), which are over-expressed in several types of lung, breast, and gastric cancers and are therefore an attractive molecular target. Recently, we showed that FGF1 fused to monomethylauristatin E (vcMMAE) was highly cytotoxic to cells presenting FGFRs on their surface and could be used as a targeting agent alternative to an antibody. Unfortunately, conjugation via maleimide chemistry to endogenous FGF1 cysteines or a cysteine introduced at the N-terminus proceeded with low yield and led to nonhomogeneous products. To improve the conjugation, we introduced a novel Lys-Cys-Lys motif at either FGF1 terminus, which increased cysteine reactivity and allowed us to obtain an FGF1 conjugate with a defined site of conjugation and a yield exceeding 95%. Using FGFR-expressing cancer lines, we confirmed specific cytotoxity of the obtained C-terminal FGF1-vcMMAE conjugate and its selective endocytososis as compared with FGFR1-negative cells. This simple and powerful approach relying on the introduction of a short sequence containing cysteine and positively charged amino acids could be used universally to improve the efficiency of the site-specific chemical modification of other proteins.

Targeting cysteine residues of human immunodeficiency virus type 1 protease by reactive free radical species.

PubMed

Basu, A; Sehajpal, P K; Ogiste, J S; Lander, H M

1999-01-01

Nitric oxide (NO) is a naturally occurring free radical with many functions. The oxidized form of NO, the nitrosonium ion, reacts with the thiol group of cysteine residues resulting in their modification to S-nitrosothiols. The human immunodeficiency virus type 1 (HIV-1) protease (HIV-PR) has two cysteine residues that are conserved amongst different viral isolates found in patients with acquired immunodeficiency syndrome (AIDS). In an active dimer, these residues are located near the surface of the protease. We have found that treatment of HIV-PR with different NO congeners results in loss of its proteolytic activity and simultaneous formation of S-nitrosothiols. Sodium nitroprusside inhibited HIV-PR up to 70% and S-nitroso-N-acetylpenicillamine completely inhibited the protease within 5 min of treatment. The pattern of inhibition by NO donors is comparable to its inhibition by N-acetyl pepstatin. Using electrospray ionization-mass spectrometry, we identified the modification of HIV-PR by NO as that of S-nitrosation. Our findings point towards a possible role of NO in mediating resistance to HIV-1 infection.

Null cosmological singularities and free strings

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

Narayan, K.

2010-03-15

We continue exploring free strings in the background of null Kasner-like cosmological singularities, following K. Narayan, arXiv:0904.4532. We study the free string Schrodinger wave functional along the lines of K. Narayan, arXiv:0807.1517. We find the wave functional to be nonsingular in the vicinity of singularities whose Kasner exponents satisfy certain relations. We compare this with the description in other variables. We then study certain regulated versions of these singularities where the singular region is replaced by a substringy but nonsingular region and study the string spectra in these backgrounds. The string modes can again be solved for exactly, giving somemore » insight into how string oscillator states get excited near the singularity.« less

CMB temperature trispectrum of cosmic strings

NASA Astrophysics Data System (ADS)

Hindmarsh, Mark; Ringeval, Christophe; Suyama, Teruaki

2010-03-01

We provide an analytical expression for the trispectrum of the cosmic microwave background (CMB) temperature anisotropies induced by cosmic strings. Our result is derived for the small angular scales under the assumption that the temperature anisotropy is induced by the Gott-Kaiser-Stebbins effect. The trispectrum is predicted to decay with a noninteger power-law exponent ℓ-ρ with 6<ρ<7, depending on the string microstructure, and thus on the string model. For Nambu-Goto strings, this exponent is related to the string mean square velocity and the loop distribution function. We then explore two classes of wave number configuration in Fourier space, the kite and trapezium quadrilaterals. The trispectrum can be of any sign and appears to be strongly enhanced for all squeezed quadrilaterals.

Cysteine Transport through Excitatory Amino Acid Transporter 3 (EAAT3)

PubMed Central

Watts, Spencer D.; Torres-Salazar, Delany; Divito, Christopher B.; Amara, Susan G.

2014-01-01

Excitatory amino acid transporters (EAATs) limit glutamatergic signaling and maintain extracellular glutamate concentrations below neurotoxic levels. Of the five known EAAT isoforms (EAATs 1–5), only the neuronal isoform, EAAT3 (EAAC1), can efficiently transport the uncharged amino acid L-cysteine. EAAT3-mediated cysteine transport has been proposed to be a primary mechanism used by neurons to obtain cysteine for the synthesis of glutathione, a key molecule in preventing oxidative stress and neuronal toxicity. The molecular mechanisms underlying the selective transport of cysteine by EAAT3 have not been elucidated. Here we propose that the transport of cysteine through EAAT3 requires formation of the thiolate form of cysteine in the binding site. Using Xenopus oocytes and HEK293 cells expressing EAAT2 and EAAT3, we assessed the transport kinetics of different substrates and measured transporter-associated currents electrophysiologically. Our results show that L-selenocysteine, a cysteine analog that forms a negatively-charged selenolate ion at physiological pH, is efficiently transported by EAATs 1–3 and has a much higher apparent affinity for transport when compared to cysteine. Using a membrane tethered GFP variant to monitor intracellular pH changes associated with transport activity, we observed that transport of either L-glutamate or L-selenocysteine by EAAT3 decreased intracellular pH, whereas transport of cysteine resulted in cytoplasmic alkalinization. No change in pH was observed when cysteine was applied to cells expressing EAAT2, which displays negligible transport of cysteine. Under conditions that favor release of intracellular substrates through EAAT3 we observed release of labeled intracellular glutamate but did not detect cysteine release. Our results support a model whereby cysteine transport through EAAT3 is facilitated through cysteine de-protonation and that once inside, the thiolate is rapidly re-protonated. Moreover, these findings suggest

Gravitational waves and cosmic strings

NASA Astrophysics Data System (ADS)

Siemens, Xavier

2002-08-01

Cosmic strings are potential candidates for a variety of interesting cosmological phenomena such as gamma ray bursts, gravitational wave bursts and ultra high energy cosmic rays. The predictions of cosmic string models, however, depend sensitively on the so far unresolved question of the size of the small-scale structure. This thesis deals largely with this problem. First, I present a gravitational back-reaction model that assumes the interaction between all Fourier modes that make up a given perturbation on a long cosmic string. This calculation leads to the generally accepted value of the small scale structure cutoff. It also, however, leads to paradoxical behaviour when applied to two oppositely moving modes: As one of the modes is stretched conformally the gravitational power radiated approaches a constant. This result is in contradiction with our expectation for the straight string limit in which no power is radiated. A more careful investigation of this problem reveals that, in the case of two oppositely moving modes, the gravitational power is exponentially suppressed when the wavelengths of the modes are sufficiently different. I use this result to construct an improved gravitational back-reaction model in which modes of very different wavelengths do not interact. This model leads to a new small scale structure cutoff which is sensitive to the initial spectrum of perturbations present on the string. I also tentatively examine the consequences of this result for the evolution of cosmic string loops. Finally, I investigate the effect of the presence of small scale structure on the gravitational wave-bursts produced at cosmic string cusps.

Cysteine analogues potentiate glucose-induced insulin release in vitro

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

Ammon, H.P.; Hehl, K.H.; Enz, G.

1986-12-01

In rat pancreatic islets, cysteine analogues, including glutathione, acetylcysteine, cysteamine, D-penicillamine, L-cysteine ethyl ester, and cysteine-potentiated glucose (11.1 mM) induced insulin secretion in a concentration-dependent manner. Their maximal effects were similar and occurred at approximately 0.05, 0.05, 0.1, 0.5, 1.0, 1.0 mM, respectively. At substimulatory glucose levels (2.8 mM), insulin release was not affected by these compounds. In contrast, thiol compounds, structurally different from cysteine and its analogues, such as mesna, tiopronin, meso-2,3-dimercaptosuccinic acid (DMSA), dimercaprol (BAL), beta-thio-D-glucose, as well as those cysteine analogues that lack a free-thiol group, including L-cystine, cystamine, D-penicillamine disulfide, S-carbocysteine, and S-carbamoyl-L-cysteine, did not enhancemore » insulin release at stimulatory glucose levels (11.1 mM); cystine (5 mM) was inhibitory. These in vitro data indicate that among the thiols tested here, only cysteine and its analogues potentiate glucose-induced insulin secretion, whereas thiols that are structurally not related to cysteine do not. This suggests that a cysteine moiety in the molecule is necessary for the insulinotropic effect. For their synergistic action to glucose, the availability of a sulfhydryl group is also a prerequisite. The maximal synergistic action is similar for all cysteine analogues tested, whereas the potency of action is different, suggesting similarity in the mechanism of action but differences in the affinity to the secretory system.« less

CMB ISW-lensing bispectrum from cosmic strings

NASA Astrophysics Data System (ADS)

Yamauchi, Daisuke; Sendouda, Yuuiti; Takahashi, Keitaro

2014-02-01

We study the effect of weak lensing by cosmic (super-)strings on the higher-order statistics of the cosmic microwave background (CMB). A cosmic string segment is expected to cause weak lensing as well as an integrated Sachs-Wolfe (ISW) effect, the so-called Gott-Kaiser-Stebbins (GKS) effect, to the CMB temperature fluctuation, which are thus naturally cross-correlated. We point out that, in the presence of such a correlation, yet another kind of the post-recombination CMB temperature bispectra, the ISW-lensing bispectra, will arise in the form of products of the auto- and cross-power spectra. We first present an analytic method to calculate the autocorrelation of the temperature fluctuations induced by the strings, and the cross-correlation between the temperature fluctuation and the lensing potential both due to the string network. In our formulation, the evolution of the string network is assumed to be characterized by the simple analytic model, the velocity-dependent one scale model, and the intercommutation probability is properly incorporated in order to characterize the possible superstringy nature. Furthermore, the obtained power spectra are dominated by the Poisson-distributed string segments, whose correlations are assumed to satisfy the simple relations. We then estimate the signal-to-noise ratios of the string-induced ISW-lensing bispectra and discuss the detectability of such CMB signals from the cosmic string network. It is found that in the case of the smaller string tension, Gμ << 10-7, the ISW-lensing bispectrum induced by a cosmic string network can constrain the string-model parameters even more tightly than the purely GKS-induced bispectrum in the ongoing and future CMB observations on small scales.

Cysteine 96 of Ntcp is responsible for NO-mediated inhibition of taurocholate uptake.

PubMed

Ramasamy, Umadevi; Anwer, M Sawkat; Schonhoff, Christopher M

2013-10-01

The Na(+) taurocholate (TC) cotransporting polypeptide Ntcp/NTCP mediates TC uptake across the sinusoidal membrane of hepatocytes. Previously, we demonstrated that nitric oxide (NO) inhibits TC uptake through S-nitrosylation of a cysteine residue. Our current aim was to determine which of the eight cysteine residues of Ntcp is responsible for NO-mediated S-nitrosylation and inhibition of TC uptake. Thus, we tested the effect of NO on TC uptake in HuH-7 cells transiently transfected with cysteine-to-alanine mutant Ntcp constructs. Of the eight mutants tested, only C44A Ntcp displayed decreased total and plasma membrane (PM) levels that were also reflected in decreased TC uptake. C266A Ntcp showed a decrease in TC uptake that was not explained by a decrease in total expression or PM localization, indicating that C266 is required for optimal uptake. We speculated that NO would target C266 since a previous report had shown the thiol reactive compound [2-(trimethylammonium) ethyl] methanethiosulfonate bromide (MTSET) inhibits TC uptake by wild-type NTCP but not by C266A NTCP. We confirmed that MTSET targets C266 of Ntcp, but, surprisingly, we found that C266 was not responsible for NO-mediated inhibition of TC uptake. Instead, we found that C96 was targeted by NO since C96A Ntcp was insensitive to NO-mediated inhibition of TC uptake. We also found that wild-type but not C96A Ntcp is S-nitrosylated by NO, suggesting that C96 is important in regulating Ntcp function in response to elevated levels of NO.

Cysteine 96 of Ntcp is responsible for NO-mediated inhibition of taurocholate uptake

PubMed Central

Ramasamy, Umadevi; Anwer, M. Sawkat

2013-01-01

The Na+ taurocholate (TC) cotransporting polypeptide Ntcp/NTCP mediates TC uptake across the sinusoidal membrane of hepatocytes. Previously, we demonstrated that nitric oxide (NO) inhibits TC uptake through S-nitrosylation of a cysteine residue. Our current aim was to determine which of the eight cysteine residues of Ntcp is responsible for NO-mediated S-nitrosylation and inhibition of TC uptake. Thus, we tested the effect of NO on TC uptake in HuH-7 cells transiently transfected with cysteine-to-alanine mutant Ntcp constructs. Of the eight mutants tested, only C44A Ntcp displayed decreased total and plasma membrane (PM) levels that were also reflected in decreased TC uptake. C266A Ntcp showed a decrease in TC uptake that was not explained by a decrease in total expression or PM localization, indicating that C266 is required for optimal uptake. We speculated that NO would target C266 since a previous report had shown the thiol reactive compound [2-(trimethylammonium) ethyl] methanethiosulfonate bromide (MTSET) inhibits TC uptake by wild-type NTCP but not by C266A NTCP. We confirmed that MTSET targets C266 of Ntcp, but, surprisingly, we found that C266 was not responsible for NO-mediated inhibition of TC uptake. Instead, we found that C96 was targeted by NO since C96A Ntcp was insensitive to NO-mediated inhibition of TC uptake. We also found that wild-type but not C96A Ntcp is S-nitrosylated by NO, suggesting that C96 is important in regulating Ntcp function in response to elevated levels of NO. PMID:23886862

Discovery of Novel Irreversible Inhibitors of Interleukin (IL)-2-inducible Tyrosine Kinase (Itk) by Targeting Cysteine 442 in the ATP Pocket

PubMed Central

Harling, John D.; Deakin, Angela M.; Campos, Sébastien; Grimley, Rachel; Chaudry, Laiq; Nye, Catherine; Polyakova, Oxana; Bessant, Christina M.; Barton, Nick; Somers, Don; Barrett, John; Graves, Rebecca H.; Hanns, Laura; Kerr, William J.; Solari, Roberto

2013-01-01

IL-2-inducible tyrosine kinase (Itk) plays a key role in antigen receptor signaling in T cells and is considered an important target for anti-inflammatory drug discovery. In order to generate inhibitors with the necessary potency and selectivity, a compound that targeted cysteine 442 in the ATP binding pocket and with an envisaged irreversible mode of action was designed. We incorporated a high degree of molecular recognition and specific design features making the compound suitable for inhaled delivery. This study confirms the irreversible covalent binding of the inhibitor to the kinase by x-ray crystallography and enzymology while demonstrating potency, selectivity, and prolonged duration of action in in vitro biological assays. The biosynthetic turnover of the kinase was also examined as a critical factor when designing irreversible inhibitors for extended duration of action. The exemplified Itk inhibitor demonstrated inhibition of both TH1 and TH2 cytokines, was additive with fluticasone propionate, and inhibited cytokine release from human lung fragments. Finally, we describe an in vivo pharmacodynamic assay that allows rapid preclinical development without animal efficacy models. PMID:23935099

Classical theory of radiating strings

NASA Technical Reports Server (NTRS)

Copeland, Edmund J.; Haws, D.; Hindmarsh, M.

1990-01-01

The divergent part of the self force of a radiating string coupled to gravity, an antisymmetric tensor and a dilaton in four dimensions are calculated to first order in classical perturbation theory. While this divergence can be absorbed into a renormalization of the string tension, demanding that both it and the divergence in the energy momentum tensor vanish forces the string to have the couplings of compactified N = 1 D = 10 supergravity. In effect, supersymmetry cures the classical infinities.

Plucked String on a Shoestring Budget

NASA Astrophysics Data System (ADS)

Gluck, Paul

2009-01-01

The physics of the plucked string has been treated in many articles and books.1-4 For our 12th-grade high school physics laboratory, we have built a cheap, simple sonometer apparatus for each pair of students on which they may investigate some interesting phenomena that arise when a string is plucked. Among these are the generation of harmonics (overtones) and the way their number depends on the length of a string and on where one plucks, the relation between the frequencies of the fundamental and those of the harmonics, and the way these are affected by changes in the length and the tension in the string. Such an experiment will help students appreciate the working of stringed musical instruments and, in particular, the contribution of overtones to the richness of sound produced.

CMB temperature trispectrum of cosmic strings

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

Hindmarsh, Mark; Ringeval, Christophe; Suyama, Teruaki

2010-03-15

We provide an analytical expression for the trispectrum of the cosmic microwave background (CMB) temperature anisotropies induced by cosmic strings. Our result is derived for the small angular scales under the assumption that the temperature anisotropy is induced by the Gott-Kaiser-Stebbins effect. The trispectrum is predicted to decay with a noninteger power-law exponent l{sup -{rho}}with 6<{rho}<7, depending on the string microstructure, and thus on the string model. For Nambu-Goto strings, this exponent is related to the string mean square velocity and the loop distribution function. We then explore two classes of wave number configuration in Fourier space, the kite andmore » trapezium quadrilaterals. The trispectrum can be of any sign and appears to be strongly enhanced for all squeezed quadrilaterals.« less

Entanglement branes in a two-dimensional string theory

DOE PAGES

Donnelly, William; Wong, Gabriel

2017-09-20

What is the meaning of entanglement in a theory of extended objects such as strings? To address this question we consider the spatial entanglement between two intervals in the Gross-Taylor model, the string theory dual to two-dimensional Yang-Mills theory at large N. The string diagrams that contribute to the entanglement entropy describe open strings with endpoints anchored to the entangling surface, as first argued by Susskind. We develop a canonical theory of these open strings, and describe how closed strings are divided into open strings at the level of the Hilbert space. Here, we derive the modular Hamiltonian for themore » Hartle-Hawking state and show that the corresponding reduced density matrix describes a thermal ensemble of open strings ending on an object at the entangling surface that we call an entanglement brane, or E-brane.« less

Mechanical Properties of Nylon Harp Strings

PubMed Central

Lynch-Aird, Nicolas; Woodhouse, Jim

2017-01-01

Monofilament nylon strings with a range of diameters, commercially marketed as harp strings, have been tested to establish their long-term mechanical properties. Once a string had settled into a desired stress state, the Young’s modulus was measured by a variety of methods that probe different time-scales. The modulus was found to be a strong function of testing frequency and also a strong function of stress. Strings were also subjected to cyclical variations of temperature, allowing various thermal properties to be measured: the coefficient of linear thermal expansion and the thermal sensitivities of tuning, Young’s modulus and density. The results revealed that the particular strings tested are divided into two groups with very different properties: stress-strain behaviour differing by a factor of two and some parametric sensitivities even having the opposite sign. Within each group, correlation studies allowed simple functional fits to be found to the key properties, which have the potential to be used in automated tuning systems for harp strings. PMID:28772858

CMB ISW-lensing bispectrum from cosmic strings

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

Yamauchi, Daisuke; Sendouda, Yuuiti; Takahashi, Keitaro, E-mail: yamauchi@resceu.s.u-tokyo.ac.jp, E-mail: sendouda@cc.hirosaki-u.ac.jp, E-mail: keitaro@sci.kumamoto-u.ac.jp

2014-02-01

We study the effect of weak lensing by cosmic (super-)strings on the higher-order statistics of the cosmic microwave background (CMB). A cosmic string segment is expected to cause weak lensing as well as an integrated Sachs-Wolfe (ISW) effect, the so-called Gott-Kaiser-Stebbins (GKS) effect, to the CMB temperature fluctuation, which are thus naturally cross-correlated. We point out that, in the presence of such a correlation, yet another kind of the post-recombination CMB temperature bispectra, the ISW-lensing bispectra, will arise in the form of products of the auto- and cross-power spectra. We first present an analytic method to calculate the autocorrelation ofmore » the temperature fluctuations induced by the strings, and the cross-correlation between the temperature fluctuation and the lensing potential both due to the string network. In our formulation, the evolution of the string network is assumed to be characterized by the simple analytic model, the velocity-dependent one scale model, and the intercommutation probability is properly incorporated in order to characterize the possible superstringy nature. Furthermore, the obtained power spectra are dominated by the Poisson-distributed string segments, whose correlations are assumed to satisfy the simple relations. We then estimate the signal-to-noise ratios of the string-induced ISW-lensing bispectra and discuss the detectability of such CMB signals from the cosmic string network. It is found that in the case of the smaller string tension, Gμ << 10{sup -7}, the ISW-lensing bispectrum induced by a cosmic string network can constrain the string-model parameters even more tightly than the purely GKS-induced bispectrum in the ongoing and future CMB observations on small scales.« less

Browning inhibition mechanisms by cysteine, ascorbic acid and citric acid, and identifying PPO-catechol-cysteine reaction products.

PubMed

Ali, Hussein M; El-Gizawy, Ahmed M; El-Bassiouny, Rawia E I; Saleh, Mahmoud A

2015-06-01

The titled compounds were examined as PPO inhibitors and antibrowning agents; their various mechanisms were investigated and discussed. All compounds reduced significantly both the browning process and PPO activity. Browning index gave strong correlation with PPO activity (r(2) = 0.96, n = 19) indicating that the browning process is mainly enzymatic. Ascorbic acid could reduce the formed quinone instantly to the original substrate (catechol) at high concentration (>1.5 %) while at lower concentrations acted as competitive inhibitor (KI = 0.256 ± 0.067 mM). Cysteine, at higher concentrations (≥1.0 %), reacted with the resulted quinone to give a colorless products while at the low concentrations, cysteine worked as competitive inhibitor (KI = 1.113 ± 0.176 mM). Citric acid acted only as PPO non-competitive inhibitor with KI = 2.074 ± 0.363 mM. The products of PPO-catechole-cysteine reaction could be separation and identification by LC-ESI-MS. Results indicated that the product of the enzymatic oxidation of catechol, quinone, undergoes two successive nucleophilic attacks by cysteine thiol group. Cysteine was condensed with the resulted mono and dithiocatechols to form peptide side chains.

Cysteine Biosynthesis Controls Serratia marcescens Phospholipase Activity.

PubMed

Anderson, Mark T; Mitchell, Lindsay A; Mobley, Harry L T

2017-08-15

Serratia marcescens causes health care-associated opportunistic infections that can be difficult to treat due to a high incidence of antibiotic resistance. One of the many secreted proteins of S. marcescens is the PhlA phospholipase enzyme. Genes involved in the production and secretion of PhlA were identified by screening a transposon insertion library for phospholipase-deficient mutants on phosphatidylcholine-containing medium. Mutations were identified in four genes ( cyaA , crp , fliJ , and fliP ) that are involved in the flagellum-dependent PhlA secretion pathway. An additional phospholipase-deficient isolate harbored a transposon insertion in the cysE gene encoding a predicted serine O -acetyltransferase required for cysteine biosynthesis. The cysE requirement for extracellular phospholipase activity was confirmed using a fluorogenic phospholipase substrate. Phospholipase activity was restored to the cysE mutant by the addition of exogenous l-cysteine or O -acetylserine to the culture medium and by genetic complementation. Additionally, phlA transcript levels were decreased 6-fold in bacteria lacking cysE and were restored with added cysteine, indicating a role for cysteine-dependent transcriptional regulation of S. marcescens phospholipase activity. S. marcescens cysE mutants also exhibited a defect in swarming motility that was correlated with reduced levels of flhD and fliA flagellar regulator gene transcription. Together, these findings suggest a model in which cysteine is required for the regulation of both extracellular phospholipase activity and surface motility in S. marcescens IMPORTANCE Serratia marcescens is known to secrete multiple extracellular enzymes, but PhlA is unusual in that this protein is thought to be exported by the flagellar transport apparatus. In this study, we demonstrate that both extracellular phospholipase activity and flagellar function are dependent on the cysteine biosynthesis pathway. Furthermore, a disruption of cysteine

Mutational analysis of cysteine 328 and cysteine 368 at the interface of Plasmodium falciparum adenylosuccinate synthetase.

PubMed

Mehrotra, Sonali; B Ningappa, Mylarappa; Raman, Jayalakshmi; Anand, Ranjith P; Balaram, Hemalatha

2012-04-01

Plasmodium falciparum adenylosuccinate synthetase, a homodimeric enzyme, contains 10 cysteine residues per subunit. Among these, Cys250, Cys328 and Cys368 lie at the dimer interface and are not conserved across organisms. PfAdSS has a positively charged interface with the crystal structure showing additional electron density around Cys328 and Cys368. Biochemical characterization of site directed mutants followed by equilibrium unfolding studies permits elucidation of the role of interface cysteines and positively charged interface in dimer stability. Mutation of interface cysteines, Cys328 and Cys368 to serine, perturbed the monomer-dimer equilibrium in the protein with a small population of monomer being evident in the double mutant. Introduction of negative charge in the form of C328D mutation resulted in stabilization of protein dimer as evident by size exclusion chromatography at high ionic strength buffer and equilibrium unfolding in the presence of urea. These observations suggest that cysteines at the dimer interface of PfAdSS may indeed be charged and exist as thiolate anion. Copyright © 2012 Elsevier B.V. All rights reserved.

Selective Targeting of the Cysteine Proteome by Thioredoxin and Glutathione Redox Systems

PubMed Central

Go, Young-Mi; Roede, James R.; Walker, Douglas I.; Duong, Duc M.; Seyfried, Nicholas T.; Orr, Michael; Liang, Yongliang; Pennell, Kurt D.; Jones, Dean P.

2013-01-01

Thioredoxin (Trx) and GSH are the major thiol antioxidants protecting cells from oxidative stress-induced cytotoxicity. Redox states of Trx and GSH have been used as indicators of oxidative stress. Accumulating studies suggest that Trx and GSH redox systems regulate cell signaling and metabolic pathways differently and independently during diverse stressful conditions. In the current study, we used a mass spectrometry-based redox proteomics approach to test responses of the cysteine (Cys) proteome to selective disruption of the Trx- and GSH-dependent systems. Auranofin (ARF) was used to inhibit Trx reductase without detectable oxidation of the GSH/GSSG couple, and buthionine sulfoximine (BSO) was used to deplete GSH without detectable oxidation of Trx1. Results for 606 Cys-containing peptides (peptidyl Cys) showed that 36% were oxidized more than 1.3-fold by ARF, whereas BSO-induced oxidation of peptidyl Cys was only 10%. Mean fold oxidation of these peptides was also higher by ARF than BSO treatment. Analysis of potential functional pathways showed that ARF oxidized peptides associated with glycolysis, cytoskeleton remodeling, translation and cell adhesion. Of 60 peptidyl Cys oxidized due to depletion of GSH, 41 were also oxidized by ARF and included proteins of translation and cell adhesion but not glycolysis or cytoskeletal remodeling. Studies to test functional correlates showed that pyruvate kinase activity and lactate levels were decreased with ARF but not BSO, confirming the effects on glycolysis-associated proteins are sensitive to oxidation by ARF. These data show that the Trx system regulates a broader range of proteins than the GSH system, support distinct function of Trx and GSH in cellular redox control, and show for the first time in mammalian cells selective targeting peptidyl Cys and biological pathways due to deficient function of the Trx system. PMID:23946468

Selective chromogenic and fluorogenic peptide substrates for the assay of cysteine peptidases in complex mixtures.

PubMed

Semashko, Tatiana A; Vorotnikova, Elena A; Sharikova, Valeriya F; Vinokurov, Konstantin S; Smirnova, Yulia A; Dunaevsky, Yakov E; Belozersky, Mikhail A; Oppert, Brenda; Elpidina, Elena N; Filippova, Irina Y

2014-03-15

This study describes the design, synthesis, and use of selective peptide substrates for cysteine peptidases of the C1 papain family, important in many biological processes. The structure of the newly synthesized substrates is Glp-Xaa-Ala-Y (where Glp=pyroglutamyl; Xaa=Phe or Val; and Y=pNA [p-nitroanilide], AMC [4-amino-7-methylcoumaride], or AFC [4-amino-7-trifluoromethyl-coumaride]). Substrates were synthesized enzymatically to guarantee selectivity of the reaction and optical purity of the target compounds, simplifying the scheme of synthesis and isolation of products. The hydrolysis of the synthesized substrates was evaluated by C1 cysteine peptidases from different organisms and with different functions, including plant enzymes papain, bromelain, ficin, and mammalian lysosomal cathepsins B and L. The new substrates were selective for C1 cysteine peptidases and were not hydrolyzed by serine, aspartic, or metallo peptidases. We demonstrated an application of the selectivity of the synthesized substrates during the chromatographic separation of a multicomponent set of digestive peptidases from a beetle, Tenebrio molitor. Used in combination with the cysteine peptidase inhibitor E-64, these substrates were able to differentiate cysteine peptidases from peptidases of other classes in midgut extracts from T. molitor larvae and larvae of the genus Tribolium; thus, they are useful in the analysis of complex mixtures containing peptidases from different classes. Published by Elsevier Inc.

Effect of (L)-cysteine on acetaldehyde self-administration.

PubMed

Peana, Alessandra T; Muggironi, Giulia; Fois, Giulia R; Zinellu, Manuel; Sirca, Donatella; Diana, Marco

2012-08-01

Acetaldehyde (ACD), the first metabolite of ethanol, has been implicated in several behavioural actions of alcohol, including its reinforcing effects. Recently, we reported that l-cysteine, a sequestrating agent of ACD, reduced oral ethanol self-administration and that ACD was orally self-administered. This study examined the effects of l-cysteine pre-treatment during the acquisition and maintenance phases of ACD (0.2%) self-administration as well as on the deprivation effect after ACD extinction and on a progressive ratio (PR) schedule of reinforcement. In a separate PR schedule of reinforcement, the effect of l-cysteine was assessed on the break-point produced by ethanol (10%). Furthermore, we tested the effect of l-cysteine on saccharin (0.2%) reinforcement. Wistar rats were trained to self-administer ACD by nose poking on a fixed ratio (FR1) schedule in 30-min daily sessions. Responses on an active nose-poke caused delivery of ACD solution, whereas responses on an inactive nose-poke had no consequences. l-cysteine reduced the acquisition (40 mg/kg), the maintenance and the deprivation effect (100 mg/kg) of ACD self-administration. Furthermore, at the same dose, l-cysteine (120 mg/kg) decreased both ACD and ethanol break point. In addition, l-cysteine was unable to suppress the different responses for saccharin, suggesting that its effect did not relate to an unspecific decrease in a general motivational state. Compared to saline, l-cysteine did not modify responses on inactive nose-pokes, suggesting an absence of a non-specific behavioural activation. Taken together, these results could support the hypotheses that ACD possesses reinforcing properties and l-cysteine reduces motivation to self-administer ACD. Copyright © 2012 Elsevier Inc. All rights reserved.

Factors Supporting Cysteine Tolerance and Sulfite Production in Candida albicans

PubMed Central

Hennicke, Florian; Grumbt, Maria; Lermann, Ulrich; Ueberschaar, Nico; Palige, Katja; Böttcher, Bettina; Jacobsen, Ilse D.; Staib, Claudia; Morschhäuser, Joachim; Monod, Michel; Hube, Bernhard; Hertweck, Christian

2013-01-01

The amino acid cysteine has long been known to be toxic at elevated levels for bacteria, fungi, and humans. However, mechanisms of cysteine tolerance in microbes remain largely obscure. Here we show that the human pathogenic yeast Candida albicans excretes sulfite when confronted with increasing cysteine concentrations. Mutant construction and phenotypic analysis revealed that sulfite formation from cysteine in C. albicans relies on cysteine dioxygenase Cdg1, an enzyme with similar functions in humans. Environmental cysteine induced not only the expression of the CDG1 gene in C. albicans, but also the expression of SSU1, encoding a putative sulfite efflux pump. Accordingly, the deletion of SSU1 resulted in enhanced sensitivity of the fungal cells to both cysteine and sulfite. To study the regulation of sulfite/cysteine tolerance in more detail, we screened a C. albicans library of transcription factor mutants in the presence of sulfite. This approach and subsequent independent mutant analysis identified the zinc cluster transcription factor Zcf2 to govern sulfite/cysteine tolerance, as well as cysteine-inducible SSU1 and CDG1 gene expression. cdg1Δ and ssu1Δ mutants displayed reduced hypha formation in the presence of cysteine, indicating a possible role of the newly proposed mechanisms of cysteine tolerance and sulfite secretion in the pathogenicity of C. albicans. Moreover, cdg1Δ mutants induced delayed mortality in a mouse model of disseminated infection. Since sulfite is toxic and a potent reducing agent, its production by C. albicans suggests diverse roles during host adaptation and pathogenicity. PMID:23417561

DNA sensors and aptasensors based on the hemin/G-quadruplex-controlled aggregation of Au NPs in the presence of L-cysteine.

PubMed

Niazov-Elkan, Angelica; Golub, Eyal; Sharon, Etery; Balogh, Dora; Willner, Itamar

2014-07-23

L-cysteine induces the aggregation of Au nanoparticles (NPs), resulting in a color transition from red to blue due to interparticle plasmonic coupling in the aggregated structure. The hemin/G-quadruplex horseradish peroxidase-mimicking DNAzyme catalyzes the aerobic oxidation of L-cysteine to cystine, a process that inhibits the aggregation of the NPs. The degree of inhibition of the aggregation process is controlled by the concentration of the DNAzyme in the system. These functions are implemented to develop sensing platforms for the detection of a target DNA, for the analysis of aptamer-substrate complexes, and for the analysis of L-cysteine in human urine samples. A hairpin DNA structure that includes a recognition site for the DNA analyte and a caged G-quadruplex sequence, is opened in the presence of the target DNA. The resulting self-assembled hemin/G-quadruplex acts as catalyst that controls the aggregation of the Au NPs. Also, the thrombin-binding aptamer folds into a G-quadruplex nanostructure upon binding to thrombin. The association of hemin to the resulting G-quadruplex aptamer-thrombin complex leads to a catalytic label that controls the L-cysteine-mediated aggregation of the Au NPs. The hemin/G-qaudruplex-controlled aggregation of Au NPs process is further implemented for visual and spectroscopic detection of L-cysteine concentration in urine samples. © 2014 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Control of Clostridium difficile Physiopathology in Response to Cysteine Availability

PubMed Central

Dubois, Thomas; Dancer-Thibonnier, Marie; Monot, Marc; Hamiot, Audrey; Bouillaut, Laurent; Soutourina, Olga; Martin-Verstraete, Isabelle

2016-01-01

The pathogenicity of Clostridium difficile is linked to its ability to produce two toxins: TcdA and TcdB. The level of toxin synthesis is influenced by environmental signals, such as phosphotransferase system (PTS) sugars, biotin, and amino acids, especially cysteine. To understand the molecular mechanisms of cysteine-dependent repression of toxin production, we reconstructed the sulfur metabolism pathways of C. difficile strain 630 in silico and validated some of them by testing C. difficile growth in the presence of various sulfur sources. High levels of sulfide and pyruvate were produced in the presence of 10 mM cysteine, indicating that cysteine is actively catabolized by cysteine desulfhydrases. Using a transcriptomic approach, we analyzed cysteine-dependent control of gene expression and showed that cysteine modulates the expression of genes involved in cysteine metabolism, amino acid biosynthesis, fermentation, energy metabolism, iron acquisition, and the stress response. Additionally, a sigma factor (SigL) and global regulators (CcpA, CodY, and Fur) were tested to elucidate their roles in the cysteine-dependent regulation of toxin production. Among these regulators, only sigL inactivation resulted in the derepression of toxin gene expression in the presence of cysteine. Interestingly, the sigL mutant produced less pyruvate and H2S than the wild-type strain. Unlike cysteine, the addition of 10 mM pyruvate to the medium for a short time during the growth of the wild-type and sigL mutant strains reduced expression of the toxin genes, indicating that cysteine-dependent repression of toxin production is mainly due to the accumulation of cysteine by-products during growth. Finally, we showed that the effect of pyruvate on toxin gene expression is mediated at least in part by the two-component system CD2602-CD2601. PMID:27297391

Tachyon solutions in boundary and open string field theory

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

Calcagni, Gianluca; Nardelli, Giuseppe; Dipartimento di Matematica e Fisica, Universita Cattolica, via Musei 41, 25121 Brescia

2008-12-15

We construct rolling tachyon solutions of open and boundary string field theory (OSFT and BSFT, respectively), in the bosonic and supersymmetric (susy) case. The wildly oscillating solution of susy OSFT is recovered, together with a family of time-dependent BSFT solutions, for the bosonic and susy string. These are parametrized by an arbitrary constant r involved in solving the Green equation of the target fields. When r=0 we recover previous results in BSFT, whereas for r attaining the value predicted by OSFT it is shown that the bosonic OSFT solution is the derivative of the boundary one; in the supersymmetric casemore » the relation between the two solutions is more complicated. This technical correspondence sheds some light on the nature of wild oscillations, which appear in both theories whenever r>0.« less

Document retrieval on repetitive string collections.

PubMed

Gagie, Travis; Hartikainen, Aleksi; Karhu, Kalle; Kärkkäinen, Juha; Navarro, Gonzalo; Puglisi, Simon J; Sirén, Jouni

2017-01-01

Most of the fastest-growing string collections today are repetitive, that is, most of the constituent documents are similar to many others. As these collections keep growing, a key approach to handling them is to exploit their repetitiveness, which can reduce their space usage by orders of magnitude. We study the problem of indexing repetitive string collections in order to perform efficient document retrieval operations on them. Document retrieval problems are routinely solved by search engines on large natural language collections, but the techniques are less developed on generic string collections. The case of repetitive string collections is even less understood, and there are very few existing solutions. We develop two novel ideas, interleaved LCPs and precomputed document lists , that yield highly compressed indexes solving the problem of document listing (find all the documents where a string appears), top- k document retrieval (find the k documents where a string appears most often), and document counting (count the number of documents where a string appears). We also show that a classical data structure supporting the latter query becomes highly compressible on repetitive data. Finally, we show how the tools we developed can be combined to solve ranked conjunctive and disjunctive multi-term queries under the simple [Formula: see text] model of relevance. We thoroughly evaluate the resulting techniques in various real-life repetitiveness scenarios, and recommend the best choices for each case.

Worldsheet geometries of ambitwistor string

NASA Astrophysics Data System (ADS)

Ohmori, Kantaro

2015-06-01

Mason and Skinner proposed the ambitwistor string theory which directly reproduces the formulas for the amplitudes of massless particles proposed by Cachazo, He and Yuan. In this paper we discuss geometries of the moduli space of worldsheets associated to the bosonic or the RNS ambitwistor string. Further, we investigate the factorization properties of the amplitudes when an internal momentum is near on-shell in the abstract CFT language. Along the way, we propose the existence of the ambitwistor strings with three or four fermionic worldsheet currents.

CHARACTERIZATION OF DANSYLATED CYSTEINE, GLUTATHIONE DISULFIDE, CYSTEINE AND CYSTINE BY NARROW BORE LIQUID CHROMATOGRAPHY/ELECTROSPRAY IONIZATION MASS SPECTROMETRY

EPA Science Inventory

A method using reversed phase high performance liquid chromatography/electrospray ionization-mass spectrometric (RP-LC/ESI-MS) method has been developed to confirm the identity of dansylated derivatives of cysteine and glutathione, and their respective dimers. Cysteine, GSH, CSSC...

Scaling properties of cosmic (super)string networks

NASA Astrophysics Data System (ADS)

Martins, C. J. A. P.

2014-10-01

I use a combination of state-of-the-art numerical simulations and analytic modelling to discuss the scaling properties of cosmic defect networks, including superstrings. Particular attention is given to the role of extra degrees of freedom in the evolution of these networks. Compared to the 'plain vanilla' case of Goto-Nambu strings, three such extensions play important but distinct roles in the network dynamics: the presence of charges/currents on the string worldsheet, the existence of junctions, and the possibility of a hierarchy of string tensions. I also comment on insights gained from studying simpler defect networks, including Goto-Nambu strings themselves, domain walls and semilocal strings.

Light Z' in heterotic string standardlike models

NASA Astrophysics Data System (ADS)

Athanasopoulos, P.; Faraggi, A. E.; Mehta, V. M.

2014-05-01

The discovery of the Higgs boson at the LHC supports the hypothesis that the Standard Model provides an effective parametrization of all subatomic experimental data up to the Planck scale. String theory, which provides a viable perturbative approach to quantum gravity, requires for its consistency the existence of additional gauge symmetries beyond the Standard Model. The construction of heterotic string models with a viable light Z' is, however, highly constrained. We outline the construction of standardlike heterotic string models that allow for an additional Abelian gauge symmetry that may remain unbroken down to low scales. We present a string inspired model, consistent with the string constraints.

Modification of Keap1 Cysteine Residues by Sulforaphane

PubMed Central

Hu, Chenqi; Eggler, Aimee L.; Mesecar, Andrew D.; van Breemen, Richard B.

2011-01-01

Activation of the transcription factor NF-E2-related factor-2 (Nrf2) through modification of Kelch-like ECH-associated protein 1 (Keap1) cysteines, leading to up-regulation of the antioxidant response element (ARE), is an important mechanism of cellular defense against reactive oxygen species and xenobiotic electrophiles. Sulforaphane, occurring in cruciferous vegetables such as broccoli, is a potent natural ARE activator that functions by modifying Keap1 cysteine residues, but there are conflicting in vitro and in vivo data regarding which of these cysteine residues react. Although most biological data indicate that modification of C151 is essential for sulforaphane action, some recent studies using mass spectrometry have failed to identify C151 as a site of Keap1 sulforaphane reaction. We have reconciled these conflicting data using mass spectrometry with a revised sample preparation protocol and confirmed that C151 is indeed among the most readily modified cysteines of Keap1 by sulforaphane. Previous mass spectrometry-based studies used iodoacetamide during sample preparation to derivatize free cysteine sulfhydryl groups causing loss of sulforaphane from highly reactive and reversible cysteine residues on Keap1 including C151. By omitting iodoacetamide from the protocol and reducing sample preparation time, our mass spectrometry-based studies now confirm previous cell-based studies which showed that sulforaphane reacts with at least four cysteine residues of Keap1 including C151. PMID:21391649

Compression of strings with approximate repeats.

PubMed

Allison, L; Edgoose, T; Dix, T I

1998-01-01

We describe a model for strings of characters that is loosely based on the Lempel Ziv model with the addition that a repeated substring can be an approximate match to the original substring; this is close to the situation of DNA, for example. Typically there are many explanations for a given string under the model, some optimal and many suboptimal. Rather than commit to one optimal explanation, we sum the probabilities over all explanations under the model because this gives the probability of the data under the model. The model has a small number of parameters and these can be estimated from the given string by an expectation-maximization (EM) algorithm. Each iteration of the EM algorithm takes O(n2) time and a few iterations are typically sufficient. O(n2) complexity is impractical for strings of more than a few tens of thousands of characters and a faster approximation algorithm is also given. The model is further extended to include approximate reverse complementary repeats when analyzing DNA strings. Tests include the recovery of parameter estimates from known sources and applications to real DNA strings.

Transplanckian censorship and global cosmic strings

NASA Astrophysics Data System (ADS)

Dolan, Matthew J.; Draper, Patrick; Kozaczuk, Jonathan; Patel, Hiren

2017-04-01

Large field excursions are required in a number of axion models of inflation. These models also possess global cosmic strings, around which the axion follows a path mirroring the inflationary trajectory. Cosmic strings are thus an interesting theoretical laboratory for the study of transplanckian field excursions. We describe connections be-tween various effective field theory models of axion monodromy and study the classical spacetimes around their supercritical cosmic strings. For small decay constants f < M p and large winding numbers n > M p /f , the EFT is under control and the string cores undergo topological inflation, which may be either of exponential or power-law type. We show that the exterior spacetime is nonsingular and equivalent to a decompactifying cigar geometry, with the radion rolling in a potential generated by axion flux. Signals are able to circumnavigate infinite straight strings in finite but exponentially long time, t ˜ e Δ a/ M p . For finite loops of supercritical string in asymptotically flat space, we argue that if topological inflation occurs, then topological censorship implies transplanckian censorship, or that external observers are forbidden from threading the loop and observing the full excursion of the axion.

String theory of the Regge intercept.

PubMed

Hellerman, S; Swanson, I

2015-03-20

Using the Polchinski-Strominger effective string theory in the covariant gauge, we compute the mass of a rotating string in D dimensions with large angular momenta J, in one or two planes, in fixed ratio, up to and including first subleading order in the large J expansion. This constitutes a first-principles calculation of the value for the order-J(0) contribution to the mass squared of a meson on the leading Regge trajectory in planar QCD with bosonic quarks. For open strings with Neumann boundary conditions, and for closed strings in D≥5, the order-J(0) term in the mass squared is exactly calculated by the semiclassical approximation. This term in the expansion is universal and independent of the details of the theory, assuming only D-dimensional Poincaré invariance and the absence of other infinite-range excitations on the string world volume, beyond the Nambu-Goldstone bosons.

Discovery and Mechanistic Characterization of Selective Inhibitors of H2S-producing Enzyme: 3-Mercaptopyruvate Sulfurtransferase (3MST) Targeting Active-site Cysteine Persulfide

PubMed Central

Hanaoka, Kenjiro; Sasakura, Kiyoshi; Suwanai, Yusuke; Toma-Fukai, Sachiko; Shimamoto, Kazuhito; Takano, Yoko; Shibuya, Norihiro; Terai, Takuya; Komatsu, Toru; Ueno, Tasuku; Ogasawara, Yuki; Tsuchiya, Yukihiro; Watanabe, Yasuo; Kimura, Hideo; Wang, Chao; Uchiyama, Masanobu; Kojima, Hirotatsu; Okabe, Takayoshi; Urano, Yasuteru; Shimizu, Toshiyuki; Nagano, Tetsuo

2017-01-01

Very recent studies indicate that sulfur atoms with oxidation state 0 or −1, called sulfane sulfurs, are the actual mediators of some physiological processes previously considered to be regulated by hydrogen sulfide (H2S). 3-Mercaptopyruvate sulfurtransferase (3MST), one of three H2S-producing enzymes, was also recently shown to produce sulfane sulfur (H2Sn). Here, we report the discovery of several potent 3MST inhibitors by means of high-throughput screening (HTS) of a large chemical library (174,118 compounds) with our H2S-selective fluorescent probe, HSip-1. Most of the identified inhibitors had similar aromatic ring-carbonyl-S-pyrimidone structures. Among them, compound 3 showed very high selectivity for 3MST over other H2S/sulfane sulfur-producing enzymes and rhodanese. The X-ray crystal structures of 3MST complexes with two of the inhibitors revealed that their target is a persulfurated cysteine residue located in the active site of 3MST. Precise theoretical calculations indicated the presence of a strong long-range electrostatic interaction between the persulfur anion of the persulfurated cysteine residue and the positively charged carbonyl carbon of the pyrimidone moiety of the inhibitor. Our results also provide the experimental support for the idea that the 3MST-catalyzed reaction with 3-mercaptopyruvate proceeds via a ping-pong mechanism. PMID:28079151

Geometry, topology, and string theory

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

Varadarajan, Uday

A variety of scenarios are considered which shed light upon the uses and limitations of classical geometric and topological notions in string theory. The primary focus is on situations in which D-brane or string probes of a given classical space-time see the geometry quite differently than one might naively expect. In particular, situations in which extra dimensions, non-commutative geometries as well as other non-local structures emerge are explored in detail. Further, a preliminary exploration of such issues in Lorentzian space-times with non-trivial causal structures within string theory is initiated.

String junction as a baryonic constituent

NASA Astrophysics Data System (ADS)

Kalashnikova, Yu. S.; Nefediev, A. V.

1996-02-01

We extend the model for QCD string with quarks to consider the Mercedes Benz string configuration describing the three-quark baryon. Under the assumption of adiabatic separation of quark and string junction motion we formulate and solve the classical equation of motion for the junction. We dare to quantize the motion of the junction, and discuss the impact of these modes on the baryon spectra.

Non-perturbative String Theory from Water Waves

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

Iyer, Ramakrishnan; Johnson, Clifford V.; /Southern California U.

2012-06-14

We use a combination of a 't Hooft limit and numerical methods to find non-perturbative solutions of exactly solvable string theories, showing that perturbative solutions in different asymptotic regimes are connected by smooth interpolating functions. Our earlier perturbative work showed that a large class of minimal string theories arise as special limits of a Painleve IV hierarchy of string equations that can be derived by a similarity reduction of the dispersive water wave hierarchy of differential equations. The hierarchy of string equations contains new perturbative solutions, some of which were conjectured to be the type IIA and IIB string theoriesmore » coupled to (4, 4k ? 2) superconformal minimal models of type (A, D). Our present paper shows that these new theories have smooth non-perturbative extensions. We also find evidence for putative new string theories that were not apparent in the perturbative analysis.« less

Axion string dynamics I: 2+1D

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

Fleury, Leesa M.; Moore, Guy D.

2016-05-03

If the axion exists and if the initial axion field value is uncorrelated at causally disconnected points, then it should be possible to predict the efficiency of cosmological axion production, relating the axionic dark matter density to the axion mass. The main obstacle to making this prediction is correctly treating the axion string cores. We develop a new algorithm for treating the axionic string cores correctly in 2+1 dimensions. When the axionic string cores are given their full physical string tension, axion production is about twice as efficient as in previous simulations. We argue that the string network in 2+1more » dimensions should behave very differently than in 3+1 dimensions, so this result cannot be simply carried over to the physical case. We outline how to extend our method to 3+1D axion string dynamics.« less

Role of Cysteines in Stabilizing the Randomized Receptor Binding Domains within Feline Leukemia Virus Envelope Proteins.

PubMed

Valdivieso-Torres, Leonardo; Sarangi, Anindita; Whidby, Jillian; Marcotrigiano, Joseph; Roth, Monica J

2015-12-30

within the randomized region have the highest transduction efficiencies. This emphasizes the importance of considering cysteine pairs in the design of new libraries. Furthermore, our data clearly indicate that these cysteines are essential for viral infectivity by presenting essential residues to the host cell receptor. These studies facilitate the screening of Env libraries for functional entry into target cells, allowing the identification of novel gammaretroviral Envs targeting alternative host cell receptors for gene and protein delivery. Copyright © 2016, American Society for Microbiology. All Rights Reserved.

Aspects of String Dualities

NASA Astrophysics Data System (ADS)

Orgera, Jacopo

In this thesis we investigate some aspects of String Dualities. In particular, in the context of Twistor-String/Field Theories duality, we present some partial results toward the understanding of Conformal Supergravity amplitudes. Also, in the context of AdS/CFT duality, we investigate: the role of Euclidean Wormholes in quantum de-coherence and the semiclassical decay of certain non-supersimmetric vacua.

Noncommutative-geometry model for closed bosonic strings

NASA Technical Reports Server (NTRS)

Sen, Siddhartha; Holman, R.

1987-01-01

It is shown how Witten's (1986) noncommutative geometry may be extended to describe the closed bosonic string. For closed strings, an explicit representation is provided of the integral operator needed to construct an action and of an associative product on string fields. The proper choice of the action of the integral operator and the associative product in order to give rise to a reasonable theory is explained, and the consequences of such a choice are discussed. It is shown that the ghost numbers of the operator and associative product can be chosen arbitrarily for both open and closed strings, and that this construct can be used as an action for interacting closed bosonic strings.

Cysteine-Accelerated Methanogenic Propionate Degradation in Paddy Soil Enrichment.

PubMed

Zhuang, Li; Ma, Jinlian; Tang, Jia; Tang, Ziyang; Zhou, Shungui

2017-05-01

Propionate degradation is a critical step during the conversion of complex organic matter under methanogenic conditions, and it requires a syntrophic cooperation between propionate-oxidizing bacteria and methanogenic archaea. Increasing evidences suggest that interspecies electron transfer for syntrophic metabolism is not limited to the reducing equivalents of hydrogen and formate. This study tested the ability of an electron shuttle to mediate interspecies electron transfer in syntrophic methanogenesis. We found that cysteine supplementation (100, 400, and 800 μM) accelerated CH 4 production from propionate in paddy soil enrichments. Of the concentrations tested, 100 μM cysteine was the most effective at enhancing propionate degradation to CH 4 , and the rates of CH 4 production and propionate degradation were increased by 109 and 79%, respectively, compared with the cysteine-free control incubations. We eliminated the possibility that the stimulatory effect of cysteine on methanogenesis was attributable to the function of cysteine as a methanogenic substrate in the presence of propionate. The potential catalytic effect involved cysteine serving as an electron carrier to mediate interspecies electron transfer in syntrophic propionate oxidization. The redox potential of cystine/cysteine, which is dependent on the concentration, might be more suitable to facilitate interspecies electron transfer between syntrophic partners at a concentration of 100 μM. Pelotomaculum, obligately syntrophic, propionate-oxidizing bacteria, and hydrogenotrophic methanogens of the family Methanobacteriaceae are predominant in cysteine-mediated methanogenic propionate degradation. The stimulatory effect of cysteine on syntrophic methanogenesis offers remarkable potential for improving the performance of anaerobic digestion and conceptually broaden strategies for interspecies electron transfer in syntrophic metabolism.

Effects of overlapping strings in pp collisions

DOE PAGES

Bierlich, Christian; Gustafson, Gösta; Lönnblad, Leif; ...

2015-03-26

In models for hadron collisions based on string hadronization, the strings are usually treated as independent, allowing no interaction between the confined colour fields. In studies of nucleus collisions it has been suggested that strings close in space can fuse to form "colour ropes." Such ropes are expected to give more strange particles and baryons, which also has been suggested as a signal for plasma formation. Overlapping strings can also be expected in pp collisions, where usually no phase transition is expected. In particular at the high LHC energies the expected density of strings is quite high. To investigate possiblemore » effects of rope formation, we present a model in which strings are allowed to combine into higher multiplets, giving rise to increased production of baryons and strangeness, or recombine into singlet structures and vanish. Also a crude model for strings recombining into junction structures is considered, again giving rise to increased baryon production. The models are implemented in the DIPSY MC event generator, using PYTHIA8 for hadronization, and comparison to pp minimum bias data, reveals improvement in the description of identified particle spectra.« less

A Platonic Sextet for Strings

ERIC Educational Resources Information Center

Schaffer, Karl

2012-01-01

The use of traditional string figures by the Dr. Schaffer and Mr. Stern Dance Ensemble led to experimentation with polyhedral string constructions. This article presents a series of polyhedra made with six loops of three colors which sequence through all the Platonic Solids.

21 CFR 184.1271 - L-Cysteine.

Code of Federal Regulations, 2010 CFR

2010-04-01

... Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) FOOD FOR HUMAN... Substances Affirmed as GRAS § 184.1271 L-Cysteine. (a) L-Cysteine is the chemical L-2-amino-3-mercaptopropanoic acid (C3H7O2NS). (b) The ingredient meets the appropriate part of the specification set forth in...

21 CFR 184.1271 - L-Cysteine.

Code of Federal Regulations, 2011 CFR

2011-04-01

... Drugs FOOD AND DRUG ADMINISTRATION, DEPARTMENT OF HEALTH AND HUMAN SERVICES (CONTINUED) FOOD FOR HUMAN... Substances Affirmed as GRAS § 184.1271 L-Cysteine. (a) L-Cysteine is the chemical L-2-amino-3-mercaptopropanoic acid (C3H7O2NS). (b) The ingredient meets the appropriate part of the specification set forth in...

Superconducting Strings in High Density QCD

NASA Astrophysics Data System (ADS)

Buckley, Kirk B. W.

2003-02-01

Recently it has been argued that the ground state of high density QCD is likely to be a combination of the CFL-phase along with condensation of the K0 field. This state spontaneously breaks a global U(1)Y symmetry, therefore one would expect the formation of U(1)Y global strings. We discuss the core structure of these strings and demonstrate that under some conditions the global U(1)Y symmetry may not be restored inside the string. Instead, K+ condensation occurs inside the core of the string if a relevant parameter \\cos θ {K0 } ≡ {{m{K0 }2 } {/ {{m{K0 }2 } {μ eff2 }}} ; . } {μ eff2 }} is larger than some critical value θK° ≥ θcrit. If this phenomenon happens, the U(1)Y strings become superconducting and may considerably influence the magnetic properties of dense quark matter, in particular in neutron stars.

Allicin and derivates are cysteine protease inhibitors with antiparasitic activity.

PubMed

Waag, Thilo; Gelhaus, Christoph; Rath, Jennifer; Stich, August; Leippe, Matthias; Schirmeister, Tanja

2010-09-15

Allicin and derivatives thereof inhibit the CAC1 cysteine proteases falcipain 2, rhodesain, cathepsin B and L in the low micromolar range. The structure-activity relationship revealed that only derivatives with primary carbon atom in vicinity to the thiosulfinate sulfur atom attacked by the active-site Cys residue are active against the target enzymes. Some compounds also show potent antiparasitic activity against Plasmodium falciparum and Trypanosoma brucei brucei. Copyright (c) 2010 Elsevier Ltd. All rights reserved.

Noncommutative Field Theories and (super)string Field Theories

NASA Astrophysics Data System (ADS)

Aref'eva, I. Ya.; Belov, D. M.; Giryavets, A. A.; Koshelev, A. S.; Medvedev, P. B.

2002-11-01

In this lecture notes we explain and discuss some ideas concerning noncommutative geometry in general, as well as noncommutative field theories and string field theories. We consider noncommutative quantum field theories emphasizing an issue of their renormalizability and the UV/IR mixing. Sen's conjectures on open string tachyon condensation and their application to the D-brane physics have led to wide investigations of the covariant string field theory proposed by Witten about 15 years ago. We review main ingredients of cubic (super)string field theories using various formulations: functional, operator, conformal and the half string formalisms. The main technical tools that are used to study conjectured D-brane decay into closed string vacuum through the tachyon condensation are presented. We describe also methods which are used to study the cubic open string field theory around the tachyon vacuum: construction of the sliver state, "comma" and matrix representations of vertices.

Bonder for Solar-Cell Strings

NASA Technical Reports Server (NTRS)

Garwood, G.; Frasch, W.

1982-01-01

String bonder for solar-cell arrays eliminates tedious manual assembly procedure that could damage cell face. Vacuum arm picks up face-down cell from cell-inverting work station and transfers it to string conveyor without changing cell orientation. Arm is activated by signal from microprocessor.

Type-I cosmic-string network

NASA Astrophysics Data System (ADS)

Hiramatsu, Takashi; Sendouda, Yuuiti; Takahashi, Keitaro; Yamauchi, Daisuke; Yoo, Chul-Moon

2013-10-01

We study the network of Type-I cosmic strings using the field-theoretic numerical simulations in the Abelian-Higgs model. For Type-I strings, the gauge field plays an important role, and thus we find that the correlation length of the strings is strongly dependent upon the parameter β, the ratio between the masses of the scalar field and the gauge field, namely, β=mφ2/mA2. In particular, if we take the cosmic expansion into account, the network becomes densest in the comoving box for a specific value of β for β<1.

Perceiving the affordance of string tension for power strokes in badminton: expertise allows effective use of all string tensions.

PubMed

Zhu, Qin

2013-01-01

Affordances mean opportunities for action. These affordances are important for sports performance and relevant to the abilities developed by skilled athletes. In racquet sports such as badminton, different players prefer widely different string tension because it is believed to provide opportunities for effective strokes. The current study examined whether badminton players can perceive the affordance of string tension for power strokes and whether the perception of affordance itself changed as a function of skill level. The results showed that string tension constrained the striking performance of both novice and recreational players, but not of expert players. When perceptual capability was assessed, perceptual mode did not affect perception of the optimal string tension. Skilled players successfully perceived the affordance of string tension, but only experts were concerned about saving energy. Our findings demonstrated that perception of the affordance of string tension in badminton was determined by action abilities. Furthermore, experts could adjust the action to maintain a superior level of performance based on the perception of affordance.

Classical probes of string/gauge theory duality

NASA Astrophysics Data System (ADS)

Ishizeki, Riei

The AdS/CFT correspondence has played an important role in the recent development of string theory. The reason is that it proposes a description of certain gauge theories in terms of string theory. It is such that simple string theory computations give information about the strong coupling regime of the gauge theory. Vice versa, gauge theory computations give information about string theory and quantum gravity. Although much is known about AdS/CFT, the precise map between the two sides of the correspondence is not completely understood. In the unraveling of such map classical string solutions play a vital role. In this thesis, several classical string solutions are proposed to help understand the AdS/CFT duality. First, rigidly rotating strings on a two-sphere are studied. Taking special limits of such solutions leads to two cases: the already known giant magnon solution, and a new solution which we call the single spike solution. Next, we compute the scattering phase shift of the single spike solutions and compare the result with the giant magnon solutions. Intriguingly, the results are the same up to non-logarithmic terms, indicating that the single spike solution should have the same rich spin chain structure as the giant magnon solution. Afterward, we consider open string solutions ending on the boundary of AdS5. The lines traced by the ends of such open strings can be viewed as Wilson loops in N = 4 SYM theory. After applying an inversion transformation, the open Wilson loops become closed Wilson loops whose expectation value is consistent with previously conjectured results. Next, several Wilson loops for N = 4 SYM in an AdS5 pp-wave background are considered and translated to the pure AdS 5 background and their interpretation as forward quark-gluon scattering is suggested. In the last part of this thesis, a class of classical solutions for closed strings moving in AdS3 x S 1 ⊂ AdS5 x S5 with energy E and spin S in AdS3 and angular momentum J and winding m

Dealing with methionine/homocysteine sulfur: cysteine metabolism to taurine and inorganic sulfur

PubMed Central

Ueki, Iori

2010-01-01

Synthesis of cysteine as a product of the transsulfuration pathway can be viewed as part of methionine or homocysteine degradation, with cysteine being the vehicle for sulfur conversion to end products (sulfate, taurine) that can be excreted in the urine. Transsulfuration is regulated by stimulation of cystathionine β-synthase and inhibition of methylene tetrahydrofolate reductase in response to changes in the level of S-adenosylmethionine, and this promotes homocysteine degradation when methionine availability is high. Cysteine is catabolized by several desulfuration reactions that release sulfur in a reduced oxidation state, generating sulfane sulfur or hydrogen sulfide (H2S), which can be further oxidized to sulfate. Cysteine desulfuration is accomplished by alternate reactions catalyzed by cystathionine β-synthase and cystathionine γ-lyase. Cysteine is also catabolized by pathways that require the initial oxidation of the cysteine thiol by cysteine dioxygenase to form cysteinesulfinate. The oxidative pathway leads to production of taurine and sulfate in a ratio of approximately 2:1. Relative metabolism of cysteine by desulfuration versus oxidative pathways is influenced by cysteine dioxygenase activity, which is low in animals fed low-protein diets and high in animals fed excess sulfur amino acids. Thus, desulfuration reactions dominate when cysteine is deficient, whereas oxidative catabolism dominates when cysteine is in excess. In rats consuming a diet with an adequate level of sulfur amino acids, about two thirds of cysteine catabolism occurs by oxidative pathways and one third by desulfuration pathways. Cysteine dioxygenase is robustly regulated in response to cysteine availability and may function to provide a pathway to siphon cysteine to less toxic metabolites than those produced by cysteine desulfuration reactions. PMID:20162368

Gravitational lensing effects of vacuum strings - Exact solutions

NASA Technical Reports Server (NTRS)

Gott, J. R., III

1985-01-01

Exact interior and exterior solutions to Einstein's field equations are derived for vacuum strings. The exterior solution for a uniform density vacuum string corresponds to a conical space while the interior solution is that of a spherical cap. For Mu equals 0-1/4 the external metric is ds-squared = -dt-squared + dr-squared + (1-4 Mu)-squared r-squared dphi-squared + dz-squared, where Mu is the mass per unit length in the string in Planck masses per Planck length. A maximum mass per unit length for a string is 6.73 x 10 to the 27th g/cm. It is shown that strings cause temperature fluctuations in the cosmic microwave background and produce equal brightness double QSO images separated by up to several minutes of arc. Formulae for lensing probabilities, image splittings, and time delays are derived for strings in a realistic cosmological setting. String searches using ST, the VLA, and the COBE satellite are discussed.

Diffusion of massive particles around an Abelian-Higgs string

NASA Astrophysics Data System (ADS)

Saha, Abhisek; Sanyal, Soma

2018-03-01

We study the diffusion of massive particles in the space time of an Abelian Higgs string. The particles in the early universe plasma execute Brownian motion. This motion of the particles is modeled as a two dimensional random walk in the plane of the Abelian Higgs string. The particles move randomly in the space time of the string according to their geodesic equations. We observe that for certain values of their energy and angular momentum, an overdensity of particles is observed close to the string. We find that the string parameters determine the distribution of the particles. We make an estimate of the density fluctuation generated around the string as a function of the deficit angle. Though the thickness of the string is small, the length is large and the overdensity close to the string may have cosmological consequences in the early universe.

Bell's Inequalities, Superquantum Correlations, and String Theory

DOE PAGES

Chang, Lay Nam; Lewis, Zachary; Minic, Djordje; ...

2011-01-01

We offermore » an interpretation of superquantum correlations in terms of a “doubly” quantum theory. We argue that string theory, viewed as a quantum theory with two deformation parameters, the string tension α ' , and the string coupling constant g s , is such a superquantum theory that transgresses the usual quantum violations of Bell's inequalities. We also discuss the ℏ → ∞ limit of quantum mechanics in this context. As a superquantum theory, string theory should display distinct experimentally observable supercorrelations of entangled stringy states.« less

Improving Upon String Methods for Transition State Discovery.

PubMed

Chaffey-Millar, Hugh; Nikodem, Astrid; Matveev, Alexei V; Krüger, Sven; Rösch, Notker

2012-02-14

Transition state discovery via application of string methods has been researched on two fronts. The first front involves development of a new string method, named the Searching String method, while the second one aims at estimating transition states from a discretized reaction path. The Searching String method has been benchmarked against a number of previously existing string methods and the Nudged Elastic Band method. The developed methods have led to a reduction in the number of gradient calls required to optimize a transition state, as compared to existing methods. The Searching String method reported here places new beads on a reaction pathway at the midpoint between existing beads, such that the resolution of the path discretization in the region containing the transition state grows exponentially with the number of beads. This approach leads to favorable convergence behavior and generates more accurate estimates of transition states from which convergence to the final transition states occurs more readily. Several techniques for generating improved estimates of transition states from a converged string or nudged elastic band have been developed and benchmarked on 13 chemical test cases. Optimization approaches for string methods, and pitfalls therein, are discussed.

Excited cosmic strings with superconducting currents

NASA Astrophysics Data System (ADS)

Hartmann, Betti; Michel, Florent; Peter, Patrick

2017-12-01

We present a detailed analysis of excited cosmic string solutions that possess superconducting currents. These currents can be excited inside the string core, and—if the condensate is large enough—can lead to the excitations of the Higgs field. Next to the case with global unbroken symmetry, we discuss also the effects of the gauging of this symmetry and show that excited condensates persist when coupled to an electromagnetic field. The space-time of such strings is also constructed by solving the Einstein equations numerically and we show how the local scalar curvature is modified by the excitation. We consider the relevance of our results on the cosmic string network evolution as well as observations of primordial gravitational waves and cosmic rays.

Confusing the heterotic string

NASA Astrophysics Data System (ADS)

Benett, D.; Brene, N.; Mizrachi, Leah; Nielsen, H. B.

1986-10-01

A confusion mechanism is proposed as a global modification of the heterotic string model. It envolves a confusion hypersurface across which the two E 8's of the heterotic string are permuted. A remarkable numerical coincidence is found which prevents an inconsistency in the model. The low energy limit of this theory (after compactification) is typically invariant under one E 8 only, thereby removing the shadow world from the original model.

Instantons in string theory

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

Ahlén, Olof, E-mail: olof.ahlen@aei.mpg.de

2015-12-17

These proceedings from the second Caesar Lattes meeting in Rio de Janeiro 2015 are a brief introduction to how automorphic forms appear in the low energy effective action of maximally supersymmetric string theory. The explicit example of the R{sup 4}-interaction of type IIB string theory in ten dimensions is discussed. Its Fourier expansion is interpreted in terms of perturbative and non-perturbative contributions to the four graviton amplitude.

Stochastic gravitational wave background from light cosmic strings

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

DePies, Matthew R.; Hogan, Craig J.

2007-06-15

Spectra of the stochastic gravitational wave backgrounds from cosmic strings are calculated and compared with present and future experimental limits. Motivated by theoretical expectations of light cosmic strings in superstring cosmology, improvements in experimental sensitivity, and recent demonstrations of large, stable loop formation from a primordial network, this study explores a new range of string parameters with masses lighter than previously investigated. A standard 'one-scale' model for string loop formation is assumed. Background spectra are calculated numerically for dimensionless string tensions G{mu}/c{sup 2} between 10{sup -7} and 10{sup -18}, and initial loop sizes as a fraction of the Hubble radiusmore » {alpha} from 0.1 to 10{sup -6}. The spectra show a low frequency power-law tail, a broad spectral peak due to loops decaying at the present epoch (including frequencies higher than their fundamental mode, and radiation associated with cusps), and a flat (constant energy density) spectrum at high frequencies due to radiation from loops that decayed during the radiation-dominated era. The string spectrum is distinctive and unlike any other known source. The peak of the spectrum for light strings appears at high frequencies, significantly affecting predicted signals. The spectra of the cosmic string backgrounds are compared with current millisecond pulsar limits and Laser Interferometer Space Antenna (LISA) sensitivity curves. For models with large stable loops ({alpha}=0.1), current pulsar-timing limits exclude G{mu}/c{sup 2}>10{sup -9}, a much tighter limit on string tension than achievable with other techniques, and within the range of current models based on brane inflation. LISA may detect a background from strings as light as G{mu}/c{sup 2}{approx_equal}10{sup -16}, corresponding to field theory strings formed at roughly 10{sup 11} GeV.« less

Strings on complex multiplication tori and rational conformal field theory with matrix level

NASA Astrophysics Data System (ADS)

Nassar, Ali

Conformal invariance in two dimensions is a powerful symmetry. Two-dimensional quantum field theories which enjoy conformal invariance, i.e., conformal field theories (CFTs) are of great interest in both physics and mathematics. CFTs describe the dynamics of the world sheet in string theory where conformal symmetry arises as a remnant of reparametrization invariance of the world-sheet coordinates. In statistical mechanics, CFTs describe the critical points of second order phase transitions. On the mathematics side, conformal symmetry gives rise to infinite dimensional chiral algebras like the Virasoro algebra or extensions thereof. This gave rise to the study of vertex operator algebras (VOAs) which is an interesting branch of mathematics. Rational conformal theories are a simple class of CFTs characterized by a finite number of representations of an underlying chiral algebra. The chiral algebra leads to a set of Ward identities which gives a complete non-perturbative solution of the RCFT. Identifying the chiral algebra of an RCFT is a very important step in solving it. Particularly interesting RCFTs are the ones which arise from the compactification of string theory as sigma-models on a target manifold M. At generic values of the geometric moduli of M, the corresponding CFT is not rational. Rationality can arise at particular values of the moduli of M. At these special values of the moduli, the chiral algebra is extended. This interplay between the geometric picture and the algebraic description encoded in the chiral algebra makes CFTs/RCFTs a perfect link between physics and mathematics. It is always useful to find a geometric interpretation of a chiral algebra in terms of a sigma-model on some target manifold M. Then the next step is to figure out the conditions on the geometric moduli of M which gives a RCFT. In this thesis, we limit ourselves to the simplest class of string compactifications, i.e., strings on tori. As Gukov and Vafa proved, rationality selects

Specifications for Managed Strings, Second Edition

DTIC Science & Technology

2010-05-01

const char * cstr , const size_t maxsize, const char *charset); 10 | CMU/SEI-2010-TR-018 Runtime-Constraints s shall not be a null pointer...strcreate_m function creates a managed string, referenced by s, given a conventional string cstr (which may be null or empty). maxsize specifies the...characters to those in the null-terminated byte string cstr (which may be empty). If charset is a null pointer, no restricted character set is defined. If

Cosmic Strings Stabilized by Quantum Fluctuations

NASA Astrophysics Data System (ADS)

Weigel, H.

2017-03-01

Fermion quantum corrections to the energy of cosmic strings are computed. A number of rather technical tools are needed to formulate this correction, and isospin and gauge invariance are employed to verify consistency of these tools. These corrections must also be included when computing the energy of strings that are charged by populating fermion bound states in its background. It is found that charged strings are dynamically stabilized in theories similar to the standard model of particle physics.

Trajectory Design for a Single-String Impactor Concept

NASA Technical Reports Server (NTRS)

Dono Perez, Andres; Burton, Roland; Stupl, Jan; Mauro, David

2017-01-01

This paper introduces a trajectory design for a secondary spacecraft concept to augment science return in interplanetary missions. The concept consist of a single-string probe with a kinetic impactor on board that generates an artificial plume to perform in-situ sampling. The trajectory design was applied to a particular case study that samples ejecta particles from the Jovian moon Europa. Results were validated using statistical analysis. Details regarding the navigation, targeting and disposal challenges related to this concept are presented herein.

Self-gravitating strings in 2+1 dimensions

NASA Astrophysics Data System (ADS)

Ben-Menahem, Shahar

1993-05-01

We present a family of classical spacetimes in 2+1 dimensions. Such a spacetime is produced by a Nambu-Goto self-gravitating string. Because of the special properties of three-dimensional gravity, the metric is completely described as a Minkowski space with two identified world sheets. In the flat limit, the standard string is recovered. The formalism is developed for an open string with massive end points, but applies to other boundary conditions as well. We consider another limit, where the string tension vanishes in geometrical units but the end masses produce finite deficit angles. In this limit, our open string reduces to the free-masses solution of Gott, which possesses closed timelike curves when the relative motion of the two masses is sufficiently rapid. It is shown that the induced world sheet Liouville mode obeys (-classically)- a sinh- or cosh-Gordon differential equation, which reduces to the Liouville equation in the flat limit. A quadratic-action formulation of this system is presented. The possibility and significance of quantizing the self-gravitating string is discussed.

The illusive sound of a Bundengan string

NASA Astrophysics Data System (ADS)

Parikesit, Gea O. F.; Kusumaningtyas, Indraswari

2017-09-01

The acoustics of a vibrating string is frequently used as a simple example of how physics can be applied in the field of art. In this paper we describe a simple experiment and analysis using a clipped string. This experiment can generate scientific curiosity among students because the sound generated by the string seem surprising to our senses. The first surprise comes from the gong-like sounds produced by the string, which we usually associate with metallic instruments rather than string instruments. The second surprise comes from the fact that when we shift the clip we perceive an increase of pitch, even though the measured value of the frequency with the maximum amplitude is actually decreased. We use high-speed video recording as well as audio spectral analysis to elucidate the physics behind these two surprises. A set of student activities is prepared to help them follow up their curiosity. Students can make their own clipped string, which is found in Indonesia in an instrument called Bundengan, by setting up their own prepared piano as invented by John Cage.

String solutions in spherically-symmetric f(R) gravity vacuum

NASA Astrophysics Data System (ADS)

Dil, Emre

Dynamical evolution of the cosmic string in a spherically symmetric f(R) gravity vacuum is studied for a closed and straight string. We first set the background spacetime metric for a constant curvature scalar R = R0, and obtain the Killing fields for it. Using the standard gauge coordinates and constraints for both closed and straight strings, we present the equation of motions and find the solutions of them. We then analyze the dynamics of the string by studying the behavior of the string radius and periastron radius, with respect to both proper time and azimuthal angle, for various values of f(R) functions. Consequently, we conclude that the value of f(R) dramatically affects the closed string collapse time and the straight string angular deviation.

Deforming baryons into confining strings

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

Hartnoll, Sean A.; Portugues, Ruben

2004-09-15

We find explicit probe D3-brane solutions in the infrared of the Maldacena-Nunez background. The solutions describe deformed baryon vertices: q external quarks are separated in spacetime from the remaining N-q. As the separation is taken to infinity we recover known solutions describing infinite confining strings in N=1 gauge theory. We present results for the mass of finite confining strings as a function of length. We also find probe D2-brane solutions in a confining type IIA geometry, the reduction of a G{sub 2} holonomy M theory background. The relation between these deformed baryons and confining strings is not as straightforward.

Molecularly imprinted polymer based electrochemical detection of L-cysteine at carbon paste electrode.

PubMed

Aswini, K K; Vinu Mohan, A M; Biju, V M

2014-04-01

A methacrylic acid (MAA) based molecularly imprinted polymer (MIP) modified carbon paste electrode (CPE) was developed for electrochemical detection of L-cysteine (Cys). Characterisation of MIP was done with FTIR and the modified electrode with cyclic voltammetry (CV) and differential pulse voltammetry (DPV). CV, DPV and impedance analysis demonstrated that the modified electrode is responsive towards the target molecule. The optimum percentage composition of MIP for MIP/CPE and the effect of pH towards the electrode response for Cys were studied. The detection of Cys in the range of 2×10(-8) to 18×10(-8)M at MIP/CPE was monitored by DPV with a limit of detection of 9.6nM and R(2) of 0.9974. Also, various physiological interferents such as ascorbic acid, L-tryptophan, D-glucose, D-cysteine and L-cysteine were found to have little effect on DPV response at MIP/CPE. The utility of the electrode was proved by the effective detection of Cys from tap water and human blood plasma samples with reproducible results. Copyright © 2014 Elsevier B.V. All rights reserved.

Formation of Electron Strings in Narrow Band Polar Semiconductors

NASA Astrophysics Data System (ADS)

Kusmartsev, F. V.

2000-01-01

We show that linear electron strings may arise in polar semiconductors. A single string consists of M spinless fermions trapped by an extended polarization well of a cigar shape. Inside the string the particles are free although they interact with each other via Coulomb forces. The strings arise as a result of an electronic phase separation associated with an instability of small adiabatic polarons. We have found the length of the string which depends on dielectric constants of semiconductors. The appearance of these electron strings may have an impact on the effect of stripe formation observed in a variety of high- Tc experiments.

The Illusive Sound of a Bundengan String

ERIC Educational Resources Information Center

Parikesit, Gea O. F.; Kusumaningtyas, Indraswari

2017-01-01

The acoustics of a vibrating string is frequently used as a simple example of how physics can be applied in the field of art. In this paper we describe a simple experiment and analysis using a clipped string. This experiment can generate scientific curiosity among students because the sound generated by the string seem surprising to our senses.…

A novel cysteine desulfurase influencing organosulfur compounds in Lentinula edodes

PubMed Central

Liu, Ying; Lei, Xiao-Yu; Chen, Lian-Fu; Bian, Yin-Bing; Yang, Hong; Ibrahim, Salam A.; Huang, Wen

2015-01-01

Organosulfur compounds are the basis for the unique aroma of Lentinula edodes, and cysteine sulfoxide lyase (C-S lyase) is the key enzyme in this trait. The enzyme from Alliium sativum has been crystallized and well-characterized; however, there have been no reports of the characterization of fungi C-S lyase at the molecular level. We identified a L. edodes C-S lyase (Lecsl), cloned a gene of Csl encoded Lecsl and then combined modeling, simulations, and experiments to understand the molecular basis of the function of Lecsl. Our analysis revealed Lecsl to be a novel cysteine desulfurase and not a type of cysteine sulfoxide lyase. The pyridoxal-5-phosphate (PLP) molecule bonded tightly to Lecsl to form a Lecsl-PLP complex. Moreover, the Lecsl had one active center that served to bind two kinds of substrates, S-methyl-L-cysteine sulfoxide and L-cysteine, and had both cysteine sulfoxide lyase and cysteine desulfurase activity. We found that the amino acid residue Asn393 was essential for the catalytic activity of Lecsl and that the gene Csl encoded a novel cysteine desulfurase to influence organosulfur compounds in L. edodes. Our results provide a new insight into understanding the formation of the unique aroma of L. edodes. PMID:26054293

A novel cysteine desulfurase influencing organosulfur compounds in Lentinula edodes.

PubMed

Liu, Ying; Lei, Xiao-Yu; Chen, Lian-Fu; Bian, Yin-Bing; Yang, Hong; Ibrahim, Salam A; Huang, Wen

2015-06-09

Organosulfur compounds are the basis for the unique aroma of Lentinula edodes, and cysteine sulfoxide lyase (C-S lyase) is the key enzyme in this trait. The enzyme from Alliium sativum has been crystallized and well-characterized; however, there have been no reports of the characterization of fungi C-S lyase at the molecular level. We identified a L. edodes C-S lyase (Lecsl), cloned a gene of Csl encoded Lecsl and then combined modeling, simulations, and experiments to understand the molecular basis of the function of Lecsl. Our analysis revealed Lecsl to be a novel cysteine desulfurase and not a type of cysteine sulfoxide lyase. The pyridoxal-5-phosphate (PLP) molecule bonded tightly to Lecsl to form a Lecsl-PLP complex. Moreover, the Lecsl had one active center that served to bind two kinds of substrates, S-methyl-L-cysteine sulfoxide and L-cysteine, and had both cysteine sulfoxide lyase and cysteine desulfurase activity. We found that the amino acid residue Asn393 was essential for the catalytic activity of Lecsl and that the gene Csl encoded a novel cysteine desulfurase to influence organosulfur compounds in L. edodes. Our results provide a new insight into understanding the formation of the unique aroma of L. edodes.

Reconstruction of piano hammer force from string velocity.

PubMed

Chaigne, Antoine

2016-11-01

A method is presented for reconstructing piano hammer forces through appropriate filtering of the measured string velocity. The filter design is based on the analysis of the pulses generated by the hammer blow and propagating along the string. In the five lowest octaves, the hammer force is reconstructed by considering two waves only: the incoming wave from the hammer and its first reflection at the front end. For the higher notes, four- or eight-wave schemes must be considered. The theory is validated on simulated string velocities by comparing imposed and reconstructed forces. The simulations are based on a nonlinear damped stiff string model previously developed by Chabassier, Chaigne, and Joly [J. Acoust. Soc. Am. 134(1), 648-665 (2013)]. The influence of absorption, dispersion, and amplitude of the string waves on the quality of the reconstruction is discussed. Finally, the method is applied to real piano strings. The measured string velocity is compared to the simulated velocity excited by the reconstructed force, showing a high degree of accuracy. A number of simulations are compared to simulated strings excited by a force derived from measurements of mass and acceleration of the hammer head. One application to an historic piano is also presented.

Hydraulic drill string breakdown and bleed off unit

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

Zeringue, F.J. Jr.

1987-02-17

An apparatus is described for use within an oil well rig for decoupling a tubing string into pipe segments comprising, in combination: rotary tong means for applying an unthreading torque to a first, upper pipe segment within the tubing string; torque resisting means for securing a second, lower pipe segment within the tubing string against the unthreading torque; containing means, intermediate the rotary tong means and the torque resisting means, enclosing a threaded joint of the tubing string, adapted for containing pressurized gases, liquids, and particulates, released from the threaded joint upon the decoupling; fluid communicating means for allowing fluidmore » communication between the containing means and a receiving point adapted for receiving the pressurized gases, liquids, and particulates; means for moving the rotary tong means, the torque resisting means and the containing means between a closed, engaging position with the tubing string and an open position; and means for horizontally moving the rotary tong means, the torque resisting means and the containing means between a position adjacent the tubing string and a position away from the tubing string.« less

Pinching parameters for open (super) strings

NASA Astrophysics Data System (ADS)

Playle, Sam; Sciuto, Stefano

2018-02-01

We present an approach to the parametrization of (super) Schottky space obtained by sewing together three-punctured discs with strips. Different cubic ribbon graphs classify distinct sets of pinching parameters; we show how they are mapped onto each other. The parametrization is particularly well-suited to describing the region within (super) moduli space where open bosonic or Neveu-Schwarz string propagators become very long and thin, which dominates the IR behaviour of string theories. We show how worldsheet objects such as the Green's function converge to graph theoretic objects such as the Symanzik polynomials in the α ' → 0 limit, allowing us to see how string theory reproduces the sum over Feynman graphs. The (super) string measure takes on a simple and elegant form when expressed in terms of these parameters.

Informing New String Programmes: Lessons Learned from an Australian Experience

ERIC Educational Resources Information Center

Murphy, Fintan; Rickard, Nikki; Gill, Anneliese; Grimmett, Helen

2011-01-01

Although there are many examples of notable string programmes there has been relatively little comparative analysis of these programmes. This paper examines three benchmark string programmes (The University of Illinois String Project, The Tower Hamlets String Teaching Project and Colourstrings) alongside Music4All, an innovative string programme…

K-theoretic aspects of string theory dualities

NASA Astrophysics Data System (ADS)

Mendez-Diez, Stefan Milo

String theory is a a physical field theory in which point particles are replaced by 1-manifolds propagating in time, called strings. The 2-manifold representing the time evolution of a string is called the string worldsheet. Strings can be either closed (meaning their worldsheets are closed surfaces) or open (meaning their worldsheets have boundary). A D-brane is a submanifold of the spacetime manifold on which string endpoints are constrained to lie. There are five different string theories that have supersymmetry, and they are all related by various dualities. This dissertation will review how D-branes are classified by K-theory. We will then explore the K-theoretic aspects of a hypothesized duality between the type I theory compactified on a 4-torus and the type IIA theory compactified on a K3 surface, by looking at a certain blow down of the singular limit of K3. This dissertation concludes by classifying D-branes on the type II orientifold Tn/Z2 when the Z2 action is multiplication by -1 and the H-flux is trivial. We find that classifying D-branes on the singular limit of K3, T4/Z2 by equivariant K-theory agrees with the classification of D-branes on a smooth K3 surface by ordinary K-theory.

Cysteine peptidases from Phytomonas serpens: biochemical and immunological approaches.

PubMed

Elias, Camila G R; Aor, Ana Carolina; Valle, Roberta S; d'Avila-Levy, Claudia M; Branquinha, Marta H; Santos, André L S

2009-12-01

Phytomonas serpens, a phytoflagellate trypanosomatid, shares common antigens with Trypanosoma cruzi. In the present work, we compared the hydrolytic capability of cysteine peptidases in both trypanosomatids. Trypanosoma cruzi epimastigotes presented a 10-fold higher efficiency in hydrolyzing the cysteine peptidase substrate Z-Phe-Arg-AMC than P. serpens promastigotes. Moreover, two weak cysteine-type gelatinolytic activities were detected in P. serpens, while a strong 50-kDa cysteine peptidase was observed in T. cruzi. Cysteine peptidase activities were detected at twofold higher levels in the cytoplasmic fraction when compared with the membrane-rich or the content released from P. serpens. The cysteine peptidase secreted by P. serpens cleaved several proteinaceous substrates. Corroborating these findings, the cellular distribution of the cruzipain-like molecules in P. serpens was attested through immunocytochemistry analysis. Gold particles were observed in all cellular compartments, including the cytoplasm, plasma membrane, flagellum, flagellar membrane and flagellar pocket. Interestingly, some gold particles were visualized free in the flagellar pocket, suggesting the release of the cruzipain-like molecule. The antigenic properties of the cruzipain-like molecules of P. serpens were also analyzed. Interestingly, sera from chagasic patients recognized both cellular and extracellular antigens of P. serpens, including the cruzipain-like molecule. These results point to the use of P. serpens antigens, especially the cruzipain-like cysteine-peptidases, as an alternative vaccination approach to T. cruzi infection.

l-cysteine reversibly inhibits glucose-induced biphasic insulin secretion and ATP production by inactivating PKM2

PubMed Central

Nakatsu, Daiki; Horiuchi, Yuta; Kano, Fumi; Noguchi, Yoshiyuki; Sugawara, Taichi; Takamoto, Iseki; Kubota, Naoto; Kadowaki, Takashi; Murata, Masayuki

2015-01-01

Increase in the concentration of plasma l-cysteine is closely associated with defective insulin secretion from pancreatic β-cells, which results in type 2 diabetes (T2D). In this study, we investigated the effects of prolonged l-cysteine treatment on glucose-stimulated insulin secretion (GSIS) from mouse insulinoma 6 (MIN6) cells and from mouse pancreatic islets, and found that the treatment reversibly inhibited glucose-induced ATP production and resulting GSIS without affecting proinsulin and insulin synthesis. Comprehensive metabolic analyses using capillary electrophoresis time-of-flight mass spectrometry showed that prolonged l-cysteine treatment decreased the levels of pyruvate and its downstream metabolites. In addition, methyl pyruvate, a membrane-permeable form of pyruvate, rescued l-cysteine–induced inhibition of GSIS. Based on these results, we found that both in vitro and in MIN6 cells, l-cysteine specifically inhibited the activity of pyruvate kinase muscle isoform 2 (PKM2), an isoform of pyruvate kinases that catalyze the conversion of phosphoenolpyruvate to pyruvate. l-cysteine also induced PKM2 subunit dissociation (tetramers to dimers/monomers) in cells, which resulted in impaired glucose-induced ATP production for GSIS. DASA-10 (NCGC00181061, a substituted N,N′-diarylsulfonamide), a specific activator for PKM2, restored the tetramer formation and the activity of PKM2, glucose-induced ATP production, and biphasic insulin secretion in l-cysteine–treated cells. Collectively, our results demonstrate that impaired insulin secretion due to exposure to l-cysteine resulted from its direct binding and inactivation of PKM2 and suggest that PKM2 is a potential therapeutic target for T2D. PMID:25713368

The Physics of "String Passing through Ice"

ERIC Educational Resources Information Center

Mohazzabi, Pirooz

2011-01-01

One of the oldest yet interesting experiments related to heat and thermodynamics is placing a string on a block of ice and hanging two masses from the ends of the string. Sometime later, it is discovered that the string has passed through the ice without cutting it in half. A simple explanation of this effect is that the pressure caused by the…

Antibacterial Effect of Cysteine-Nitrosothiol and Possible Percursors Thereof

PubMed Central

Incze, K.; Farkas, J.; Mihályi, Vilma; Zukál, E.

1974-01-01

The postulated intermediate of nitrite-myoglobin reaction, cysteine-nitrosothiol, was prepared and its antibacterial effect was tested on Salmonella strains, Streptococcus faecium, and spores and vegetative cells of Clostridium sporogenes. Cysteine-nitrosothiol showed a higher inhibitory effect than nitrite. Preliminary results on the effect of simultaneous use of nitrite and cysteine on Clostridium sporogenes spores were also presented. PMID:4589130

Neural-Network Quantum States, String-Bond States, and Chiral Topological States

NASA Astrophysics Data System (ADS)

Glasser, Ivan; Pancotti, Nicola; August, Moritz; Rodriguez, Ivan D.; Cirac, J. Ignacio

2018-01-01

Neural-network quantum states have recently been introduced as an Ansatz for describing the wave function of quantum many-body systems. We show that there are strong connections between neural-network quantum states in the form of restricted Boltzmann machines and some classes of tensor-network states in arbitrary dimensions. In particular, we demonstrate that short-range restricted Boltzmann machines are entangled plaquette states, while fully connected restricted Boltzmann machines are string-bond states with a nonlocal geometry and low bond dimension. These results shed light on the underlying architecture of restricted Boltzmann machines and their efficiency at representing many-body quantum states. String-bond states also provide a generic way of enhancing the power of neural-network quantum states and a natural generalization to systems with larger local Hilbert space. We compare the advantages and drawbacks of these different classes of states and present a method to combine them together. This allows us to benefit from both the entanglement structure of tensor networks and the efficiency of neural-network quantum states into a single Ansatz capable of targeting the wave function of strongly correlated systems. While it remains a challenge to describe states with chiral topological order using traditional tensor networks, we show that, because of their nonlocal geometry, neural-network quantum states and their string-bond-state extension can describe a lattice fractional quantum Hall state exactly. In addition, we provide numerical evidence that neural-network quantum states can approximate a chiral spin liquid with better accuracy than entangled plaquette states and local string-bond states. Our results demonstrate the efficiency of neural networks to describe complex quantum wave functions and pave the way towards the use of string-bond states as a tool in more traditional machine-learning applications.

Stereoselective HDAC inhibition from cysteine-derived zinc-binding groups.

PubMed

Butler, Kyle V; He, Rong; McLaughlin, Kathryn; Vistoli, Giulio; Langley, Brett; Kozikowski, Alan P

2009-08-01

A series of small-molecule histone deacetylase (HDAC) inhibitors, which feature zinc binding groups derived from cysteine, were synthesized. These inhibitors were tested against multiple HDAC isoforms, and the most potent, compound 10, was determined to have IC(50) values below 1 microM. The compounds were also tested in a cellular assay of oxidative stress-induced neurodegeneration. Many of the inhibitors gave near-complete protection against cell death at 10 microM without the neurotoxicity seen with hydroxamic acid-based inhibitors, and were far more neuroprotective than HDAC inhibitors currently in clinical trials. Both enantiomers of cysteine were used in the synthesis of a variety of novel zinc-binding groups (ZBGs). Derivatives of L-cysteine were active in the HDAC inhibition assays, while the derivatives of D-cysteine were inactive. Notably, the finding that both the D- and L-cysteine derivatives were active in the neuroprotection assays suggests that multiple mechanisms are working to protect the neurons from cell death. Molecular modeling was employed to investigate the differences in inhibitory activity between the HDAC inhibitors generated from the two enantiomeric forms of cysteine.

Analytical Solutions to Backreaction on Cosmic Strings

NASA Astrophysics Data System (ADS)

Wachter, Jeremy M.

2017-08-01

We present analytical studies of gravitational and electromagnetic backreaction on cosmic strings. For oscillating loops of cosmic string, we present a general argument for how kinks must change; additionally, we apply this general argument to the geometrically simple case of the Garfinkle-Vachaspati loop. Our results suggest that the formation of cusps on loops is delayed, and so we should expect fewer cuspy signatures to be seen in gravitational wave observations. Electromagnetic backreaction we show to reduce currents on a string at least as rapidly as necessary to avoid a paradox, and currents induced on a superconducting straight string will be asymptotically reduced to zero.

Redox Regulation of EGFR Signaling Through Cysteine Oxidation1

PubMed Central

Truong, Thu H.; Carroll, Kate S.

2012-01-01

Epidermal growth factor receptor (EGFR) exemplifies the family of receptor tyrosine kinases that mediate numerous cellular processes including growth, proliferation and differentiation. Moreover, gene amplification and EGFR mutations have been identified in a number of human malignancies, making this receptor an important target for the development of anticancer drugs. In addition to ligand-dependent activation and concomitant tyrosine phosphorylation, EGFR stimulation results in the localized generation of H2O2 by NADPH-dependent oxidases. In turn, H2O2 functions as a secondary messenger to regulate intracellular signaling cascades, largely through the modification of specific cysteine residues within redox-sensitive protein targets, including Cys797 in the EGFR active site. In this review, we highlight recent advances in our understanding of the mechanisms that underlie redox regulation of EGFR signaling and how these discoveries may form the basis for development of new therapeutic strategies to target this and other H2O2-modulated pathways. PMID:23186290

Self-Gravitating Fundamental Strings and Black Holes

NASA Technical Reports Server (NTRS)

Damour, T.; Veneziano, G.

1999-01-01

The configuration of typically highly excited M much greater than M(sub s) which is approximately equal to alpha(prime) to the 1/2 power string states is considered as the string coupling g is adiabatically increased. The size distribution of very massive single string states is studied and the mass shift, due to a long-range gravitational, dilatonic, and axionic attraction, is estimated.

PhD Thesis: String theory in the early universe

NASA Astrophysics Data System (ADS)

Gwyn, Rhiannon

2009-11-01

The intersection of string theory with cosmology is unavoidable in the early universe, and its exploration may shine light on both fields. In this thesis, three papers at this intersection are presented and reviewed, with the aim of providing a thorough and pedagogical guide to their results. First, we address the longstanding problem of finding a string theory realisation of the axion. Using warped compactifications in heterotic string theory, we show that the axion decay constant can be lowered to acceptable values by the warp factor. Next, we move to the subject of cosmic strings, whose network evolution could have important consequences for astrophysics and cosmology. In particular, there are quantitative differences between cosmic superstring networks and GUT cosmic string networks. We investigate the properties of cosmic superstring networks in warped backgrounds, giving the tension and properties of three-string junctions in these backgrounds. Finally, we examine the possibility that cosmic strings in heterotic string theory could be responsible for generating the galactic magnetic fields that seeded those observed today.

Cysteine Supplementation May be Beneficial in a Subgroup of Mitochondrial Translation Deficiencies.

PubMed

Bartsakoulia, Marina; Mϋller, Juliane S; Gomez-Duran, Aurora; Yu-Wai-Man, Patrick; Boczonadi, Veronika; Horvath, Rita

2016-08-30

Mitochondrial encephalomyopathies are severe, relentlessly progressive conditions and there are very few effective therapies available to date. We have previously suggested that in two rare forms of reversible mitochondrial disease (reversible infantile respiratory chain deficiency and reversible infantile hepatopathy) supplementation with L-cysteine can improve mitochondrial protein synthesis, since cysteine is required for the 2-thiomodification of mitochondrial tRNAs. We studied whether supplementation with L-cysteine or N-acetyl-cysteine (NAC) results in any improvement of the mitochondrial function in vitro in fibroblasts of patients with different genetic forms of abnormal mitochondrial translation. We studied in vitro in fibroblasts of patients carrying the common m.3243A>G and m.8344A>G mutations or autosomal recessive mutations in genes affecting mitochondrial translation, whether L-cysteine or N-acetyl-cysteine supplementation have an effect on mitochondrial respiratory chain function. Here we show that supplementation with L-cysteine, but not with N-acetyl-cysteine partially rescues the mitochondrial translation defect in vitro in fibroblasts of patients carrying the m.3243A>G and m.8344A>G mutations. In contrast, N-acetyl-cysteine had a beneficial effect on mitochondrial translation in TRMU and MTO1 deficient fibroblasts. Our results suggest that L-cysteine or N-acetyl-cysteine supplementation may be a potential treatment for selected subgroups of patients with mitochondrial translation deficiencies. Further studies are needed to explore the full potential of cysteine supplementation as a treatment for patients with mitochondrial disease.

Thermodynamical string fragmentation

NASA Astrophysics Data System (ADS)

Fischer, Nadine; Sjöstrand, Torbjörn

2017-01-01

The observation of heavy-ion-like behaviour in pp collisions at the LHC suggests that more physics mechanisms are at play than traditionally assumed. The introduction e.g. of quark-gluon plasma or colour rope formation can describe several of the observations, but as of yet there is no established paradigm. In this article we study a few possible modifications to the Pythia event generator, which describes a wealth of data but fails for a number of recent observations. Firstly, we present a new model for generating the transverse momentum of hadrons during the string fragmentation process, inspired by thermodynamics, where heavier hadrons naturally are suppressed in rate but obtain a higher average transverse momentum. Secondly, close-packing of strings is taken into account by making the temperature or string tension environment-dependent. Thirdly, a simple model for hadron rescattering is added. The effect of these modifications is studied, individually and taken together, and compared with data mainly from the LHC. While some improvements can be noted, it turns out to be nontrivial to obtain effects as big as required, and further work is called for.

NanoString, a novel digital color-coded barcode technology: current and future applications in molecular diagnostics.

PubMed

Tsang, Hin-Fung; Xue, Vivian Weiwen; Koh, Su-Pin; Chiu, Ya-Ming; Ng, Lawrence Po-Wah; Wong, Sze-Chuen Cesar

2017-01-01

Formalin-fixed, paraffin-embedded (FFPE) tissue sample is a gold mine of resources for molecular diagnosis and retrospective clinical studies. Although molecular technologies have expanded the range of mutations identified in FFPE samples, the applications of existing technologies are limited by the low nucleic acids yield and poor extraction quality. As a result, the routine clinical applications of molecular diagnosis using FFPE samples has been associated with many practical challenges. NanoString technologies utilize a novel digital color-coded barcode technology based on direct multiplexed measurement of gene expression and offer high levels of precision and sensitivity. Each color-coded barcode is attached to a single target-specific probe corresponding to a single gene which can be individually counted without amplification. Therefore, NanoString is especially useful for measuring gene expression in degraded clinical specimens. Areas covered: This article describes the applications of NanoString technologies in molecular diagnostics and challenges associated with its applications and the future development. Expert commentary: Although NanoString technology is still in the early stages of clinical use, it is expected that NanoString-based cancer expression panels would play more important roles in the future in classifying cancer patients and in predicting the response to therapy for better personal therapeutic care.

Self-similar motion of a Nambu-Goto string

NASA Astrophysics Data System (ADS)

Igata, Takahisa; Houri, Tsuyoshi; Harada, Tomohiro

2016-09-01

We study the self-similar motion of a string in a self-similar spacetime by introducing the concept of a self-similar string, which is defined as the world sheet to which a homothetic vector field is tangent. It is shown that in Nambu-Goto theory, the equations of motion for a self-similar string reduce to those for a particle. Moreover, under certain conditions such as the hypersurface orthogonality of the homothetic vector field, the equations of motion for a self-similar string simplify to the geodesic equations on a (pseudo)Riemannian space. As a concrete example, we investigate a self-similar Nambu-Goto string in a spatially flat Friedmann-Lemaître-Robertson-Walker expanding universe with self-similarity and obtain solutions of open and closed strings, which have various nontrivial configurations depending on the rate of the cosmic expansion. For instance, we obtain a circular solution that evolves linearly in the cosmic time while keeping its configuration by the balance between the effects of the cosmic expansion and string tension. We also show the instability for linear radial perturbation of the circular solutions.

Rapid synthesis of DNA-cysteine conjugates for expressed protein ligation

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

Lovrinovic, Marina; Niemeyer, Christof M.

2005-09-30

We report a rapid method for the covalent modification of commercially available amino-modified DNA oligonucleotides with a cysteine moiety. The resulting DNA-cysteine conjugates are versatile reagents for the efficient preparation of covalent DNA-protein conjugates by means of expressed protein ligation (EPL). The EPL method allows for the site-specific coupling of cysteine-modified DNA oligomers with recombinant intein-fusion proteins, the latter of which contain a C-terminal thioester enabling the mild and highly specific reaction with N-terminal cysteine compounds. We prepared a cysteine-modifier reagent in a single-step reaction which allows for the rapid and near quantitative synthesis of cysteine-DNA conjugates. The latter weremore » ligated with the green fluorescent protein mutant EYFP, recombinantly expressed as an intein-fusion protein, allowing for the mild and selective formation of EYFP-DNA conjugates in high yields of about 60%. We anticipate many applications of our approach, ranging from protein microarrays to the arising field of nanobiotechnology.« less

Note on tachyon actions in string theory

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

Headrick, Matthew

2009-02-15

A number of spacetime fields in string theory (notably the metric, dilaton, bosonic and type 0 bulk closed-string tachyon, and bosonic open-string tachyon) have the following property: whenever the spacetime field configuration factorizes in an appropriate sense, the matter sector of the world-sheet theory factorizes into a tensor product of two decoupled theories. Since the beta functions for such a product theory necessarily also factorize, this property strongly constrains the form of the spacetime action encoding those beta functions. We show that this constraint alone--without needing actually to compute any of the beta functions--is sufficient to fix the form ofmore » the two-derivative action for the metric-dilaton system, as well as the potential for the bosonic open-string tachyon. We also show that no action consistent with this constraint exists for the closed-string tachyon coupled to the metric and dilaton.« less

Pitch glide effect induced by a nonlinear string-barrier interaction

NASA Astrophysics Data System (ADS)

Kartofelev, Dmitri; Stulov, Anatoli; Välimäki, Vesa

2015-10-01

Interactions of a vibrating string with its supports and other spatially distributed barriers play a significant role in the physics of many stringed musical instruments. It is well known that the tone of the string vibrations is determined by the string supports, and that the boundary conditions of the string termination may cause a short-lasting initial fundamental frequency shifting. Generally, this phenomenon is associated with the nonlinear modulation of the stiff string tension. The aim of this paper is to study the initial frequency glide phenomenon that is induced only by the string-barrier interaction, apart from other possible physical causes, and without the interfering effects of dissipation and dispersion. From a numerical simulation perspective, this highly nonlinear problem may present various difficulties, not the least of which is the risk of numerical instability. We propose a numerically stable and a purely kinematic model of the string-barrier interaction, which is based on the travelling wave solution of the ideal string vibration. The model is capable of reproducing the motion of the vibrating string exhibiting the initial fundamental frequency glide, which is caused solely by the complex nonlinear interaction of the string with its termination. The results presented in this paper can expand our knowledge and understanding of the timbre evolution and the physical principles of sound generation of numerous stringed instruments, such as lutes called the tambura, sitar and biwa.

Energy in a String Wave

ERIC Educational Resources Information Center

Ng, Chiu-king

2010-01-01

When one end of a taut horizontal elastic string is shaken repeatedly up and down, a transverse wave (assume sine waveform) will be produced and travel along it. College students know this type of wave motion well. They know when the wave passes by, each element of the string will perform an oscillating up-down motion, which in mechanics is termed…

Chicken scFvs with an Artificial Cysteine for Site-Directed Conjugation

PubMed Central

Kim, Soohyun; Kim, Hyori; Chung, Junho

2016-01-01

For the site-directed conjugation of chemicals and radioisotopes to the chicken-derived single-chain variable fragment (scFv), we investigated amino acid residues replaceable with cysteine. By replacing each amino acid of the 157 chicken variable region framework residues (FR, 82 residues on VH and 75 on VL) with cysteine, 157 artificial cysteine mutants were generated and characterized. At least 27 residues on VL and 37 on VH could be replaced with cysteine while retaining the binding activity of the original scFv. We prepared three VL (L5, L6 and L7) and two VH (H13 and H16) mutants as scFv-Ckappa fusion proteins and showed that PEG-conjugation to the sulfhydryl group of the artificial cysteine was achievable in all five mutants. Because the charge around the cysteine residue affects the in vivo stability of thiol-maleimide conjugation, we prepared 16 charge-variant artificial cysteine mutants by replacing the flanking residues of H13 with charged amino acids and determined that the binding activity was not affected in any of the mutants except one. We prepared four charge-variant H13 artificial cysteine mutants (RCK, DCE, ECD and ECE) as scFv-Ckappa fusion proteins and confirmed that the reactivity of the sulfhydryl group on cysteine is active and their binding activity is retained after the conjugation process. PMID:26764487

Quantum vacuum interaction between two cosmic strings revisited

NASA Astrophysics Data System (ADS)

Muñoz-Castañeda, J. M.; Bordag, M.

2014-03-01

We reconsider the quantum vacuum interaction energy between two straight parallel cosmic strings. This problem was discussed several times in an approach treating both strings perturbatively and treating only one perturbatively. Here we point out that a simplifying assumption made by Bordag [Ann. Phys. (Berlin) 47, 93 (1990).] can be justified and show that, despite the global character of the background, the perturbative approach delivers a correct result. We consider the applicability of the scattering methods, developed in the past decade for the Casimir effect, for the cosmic string and find it not applicable. We calculate the scattering T-operator on one string. Finally, we consider the vacuum interaction of two strings when each carries a two-dimensional delta function potential.

Functional analysis of C1 family cysteine peptidases in the larval gut of Tenebrio molitor and Tribolium castaneum

USDA-ARS?s Scientific Manuscript database

We studied protein digestion the tenebrionids Tenebrio molitor and Tribolium castaneum, pests of stored grains and grain products, to identify potential targets for biopesticide development. Tenebrionid larvae have highly compartmentalized guts, with primarily cysteine peptidases in the acidic anter...

Two Studies of Pitch in String Instrument Vibrato: Perception and Pitch Matching Responses of University and High School String Players

ERIC Educational Resources Information Center

Geringer, John M.; MacLeod, Rebecca B.; Ellis, Julia C.

2014-01-01

We investigated pitch perception of string vibrato tones among string players in two separate studies. In both studies we used tones of acoustic instruments (violin and cello) as stimuli. In the first, we asked 192 high school and university string players to listen to a series of tonal pairs: one tone of each pair was performed with vibrato and…

String tightening as a self-organizing phenomenon.

PubMed

Banerjee, Bonny

2007-09-01

The phenomenon of self-organization has been of special interest to the neural network community throughout the last couple of decades. In this paper, we study a variant of the self-organizing map (SOM) that models the phenomenon of self-organization of the particles forming a string when the string is tightened from one or both of its ends. The proposed variant, called the string tightening self-organizing neural network (STON), can be used to solve certain practical problems, such as computation of shortest homotopic paths, smoothing paths to avoid sharp turns, computation of convex hull, etc. These problems are of considerable interest in computational geometry, robotics path-planning, artificial intelligence (AI) (diagrammatic reasoning), very large scale integration (VLSI) routing, and geographical information systems. Given a set of obstacles and a string with two fixed terminal points in a 2-D space, the STON model continuously tightens the given string until the unique shortest configuration in terms of the Euclidean metric is reached. The STON minimizes the total length of a string on convergence by dynamically creating and selecting feature vectors in a competitive manner. Proof of correctness of this anytime algorithm and experimental results obtained by its deployment have been presented in the paper.

On Atwood's Machine with a Nonzero Mass String

NASA Astrophysics Data System (ADS)

Tarnopolski, Mariusz

2015-11-01

Let us consider a classical high school exercise concerning two weights on a pulley and a string, illustrated in Fig. 1(a). A system like this is called an Atwood's machine and was invented by George Atwood in 1784 as a laboratory experiment to verify the mechanical laws of motion with constant acceleration. Nowadays, Atwood's machine is used for didactic purposes to demonstrate uniformly accelerated motion with acceleration arbitrarily smaller than the gravitational acceleration g. The simplest case is with a massless and frictionless pulley and a massless string. With little effort one can include the mass of the pulley in calculations. The mass of a string has been incorporated previously in some considerations and experiments. These include treatments focusing on friction, justifying the assumption of a massless string, incorporating variations in Earth's gravitational field, comparing the calculated value of g based on a simple experiment, taking the mass of the string into account in such a way that the resulting acceleration is constant, or in one exception solely focusing on a heavy string, but with a slightly different approach. Here we wish to provide i) a derivation of the acceleration and position dependence on the weights' masses based purely on basic dynamical reasoning similar to the conventional version of the exercise, and ii) focus on the influence of the string's linear density, or equivalently its mass, on the outcome compared to a massless string case.

Cysteine protects rabbit spermatozoa against reactive oxygen species-induced damages

PubMed Central

Fan, Xiaoteng; Pan, Yang; Lv, Shan; Pan, Chuanying; Lei, Anmin

2017-01-01

The process of cryopreservation results in over-production of reactive oxygen species, which is extremely detrimental to spermatozoa. The aim of this study was to investigate whether addition of cysteine to freezing extender would facilitate the cryosurvival of rabbit spermatozoa, and if so, how cysteine protects spermatozoa from cryodamages. Freshly ejaculated semen was diluted with Tris-citrate-glucose extender supplemented with different concentrations of cysteine. The motility, intact acrosomes, membrane integrity, mitochondrial potentials, 8-hydroxyguanosine level and sperm-zona pellucida binding capacity were examined. Furthermore, glutathione peroxidase (GPx) activity, glutathione content (GSH), and level of reactive oxygen species (ROS) and hydrogen peroxide of spermatozoa were analyzed. The values of motility, intact acrosomes, membrane integrity, mitochondrial potentials and sperm-zona pellucida binding capacity of the frozen-thawed spermatozoa in the treatment of cysteine were significantly higher than those of the control. Addition of cysteine to extenders improved the GPx activity and GSH content of spermatozoa, while lowered the ROS, DNA oxidative alterations and lipid peroxidation level, which makes spermatozoa avoid ROS to attack DNA, the plasma membrane and mitochondria. In conclusion, cysteine protects spermatozoa against ROS-induced damages during cryopreservation and post-thaw incubation. Addition of cysteine is recommended to facilitate the improvement of semen preservation for the rabbit breeding industry. PMID:28700739

Investigating possible biological targets of Bj-CRP, the first cysteine-rich secretory protein (CRISP) isolated from Bothrops jararaca snake venom.

PubMed

Lodovicho, Marina E; Costa, Tássia R; Bernardes, Carolina P; Menaldo, Danilo L; Zoccal, Karina F; Carone, Sante E; Rosa, José C; Pucca, Manuela B; Cerni, Felipe A; Arantes, Eliane C; Tytgat, Jan; Faccioli, Lúcia H; Pereira-Crott, Luciana S; Sampaio, Suely V

2017-01-04

Cysteine-rich secretory proteins (CRISPs) are commonly described as part of the protein content of snake venoms, nevertheless, so far, little is known about their biological targets and functions. Our study describes the isolation and characterization of Bj-CRP, the first CRISP isolated from Bothrops jararaca snake venom, also aiming at the identification of possible targets for its actions. Bj-CRP was purified using three chromatographic steps (Sephacryl S-200, Source 15Q and C18) and showed to be an acidic protein of 24.6kDa with high sequence identity to other snake venom CRISPs. This CRISP was devoid of proteolytic, hemorrhagic or coagulant activities, and it did not affect the currents from 13 voltage-gated potassium channel isoforms. Conversely, Bj-CRP induced inflammatory responses characterized by increase of leukocytes, mainly neutrophils, after 1 and 4h of its injection in the peritoneal cavity of mice, also stimulating the production of IL-6. Bj-CRP also acted on the human complement system, modulating some of the activation pathways and acting directly on important components (C3 and C4), thus inducing the generation of anaphylatoxins (C3a, C4a and C5a). Therefore, our results for Bj-CRP open up prospects for better understanding this class of toxins and its biological actions. Copyright © 2016 Elsevier Ireland Ltd. All rights reserved.

Free field theory as a string theory?

NASA Astrophysics Data System (ADS)

Gopakumar, Rajesh

2004-11-01

An approach to systematically implement open-closed string duality for free large N gauge theories is summarised. We show how the relevant closed string moduli space emerges from a reorganisation of the Feynman diagrams contributing to free field correlators. We also indicate why the resulting integrand on moduli space has the right features to be that of a string theory on AdS. To cite this article: R. Gopakumar, C. R. Physique 5 (2004).

CMB temperature bispectrum induced by cosmic strings

NASA Astrophysics Data System (ADS)

Hindmarsh, Mark; Ringeval, Christophe; Suyama, Teruaki

2009-10-01

The cosmic microwave background (CMB) bispectrum of the temperature anisotropies induced by a network of cosmic strings is derived for small angular scales, under the assumption that the principal cause of temperature fluctuations is the Gott-Kaiser-Stebbins effect. We provide analytical expressions for all isosceles triangle configurations in Fourier space. Their overall amplitude is amplified as the inverse cube of the angle and diverges for flat triangles. The isosceles configurations generically lead to a negative bispectrum with a power-law decay ℓ-6 for large multipole ℓ. However, collapsed triangles are found to be associated with a positive bispectrum whereas the squeezed triangles still exhibit negative values. We then compare our analytical estimates to a direct computation of the bispectrum from a set of 300 statistically independent temperature maps obtained from Nambu-Goto cosmic string simulations in a Friedmann-Lemaître-Robertson-Walker universe. We find good agreement for the overall amplitude, the power-law behavior, and the angle dependency of the various triangle configurations. At ℓ˜500 the cosmic string Gott-Kaiser-Stebbins effect contributes approximately the same equilateral CMB bispectrum amplitude as an inflationary model with |fNLloc|≃103, if the strings contribute about 10% of the temperature power spectrum at ℓ=10. Current bounds on fNL are not derived using cosmic string bispectrum templates, and so our fNL estimate cannot be used to derive bounds on strings. However it does suggest that string bispectrum templates should be included in the search of CMB non-Gaussianities.

Twistor-strings and gravity tree amplitudes

NASA Astrophysics Data System (ADS)

Adamo, Tim; Mason, Lionel

2013-04-01

Recently we discussed how Einstein supergravity tree amplitudes might be obtained from the original Witten and Berkovits twistor-string theory when external conformal gravitons are restricted to be Einstein gravitons. Here we obtain a more systematic understanding of the relationship between conformal and Einstein gravity amplitudes in that twistor-string theory. We show that although it does not in general yield Einstein amplitudes, we can nevertheless obtain some partial twistor-string interpretation of the remarkable formulae recently been found by Hodges and generalized to all tree amplitudes by Cachazo and Skinner. The Hodges matrix and its higher degree generalizations encode the world sheet correlators of the twistor string. These matrices control both Einstein amplitudes and those of the conformal gravity arising from the Witten and Berkovits twistor-string. Amplitudes in the latter case arise from products of the diagonal elements of the generalized Hodges matrices and reduced determinants give the former. The reduced determinants arise if the contractions in the worldsheet correlator are restricted to form connected trees at MHV. The (generalized) Hodges matrices arise as weighted Laplacian matrices for the graph of possible contractions in the correlators and the reduced determinants of these weighted Laplacian matrices give the sum of the connected tree contributions by an extension of the matrix-tree theorem.

Inhibition of trypanosomal cysteine proteinases by their propeptides.

PubMed

Lalmanach, G; Lecaille, F; Chagas, J R; Authié, E; Scharfstein, J; Juliano, M A; Gauthier, F

1998-09-25

The ability of the prodomains of trypanosomal cysteine proteinases to inhibit their active form was studied using a set of 23 overlapping 15-mer peptides covering the whole prosequence of congopain, the major cysteine proteinase of Trypanosoma congolense. Three consecutive peptides with a common 5-mer sequence YHNGA were competitive inhibitors of congopain. A shorter synthetic peptide consisting of this 5-mer sequence flanked by two Ala residues (AYHNGAA) also inhibited purified congopain. No residue critical for inhibition was identified in this sequence, but a significant improvement in Ki value was obtained upon N-terminal elongation. Procongopain-derived peptides did not inhibit lysosomal cathepsins B and L but did inhibit native cruzipain (from Dm28c clone epimastigotes), the major cysteine proteinase of Trypanosoma cruzi, the proregion of which also contains the sequence YHNGA. The positioning of the YHNGA inhibitory sequence within the prosegment of trypanosomal proteinases is similar to that covering the active site in the prosegment of cysteine proteinases, the three-dimensional structure of which has been resolved. This strongly suggests that trypanosomal proteinases, despite their long C-terminal extension, have a prosegment that folds similarly to that in related mammal and plant cysteine proteinases, resulting in reverse binding within the active site. Such reverse binding could also occur for short procongopain-derived inhibitory peptides, based on their resistance to proteolysis and their ability to retain inhibitory activity after prolonged incubation. In contrast, homologous peptides in related cysteine proteinases did not inhibit trypanosomal proteinases and were rapidly cleaved by these enzymes.

Hidden Symmetries in String Theory

NASA Astrophysics Data System (ADS)

Chervonyi, Iurii

In this thesis we study hidden symmetries within the framework of string theory. Symmetries play a very important role in physics: they lead to drastic simplifications, which allow one to compute various physical quantities without relying on perturbative techniques. There are two kinds of hidden symmetries investigated in this work: the first type is associated with dynamics of quantum fields and the second type is related to integrability of strings on various backgrounds. Integrability is a remarkable property of some theories that allows one to determine all dynamical properties of the system using purely analytical methods. The goals of this thesis are twofold: extension of hidden symmetries known in General Relativity to stringy backgrounds in higher dimensions and construction of new integrable string theories. In the context of the first goal we study hidden symmetries of stringy backgrounds, with and without supersymmetry. For supersymmetric geometries produced by D-branes we identify the backgrounds with solvable equations for geodesics, which can potentially give rise to integrable string theories. Relaxing the requirement of supersymmetry, we also study charged black holes in higher dimensions and identify their hidden symmetries encoded in so-called Killing(-Yano) tensors. We construct the explicit form of the Killing(-Yano) tensors for the charged rotating black hole in arbitrary number of dimensions, study behavior of such tensors under string dualities, and use the analysis of hidden symmetries to explain why exact solutions for black rings (black holes with non-spherical event horizons) in more than five dimensions remain elusive. As a byproduct we identify the standard parameterization of AdSp x Sq backgrounds with elliptic coordinates on a flat base. The second goal of this work is construction of new integrable string theories by applying continuous deformations of known examples. We use the recent developments called (generalized) lambda

L-cysteine suppresses ghrelin and reduces appetite in rodents and humans.

PubMed

McGavigan, A K; O'Hara, H C; Amin, A; Kinsey-Jones, J; Spreckley, E; Alamshah, A; Agahi, A; Banks, K; France, R; Hyberg, G; Wong, C; Bewick, G A; Gardiner, J V; Lehmann, A; Martin, N M; Ghatei, M A; Bloom, S R; Murphy, K G

2015-03-01

High-protein diets promote weight loss and subsequent weight maintenance, but are difficult to adhere to. The mechanisms by which protein exerts these effects remain unclear. However, the amino acids produced by protein digestion may have a role in driving protein-induced satiety. We tested the effects of a range of amino acids on food intake in rodents and identified l-cysteine as the most anorexigenic. Using rodents we further studied the effect of l-cysteine on food intake, behaviour and energy expenditure. We proceeded to investigate its effect on neuronal activation in the hypothalamus and brainstem before investigating its effect on gastric emptying and gut hormone release. The effect of l-cysteine on appetite scores and gut hormone release was then investigated in humans. l-Cysteine dose-dependently decreased food intake in both rats and mice following oral gavage and intraperitoneal administration. This effect did not appear to be secondary to behavioural or aversive side effects. l-Cysteine increased neuronal activation in the area postrema and delayed gastric emptying. It suppressed plasma acyl ghrelin levels and did not reduce food intake in transgenic ghrelin-overexpressing mice. Repeated l-cysteine administration decreased food intake in rats and obese mice. l-Cysteine reduced hunger and plasma acyl ghrelin levels in humans. Further work is required to determine the chronic effect of l-cysteine in rodents and humans on appetite and body weight, and whether l-cysteine contributes towards protein-induced satiety.

l-cysteine suppresses ghrelin and reduces appetite in rodents and humans

PubMed Central

McGavigan, A K; O'Hara, H C; Amin, A; Kinsey-Jones, J; Spreckley, E; Alamshah, A; Agahi, A; Banks, K; France, R; Hyberg, G; Wong, C; Bewick, G A; Gardiner, J V; Lehmann, A; Martin, N M; Ghatei, M A; Bloom, S R; Murphy, K G

2015-01-01

Background: High-protein diets promote weight loss and subsequent weight maintenance, but are difficult to adhere to. The mechanisms by which protein exerts these effects remain unclear. However, the amino acids produced by protein digestion may have a role in driving protein-induced satiety. Methods: We tested the effects of a range of amino acids on food intake in rodents and identified l-cysteine as the most anorexigenic. Using rodents we further studied the effect of l-cysteine on food intake, behaviour and energy expenditure. We proceeded to investigate its effect on neuronal activation in the hypothalamus and brainstem before investigating its effect on gastric emptying and gut hormone release. The effect of l-cysteine on appetite scores and gut hormone release was then investigated in humans. Results: l-Cysteine dose-dependently decreased food intake in both rats and mice following oral gavage and intraperitoneal administration. This effect did not appear to be secondary to behavioural or aversive side effects. l-Cysteine increased neuronal activation in the area postrema and delayed gastric emptying. It suppressed plasma acyl ghrelin levels and did not reduce food intake in transgenic ghrelin-overexpressing mice. Repeated l-cysteine administration decreased food intake in rats and obese mice. l-Cysteine reduced hunger and plasma acyl ghrelin levels in humans. Conclusions: Further work is required to determine the chronic effect of l-cysteine in rodents and humans on appetite and body weight, and whether l-cysteine contributes towards protein-induced satiety. PMID:25219528

Exact sum rules for inhomogeneous strings

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

Amore, Paolo, E-mail: paolo.amore@gmail.com

2013-11-15

We derive explicit expressions for the sum rules of the eigenvalues of inhomogeneous strings with arbitrary density and with different boundary conditions. We show that the sum rule of order N may be obtained in terms of a diagrammatic expansion, with (N−1)!/2 independent diagrams. These sum rules are used to derive upper and lower bounds to the energy of the fundamental mode of an inhomogeneous string; we also show that it is possible to improve these approximations taking into account the asymptotic behavior of the spectrum and applying the Shanks transformation to the sequence of approximations obtained to the differentmore » orders. We discuss three applications of these results. -- Highlights: •We derive an explicit expression for the sum rules of an inhomogeneous string. •We obtain a diagrammatic representation for the sum rules of a given order. •We obtain precise bounds on the lowest eigenvalue of the string.« less

Nail-biting stuff? The effect of N-acetyl cysteine on nail-biting.

PubMed

Berk, Michael; Jeavons, Sue; Dean, Olivia M; Dodd, Seetal; Moss, Kirsteen; Gama, Clarissa S; Malhi, Gin S

2009-07-01

N-acetyl cysteine (NAC) is a widely available nutraceutical with a variety of actions. As a precursor of cysteine and glutathione, it has antioxidant properties that may impact on mood and contribute to an effect on impulsivity and obsessive behaviour. Via its additional effect on glutamate via the cystine-glutamate exchange system, NAC has been shown to mediate impulsivity in preclinical models of addiction, reduce craving, and cue extinction. Further, by boosting glutathione, NAC acts as a potent antioxidant and has been shown in two positive, large-scale randomized placebo-controlled trials to affect negative symptoms in schizophrenia and depression in bipolar disorder. We describe three cases in which its actions specifically on nail-biting and associated anxiety may offer a potential treatment. The spontaneous findings are reported as part of an ongoing treatment trial examining the utility of NAC in bipolar disorder. Its actions, if robustly replicated, also point to potential treatment targets in glutathione or glutamate pathways in the brain.

Adventures in heterotic string phenomenology

NASA Astrophysics Data System (ADS)

Dundee, George Benjamin

In this Dissertation, we consider three topics in the study of effective field theories derived from orbifold compactifications of the heterotic string. In Chapter 2 we provide a primer for those interested in building models based on orbifold compactifications of the heterotic string. In Chapter 3, we analyze gauge coupling unification in the context of heterotic strings on anisotropic orbifolds. This construction is very much analogous to effective five dimensional orbifold GUT field theories. Our analysis assumes three fundamental scales, the string scale, M S, a compactification scale, MC, and a mass scale for some of the vector-like exotics, MEX; the other exotics are assumed to get mass at MS. In the particular models analyzed, we show that gauge coupling unification is not possible with MEX = M C and in fact we require MEX << MC ˜ 3 x 1016 GeV. We find that about 10% of the parameter space has a proton lifetime (from dimension six gauge exchange) 1033 yr ≲ tau(p → pi0e+) ≲ 1036 yr, which is potentially observable by the next generation of proton decay experiments. 80% of the parameter space gives proton lifetimes below Super-K bounds. In Chapter 4, we examine the relationship between the string coupling constant, gSTRING, and the grand unified gauge coupling constant, alphaGUT, in the models of Chapter 3. We find that the requirement that the theory be perturbative provides a non-trivial constraint on these models. Interestingly, there is a correlation between the proton decay rate (due to dimension six operators) and the string coupling constant in this class of models. Finally, we make some comments concerning the extension of these models to the six (and higher) dimensional case. In Chapter 5, we discuss the issues of supersymmetry breaking and moduli stabilization within the context of E8 ⊗ E8 heterotic orbifold constructions and, in particular, we focus on the class of "mini-landscape" models. These theories contain a non-Abelian hidden gauge

String Fragmentation Model in Space Radiation Problems

NASA Technical Reports Server (NTRS)

Tang, Alfred; Johnson, Eloise (Editor); Norbury, John W.; Tripathi, R. K.

2002-01-01

String fragmentation models such as the Lund Model fit experimental particle production cross sections very well in the high-energy limit. This paper gives an introduction of the massless relativistic string in the Lund Model and shows how it can be modified with a simple assumption to produce formulas for meson production cross sections for space radiation research. The results of the string model are compared with inclusive pion production data from proton-proton collision experiments.

Plasmodium cysteine repeat modular proteins 1-4: complex proteins with roles throughout the malaria parasite life cycle.

PubMed

Thompson, Joanne; Fernandez-Reyes, Delmiro; Sharling, Lisa; Moore, Sally G; Eling, Wijnand M; Kyes, Sue A; Newbold, Christopher I; Kafatos, Fotis C; Janse, Chris J; Waters, Andrew P

2007-06-01

The Cysteine Repeat Modular Proteins (PCRMP1-4) of Plasmodium, are encoded by a small gene family that is conserved in malaria and other Apicomplexan parasites. They are very large, predicted surface proteins with multipass transmembrane domains containing motifs that are conserved within families of cysteine-rich, predicted surface proteins in a range of unicellular eukaryotes, and a unique combination of protein-binding motifs, including a >100 kDa cysteine-rich modular region, an epidermal growth factor-like domain and a Kringle domain. PCRMP1 and 2 are expressed in life cycle stages in both the mosquito and vertebrate. They colocalize with PfEMP1 (P. falciparum Erythrocyte Membrane Antigen-1) during its export from P. falciparum blood-stage parasites and are exposed on the surface of haemolymph- and salivary gland-sporozoites in the mosquito, consistent with a role in host tissue targeting and invasion. Gene disruption of pcrmp1 and 2 in the rodent malaria model, P. berghei, demonstrated that both are essential for transmission of the parasite from the mosquito to the mouse and has established their discrete and important roles in sporozoite targeting to the mosquito salivary gland. The unprecedented expression pattern and structural features of the PCRMPs thus suggest a variety of roles mediating host-parasite interactions throughout the parasite life cycle.

Cosmological density fluctuations produced by vacuum strings

NASA Astrophysics Data System (ADS)

Vilenkin, A.

1981-04-01

Consideration is given to the possible role of vacuum domain strings produced in the grand unification phase transition in the early universe in the generation of the density fluctuations giving rise to galaxies. The cosmological evolution of the strings formed in the grand unification phase transition is analyzed, with attention given to possible mechanisms for the damping out of oscillations produced by tension in convoluted strings and closed loops. The cosmological density fluctuations introduced by infinite strings and closed loops smaller than the horizon are then shown to be capable of giving rise to mass condensations on a scale of approximately 10 to the 9th solar masses at the time of the decoupling of radiation from matter, around which the galaxies condense. Differences between the present theory and that suggested by Zel'dovich (1980) are pointed out, and it is noted that string formation at the grand unification phase transition is possible only if the manifold of the degenerate vacua of the gauge theory is not simply connected.

Mapping, Complementation, and Targets of the Cysteine Protease Actinidin in Kiwifruit1[C][W][OA

PubMed Central

Nieuwenhuizen, Niels J.; Maddumage, Ratnasiri; Tsang, Gianna K.; Fraser, Lena G.; Cooney, Janine M.; De Silva, H. Nihal; Green, Sol; Richardson, Kim A.; Atkinson, Ross G.

2012-01-01

Cysteine proteases (CPs) accumulate to high concentration in many fruit, where they are believed to play a role in fungal and insect defense. The fruit of Actinidia species (kiwifruit) exhibit a range of CP activities (e.g. the Actinidia chinensis variety YellowA shows less than 2% of the activity of Actinidia deliciosa variety Hayward). A major quantitative trait locus for CP activity was mapped to linkage group 16 in a segregating population of A. chinensis. This quantitative trait locus colocated with the gene encoding actinidin, the major acidic CP in ripe Hayward fruit encoded by the ACT1A-1 allele. Sequence analysis indicated that the ACT1A locus in the segregating A. chinensis population contained one functional allele (A-2) and three nonfunctional alleles (a-3, a-4, and a-5) each containing a unique frameshift mutation. YellowA kiwifruit contained two further alleles: a-6, which was nonfunctional because of a large insertion, and a-7, which produced an inactive enzyme. Site-directed mutagenesis of the act1a-7 protein revealed a residue that restored CP activity. Expression of the functional ACT1A-1 cDNA in transgenic plants complemented the natural YellowA mutations and partially restored CP activity in fruit. Two consequences of the increase in CP activity were enhanced degradation of gelatin-based jellies in vitro and an increase in the processing of a class IV chitinase in planta. These results provide new insight into key residues required for CP activity and the in vivo protein targets of actinidin. PMID:22039217

Energy and Momentum Transport in String Waves

ERIC Educational Resources Information Center

Juenker, D. W.

1976-01-01

Formulas are derived for the energy, momentum, and angular momentum transmitted by waves of arbitrary shape in an inextensible string by pure transverse waves in a string using Tait's procedure. (Author/CP)

Scattering of Cosmic Strings by Black Holes:. Loop Formation

NASA Astrophysics Data System (ADS)

Dubath, Florian; Sakellariadou, Mairi; Viallet, Claude Michel

We study the deformation of a long cosmic string by a nearby rotating black hole. We examine whether the deformation of a cosmic string, induced by the gravitational field of a Kerr black hole, may lead to the formation of a string loop. The segment of the string which enters the ergo-sphere of a rotating black hole gets deformed and, if it is sufficiently twisted, it can self-intersect, chopping off a loop. We find that the formation of a loop, via such a mechanism, is a rare event. It will only arise in a small region of the collision phase space, which depends on the string velocity, the impact parameter and the black hole angular momentum. We conclude that, generically, a long cosmic string is simply scattered, or captured, by a nearby rotating black hole.

Charged string loops in Reissner-Nordström black hole background

NASA Astrophysics Data System (ADS)

Oteev, Tursinbay; Kološ, Martin; Stuchlík, Zdeněk

2018-03-01

We study the motion of current carrying charged string loops in the Reissner-Nordström black hole background combining the gravitational and electromagnetic field. Introducing new electromagnetic interaction between central charge and charged string loop makes the string loop equations of motion to be non-integrable even in the flat spacetime limit, but it can be governed by an effective potential even in the black hole background. We classify different types of the string loop trajectories using effective potential approach, and we compare the innermost stable string loop positions with loci of the charged particle innermost stable orbits. We examine string loop small oscillations around minima of the string loop effective potential, and we plot radial profiles of the string loop oscillation frequencies for both the radial and vertical modes. We construct charged string loop quasi-periodic oscillations model and we compare it with observed data from microquasars GRO 1655-40, XTE 1550-564, and GRS 1915+105. We also study the acceleration of current carrying string loops along the vertical axis and the string loop ejection from RN black hole neighbourhood, taking also into account the electromagnetic interaction.

Exploring the spectrum of regularized bosonic string theory

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

Ambjørn, J., E-mail: ambjorn@nbi.dk; Makeenko, Y., E-mail: makeenko@nbi.dk

2015-03-15

We implement a UV regularization of the bosonic string by truncating its mode expansion and keeping the regularized theory “as diffeomorphism invariant as possible.” We compute the regularized determinant of the 2d Laplacian for the closed string winding around a compact dimension, obtaining the effective action in this way. The minimization of the effective action reliably determines the energy of the string ground state for a long string and/or for a large number of space-time dimensions. We discuss the possibility of a scaling limit when the cutoff is taken to infinity.

A note on closed-string interactions a la witten

NASA Astrophysics Data System (ADS)

Romans, L. J.

1987-08-01

We consider the problem of formulating a field theory of interacting closed strings analogous to Witten's open-string field theory. Two natural candidates have been suggested for an off-shell three-string interaction vertex: one scheme involves a cyclic geometric overlap in spacetime, while the other is obtained by ``stuttering'' the Fock-space realization of the open-string vertex. We demonstrate that these two approaches are in fact equivalent, utilizing the operator formalism as developed to describe Witten's theory. Implications of this result for the construction of closed-string theories are briefly discussed. Address after August 1, 1987: Department of Physics, University of Southern California, Los Angeles, CA 90089, USA.

Acoustic data transmission through a drill string

DOEpatents

Drumheller, D.S.

1988-04-21

Acoustical signals are transmitted through a drill string by canceling upward moving acoustical noise and by preconditioning the data in recognition of the comb filter impedance characteristics of the drill string. 5 figs.

The confining baryonic Y-strings on the lattice

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

Bakry, Ahmed S.; Chen, Xurong; Zhang, Peng-Ming

2016-01-22

In a string picture, the nucleon is conjectured as consisting of a Y-shaped gluonic string ended by constituent quarks. In this proceeding, we summarize our results on revealing the signature of the confining Y-bosonic string in the gluonic profile due to a system of three static quarks on the lattice at finite temperature. The analysis of the action density unveils a background of a filled-Δ distribution. However, we found that these Δ-shaped profiles are comprised of three Y-shaped Gaussian-like flux tubes. The length of the revealed Y-string-like distribution is maximum near the deconfinement point and approaches the geometrical minimal nearmore » the end of the QCD plateau. The action density width profile returns good fits to a baryonic string model for the junction fluctuations at large quark source separation.« less

CMB temperature bispectrum induced by cosmic strings

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

Hindmarsh, Mark; Ringeval, Christophe; Suyama, Teruaki

2009-10-15

The cosmic microwave background (CMB) bispectrum of the temperature anisotropies induced by a network of cosmic strings is derived for small angular scales, under the assumption that the principal cause of temperature fluctuations is the Gott-Kaiser-Stebbins effect. We provide analytical expressions for all isosceles triangle configurations in Fourier space. Their overall amplitude is amplified as the inverse cube of the angle and diverges for flat triangles. The isosceles configurations generically lead to a negative bispectrum with a power-law decay l{sup -6} for large multipole l. However, collapsed triangles are found to be associated with a positive bispectrum whereas the squeezedmore » triangles still exhibit negative values. We then compare our analytical estimates to a direct computation of the bispectrum from a set of 300 statistically independent temperature maps obtained from Nambu-Goto cosmic string simulations in a Friedmann-Lemaitre-Robertson-Walker universe. We find good agreement for the overall amplitude, the power-law behavior, and the angle dependency of the various triangle configurations. At l{approx}500 the cosmic string Gott-Kaiser-Stebbins effect contributes approximately the same equilateral CMB bispectrum amplitude as an inflationary model with |f{sub NL}{sup loc}|{approx_equal}10{sup 3}, if the strings contribute about 10% of the temperature power spectrum at l=10. Current bounds on f{sub NL} are not derived using cosmic string bispectrum templates, and so our f{sub NL} estimate cannot be used to derive bounds on strings. However it does suggest that string bispectrum templates should be included in the search of CMB non-Gaussianities.« less

Improved Tennis Racquets Have Tapered Strings

NASA Technical Reports Server (NTRS)

Noever, David A.

1995-01-01

Design concept for better performing tennis racquet. Essence of concept to taper strings in such way as to shift center of percussion (also called "sweet spot") toward the toe (outer end of racquet, farthest from player's hand). In addition to increasing power on serves, also improves player's control and feel of racquet in player's hand. Racquet less likely to twist in player's hand on off-center shots. Important element of better feel is better absorption of vibrations; especially for players having chronic arm problems. String material nylon, animal gut, or other naturally or artifically spun threads. String can be attached to conventional racquet frame.

Quantum fluctuations of the superconducting cosmic string

NASA Technical Reports Server (NTRS)

Zhang, Shoucheng

1987-01-01

Quantum fluctuations of the proposed superconducting string with Bose charge carriers are studied in terms of the vortices on the string world sheet. In the thermodynamical limit, it is found that they appear in the form of free vortices rather than as bound pairs. This fluctuation mode violates the topological conservation law on which superconductivity is based. However, this limit may not be reached. The critical size of the superconducting string is estimated as a function of the coupling constants involved.

A Computer String-Grammar of English.

ERIC Educational Resources Information Center

Sager, Naomi

This volume is the fourth in a series of detailed reports on a working computer program for the syntactic analysis of English sentences into their component strings. The report (1) records the considerations involved in various decisions among alternative grammatical formulations and presents the word-subclasses, the linguistic strings, etc., for…

Fitting cosmic microwave background data with cosmic strings and inflation.

PubMed

Bevis, Neil; Hindmarsh, Mark; Kunz, Martin; Urrestilla, Jon

2008-01-18

We perform a multiparameter likelihood analysis to compare measurements of the cosmic microwave background (CMB) power spectra with predictions from models involving cosmic strings. Adding strings to the standard case of a primordial spectrum with power-law tilt ns, we find a 2sigma detection of strings: f10=0.11+/-0.05, where f10 is the fractional contribution made by strings in the temperature power spectrum (at l=10). CMB data give moderate preference to the model ns=1 with cosmic strings over the standard zero-strings model with variable tilt. When additional non-CMB data are incorporated, the two models become on a par. With variable ns and these extra data, we find that f10<0.11, which corresponds to Gmicro<0.7x10(-6) (where micro is the string tension and G is the gravitational constant).

A group theoretic method for string loop diagram

NASA Astrophysics Data System (ADS)

Neveu, A.; West, P.

1987-08-01

The new approach to arbitrary string scattering proposed by the authors is used to compute the planar tadpole operator, including its measure, for the open bosonic string. The Virasoro gauge identities play a crucial role and are found to contain in general anomalous terms for open strings. Permanent address: Mathematics Department, King's College, London WC2R 2LS, UK.

Broad Resistance to ACCase Inhibiting Herbicides in a Ryegrass Population Is Due Only to a Cysteine to Arginine Mutation in the Target Enzyme

PubMed Central

Kaundun, Shiv Shankhar; Hutchings, Sarah-Jane; Dale, Richard Paul; McIndoe, Eddie

2012-01-01

Background The design of sustainable weed management strategies requires a good understanding of the mechanisms by which weeds evolve resistance to herbicides. Here we have conducted a study on the mechanism of resistance to ACCase inhibiting herbicides in a Lolium multiflorum population (RG3) from the UK. Methodology/Principal Findings Analysis of plant phenotypes and genotypes showed that all the RG3 plants (72%) that contained the cysteine to arginine mutation at ACCase codon position 2088 were resistant to ACCase inhibiting herbicides. Whole plant dose response tests on predetermined wild and mutant 2088 genotypes from RG3 and a standard sensitive population indicated that the C2088R mutation is the only factor conferring resistance to all ten ACCase herbicides tested. The associated resistance indices ranged from 13 for clethodim to over 358 for diclofop-methyl. Clethodim, the most potent herbicide was significantly affected even when applied on small mutant plants at the peri-emergence and one leaf stages. Conclusion/Significance This study establishes the clear and unambiguous importance of the C2088R target site mutation in conferring broad resistance to ten commonly used ACCase inhibiting herbicides. It also demonstrates that low levels “creeping”, multigenic, non target site resistance, is not always selected before single gene target site resistance appears in grass weed populations subjected to herbicide selection pressure. PMID:22768118

Probing the string winding sector

NASA Astrophysics Data System (ADS)

Aldazabal, Gerardo; Mayo, Martín; Nuñez, Carmen

2017-03-01

We probe a slice of the massive winding sector of bosonic string theory from toroidal compactifications of Double Field Theory (DFT). This string subsector corresponds to states containing one left and one right moving oscillators. We perform a generalized Kaluza Klein compactification of DFT on generic 2 n-dimensional toroidal constant backgrounds and show that, up to third order in fluctuations, the theory coincides with the corresponding effective theory of the bosonic string compactified on n-dimensional toroidal constant backgrounds, obtained from three-point amplitudes. The comparison between both theories is facilitated by noticing that generalized diffeomorphisms in DFT allow to fix generalized harmonic gauge conditions that help in identifying the physical degrees of freedom. These conditions manifest as conformal anomaly cancellation requirements on the string theory side. The explicit expression for the gauge invariant effective action containing the physical massless sector (gravity+antisymmetric+gauge+ scalar fields) coupled to towers of generalized Kaluza Klein massive states (corresponding to compact momentum and winding modes) is found. The action acquires a very compact form when written in terms of fields carrying O( n, n) indices, and is explicitly T-duality invariant. The global algebra associated to the generalized Kaluza Klein compactification is discussed.

Characterization of binary string statistics for syntactic landmine detection

NASA Astrophysics Data System (ADS)

Nasif, Ahmed O.; Mark, Brian L.; Hintz, Kenneth J.

2011-06-01

Syntactic landmine detection has been proposed to detect and classify non-metallic landmines using ground penetrating radar (GPR). In this approach, the GPR return is processed to extract characteristic binary strings for landmine and clutter discrimination. In our previous work, we discussed the preprocessing methodology by which the amplitude information of the GPR A-scan signal can be effectively converted into binary strings, which identify the impedance discontinuities in the signal. In this work, we study the statistical properties of the binary string space. In particular, we develop a Markov chain model to characterize the observed bit sequence of the binary strings. The state is defined as the number of consecutive zeros between two ones in the binarized A-scans. Since the strings are highly sparse (the number of zeros is much greater than the number of ones), defining the state this way leads to fewer number of states compared to the case where each bit is defined as a state. The number of total states is further reduced by quantizing the number of consecutive zeros. In order to identify the correct order of the Markov model, the mean square difference (MSD) between the transition matrices of mine strings and non-mine strings is calculated up to order four using training data. The results show that order one or two maximizes this MSD. The specification of the transition probabilities of the chain can be used to compute the likelihood of any given string. Such a model can be used to identify characteristic landmine strings during the training phase. These developments on modeling and characterizing the string statistics can potentially be part of a real-time landmine detection algorithm that identifies landmine and clutter in an adaptive fashion.

Symbol-String Sensitivity and Children's Reading

ERIC Educational Resources Information Center

Pammer, Kristen; Lavis, Ruth; Hansen, Peter; Cornelissen, Piers L.

2004-01-01

In this study of primary school children, a novel "symbol-string" task is used to assess sensitivity to the position of briefly presented non-alphabetic but letter-like symbols. The results demonstrate that sensitivity in the symbol-string task explains a unique proportion of the variability in children's contextual reading accuracy. Moreover,…

Got 'Em on a String: The Skills, Knowledge and Attributes of Group String Teachers in Queensland

ERIC Educational Resources Information Center

Ashton, Graham R.; Klopper, Christopher J.

2018-01-01

There appear to be considerable differences in the outcomes of group string teaching programs in Queensland. Some teachers appear to be able to generate, manage, and administrate highly efficacious programs; others seem to experience difficulty transferring the knowledge and skills required for students to become successful string players. As a…

Singing Strings.

ERIC Educational Resources Information Center

Riveire, Janine

1996-01-01

Recommends singing as an instructional strategy for string and other instrument classes. Maintains that singing familiarizes the student with the music and can serve as an illustrative example of musical techniques. Includes a list of tonal objectives found in repertory songs. Briefly reviews several instructional texts. (MJP)

Inhomogeneous Einstein-Rosen string cosmology

NASA Astrophysics Data System (ADS)

Clancy, Dominic; Feinstein, Alexander; Lidsey, James E.; Tavakol, Reza

1999-08-01

Families of anisotropic and inhomogeneous string cosmologies containing non-trivial dilaton and axion fields are derived by applying the global symmetries of the string effective action to a generalized Einstein-Rosen metric. The models exhibit a two-dimensional group of Abelian isometries. In particular, two classes of exact solutions are found that represent inhomogeneous generalizations of the Bianchi type VIh cosmology. The asymptotic behavior of the solutions is investigated and further applications are briefly discussed.

A novel colorimetric assay for rapid detection of cysteine and Hg²⁺ based on gold clusters.

PubMed

Wang, Yi-Wei; Tang, Shurong; Yang, Huang-Hao; Song, Hongbo

2016-01-01

Inhibition and recovery of the catalytic activity of bovine serum albumin-capped gold nanoclusters (BSA-AuNCs) is observed for the first time by introduction of cysteine and Hg(2+). The prepared BSA-AuNCs possess highly intrinsic peroxidase-like activity. It can catalyze the oxidation of 3, 3, 5, 5-tetramethylbenzidine by H2O2 to produce a blue colored product. Based on this phenomenon, a new colorimetric assay for rapid, selective and sensitive detection of cysteine and Hg(2+) in aqueous solution has been demonstrated. The interaction process between target molecule and BSA-AuNCs is very fast, so that the whole test can be completed within ten minutes. Moreover, the fabricated colorimetric sensor is simple and cost-effective, without the need of nucleic acid based recognition element and complicated washing, separation and labeling process, thus holds great promise for routine analysis of cysteine and Hg(2+) in real samples. Copyright © 2015 Elsevier B.V. All rights reserved.

Perturbations from cosmic strings in cold dark matter

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Stebbins, Albert

1992-01-01

A systematic linear analysis of the perturbations induced by cosmic strings in cold dark matter is presented. The power spectrum is calculated and it is found that the strings produce a great deal of power on small scales. It is shown that the perturbations on interesting scales are the result of many uncorrelated string motions, which indicates a much more Gaussian distribution than was previously supposed.

Perturbations from cosmic strings in cold dark matter

NASA Technical Reports Server (NTRS)

Albrecht, Andreas; Stebbins, Albert

1991-01-01

A systematic linear analysis of the perturbations induced by cosmic strings in cold dark matter is presented. The power spectrum is calculated and it is found that the strings produce a great deal of power on small scales. It is shown that the perturbations on interesting scales are the result of many uncorrelated string motions, which indicates a much more Gaussian distribution than was previously supposed.

Simulation of swimming strings immersed in a viscous fluid flow

NASA Astrophysics Data System (ADS)

Huang, Wei-Xi; Sung, Hyung Jin

2006-11-01

In nature, many phenomena involve interactions between flexible bodies and their surrounding viscous fluid, such as a swimming fish or a flapping flag. The intrinsic dynamics is complicate and not well understood. A flexible string can be regarded as a one-dimensional flag model. Many similarities can be found between the flapping string and swimming fish, although different wake speed results in a drag force for the flapping string and a propulsion force for the swimming fish. In the present study, we propose a mathematical formulation for swimming strings immersed in a viscous fluid flow. Fluid motion is governed by the Navier-Stokes equations and a momentum forcing is added in order to bring the fluid to move at the same velocity with the immersed surface. A flexible inextensible string model is described by another set of equations with an additional momentum forcing which is a result of the fluid viscosity and the pressure difference across the string. The momentum forcing is calculated by a feedback loop. Simulations of several numerical examples are carried out, including a hanging string which starts moving under gravity without ambient fluid, a swinging string immersed in a quiescent viscous fluid, a string swimming within a uniform surrounding flow, and flow over two side-by-side strings. The numerical results agree well with the theoretical analysis and previous experimental observations. Further simulation of a swimming fish is under consideration.

String Stability of a Linear Formation Flight Control System

NASA Technical Reports Server (NTRS)

Allen, Michael J.; Ryan, Jack; Hanson, Curtis E.; Parle, James F.

2002-01-01

String stability analysis of an autonomous formation flight system was performed using linear and nonlinear simulations. String stability is a measure of how position errors propagate from one vehicle to another in a cascaded system. In the formation flight system considered here, each i(sup th) aircraft uses information from itself and the preceding ((i-1)(sup th)) aircraft to track a commanded relative position. A possible solution for meeting performance requirements with such a system is to allow string instability. This paper explores two results of string instability and outlines analysis techniques for string unstable systems. The three analysis techniques presented here are: linear, nonlinear formation performance, and ride quality. The linear technique was developed from a worst-case scenario and could be applied to the design of a string unstable controller. The nonlinear formation performance and ride quality analysis techniques both use nonlinear formation simulation. Three of the four formation-controller gain-sets analyzed in this paper were limited more by ride quality than by performance. Formations of up to seven aircraft in a cascaded formation could be used in the presence of light gusts with this string unstable system.

Anaerobic Cysteine Degradation and Potential Metabolic Coordination in Salmonella enterica and Escherichia coli

PubMed Central

Loddeke, Melissa; Schneider, Barbara; Oguri, Tamiko; Mehta, Iti; Xuan, Zhenyu

2017-01-01

ABSTRACT Salmonella enterica has two CyuR-activated enzymes that degrade cysteine, i.e., the aerobic CdsH and an unidentified anaerobic enzyme; Escherichia coli has only the latter. To identify the anaerobic enzyme, transcript profiling was performed for E. coli without cyuR and with overexpressed cyuR. Thirty-seven genes showed at least 5-fold changes in expression, and the cyuPA (formerly yhaOM) operon showed the greatest difference. Homology suggested that CyuP and CyuA represent a cysteine transporter and an iron-sulfur-containing cysteine desulfidase, respectively. E. coli and S. enterica ΔcyuA mutants grown with cysteine generated substantially less sulfide and had lower growth yields. Oxygen affected the CyuR-dependent genes reciprocally; cyuP-lacZ expression was greater anaerobically, whereas cdsH-lacZ expression was greater aerobically. In E. coli and S. enterica, anaerobic cyuP expression required cyuR and cysteine and was induced by l-cysteine, d-cysteine, and a few sulfur-containing compounds. Loss of either CyuA or RidA, both of which contribute to cysteine degradation to pyruvate, increased cyuP-lacZ expression, which suggests that CyuA modulates intracellular cysteine concentrations. Phylogenetic analysis showed that CyuA homologs are present in obligate and facultative anaerobes, confirming an anaerobic function, and in archaeal methanogens and bacterial acetogens, suggesting an ancient origin. Our results show that CyuA is the major anaerobic cysteine-catabolizing enzyme in both E. coli and S. enterica, and it is proposed that anaerobic cysteine catabolism can contribute to coordination of sulfur assimilation and amino acid synthesis. IMPORTANCE Sulfur-containing compounds such as cysteine and sulfide are essential and reactive metabolites. Exogenous sulfur-containing compounds can alter the thiol landscape and intracellular redox reactions and are known to affect several cellular processes, including swarming motility, antibiotic sensitivity, and

Short superstrings and the structure of overlapping strings.

PubMed

Armen, C; Stein, C

1995-01-01

Given a collection of strings S = [s1,...,sn] over an alphabet sigma, a superstring alpha of S is a string containing each si as a substring, that is, for each i, 1 < or = i < or = n, alpha contains a block of magnitude of si consecutive characters that match si exactly. The shortest superstring problem is the problem of finding a superstring alpha of minimum length. The shortest superstring problem has applications in both computational biology and data compression. The shortest superstring problem is NP-hard (Gallant et al., 1980); in fact, it was recently shown to be MAX SNP-hard (Blum et al., 1994). Given the importance of the applications, several heuristics and approximation algorithms have been proposed. Constant factor approximation algorithms have been given in Blum et al. (1994) (factor of 3), Teng and Yao (1993) (factor of 2 8/9), Czumaj et al. (1994) (factor of 2 5/6), and Kosaraju et al. (1994) (factor of 2 50/63). Informally, the key to any algorithm for the shortest superstring problem is to identify sets of strings with large amounts of similarity, or overlap. Although the previous algorithms and their analyses have grown increasingly sophisticated, they reveal remarkably little about the structure of strings with large amounts of overlap. In this sense, they are solving a more general problem than the one at hand. In this paper, we study the structure of strings with large amounts of overlap and use our understanding to give an algorithm that finds a superstring whose length is no more than 2 3/4 times that of the optimal superstring. Our algorithm runs in O(magnitude of S + n3) time, which matches that of previous algorithms. We prove several interesting properties about short periodic strings, allowing us to answer questions of the following form: Given a string with some periodic structure, characterize all the possible periodic strings that can have a large amount of overlap with the first string.

Merging of multi-string BWTs with applications

PubMed Central

Holt, James; McMillan, Leonard

2014-01-01

Motivation: The throughput of genomic sequencing has increased to the point that is overrunning the rate of downstream analysis. This, along with the desire to revisit old data, has led to a situation where large quantities of raw, and nearly impenetrable, sequence data are rapidly filling the hard drives of modern biology labs. These datasets can be compressed via a multi-string variant of the Burrows–Wheeler Transform (BWT), which provides the side benefit of searches for arbitrary k-mers within the raw data as well as the ability to reconstitute arbitrary reads as needed. We propose a method for merging such datasets for both increased compression and downstream analysis. Results: We present a novel algorithm that merges multi-string BWTs in O(LCS×N) time where LCS is the length of their longest common substring between any of the inputs, and N is the total length of all inputs combined (number of symbols) using O(N×log2(F)) bits where F is the number of multi-string BWTs merged. This merged multi-string BWT is also shown to have a higher compressibility compared with the input multi-string BWTs separately. Additionally, we explore some uses of a merged multi-string BWT for bioinformatics applications. Availability and implementation: The MSBWT package is available through PyPI with source code located at https://code.google.com/p/msbwt/. Contact: holtjma@cs.unc.edu PMID:25172922

Notes on strings and higher spins

NASA Astrophysics Data System (ADS)

Sagnotti, A.

2013-05-01

This review is devoted to the intriguing and still largely unexplored links between string theory and higher spins, the types of excitations that lie behind their most cherished properties. A closer look at higher spin fields provides some further clues that string theory describes a broken phase of a higher spin gauge theory. Conversely, string amplitudes contain a wealth of information on higher spin interactions that can clarify long-standing issues related to their infrared behavior. This article is part of a special issue of Journal of Physics A: Mathematical and Theoretical devoted to ‘Higher spin theories and holography’. Based on the lectures presented at the International School for Subnuclear Physics Searching for the Unexpected at LHC and Status of Our Knowledge (Erice, June 24-July 3 2011) and on the talks presented at Strings, Branes and Supergravity (Istanbul, 31 July -5 Aug 2011), at QTS’07: Quantum Theory and Symmetries (Prague, 7-13 Aug. 2011) and at FFP’12: Fundamental Fields and Particles (Udine, 21-23 Nov. 2011).

Probing the String Landscape

ScienceCinema

Dienes, Keith

2018-01-10

We are currently in the throes of a potentially huge paradigm shift in physics. Motivated by recent developments in string theory and the discovery of the so-called "string landscape", physicists are beginning to question the uniqueness of fundamental theories of physics and the methods by which such theories might be understood and investigated. In this colloquium, I will give a non-technical introduction to the nature of this paradigm shift and how it developed. I will also discuss some of the questions to which it has led, and the nature of the controversies it has spawned.

Haptic Distal Spatial Perception Mediated by Strings: Haptic "Looming"

ERIC Educational Resources Information Center

Cabe, Patrick A.

2011-01-01

Five experiments tested a haptic analog of optical looming, demonstrating string-mediated haptic distal spatial perception. Horizontally collinear hooks supported a weighted string held taut by a blindfolded participant's finger midway between the hooks. At the finger, the angle between string segments increased as the finger approached…

Therapeutic NOTCH3 cysteine correction in CADASIL using exon skipping: in vitro proof of concept.

PubMed

Rutten, Julie W; Dauwerse, Hans G; Peters, Dorien J M; Goldfarb, Andrew; Venselaar, Hanka; Haffner, Christof; van Ommen, Gert-Jan B; Aartsma-Rus, Annemieke M; Lesnik Oberstein, Saskia A J

2016-04-01

Cerebral autosomal dominant arteriopathy with subcortical infarcts and leukoencephalopathy, or CADASIL, is a hereditary cerebral small vessel disease caused by characteristic cysteine altering missense mutations in the NOTCH3 gene. NOTCH3 mutations in CADASIL result in an uneven number of cysteine residues in one of the 34 epidermal growth factor like-repeat (EGFr) domains of the NOTCH3 protein. The consequence of an unpaired cysteine residue in an EGFr domain is an increased multimerization tendency of mutant NOTCH3, leading to toxic accumulation of the protein in the (cerebro)vasculature, and ultimately reduced cerebral blood flow, recurrent stroke and vascular dementia. There is no therapy to delay or alleviate symptoms in CADASIL. We hypothesized that exclusion of the mutant EGFr domain from NOTCH3 would abolish the detrimental effect of the unpaired cysteine and thus prevent toxic NOTCH3 accumulation and the negative cascade of events leading to CADASIL. To accomplish this NOTCH3 cysteine correction by EGFr domain exclusion, we used pre-mRNA antisense-mediated skipping of specific NOTCH3 exons. Selection of these exons was achieved using in silico studies and based on the criterion that skipping of a particular exon or exon pair would modulate the protein in such a way that the mutant EGFr domain is eliminated, without otherwise corrupting NOTCH3 structure and function. Remarkably, we found that this strategy closely mimics evolutionary events, where the elimination and fusion of NOTCH EGFr domains led to the generation of four functional NOTCH homologues. We modelled a selection of exon skip strategies using cDNA constructs and show that the skip proteins retain normal protein processing, can bind ligand and be activated by ligand. We then determined the technical feasibility of targeted NOTCH3 exon skipping, by designing antisense oligonucleotides targeting exons 2-3, 4-5 and 6, which together harbour the majority of distinct CADASIL-causing mutations

Prediction of redox-sensitive cysteines using sequential distance and other sequence-based features.

PubMed

Sun, Ming-An; Zhang, Qing; Wang, Yejun; Ge, Wei; Guo, Dianjing

2016-08-24

Reactive oxygen species can modify the structure and function of proteins and may also act as important signaling molecules in various cellular processes. Cysteine thiol groups of proteins are particularly susceptible to oxidation. Meanwhile, their reversible oxidation is of critical roles for redox regulation and signaling. Recently, several computational tools have been developed for predicting redox-sensitive cysteines; however, those methods either only focus on catalytic redox-sensitive cysteines in thiol oxidoreductases, or heavily depend on protein structural data, thus cannot be widely used. In this study, we analyzed various sequence-based features potentially related to cysteine redox-sensitivity, and identified three types of features for efficient computational prediction of redox-sensitive cysteines. These features are: sequential distance to the nearby cysteines, PSSM profile and predicted secondary structure of flanking residues. After further feature selection using SVM-RFE, we developed Redox-Sensitive Cysteine Predictor (RSCP), a SVM based classifier for redox-sensitive cysteine prediction using primary sequence only. Using 10-fold cross-validation on RSC758 dataset, the accuracy, sensitivity, specificity, MCC and AUC were estimated as 0.679, 0.602, 0.756, 0.362 and 0.727, respectively. When evaluated using 10-fold cross-validation with BALOSCTdb dataset which has structure information, the model achieved performance comparable to current structure-based method. Further validation using an independent dataset indicates it is robust and of relatively better accuracy for predicting redox-sensitive cysteines from non-enzyme proteins. In this study, we developed a sequence-based classifier for predicting redox-sensitive cysteines. The major advantage of this method is that it does not rely on protein structure data, which ensures more extensive application compared to other current implementations. Accurate prediction of redox-sensitive cysteines not

Self-organization in a system of binary strings with spatial interactions

NASA Astrophysics Data System (ADS)

Banzhaf, W.; Dittrich, P.; Eller, B.

1999-01-01

We consider an artificial reaction system whose components are binary strings. Upon encounter, two binary strings produce a third string which competes for storage space with the originators. String types or species can only survive when produced in sufficient numbers. Spatial interactions through introduction of a topology and rules for distance-dependent reactions are discussed. We observe various kinds of survival strategies of binary strings.

The Development of a String Sight-Reading Pitch Skill Hierarchy

ERIC Educational Resources Information Center

Alexander, Michael L.; Henry, Michele L.

2012-01-01

This study was designed to determine a pitch skill hierarchy for string sight-reading, to determine the effects of key on string sight-reading achievement, and to determine the validity of a tonal pattern system as a measurement of melodic sight-reading skill for string players. High school string students (n = 94) obtained a mean score of 27.28…

Systems and methods for photovoltaic string protection

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

Krein, Philip T.; Kim, Katherine A.; Pilawa-Podgurski, Robert C. N.

A system and method includes a circuit for protecting a photovoltaic string. A bypass switch connects in parallel to the photovoltaic string and a hot spot protection switch connects in series with the photovoltaic string. A first control signal controls opening and closing of the bypass switch and a second control signal controls opening and closing of the hot spot protection switch. Upon detection of a hot spot condition the first control signal closes the bypass switch and after the bypass switch is closed the second control signal opens the hot spot protection switch.

Plucked String on a Shoestring Budget

ERIC Educational Resources Information Center

Gluck, Paul

2009-01-01

The physics of the plucked string has been treated in many articles and books. For our 12th-grade high school physics laboratory, we have built a cheap, simple sonometer apparatus for each pair of students on which they may investigate some interesting phenomena that arise when a string is plucked. Among these are the generation of harmonics…

Quantum space foam and string theory

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

Nekrasov, Nikita

2006-11-03

String theory is originally defined as a modification of the Feynman rules in perturbation theory. It contains gravity in its perturbative spectrum. We review some recent developments which demonstrate that nonperturbative effects of quantum gravity, such as spacetime foam, arise in string theory as well.Prepared for the proceedings of 'Albert Einstein Century Conference' , Paris July 2005.

Electrostatics of cysteine residues in proteins: Parameterization and validation of a simple model

PubMed Central

Salsbury, Freddie R.; Poole, Leslie B.; Fetrow, Jacquelyn S.

2013-01-01

One of the most popular and simple models for the calculation of pKas from a protein structure is the semi-macroscopic electrostatic model MEAD. This model requires empirical parameters for each residue to calculate pKas. Analysis of current, widely used empirical parameters for cysteine residues showed that they did not reproduce expected cysteine pKas; thus, we set out to identify parameters consistent with the CHARMM27 force field that capture both the behavior of typical cysteines in proteins and the behavior of cysteines which have perturbed pKas. The new parameters were validated in three ways: (1) calculation across a large set of typical cysteines in proteins (where the calculations are expected to reproduce expected ensemble behavior); (2) calculation across a set of perturbed cysteines in proteins (where the calculations are expected to reproduce the shifted ensemble behavior); and (3) comparison to experimentally determined pKa values (where the calculation should reproduce the pKa within experimental error). Both the general behavior of cysteines in proteins and the perturbed pKa in some proteins can be predicted reasonably well using the newly determined empirical parameters within the MEAD model for protein electrostatics. This study provides the first general analysis of the electrostatics of cysteines in proteins, with specific attention paid to capturing both the behavior of typical cysteines in a protein and the behavior of cysteines whose pKa should be shifted, and validation of force field parameters for cysteine residues. PMID:22777874

Galileon string measure and other modified measure extended objects

NASA Astrophysics Data System (ADS)

Vulfs, T. O.; Guendelman, E. I.

2017-12-01

We show that it is possible to formulate string theory as a “Galileon string theory”. The Galileon field χ enters in the definition of the integration measure in the action. Following the methods of the modified measure string theory, we find that the final equations are again those of the sigma-model. Moreover, the string tension appears again as an additional dynamical degree of freedom. At the same time, the theory satisfies all requirements of the Galileon higher derivative theory at the action level while the equations of motion are still of the second-order. A Galileon symmetry is displayed explicitly in the conformal string worldsheet frame. Also, we define the Galileon gauge transformations. Generalizations to branes with other modified measures are discussed.

Stiff self-interacting strings at high temperature QCD

NASA Astrophysics Data System (ADS)

S Bakry, A.; Chen, X.; Deliyergiyev, M.; Galal, A.; Khalaf, A.; M Pengming, P.

2018-03-01

We investigate the implications of Nambu-Goto (NG), Lüscher Weisz (LW) and Polyakov-Kleinert (PK) effective string actions for the Casimir energy and the width of the quantum delocalization of the string in 4-dim pure SU(3) Yang-Mills lattice gauge theory. At a temperature closer to the critical point T/Tc=0.9, we found that the next to leading-order (NLO) contributions from the expansion of the NG string in addition to the boundary terms in LW action to decrease the deviations from the lattice data in the intermediate distance scales for both the quark-antiquark QQ̅ potential and broadening of the color tube compared to the free string approximation. We conjecture possible stiffness of the QCD string through studying the effects of extrinsic curvature term in PK action and find a good fitting behavior for the lattice Monte-Carlo data at both long and intermediate quark separations regions.

Cold, warm, and composite (cool) cosmic string models

NASA Astrophysics Data System (ADS)

Carter, B.

1994-01-01

The dynamical behaviour of a cosmic string is strongly affected by any reduction of the effective string tension T below the constant value, T = m2 say, that typifies a simple, longitudinally Lorentz invariant Goto-Nambu type string model, where m is a fixed mass scale determined by the internal structure of an underlying Nielsen-Olesen type vacuum vortex. Such a reduction of tension occurs in the standard ``warm'' cosmic string model in which the effect of thermal perturbations of a simple Goto-Nambu model is represented by an effective tension T given in terms of the corresponding effective temperature, Θ say, by T2 = m2(m2 - 1/3πΘ2). A qualitatively similar though analytically more complicated tension reduction phenomenon occurs in ``cold'' conducting cosmic string models of the kind whose existence was first proposed by Witten, where the role of the temperature is played by an effective mass or chemical potential μ that is constructed as the scalar magnitude of the energy momentum covector obtained as the gradient of the phase ϕ of a bosonic condensate in the core of the vacuum vortex. The present article describes the construction and essential mechanical properties of a new category of composite ``cool'' cosmic string models that are intermediate between these ``warm'' and ``cold'' limit cases. These composite models are the string analogues of the standard Landau model for a two-constituent finite temperature superfluid, and as such involve two independent currents interpretable as that of the entropy on the one hand and that of the bosonic condensate on the other. It is surmised that the stationary (in particular ring) equilibrium states of such ``cool'' cosmic strings may be of cosmologicl significance.

Cooperative strings and glassy interfaces

PubMed Central

Salez, Thomas; Salez, Justin; Dalnoki-Veress, Kari; Raphaël, Elie; Forrest, James A.

2015-01-01

We introduce a minimal theory of glass formation based on the ideas of molecular crowding and resultant string-like cooperative rearrangement, and address the effects of free interfaces. In the bulk case, we obtain a scaling expression for the number of particles taking part in cooperative strings, and we recover the Adam–Gibbs description of glassy dynamics. Then, by including thermal dilatation, the Vogel–Fulcher–Tammann relation is derived. Moreover, the random and string-like characters of the cooperative rearrangement allow us to predict a temperature-dependent expression for the cooperative length ξ of bulk relaxation. Finally, we explore the influence of sample boundaries when the system size becomes comparable to ξ. The theory is in agreement with measurements of the glass-transition temperature of thin polymer films, and allows quantification of the temperature-dependent thickness hm of the interfacial mobile layer. PMID:26100908

l-Cysteine suppresses hypoxia-ischemia injury in neonatal mice by reducing glial activation, promoting autophagic flux and mediating synaptic modification via H2S formation.

PubMed

Xin, Danqing; Chu, Xili; Bai, Xuemei; Ma, Weiwei; Yuan, Hongtao; Qiu, Jie; Liu, Changxing; Li, Tong; Zhou, Xin; Chen, Wenqiang; Liu, Dexiang; Wang, Zhen

2018-05-08

We previously reported that l-Cysteine, an H 2 S donor, significantly alleviated brain injury after hypoxia-ischemic (HI) injury in neonatal mice. However, the mechanisms underlying this neuroprotective effect of l-Cysteine against HI insult remain unknown. In the present study, we tested the hypothesis that the protective effects of l-Cysteine are associated with glial responses and autophagy, and l-Cysteine attenuates synaptic injury as well as behavioral deficits resulting from HI. Consistent with our previous findings, we found that treatment with l-Cysteine after HI reduced early brain injury, improved behavioral deficits and synaptic damage, effects which were associated with an up-regulation of synaptophysin and postsynaptic density protein 95 expression in the lesioned cortex. l-Cysteine attenuated the accumulation of CD11b + /CD45 high cells, activation of microglia and astrocytes and diminished HI-induced increases in reactive oxygen species and malondialdehyde within the lesioned cortex. In addition, l-Cysteine increased microtubule associated protein 1 light chain 3-II and Beclin1 expression, decreased p62 expression and phosphor-mammalian target of rapamycin and phosphor-signal transducer and activator of transcription 3. Further support for a critical role of l-Cysteine was revealed from results demonstrating that treatment with an inhibitor of the H 2 S-producing enzyme, amino-oxyacetic acid, reversed the beneficial effects of l-Cysteine described above. These results demonstrate that l-Cysteine effectively alleviates HI injury and improves behavioral outcomes by inhibiting reactive glial responses and synaptic damage and an accompanying triggering of autophagic flux. Accordingly, l-Cysteine may provide a new a therapeutic approach for the treatment of HI via the formation of H 2 S. Copyright © 2018 Elsevier Inc. All rights reserved.

Reversible cysteine oxidation in hydrogen peroxide sensing and signal transduction.

PubMed

García-Santamarina, Sarela; Boronat, Susanna; Hidalgo, Elena

2014-04-29

Activation of redox cascades through hydrogen peroxide-mediated reversible cysteine oxidation is a major mechanism for intracellular signaling. Understanding why some cysteine residues are specifically oxidized, in competition with other proximal cysteine residues and in the presence of strong redox buffers, is therefore crucial for understanding redox signaling. In this review, we explore the recent advances in thiol-redox chemistry linked to signaling. We describe the last findings in the field of redox sensors, those that are naturally present in different model organisms as well as those that have been engineered to quantify intracellular hydrogen peroxide concentrations. Finally, we provide a summary of the newest approaches developed to study reversible cysteine oxidation at the proteomic level.

Mapping of the local environmental changes in proteins by cysteine scanning

PubMed Central

Yamazaki, Yoichi; Nagata, Tomoko; Terakita, Akihisa; Kandori, Hideki; Shichida, Yoshinori; Imamoto, Yasushi

2014-01-01

Protein conformational changes, which regulate the activity of proteins, are induced by the alternation of intramolecular interactions. Therefore, the detection of the local environmental changes around the key amino acid residues is essential to understand the activation mechanisms of functional proteins. Here we developed the methods to scan the local environmental changes using the vibrational band of cysteine S-H group. We validated the sensitivity of this method using bathorhodopsin, a photoproduct of rhodopsin trapped at liquid nitrogen temperature, which undergoes little conformational changes from the dark state as shown by the X-ray crystallography. The cysteine residues were individually introduced into 15 positions of Helix III, which contains several key amino acid residues for the light-induced conformational changes of rhodopsin. The shifts of S-H stretching modes of these cysteine residues and native cysteine residues upon the formation of bathorhodopsin were measured by Fourier transform infrared spectroscopy. While most of cysteine residues demonstrated no shift of S-H stretching mode, cysteine residues introduced at positions 117, 118, and 122, which are in the vicinity of the chromophore, demonstrated the significant changes. The current results are consistent with the crystal structure of bathorhodopsin, implying that the cysteine scanning is sensitive enough to detect the tiny conformational changes. PMID:27493492

Connecting the ambitwistor and the sectorized heterotic strings

NASA Astrophysics Data System (ADS)

Azevedo, Thales; Jusinskas, Renann Lipinski

2017-10-01

The sectorized description of the (chiral) heterotic string using pure spinors has been misleadingly viewed as an infinite tension string. One evidence for this fact comes from the tree level 3-point graviton amplitude, which we show to contain the usual Einstein term plus a higher curvature contribution. After reintroducing a dimensionful parameter ℓ in the theory, we demonstrate that the heterotic model is in fact two-fold, depending on the choice of the supersymmetric sector, and that the spectrum also contains one massive (open string like) multiplet. By taking the limit ℓ → ∞, we finally show that the ambitwistor string is recovered, reproducing the unexpected heterotic state in Mason and Skinner's RNS description.

Abelian Higgs cosmic strings: Small-scale structure and loops

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

Hindmarsh, Mark; Stuckey, Stephanie; Bevis, Neil

2009-06-15

Classical lattice simulations of the Abelian Higgs model are used to investigate small-scale structure and loop distributions in cosmic string networks. Use of the field theory ensures that the small-scale physics is captured correctly. The results confirm analytic predictions of Polchinski and Rocha 29 for the two-point correlation function of the string tangent vector, with a power law from length scales of order the string core width up to horizon scale. An analysis of the size distribution of string loops gives a very low number density, of order 1 per horizon volume, in contrast with Nambu-Goto simulations. Further, our loopmore » distribution function does not support the detailed analytic predictions for loop production derived by Dubath et al. 30. Better agreement to our data is found with a model based on loop fragmentation 32, coupled with a constant rate of energy loss into massive radiation. Our results show a strong energy-loss mechanism, which allows the string network to scale without gravitational radiation, but which is not due to the production of string width loops. From evidence of small-scale structure we argue a partial explanation for the scale separation problem of how energy in the very low frequency modes of the string network is transformed into the very high frequency modes of gauge and Higgs radiation. We propose a picture of string network evolution, which reconciles the apparent differences between Nambu-Goto and field theory simulations.« less

Trimer hydroxylated quinone (IIIHyQ) derived from apocynin targets cysteine residues of p47phox preventing the activation of human vascular NADPH oxidase

PubMed Central

Mora-Pale, Mauricio; Joon-Kwon, Seok; Linhardt, Robert J.; Dordick, Jonathan S.

2012-01-01

Enzymatic derived oligophenols from apocynin can be effective inhibitors of human vascular NADPH oxidase. An isolated IIIHyQ has been shown to inhibit endothelial NADPH oxidase with an IC50 ~30 nM. In vitro studies demonstrated that IIIHyQ is capable on disrupting the interaction between p47phox and p22phox, thereby blocking the activation of the Nox2 isoform. Herein, we report the role of key cysteine residues in p47phox as targets for the IIIHyQ. Incubation of p47phox with IIIHyQ results in a decrease of ~80% of the protein free cysteine residues; similar results were observed using 1,2- and 1,4-naphthoquinoes, while apocynin was unreactive. Mutants of p47phox, where each Cys was individually replaced by Ala (at residues 111, 196 and 378) and Gly (at residue 98), were generated to evaluate their individual importance in IIIHyQ-mediated inhibition of p47phox interaction with p22phox. Specific Michael addition on Cys196, within the N-SH3 domain, by the IIIHyQ is critical for disrupting the p47phox-p22phox interaction. When a C196A mutation was tested, the IIIHyQ was unable to disrupt the p47phox-p22phox interaction. However, the IIIHyQ was effective at disrupting this interaction with the other mutants, displaying IC50 values (4.9, 21.0, and 2.3 μM for the C111A, C378A, and C98G mutants, respectively) comparable to that of wild type p47phox. PMID:22240153

Gravitational Scattering Amplitudes and Closed String Field Theory in the Proper-Time Gauge

NASA Astrophysics Data System (ADS)

Lee, Taejin

2018-01-01

We construct a covariant closed string field theory by extending recent works on the covariant open string field theory in the proper-time gauge. Rewriting the string scattering amplitudes generated by the closed string field theory in terms of the Polyakov string path integrals, we identify the Fock space representations of the closed string vertices. We show that the Fock space representations of the closed string field theory may be completely factorized into those of the open string field theory. It implies that the well known Kawai-Lewellen-Tye (KLT) relations of the first quantized string theory may be promoted to the second quantized closed string theory. We explicitly calculate the scattering amplitudes of three gravitons by using the closed string field theory in the proper-time gauge.

Image-based RNA interference screening reveals an individual dependence of acute lymphoblastic leukemia on stromal cysteine support

PubMed Central

Marovca, Blerim; Vonderheit, Andreas; Grotzer, Michael A.; Eckert, Cornelia; Cario, Gunnar; Wollscheid, Bernd; Horvath, Peter

2014-01-01

Interactions with the bone marrow microenvironment are essential for leukemia survival and disease progression. We developed an imaging-based RNAi platform to identify protective cues from bone marrow derived mesenchymal stromal cells (MSC) that promote survival of primary acute lymphoblastic leukemia (ALL) cells. Using a candidate gene approach, we detected distinct responses of individual ALL cases to RNA interference with stromal targets. The strongest effects were observed when interfering with solute carrier family 3 member 2 (SLC3A2) expression, which forms the cystine transporter xc− when associated with SLC7A11. Import of cystine and metabolism to cysteine by stromal cells provides the limiting substrate to generate and maintain glutathione in ALL. This metabolic interaction reduces oxidative stress in ALL cells that depend on stromal xc−. Indeed, cysteine depletion using cysteine dioxygenase resulted in leukemia cell death. Thus, functional evaluation of intercellular interactions between leukemia cells and their microenvironment identifies a selective dependency of ALL cells on stromal metabolism for a relevant subgroup of cases, providing new opportunities to develop more personalized approaches to leukemia treatment. PMID:25415224

Overexpression of Catalase Diminishes Oxidative Cysteine Modifications of Cardiac Proteins

PubMed Central

Yao, Chunxiang; Behring, Jessica B.; Shao, Di; Sverdlov, Aaron L.; Whelan, Stephen A.; Elezaby, Aly; Yin, Xiaoyan; Siwik, Deborah A.; Seta, Francesca; Costello, Catherine E.; Cohen, Richard A.; Matsui, Reiko; Colucci, Wilson S.; McComb, Mark E.; Bachschmid, Markus M.

2015-01-01

Reactive protein cysteine thiolates are instrumental in redox regulation. Oxidants, such as hydrogen peroxide (H2O2), react with thiolates to form oxidative post-translational modifications, enabling physiological redox signaling. Cardiac disease and aging are associated with oxidative stress which can impair redox signaling by altering essential cysteine thiolates. We previously found that cardiac-specific overexpression of catalase (Cat), an enzyme that detoxifies excess H2O2, protected from oxidative stress and delayed cardiac aging in mice. Using redox proteomics and systems biology, we sought to identify the cysteines that could play a key role in cardiac disease and aging. With a ‘Tandem Mass Tag’ (TMT) labeling strategy and mass spectrometry, we investigated differential reversible cysteine oxidation in the cardiac proteome of wild type and Cat transgenic (Tg) mice. Reversible cysteine oxidation was measured as thiol occupancy, the ratio of total available versus reversibly oxidized cysteine thiols. Catalase overexpression globally decreased thiol occupancy by ≥1.3 fold in 82 proteins, including numerous mitochondrial and contractile proteins. Systems biology analysis assigned the majority of proteins with differentially modified thiols in Cat Tg mice to pathways of aging and cardiac disease, including cellular stress response, proteostasis, and apoptosis. In addition, Cat Tg mice exhibited diminished protein glutathione adducts and decreased H2O2 production from mitochondrial complex I and II, suggesting improved function of cardiac mitochondria. In conclusion, our data suggest that catalase may alleviate cardiac disease and aging by moderating global protein cysteine thiol oxidation. PMID:26642319

Novel and viable acetylcholinesterase target site for developing effective and environmentally safe insecticides.

PubMed

Pang, Yuan-Ping; Brimijoin, Stephen; Ragsdale, David W; Zhu, Kun Yan; Suranyi, Robert

2012-04-01

Insect pests are responsible for human suffering and financial losses worldwide. New and environmentally safe insecticides are urgently needed to cope with these serious problems. Resistance to current insecticides has resulted in a resurgence of insect pests, and growing concerns about insecticide toxicity to humans discourage the use of insecticides for pest control. The small market for insecticides has hampered insecticide development; however, advances in genomics and structural genomics offer new opportunities to develop insecticides that are less dependent on the insecticide market. This review summarizes the literature data that support the hypothesis that an insect-specific cysteine residue located at the opening of the acetylcholinesterase active site is a promising target site for developing new insecticides with reduced off-target toxicity and low propensity for insect resistance. These data are used to discuss the differences between targeting the insect-specific cysteine residue and targeting the ubiquitous catalytic serine residue of acetylcholinesterase from the perspective of reducing off-target toxicity and insect resistance. Also discussed is the prospect of developing cysteine-targeting anticholinesterases as effective and environmentally safe insecticides for control of disease vectors, crop damage, and residential insect pests within the financial confines of the present insecticide market.

Gluten gel and film properties in the presence of cysteine and sodium alginate.

PubMed

Yuno-Ohta, Naoko; Yamada, Mariko; Inomata, Masako; Konagai, Hiromi; Kataoka, Tomomi

2009-08-01

Wheat flour has an ability of forming dough by mixing with water, which exhibits a rheological property required for making bread. The major protein is gluten, which is a valuable protein material for food industry. In this study, gluten protein gels and films were formed with cysteine and sodium alginate. Adding cysteine improved gel and film properties (stress relaxation behavior, bending strength). The gel containing 0.01 M cysteine had a longer relaxation time and was more rigid than the gel without cysteine. Although adding sodium alginate to the gluten suspension containing cysteine improved the water-holding ability and homogeneity of the gel network, the film from this gel was more brittle than the gluten film with cysteine alone. Microstructural observations of the gels and films with scanning electron microscopy suggested that water evaporation was more heterogeneous from the gel containing sodium alginate than from the gel with cysteine alone. Fourier transform-infrared (FT-IR) analysis during film formation suggested that the presence of cysteine encourages interaction between gluten molecules and results in intermolecular beta-sheet formation in earlier stages than in the no additive condition. FT-IR results also suggested that the combined effect of sodium alginate and cysteine on the protein secondary structure was remarkably different from that of cysteine alone. Our results suggest that addition of a suitable amount of cysteine (0.01 M) and heat treatment to 80 degrees C during gluten gel and film formation induces a homogenous network in the gel and film by regulating disulfide-sulfide interactions.

Electrostatics of cysteine residues in proteins: parameterization and validation of a simple model.

PubMed

Salsbury, Freddie R; Poole, Leslie B; Fetrow, Jacquelyn S

2012-11-01

One of the most popular and simple models for the calculation of pK(a) s from a protein structure is the semi-macroscopic electrostatic model MEAD. This model requires empirical parameters for each residue to calculate pK(a) s. Analysis of current, widely used empirical parameters for cysteine residues showed that they did not reproduce expected cysteine pK(a) s; thus, we set out to identify parameters consistent with the CHARMM27 force field that capture both the behavior of typical cysteines in proteins and the behavior of cysteines which have perturbed pK(a) s. The new parameters were validated in three ways: (1) calculation across a large set of typical cysteines in proteins (where the calculations are expected to reproduce expected ensemble behavior); (2) calculation across a set of perturbed cysteines in proteins (where the calculations are expected to reproduce the shifted ensemble behavior); and (3) comparison to experimentally determined pK(a) values (where the calculation should reproduce the pK(a) within experimental error). Both the general behavior of cysteines in proteins and the perturbed pK(a) in some proteins can be predicted reasonably well using the newly determined empirical parameters within the MEAD model for protein electrostatics. This study provides the first general analysis of the electrostatics of cysteines in proteins, with specific attention paid to capturing both the behavior of typical cysteines in a protein and the behavior of cysteines whose pK(a) should be shifted, and validation of force field parameters for cysteine residues. Copyright © 2012 Wiley Periodicals, Inc.

Landau quantization in the spinning cosmic string spacetime

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

Muniz, C.R., E-mail: celiomuniz@yahoo.com; Bezerra, V.B.; Cunha, M.S.

2014-11-15

We analyze the quantum phenomenon arising from the interaction of a spinless charged particle with a rotating cosmic string, under the action of a static and uniform magnetic field parallel to the string. We calculate the energy levels of the particle in the non-relativistic approach, showing how these energies depend on the parameters involved in the problem. In order to do this, we solve the time independent Schrödinger equation in the geometry of the spinning cosmic string, taking into account that the coupling between the rotation of the spacetime and the angular momentum of the particle is very weak, suchmore » that makes sense to apply the Schrödinger equation in a curved background whose metric has an off diagonal term which involves time and space. It is also assumed that the particle orbits sufficiently far from the boundary of the region of closed timelike curves which exist around this topological defect. Finally, we find the Landau levels of the particle in the presence of a spinning cosmic string endowed with internal structure, i.e., having a finite width and uniformly filled with both material and vacuum energies. - Highlights: • Solution of the wave equation characterizing the problem. • Energy levels of the particle in spacetime of the structureless string. • Expression for an analogous of the quadratic Zeeman effect. • Energy levels of the particle in spacetime of the string with internal structure. • Evidence of the string structure by the internal existence of the vacuum energy.« less

Black String and Velocity Frame Dragging

NASA Astrophysics Data System (ADS)

Lee, Jungjai; Kim, Hyeong-Chan

We investigate velocity frame dragging with the boosted Schwarzschild black string solution and the boosted Kaluza-Klein bubble solution, in which a translational symmetry along the boosted z-coordinate is implemented. The velocity frame dragging effect can be nullified by the motion of an observer using the boost symmetry along the z-coordinate if it is not compact. However, in spacetime with the compact z-coordinate, we show that the effect cannot be removed since the compactification breaks the global Lorentz boost symmetry. As a result, the comoving velocity depends on r and the momentum parameter along the z-coordinate becomes an observer independent characteristic quantity of the black string and bubble solutions. The dragging induces a spherical ergo-region around the black string.

Cosmic string lensing and closed timelike curves

NASA Astrophysics Data System (ADS)

Shlaer, Benjamin; Tye, S.-H. Henry

2005-08-01

In an analysis of the gravitational lensing by two relativistic cosmic strings, we argue that the formation of closed timelike curves proposed by Gott is unstable in the presence of particles (e.g. the cosmic microwave background radiation). Because of the attractorlike behavior of the closed timelike curve, we argue that this instability is very generic. A single graviton or photon in the vicinity, no matter how soft, is sufficient to bend the strings and prevent the formation of closed timelike curves. We also show that the gravitational lensing due to a moving cosmic string is enhanced by its motion, not suppressed.

A hybrid metaheuristic for closest string problem.

PubMed

Mousavi, Sayyed Rasoul

2011-01-01

The Closest String Problem (CSP) is an optimisation problem, which is to obtain a string with the minimum distance from a number of given strings. In this paper, a new metaheuristic algorithm is investigated for the problem, whose main feature is relatively high speed in obtaining good solutions, which is essential when the input size is large. The proposed algorithm is compared with four recent algorithms suggested for the problem, outperforming them in more than 98% of the cases. It is also remarkably faster than all of them, running within 1 s in most of the experimental cases.

Note on tachyon moduli and closed strings

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

Carneiro da Cunha, Bruno

2008-07-15

The collective behavior of the SL(2,R) covariant brane states of noncritical c=1 string theory, found in a previous work, is studied in the Fermi liquid approximation. It is found that such states mimic the coset WZW model, whereas only by further restrictions one recovers the double-scaling limit which was purported to be equivalent to closed string models. Another limit is proposed, inspired by the tachyon condensation ideas, where the spectrum is the same of two-dimensional string theory. We close by noting some strange connections between vacuum states of the theory in their different interpretations.

Don't Panic! Closed String Tachyons in ALE Spacetimes

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

Silverstein, Eva M

2001-08-20

We consider closed string tachyons localized at the fixed points of noncompact nonsupersymmetric orbifolds. We argue that tachyon condensation drives these orbifolds to flat space or supersymmetric ALE spaces. The decay proceeds via an expanding shell of dilaton gradients and curvature which interpolates between two regions of distinct angular geometry. The string coupling remains weak throughout. For small tachyon VEVs, evidence comes from quiver theories on D-branes probes, in which deformations by twisted couplings smoothly connect non-supersymmetric orbifolds to supersymmetric orbifolds of reduced order. For large tachyon VEVs, evidence comes from worldsheet RG flow and spacetime gravity. For C{sup 2}/Z{submore » n}, we exhibit infinite sequences of transitions producing SUSY ALE spaces via twisted closed string condensation from non-supersymmetric ALE spaces. In a T-dual description this provides a mechanism for creating NS5-branes via closed string tachyon condensation similar to the creation of D-branes via open string tachyon condensation. We also apply our results to recent duality conjectures involving fluxbranes and the type 0 string.« less

Open/closed string duality and relativistic fluids

NASA Astrophysics Data System (ADS)

Niarchos, Vasilis

2016-07-01

We propose an open/closed string duality in general backgrounds extending previous ideas about open string completeness by Ashoke Sen. Our proposal sets up a general version of holography that works in gravity as a tomographic principle. We argue, in particular, that previous expectations of a supergravity/Dirac-Born-Infeld (DBI) correspondence are naturally embedded in this conjecture and can be tested in a well-defined manner. As an example, we consider the correspondence between open string field theories on extremal D-brane setups in flat space in the large-N , large 't Hooft limit, and asymptotically flat solutions in ten-dimensional type II supergravity. We focus on a convenient long-wavelength regime, where specific effects of higher-spin open string modes can be traced explicitly in the dual supergravity computation. For instance, in this regime we show how the full Abelian DBI action arises from supergravity as a straightforward reformulation of relativistic hydrodynamics. In the example of a (2 +1 )-dimensional open string theory this reformulation involves an Abelian Hodge duality. We also point out how different deformations of the DBI action, related to higher-derivative corrections and non-Abelian effects, can arise in this context as deformations in corresponding relativistic hydrodynamics.

BOOK REVIEW: String Theory in a Nutshell

NASA Astrophysics Data System (ADS)

Skenderis, Kostas

2007-11-01

The book 'String Theory in a Nutshell' by Elias Kiritsis provides a comprehensive introduction to modern string theory. String theory is the leading candidate for a theory that successfully unifies all fundamental forces of nature, including gravity. The subject has been continuously developing since the early 1970s, with classic textbooks on the subject being those of Green, Schwarz and Witten (1987) and Polchinski (1998). Since the latter was published there have been substantial developments, in particular in understanding black holes and gravity/gauge theory dualities. A textbook treatment of this important material is clearly needed, both by students and researchers in string theory and by mathematicians and physicists working in related fields. This book has a good selection of material, starting from basics and moving into classic and modern topics. In particular, Kiritsis' presentation of the basic material is complementary to that of the earlier textbooks and he includes a number of topics which are not easily found or covered adequately elsewhere, for example, loop corrections to string effective couplings. Overall the book nicely covers the major advances of the last ten years, including (non-perturbative) string dualities, black hole physics, AdS/CFT and matrix models. It provides a concise but fairly complete introduction to these subjects which can be used both by students and by researchers. Moreover the emphasis is on results that are reasonably established, as is appropriate for a textbook; concise summaries are given for subjects which are still in flux, with references to relevant reviews and papers. A positive feature of the book is that the bibliography sections at the end of each chapter provide a comprehensive guide to the literature. The bibliographies point to reviews and pedagogical papers on subjects covered in this book as well as those that were omitted. It is rare for a textbook to contain such a self-contained and detailed guide to

L-alanine-glyoxylate aminotransferase II of rat kidney and liver mitochondria possesses cysteine S-conjugate beta-lyase activity: a contributing factor to the nephrotoxicity/hepatotoxicity of halogenated alkenes?

PubMed Central

Cooper, Arthur J L; Krasnikov, Boris F; Okuno, Etsuo; Jeitner, Thomas M

2003-01-01

Several halogenated alkenes are metabolized in part to cysteine S-conjugates, which are mitochondrial toxicants of kidney and, to a lesser extent, other organs. Toxicity is due to cysteine S-conjugate beta-lyases, which convert the cysteine S-conjugate into pyruvate, ammonia and a reactive sulphur-containing fragment. A section of the human population is exposed to halogenated alkenes. To understand the health effects of such exposure, it is important to identify cysteine S-conjugate beta-lyases that contribute to mitochondrial damage. Mitochondrial aspartate aminotransferase [Cooper, Bruschi, Iriarte and Martinez-Carrion (2002) Biochem. J. 368, 253-261] and mitochondrial branched-chain aminotransferase [Cooper, Bruschi, Conway and Hutson (2003) Biochem. Pharmacol. 65, 181-192] exhibit beta-lyase activity toward S -(1,2-dichlorovinyl)-L-cysteine (the cysteine S-conjugate of trichloroethylene) and S -(1,1,2,2-tetrafluoroethyl)-L-cysteine (the cysteine S-conjugate of tetrafluoroethylene). Turnover leads to eventual inactivation of these enzymes. Here we report that mitochondrial L-alanine-glyoxylate aminotransferase II, which, in the rat, is most active in kidney, catalyses cysteine S-conjugate beta-lyase reactions with S -(1,1,2,2-tetrafluoroethyl)-L-cysteine, S -(1,2-dichlorovinyl)-L-cysteine and S -(benzothiazolyl-L-cysteine); turnover leads to inactivation. Previous workers showed that the reactive-sulphur-containing fragment released from S -(1,1,2,2-tetrafluoroethyl)-L-cysteine and S -(1,2-dichlorovinyl)-L-cysteine is toxic by acting as a thioacylating agent - particularly of lysine residues in nearby proteins. Toxicity, however, may also involve 'self-inactivation' of key enzymes. The present findings suggest that alanine-glyoxylate aminotransferase II may be an important factor in the well-established targeting of rat kidney mitochondria by toxic halogenated cysteine S-conjugates. Previous reports suggest that alanine-glyoxylate aminotransferase II is absent

Axions, Inflation and String Theory

NASA Astrophysics Data System (ADS)

Mack, Katherine J.; Steinhardt, P. J.

2009-01-01

The QCD axion is the leading contender to rid the standard model of the strong-CP problem. If the Peccei-Quinn symmetry breaking occurs before inflation, which is likely in string theory models, axions manifest themselves cosmologically as a form of cold dark matter with a density determined by the axion's initial conditions and by the energy scale of inflation. Constraints on the dark matter density and on the amplitude of CMB isocurvature perturbations currently demand an exponential degree of fine-tuning of both axion and inflationary parameters beyond what is required for particle physics. String theory models generally produce large numbers of axion-like fields; the prospect that any of these fields exist at scales close to that of the QCD axion makes the problem drastically worse. I will discuss the challenge of accommodating string-theoretic axions in standard inflationary cosmology and show that the fine-tuning problems cannot be fully addressed by anthropic principle arguments.

Ambitwistor Strings in Four Dimensions

NASA Astrophysics Data System (ADS)

Geyer, Yvonne; Lipstein, Arthur E.; Mason, Lionel

2014-08-01

We develop ambitwistor string theories for four dimensions to obtain new formulas for tree-level gauge and gravity amplitudes with arbitrary amounts of supersymmetry. Ambitwistor space is the space of complex null geodesics in complexified Minkowski space, and in contrast to earlier ambitwistor strings, we use twistors rather than vectors to represent this space. Although superficially similar to the original twistor string theories of Witten, Berkovits, and Skinner, these theories differ in the assignment of world sheet spins of the fields, rely on both twistor and dual twistor representatives for the vertex operators, and use the ambitwistor procedure for calculating correlation functions. Our models are much more flexible, no longer requiring maximal supersymmetry, and the resulting formulas for amplitudes are simpler, having substantially reduced moduli. These are supported on the solutions to the scattering equations refined according to helicity and can be checked by comparison with corresponding formulas of Witten and of Cachazo and Skinner.

Efficient Aho-Corasick String Matching on Emerging Multicore Architectures

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

Tumeo, Antonino; Villa, Oreste; Secchi, Simone

continuously thrashed, they should be retrieved from the system memory and the procedure is slowed down by the increased latency. Efficient implementations of string matching algorithms have been the fo- cus of several works, targeting Field Programmable Gate Arrays [4, 25, 15, 5], highly multi-threaded solutions like the Cray XMT [34], multicore proces- sors [19] or heterogeneous processors like the Cell Broadband Engine [35, 22]. Recently, several researchers have also started to investigate the use Graphic Processing Units (GPUs) for string matching algorithms in security applica- tions [20, 10, 32, 33]. Most of these approaches mainly focus on reaching high peak performance, or try to optimize the memory occupation, rather than looking at performance stability. However, hardware solutions supports only small dictionary sizes due to lack of memory and are difficult to customize, while platforms such as the Cell/B.E. are very complex to program.« less

Cosmology of the closed string tachyon

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

Swanson, Ian

2008-09-15

The spacetime physics of bulk closed string tachyon condensation is studied at the level of a two-derivative effective action. We derive the unique perturbative tachyon potential consistent with a full class of linearized tachyonic deformations of supercritical string theory. The solutions of interest deform a general linear dilaton background by the insertion of purely exponential tachyon vertex operators. In spacetime, the evolution of the tachyon drives an accelerated contraction of the universe and, absent higher-order corrections, the theory collapses to a cosmological singularity in finite time, at arbitrarily weak string coupling. When the tachyon exhibits a null symmetry, the worldsheetmore » dynamics is known to be exact and well defined at tree level. We prove that if the two-derivative effective action is free of nongravitational singularities, higher-order corrections always resolve the spacetime curvature singularity of the null tachyon. The resulting theory provides an explicit mechanism by which tachyon condensation can generate or terminate the flow of cosmological time in string theory. Additional particular solutions can resolve an initial singularity with a tachyonic phase at weak coupling, or yield solitonic configurations that localize the universe along spatial directions.« less

Reflecting on the Rationales for String Study in Schools

ERIC Educational Resources Information Center

Brenner, Brenda

2010-01-01

This essay will address the question of the value of string education by first examining arguments offered on behalf of string education in schools, and noting their somewhat mixed value. Then a set of arguments will be presented that may have greater promise. The focal point will be the establishment of excellence in string teaching and playing.…

Propagating stress-pulses and wiggling transition revealed in string dynamics

NASA Astrophysics Data System (ADS)

Yao, Zhenwei

2018-02-01

Understanding string dynamics yields insights into the intricate dynamic behaviors of various filamentary thin structures in nature and industry covering multiple length scales. In this work, we investigate the planar dynamics of a flexible string where one end is free and the other end is subject to transverse and longitudinal motions. Under transverse harmonic motion, we reveal the propagating pulse structure in the stress profile over the string, and analyze its role in bringing the system into a chaotic state. For a string where one end is under longitudinal uniform acceleration, we identify the wiggling transition, derive the analytical wiggling solution from the string equations, and present the phase diagram.

Density fluctuations from strings and galaxy formation

NASA Technical Reports Server (NTRS)

Vilenkin, A.; Shafi, Q.

1983-01-01

The spectra of density fluctuations caused by strings in a universe dominated either by baryons, neutrinos, or axions are presented. Realistic scenarios for galaxy formation seem possible in all three cases. Examples of grand unified theories which lead to strings with the desired mass scales are given.

Evaluation of the Effects of S-Allyl-L-cysteine, S-Methyl-L-cysteine, trans-S-1-Propenyl-L-cysteine, and Their N-Acetylated and S-Oxidized Metabolites on Human CYP Activities.

PubMed

Amano, Hirotaka; Kazamori, Daichi; Itoh, Kenji

2016-01-01

Three major organosulfur compounds of aged garlic extract, S-allyl-L-cysteine (SAC), S-methyl-L-cysteine (SMC), and trans-S-1-propenyl-L-cysteine (S1PC), were examined for their effects on the activities of five major isoforms of human CYP enzymes: CYP1A2, 2C9, 2C19, 2D6, and 3A4. The metabolite formation from probe substrates for the CYP isoforms was examined in human liver microsomes in the presence of organosulfur compounds at 0.01-1 mM by using liquid chromatography-tandem mass spectrometry (LC-MS/MS) analysis. Allicin, a major component of garlic, inhibited CYP1A2 and CYP3A4 activity by 21-45% at 0.03 mM. In contrast, a CYP2C9-catalyzed reaction was enhanced by up to 1.9 times in the presence of allicin at 0.003-0.3 mM. SAC, SMC, and S1PC had no effect on the activities of the five isoforms, except that S1PC inhibited CYP3A4-catalyzed midazolam 1'-hydroxylation by 31% at 1 mM. The N-acetylated metabolites of the three compounds inhibited the activities of several isoforms to a varying degree at 1 mM. N-Acetyl-S-allyl-L-cysteine and N-acetyl-S-methyl-L-cysteine inhibited the reactions catalyzed by CYP2D6 and CYP1A2, by 19 and 26%, respectively, whereas trans-N-acetyl-S-1-propenyl-L-cysteine showed weak to moderate inhibition (19-49%) of CYP1A2, 2C19, 2D6, and 3A4 activities. On the other hand, both the N-acetylated and S-oxidized metabolites of SAC, SMC, and S1PC had little effect on the reactions catalyzed by the five isoforms. These results indicated that SAC, SMC, and S1PC have little potential to cause drug-drug interaction due to CYP inhibition or activation in vivo, as judged by their minimal effects (IC 50 >1 mM) on the activities of five major isoforms of human CYP in vitro.

Negative modulation of the GABAA ρ1 receptor function by l-cysteine.

PubMed

Beltrán González, Andrea N; Vicentini, Florencia; Calvo, Daniel J

2018-01-01

l-Cysteine is an endogenous sulfur-containing amino acid with multiple and varied roles in the central nervous system, including neuroprotection and the maintenance of the redox balance. However, it was also suggested as an excitotoxic agent implicated in the pathogenesis of neurological disorders such as Parkinson's and Alzheimer's disease. l-Cysteine can modulate the activity of ionic channels, including voltage-gated calcium channels and glutamatergic NMDA receptors, whereas its effects on GABAergic neurotransmission had not been studied before. In the present work, we analyzed the effects of l-cysteine on responses mediated by homomeric GABA A ρ1 receptors, which are known for mediating tonic γ-aminobutyric acid (GABA) responses in retinal neurons. GABA A ρ1 receptors were expressed in Xenopus laevis oocytes and GABA-evoked chloride currents recorded by two-electrode voltage-clamp in the presence or absence of l-cysteine. l-Cysteine antagonized GABA A ρ1 receptor-mediated responses; inhibition was dose-dependent, reversible, voltage independent, and susceptible to GABA concentration. Concentration-response curves for GABA were shifted to the right in the presence of l-cysteine without a substantial change in the maximal response. l-Cysteine inhibition was insensitive to chemical protection of the sulfhydryl groups of the ρ1 subunits by the irreversible alkylating agent N-ethyl maleimide. Our results suggest that redox modulation is not involved during l-cysteine actions and that l-cysteine might be acting as a competitive antagonist of the GABA A ρ1 receptors. © 2017 International Society for Neurochemistry.

Black holes as beads on cosmic strings

NASA Astrophysics Data System (ADS)

Ashoorioon, Amjad; Mann, Robert B.

2014-11-01

We consider the possibility of the formation of cosmic strings with black holes as beads. We focus on the simplest setup where two black holes are formed on a long cosmic string. It turns out that in the absence of a background magnetic field and for observationally viable values for cosmic string tensions, μ \\lt 2× {{10}-7}, the tension of the strut in between the black holes has to be less than the ones that run into infinity. This result does not change if a cosmological constant is present. However, if a background magnetic field is turned on, we can have stable setups where the tensions of all cosmic strings are equal. We derive the equilibrium conditions in each of these setups depending on whether the black holes are extremal or non-extremal. We obtain cosmologically acceptable solutions with solar mass black holes and an intragalactic-strength cosmic magnetic field.

Domain Walls and Strings in Dense Quark Matter

NASA Astrophysics Data System (ADS)

Zhitnitsky, Ariel R.

2002-12-01

I discuss several types of domain walls and global strings which occur in colour superconducting quark matter due to the spontaneous violation of relevant U(1) and discrete symmetries. These include the baryon U(1)B, approximate axial U(1)A symmetries as well as an approximate U(1)Y symmetry arising from kaon condensation in colour-flavour locking phase. In this talk I concentrate on discussions of K strings due to their interesting internal structures. Specifically, I demonstrate that under some conditions the global U(1)Y symmetry may not be restored inside the string, in contrast with the standard expectations. Instead, K+ condensation occurs inside the core of the string if a relevant parameter \\cos θ K0 ≡ mK0^2 /μ eff2 is larger than some critical value θK0 ≥ θcrit. If this phenomenon happens, the U(1)Y strings become superconducting and may considerably influence the magnetic properties of dense quark matter, in particular in neutron stars.

Linear modal stability analysis of bowed-strings.

PubMed

Debut, V; Antunes, J; Inácio, O

2017-03-01

Linearised models are often invoked as a starting point to study complex dynamical systems. Besides their attractive mathematical simplicity, they have a central role for determining the stability properties of static or dynamical states, and can often shed light on the influence of the control parameters on the system dynamical behaviour. While the bowed string dynamics has been thoroughly studied from a number of points of view, mainly by time-domain computer simulations, this paper proposes to explore its dynamical behaviour adopting a linear framework, linearising the friction force near an equilibrium state in steady sliding conditions, and using a modal representation of the string dynamics. Starting from the simplest idealisation of the friction force given by Coulomb's law with a velocity-dependent friction coefficient, the linearised modal equations of the bowed string are presented, and the dynamical changes of the system as a function of the bowing parameters are studied using linear stability analysis. From the computed complex eigenvalues and eigenvectors, several plots of the evolution of the modal frequencies, damping values, and modeshapes with the bowing parameters are produced, as well as stability charts for each system mode. By systematically exploring the influence of the parameters, this approach appears as a preliminary numerical characterisation of the bifurcations of the bowed string dynamics, with the advantage of being very simple compared to sophisticated numerical approaches which demand the regularisation of the nonlinear interaction force. To fix the idea about the potential of the proposed approach, the classic one-degree-of-freedom friction-excited oscillator is first considered, and then the case of the bowed string. Even if the actual stick-slip behaviour is rather far from the linear description adopted here, the results show that essential musical features of bowed string vibrations can be interpreted from this simple approach

Cysteine cathepsins: their role in tumor progression and recent trends in the development of imaging probes

PubMed Central

Löser, Reik; Pietzsch, Jens

2015-01-01

Papain-like cysteine proteases bear an enormous potential as drug discovery targets for both infectious and systemic human diseases. The considerable progress in this field over the last two decades has also raised interest in the visualization of these enzymes in their native context, especially with regard to tumor imaging. After a short introduction to structure and general functions of human cysteine cathepsins, we highlight their importance for drug discovery and development and provide a critical update on the current state of knowledge toward their involvement in tumor progression, with a special emphasis on their role in therapy response. In accordance with a radiopharmaceutical point of view, the main focus of this review article will be the discussion of recently developed fluorescence and radiotracer-based imaging agents together with related molecular probes. PMID:26157794

Expression, purification and characterisation of two variant cysteine peptidases from Trypanosoma congolense with active site substitutions.

PubMed

Pillay, Davita; Boulangé, Alain F; Coetzer, Theresa H T

2010-12-01

Congopain, the major cysteine peptidase of Trypanosoma congolense is an attractive candidate for an anti-disease vaccine and target for the design of specific inhibitors. A complicating factor for the inclusion of congopain in a vaccine is that multiple variants of congopain are present in the genome of the parasite. In order to determine whether the variant congopain-like genes code for peptidases with enzymatic activities different to those of congopain, two variants were cloned and expressed. Two truncated catalytic domain variants were recombinantly expressed in Pichia pastoris. The two expressed catalytic domain variants differed slightly from one another in substrate preferences and also from that of C2 (the recombinant truncated form of congopain). Surprisingly, a variant with the catalytic triad Ser(25), His(159) and Asn(175) was shown to be active against classical cysteine peptidase substrates and inhibited by E-64, a class-specific cysteine protease inhibitor. Both catalytic domain clones and C2 had pH optima of either 6.0 or 6.5 implying that these congopain-like proteases are likely to be expressed and active in the bloodstream of the host animal. Copyright © 2010 Elsevier Inc. All rights reserved.

Redox-dependent Regulation of Gluconeogenesis by a Novel Mechanism Mediated by a Peroxidatic Cysteine of Peroxiredoxin.

PubMed

Irokawa, Hayato; Tachibana, Tsuyoshi; Watanabe, Toshihiko; Matsuyama, Yuka; Motohashi, Hozumi; Ogasawara, Ayako; Iwai, Kenta; Naganuma, Akira; Kuge, Shusuke

2016-09-16

Peroxiredoxin is an abundant peroxidase, but its non-peroxidase function is also important. In this study, we discovered that Tsa1, a major peroxiredoxin of budding yeast cells, is required for the efficient flux of gluconeogenesis. We found that the suppression of pyruvate kinase (Pyk1) via the interaction with Tsa1 contributes in part to gluconeogenic enhancement. The physical interactions between Pyk1 and Tsa1 were augmented during the shift from glycolysis to gluconeogenesis. Intriguingly, a peroxidatic cysteine in the catalytic center of Tsa1 played an important role in the physical Tsa1-Pyk1 interactions. These interactions are enhanced by exogenous H2O2 and by endogenous reactive oxygen species, which is increased during gluconeogenesis. Only the peroxidatic cysteine, but no other catalytic cysteine of Tsa1, is required for efficient growth during the metabolic shift to obtain maximum yeast growth (biomass). This Tsa1 function is separable from the peroxidase function as an antioxidant. This is the first report to demonstrate that peroxiredoxin has a novel nonperoxidase function as a redox-dependent target modulator and that pyruvate kinase is modulated via an alternative mechanism.

MOLECULAR IDENTIFICATION OF CYSTEINE AND TRYPSIN PROTEASE, EFFECT OF DIFFERENT HOSTS ON PROTEASE EXPRESSION, AND RNAI MEDIATED SILENCING OF CYSTEINE PROTEASE GENE IN THE SUNN PEST.

PubMed

Amiri, Azam; Bandani, Ali Reza; Alizadeh, Houshang

2016-04-01

Sunn pest, Eurygaster integriceps, is a serious pest of cereals in the wide area of the globe from Near and Middle East to East and South Europe and North Africa. This study described for the first time, identification of E. integriceps trypsin serine protease and cathepsin-L cysteine, transcripts involved in digestion, which might serve as targets for pest control management. A total of 478 and 500 base pair long putative trypsin and cysteine gene sequences were characterized and named Tryp and Cys, respectively. In addition, the tissue-specific relative gene expression levels of these genes as well as gluten hydrolase (Gl) were determined under different host kernels feeding conditions. Result showed that mRNA expression of Cys, Tryp, and Gl was significantly affected after feeding on various host plant species. Transcript levels of these genes were most abundant in the wheat-fed E. integriceps larvae compared to other hosts. The Cys transcript was detected exclusively in the gut, whereas the Gl and Tryp transcripts were detectable in both salivary glands and gut. Also possibility of Sunn pest gene silencing was studied by topical application of cysteine double-stranded RNA (dsRNA). The results indicated that topically applied dsRNA on fifth nymphal stage can penetrate the cuticle of the insect and induce RNA interference. The Cys gene mRNA transcript in the gut was reduced to 83.8% 2 days posttreatment. Also, it was found that dsRNA of Cys gene affected fifth nymphal stage development suggesting the involvement of this protease in the insect growth, development, and molting. © 2015 Wiley Periodicals, Inc.

Coupling of transverse and longitudinal waves in piano strings.

PubMed

Etchenique, Nikki; Collin, Samantha R; Moore, Thomas R

2015-04-01

The existence of longitudinal waves in vibrating piano strings has been previously established, as has their importance in producing the characteristic sound of the piano. Modeling of the coupling between the transverse and longitudinal motion of strings indicates that the amplitude of the longitudinal waves are quadratically related to the transverse displacement of the string, however, experimental verification of this relationship is lacking. In the work reported here this relationship is tested by driving the transverse motion of a piano string at only two frequencies, which simplifies the task of unambiguously identifying the constituent signals. The results indicate that the generally accepted relationship between the transverse motion and the longitudinal motion is valid. It is further shown that this dependence on transverse displacement is a good approximation when a string is excited by the impact of the hammer during normal play.

String stabilized ribbon growth a method for seeding same

DOEpatents

Sachs, Emanuel M.

1987-08-25

This invention is a method of initiating or seeding the growth of a crystalline or polycrystalline ribbon by the String Stabilized Ribbon Growth Method. The method for seeding the crystal growth comprises contacting a melt surface with a seed and two strings used in edge stabilization. The wetted strings attach to the wetted seed as a result of the freezing of the liquid melt. Upon drawing the seed, which is attached to the strings, away from the melt surface a melt liquid meniscus, a seed junction, and a growth interface forms. Further pulling of the attached seed causes a crystal ribbon to grow at the growth interface. The boundaries of the growing ribbon are: at the top the seed junction, at the bottom the freezing boundary of the melt liquid meniscus, and at the edges frozen-in strings.

Ecohydraulics of Strings and Beads in Bedrock Rivers

NASA Astrophysics Data System (ADS)

Wohl, E.

2016-12-01

Twenty years ago, Jack Stanford and others described rivers in bedrock canyons as resembling beads on a string when viewed in planform. The beads are relatively wide, low gradient river segments with floodplains, whereas the strings are the intervening steep, narrow river segments with minimal floodplain development. This pattern of longitudinal variations in channel and valley morphology along bedrock canyon rivers is very common, from small channels to major rivers such as the Colorado. Basic understanding of river ecosystems, as well as limited studies, indicates that the beads are more retentive and biologically productive. Although both strings and beads can provide habitat for diverse organisms, strings are more likely to serve as migration corridors, whereas beads provide spawning and nursery habitat, facilitate lateral (channel-floodplain) and vertical (channel-hyporheic) exchanges and associated habitat diversity, and retain dissolved and particulate organic matter. Recognition of the different characteristics and functions of strings and beads can be used to identify their spatial distribution along a river or within a river network and the hydraulically driven processes that sustain channel form, water quality, and biota within strings and beads. Diverse modeling approaches can then be used to quantify the fluxes of water and sediment needed to maintain these hydraulically driven processes. This conceptual framework is illustrated using examples from mountain streams in the Southern Rockies and canyon rivers in the southwestern United States.

Fractional bosonic strings

NASA Astrophysics Data System (ADS)

Diaz, Victor Alfonzo; Giusti, Andrea

2018-03-01

The aim of this paper is to present a simple generalization of bosonic string theory in the framework of the theory of fractional variational problems. Specifically, we present a fractional extension of the Polyakov action, for which we compute the general form of the equations of motion and discuss the connection between the new fractional action and a generalization the Nambu-Goto action. Consequently, we analyze the symmetries of the modified Polyakov action and try to fix the gauge, following the classical procedures. Then we solve the equations of motion in a simplified setting. Finally, we present a Hamiltonian description of the classical fractional bosonic string and introduce the fractional light-cone gauge. It is important to remark that, throughout the whole paper, we thoroughly discuss how to recover the known results as an "integer" limit of the presented model.

Structural interactions between retroviral Gag proteins examined by cysteine cross-linking.

PubMed Central

Hansen, M S; Barklis, E

1995-01-01

We have examined structural interactions between Gag proteins within Moloney murine leukemia virus (M-MuLV) particles by making use of the cysteine-specific cross-linking agents iodine and bis-maleimido hexane. Virion-associated wild-type M-MuLV Pr65Gag proteins in immature particles were intermolecularly cross-linked at cysteines to form Pr65Gag oligomers, from dimers to pentamers or hexamers. Following a systematic approach of cysteine-to-serine mutagenesis, we have shown that cross-linking of Pr65Gag occurred at cysteines of the nucleocapsid (NC) Cys-His motif, suggesting that the Cys-His motifs within virus particles are packed in close proximity. The M-MuLV Pr65Gag protein did not cross-link to the human immunodeficiency virus Pr55Gag protein when the two molecules were coexpressed, indicating either that they did not coassemble or that heterologous Gag proteins were not in close enough proximity to be cross-linked. Using an assembly-competent, protease-minus, cysteine-minus Pr65Gag protein as a template, novel cysteine residues were generated in the M-MuLV capsid domain major homology region (MHR). Cross-linking of proteins containing MHR cysteines showed above-background levels of Gag-Gag dimers but also identified a novel cellular factor, present in virions, that cross-linked to MHR residues. Although the NC cysteine mutation was compatible with M-MuLV particle assembly, deletions of the NC domain were not tolerated. These results suggest that the Cys-His motif is held in close proximity within immature M-MuLV particles by interactions between CA domains and/or non-Cys-His motif domains of the NC. PMID:7815493

Small scale structure on cosmic strings

NASA Technical Reports Server (NTRS)

Albrecht, Andreas

1989-01-01

The current understanding of cosmic string evolution is discussed, and the focus placed on the question of small scale structure on strings, where most of the disagreements lie. A physical picture designed to put the role of the small scale structure into more intuitive terms is presented. In this picture it can be seen how the small scale structure can feed back in a major way on the overall scaling solution. It is also argued that it is easy for small scale numerical errors to feed back in just such a way. The intuitive discussion presented here may form the basis for an analytic treatment of the small scale structure, which argued in any case would be extremely valuable in filling the gaps in the present understanding of cosmic string evolution.

Actomyosin purse strings: renewable resources that make morphogenesis robust and resilient

PubMed Central

Rodriguez-Diaz, Alice; Toyama, Yusuke; Abravanel, Daniel L.; Wiemann, John M.; Wells, Adrienne R.; Tulu, U. Serdar; Edwards, Glenn S.; Kiehart, Daniel P.

2008-01-01

Dorsal closure in Drosophila is a model system for cell sheet morphogenesis and wound healing. During closure two sheets of lateral epidermis move dorsally to close over the amnioserosa and form a continuous epidermis. Forces from the amnioserosa and actomyosin-rich, supracellular purse strings at the leading edges of these lateral epidermal sheets drive closure. Purse strings generate the largest force for closure and occur during development and wound healing throughout phylogeny. We use laser microsurgery to remove some or all of the purse strings from developing embryos. Free edges produced by surgery undergo characteristic responses as follows. Intact cells in the free edges, which previously had no purse string, recoil away from the incision and rapidly assemble new, secondary purse strings. Next, recoil slows, then pauses at a turning point. Following a brief delay, closure resumes and is powered to completion by the secondary purse strings. We confirm that the assembly of the secondary purse strings requires RhoA. We show that α-actinin alternates with nonmuscle myosin II along purse strings and requires nonmuscle myosin II for its localization. Together our data demonstrate that purse strings are renewable resources that contribute to the robust and resilient nature of closure. PMID:19404432

Energy in a String Wave

NASA Astrophysics Data System (ADS)

Ng, Chiu-king

2010-01-01

When one end of a taut horizontal elastic string is shaken repeatedly up and down, a transverse wave (assume sine waveform) will be produced and travel along it. College students know this type of wave motion well. They know when the wave passes by, each element of the string will perform an oscillating up-down motion, which in mechanics is termed simple harmonic2. They also know elements of the string at the highest and the lowest positions—the crests and the troughs—are momentarily at rest, while those at the centerline (zero displacement) have the greatest speed, as shown in Fig. 1. Irrespective of this, they are less familiar with the energy associated with the wave. They may fail to answer a question such as, "In a traveling string wave, which elements have respectively the greatest kinetic energy (KE) and the greatest potential energy (PE)?" The answer to the former is not difficult; elements at zero position have the fastest speed and hence their KE, being proportional to the square of speed, is the greatest. To the PE, what immediately comes to their mind may be the simple harmonic motion (SHM), in which the PE is the greatest and the KE is zero at the two turning points. It may thus lead them to think elements at crests or troughs have the greatest PE. Unfortunately, this association is wrong. Thinking that the crests or troughs have the greatest PE is a misconception.3

Entanglement Entropy in Two-Dimensional String Theory.

PubMed

Hartnoll, Sean A; Mazenc, Edward A

2015-09-18

To understand an emergent spacetime is to understand the emergence of locality. Entanglement entropy is a powerful diagnostic of locality, because locality leads to a large amount of short distance entanglement. Two-dimensional string theory is among the very simplest instances of an emergent spatial dimension. We compute the entanglement entropy in the large-N matrix quantum mechanics dual to two-dimensional string theory in the semiclassical limit of weak string coupling. We isolate a logarithmically large, but finite, contribution that corresponds to the short distance entanglement of the tachyon field in the emergent spacetime. From the spacetime point of view, the entanglement is regulated by a nonperturbative "graininess" of space.

Global structure of Gott's two-string spacetime

NASA Astrophysics Data System (ADS)

Cutler, Curt

1992-01-01

Gott has recently obtained exact solutions to Einstein's equation representing two infinitely long, straight cosmic strings that gravitationally scatter off each other. A remarkable feature of these solutions is that they contain closed timelike curves when the relative velocity of the strings is sufficiently high. In this paper we elucidate the global structure of Gott's two-string spacetime. In particular, we prove that the closed timelike curves are confined to a certain region of the spacetime, and that the spacetime contains complete spacelike, edgeless, achronal hypersurfaces, from which the causality-violating regions may be said to evolve. We then explicitly determine the boundary of the region containing closed timelike curves.

Photocontrol of the mitotic kinesin Eg5 using a novel S-trityl-L-cysteine analogue as a photochromic inhibitor.

PubMed

Ishikawa, Kumiko; Tohyama, Kanako; Mitsuhashi, Shinya; Maruta, Shinsaku

2014-04-01

Because the mitotic kinesin Eg5 is essential for the formation of bipolar spindles during eukaryotic cell division, it has been considered as a potential target for cancer treatment. A number of specific and potent inhibitors of Eg5 are known. S-trityl-L-cysteine is one of the inhibitors of Eg5 whose molecular mechanism of inhibition was well studied. The trityl group of S-trityl-L-cysteine was shown to be a key moiety required for potent inhibition. In this study, we synthesized a novel photochromic S-trityl-L-cysteine analogue, 4-(N-(2-(N-acetylcysteine-S-yl) acetyl) amino)-4'- (N-(2-(N-(triphenylmethyl)amino)acetyl)amino)azobenzene (ACTAB), composed of a trityl group, azobenzene and N-acetyl-L-cysteine, which exhibits cis-trans photoisomerization in order to photocontrol the function of Eg5. ACTAB exhibited cis-trans photoisomerization upon alternating irradiation at two different wavelengths in the visible range, 400 and 480 nm. ACTAB induced reversible changes in the inhibitory activity of ATPase and motor activities correlating with the cis-trans photoisomerization. Compared with cis-ACTAB, trans-ACTAB reduced ATPase activity and microtubule gliding velocity more significantly. These results suggest that ACTAB could be used as photochromic inhibitor of Eg5 to achieve photocontrol of living cells.

Chern-Simons improved Hamiltonians for strings in three space dimensions

NASA Astrophysics Data System (ADS)

Gordeli, Ivan; Melnikov, Dmitry; Niemi, Antti J.; Sedrakyan, Ara

2016-07-01

In the case of a structureless string the extrinsic curvature and torsion determine uniquely its shape in three-dimensional ambient space, by way of solution of the Frenet equation. In many physical scenarios there are in addition symmetries that constrain the functional form of the ensuing energy function. For example, the energy of a structureless string should be independent of the way the string is framed in the Frenet equation. Thus the energy should only involve the curvature and torsion as dynamical variables, in a manner that resembles the Hamiltonian of the Abelian Higgs model. Here we investigate the effect of symmetry principles in the construction of Hamiltonians for structureless strings. We deduce from the concept of frame independence that in addition to extrinsic curvature and torsion, the string can also engage a three-dimensional Abelian bulk gauge field as a dynamical variable. We find that the presence of a bulk gauge field gives rise to a long-range interaction between different strings. Moreover, when this gauge field is subject to Chern-Simons self-interaction, it becomes plausible that interacting strings are subject to fractional statistics in three space dimensions.

Microscopic approach to string gas cosmology

NASA Astrophysics Data System (ADS)

Evnin, Oleg

2014-03-01

In this contribution to the proceedings of the Conference on Modern Physics of Compact Stars and Relativistic Gravity in Yerevan, Armenia (September 18-21, 2013), I review recent work attempting to give a fundamental definition to string evolution in a dynamical, fully compact universe, and present a sketch of how the resulting formalism can be used for addressing questions of phenomenological significance in the field of string gas cosmology.

S-Nitroso-N-acetyl-L-cysteine ethyl ester (SNACET) and N-acetyl-L-cysteine ethyl ester (NACET)-Cysteine-based drug candidates with unique pharmacological profiles for oral use as NO, H2S and GSH suppliers and as antioxidants: Results and overview.

PubMed

Tsikas, Dimitrios; Schwedhelm, Kathrin S; Surdacki, Andrzej; Giustarini, Daniela; Rossi, Ranieri; Kukoc-Modun, Lea; Kedia, George; Ückert, Stefan

2018-02-01

S -Nitrosothiols or thionitrites with the general formula RSNO are formally composed of the nitrosyl cation (NO + ) and a thiolate (RS - ), the base of the corresponding acids RSH. The smallest S -nitrosothiol is HSNO and derives from hydrogen sulfide (HSH, H 2 S). The most common physiological S -nitrosothiols are derived from the amino acid L-cysteine (CysSH). Thus, the simplest S -nitrosothiol is S -nitroso-L-cysteine (CysSNO). CysSNO is a spontaneous potent donor of nitric oxide (NO) which activates soluble guanylyl cyclase to form cyclic guanosine monophosphate (cGMP). This activation is associated with multiple biological actions that include relaxation of smooth muscle cells and inhibition of platelet aggregation. Like NO, CysSNO is a short-lived species and occurs physiologically at concentrations around 1 nM in human blood. CysSNO can be formed from CysSH and higher oxides of NO including nitrous acid (HONO) and its anhydride (N 2 O 3 ). The most characteristic feature of RSNO is the S-transnitrosation reaction by which the NO + group is reversibly transferred to another thiolate. By this way numerous RSNO can be formed such as the low-molecular-mass S -nitroso- N -acetyl-L-cysteine (SNAC) and S -nitroso-glutathione (GSNO), and the high-molecular-mass S -nitrosol-L-cysteine hemoglobin (HbCysSNO) present in erythrocytes and S -nitrosol-L-cysteine albumin (AlbCysSNO) present in plasma at concentrations of the order of 200 nM. All above mentioned RSNO exert NO-related biological activity, but they must be administered intravenously. This important drawback can be overcome by lipophilic charge-free RSNO. Thus, we prepared the ethyl ester of SNAC, the S -nitroso- N -acetyl-L-cysteine ethyl ester (SNACET), from synthetic N -acetyl-L-cysteine ethyl ester (NACET). Both NACET and SNACET have improved pharmacological features over N -acetyl-L-cysteine (NAC) and S -nitroso- N -acetyl-L-cysteine (SNAC), respectively, including higher oral bioavailability. SNACET

String model for the dynamics of glass-forming liquids

PubMed Central

Pazmiño Betancourt, Beatriz A.; Douglas, Jack F.; Starr, Francis W.

2014-01-01

We test the applicability of a living polymerization theory to describe cooperative string-like particle rearrangement clusters (strings) observed in simulations of a coarse-grained polymer melt. The theory quantitatively describes the interrelation between the average string length L, configurational entropy Sconf, and the order parameter for string assembly Φ without free parameters. Combining this theory with the Adam-Gibbs model allows us to predict the relaxation time τ in a lower temperature T range than accessible by current simulations. In particular, the combined theories suggest a return to Arrhenius behavior near Tg and a low T residual entropy, thus avoiding a Kauzmann “entropy crisis.” PMID:24880303

String model for the dynamics of glass-forming liquids.

PubMed

Pazmiño Betancourt, Beatriz A; Douglas, Jack F; Starr, Francis W

2014-05-28

We test the applicability of a living polymerization theory to describe cooperative string-like particle rearrangement clusters (strings) observed in simulations of a coarse-grained polymer melt. The theory quantitatively describes the interrelation between the average string length L, configurational entropy Sconf, and the order parameter for string assembly Φ without free parameters. Combining this theory with the Adam-Gibbs model allows us to predict the relaxation time τ in a lower temperature T range than accessible by current simulations. In particular, the combined theories suggest a return to Arrhenius behavior near Tg and a low T residual entropy, thus avoiding a Kauzmann "entropy crisis."

Proteomic Analyses of Cysteine Redox in High-Fat-Fed and Fasted Mouse Livers: Implications for Liver Metabolic Homeostasis.

PubMed

Li, Yixing; Luo, Zupeng; Wu, Xilong; Zhu, Jun; Yu, Kai; Jin, Yi; Zhang, Zhiwang; Zhao, Shuhong; Zhou, Lei

2018-01-05

Intensive oxidative stress occurs during high-fat-diet-induced hepatic fat deposition, suggesting a critical role for redox signaling in liver metabolism. Intriguingly, evidence shows that fasting could also result in redox-profile changes largely through reduced oxidant or increased antioxidant levels. However, a comprehensive landscape of redox-modified hepatic substrates is lacking, thereby hindering our understanding of liver metabolic homeostasis. We employed a proteomic approach combining iodoacetyl tandem mass tag and nanoliquid chromatography tandem mass spectrometry to quantitatively probe the effects of high-fat feeding and fasting on in vivo redox-based cysteine modifications. Compared with control groups, ∼60% of cysteine residues exhibited downregulated oxidation ratios by fasting, whereas ∼94% of these ratios were upregulated by high-fat feeding. Importantly, in fasted livers, proteins exhibiting diminished cysteine oxidation were annotated in pathways associated with fatty acid metabolism, carbohydrate metabolism, insulin, peroxisome proliferator-activated receptors, and oxidative respiratory chain signaling, suggesting that fasting-induced redox changes targeted major metabolic pathways and consequently resulted in hepatic lipid accumulation.

Causal Structure around Spinning 5-DIMENSIONAL Cosmic Strings

NASA Astrophysics Data System (ADS)

Slagter, Reinoud Jan

2008-09-01

We present a numerical solution of a stationary 5-dimensional spinning cosmic string in the Einstein-Yang-Mills (EYM) model, where the extra bulk coordinate ψ is periodic. It turns out that when gψψ approaches zero, i.e., a closed time-like curve (CTC) would appear, the solution becomes singular. We also investigated the geometrical structure of the static 5D cosmic string. Two opposite moving 5D strings could, in contrast with the 4D case, fulfil the Gott condition for CTC formation.

D1 string dynamics in curved backgrounds with fluxes

NASA Astrophysics Data System (ADS)

Banerjee, Aritra; Biswas, Sagar; Nayak, Rashmi R.

2016-04-01

We study various rotating and oscillating D-string configurations in some general backgrounds with fluxes. In particular, we look for solutions to the equations of motion of various rigidly rotating D-strings in AdS3 background with mixed flux, and in the intersecting D-brane geometries. We find out relations among various conserved charges corresponding to the breathing and rotating D-string configurations.

Identification of market trends with string and D2-brane maps

NASA Astrophysics Data System (ADS)

Bartoš, Erik; Pinčák, Richard

2017-08-01

The multidimensional string objects are introduced as a new alternative for an application of string models for time series forecasting in trading on financial markets. The objects are represented by open string with 2-endpoints and D2-brane, which are continuous enhancement of 1-endpoint open string model. We show how new object properties can change the statistics of the predictors, which makes them the candidates for modeling a wide range of time series systems. String angular momentum is proposed as another tool to analyze the stability of currency rates except the historical volatility. To show the reliability of our approach with application of string models for time series forecasting we present the results of real demo simulations for four currency exchange pairs.

String Theory Methods for Condensed Matter Physics

NASA Astrophysics Data System (ADS)

Nastase, Horatiu

2017-09-01

Preface; Acknowledgments; Introduction; Part I. Condensed Matter Models and Problems: 1. Lightning review of statistical mechanics, thermodynamics, phases and phase transitions; 2. Magnetism in solids; 3. Electrons in solids: Fermi gas vs. Fermi liquid; 4. Bosonic quasi-particles: phonons and plasmons; 5. Spin-charge separation in 1+1 dimensional solids: spinons and holons; 6. The Ising model and the Heisenberg spin chain; 7. Spin chains and integrable systems; 8. The thermodynamic Bethe ansatz; 9. Conformal field theories and quantum phase transitions; 10. Classical vs. quantum Hall effect; 11. Superconductivity: Landau-Ginzburg, London and BCS; 12. Topology and statistics: Berry and Chern-Simons, anyons and nonabelions; 13. Insulators; 14. The Kondo effect and the Kondo problem; 15. Hydrodynamics and transport properties: from Boltzmann to Navier-Stokes; Part II. Elements of General Relativity and String Theory: 16. The Einstein equation and the Schwarzschild solution; 17. The Reissner-Nordstrom and Kerr-Newman solutions and thermodynamic properties of black holes; 18. Extra dimensions and Kaluza-Klein; 19. Electromagnetism and gravity in various dimensions. Consistent truncations; 20. Gravity plus matter: black holes and p-branes in various dimensions; 21. Weak/strong coupling dualities in 1+1, 2+1, 3+1 and d+1 dimensions; 22. The relativistic point particle and the relativistic string; 23. Lightcone strings and quantization; 24. D-branes and gauge fields; 25. Electromagnetic fields on D-branes. Supersymmetry and N = 4 SYM. T-duality of closed strings; 26. Dualities and M theory; 27. The AdS/CFT correspondence: definition and motivation; Part III. Applying String Theory to Condensed Matter Problems: 28. The pp wave correspondence: string Hamiltonian from N = 4 SYM; 29. Spin chains from N = 4 SYM; 30. The Bethe ansatz: Bethe strings from classical strings in AdS; 31. Integrability and AdS/CFT; 32. AdS/CFT phenomenology: Lifshitz, Galilean and Schrodinger

SAGE: String-overlap Assembly of GEnomes.

PubMed

Ilie, Lucian; Haider, Bahlul; Molnar, Michael; Solis-Oba, Roberto

2014-09-15

De novo genome assembly of next-generation sequencing data is one of the most important current problems in bioinformatics, essential in many biological applications. In spite of significant amount of work in this area, better solutions are still very much needed. We present a new program, SAGE, for de novo genome assembly. As opposed to most assemblers, which are de Bruijn graph based, SAGE uses the string-overlap graph. SAGE builds upon great existing work on string-overlap graph and maximum likelihood assembly, bringing an important number of new ideas, such as the efficient computation of the transitive reduction of the string overlap graph, the use of (generalized) edge multiplicity statistics for more accurate estimation of read copy counts, and the improved use of mate pairs and min-cost flow for supporting edge merging. The assemblies produced by SAGE for several short and medium-size genomes compared favourably with those of existing leading assemblers. SAGE benefits from innovations in almost every aspect of the assembly process: error correction of input reads, string-overlap graph construction, read copy counts estimation, overlap graph analysis and reduction, contig extraction, and scaffolding. We hope that these new ideas will help advance the current state-of-the-art in an essential area of research in genomics.

Dynamics of cosmic strings with higher-dimensional windings

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

Yamauchi, Daisuke; Lake, Matthew J.; Thailand Center of Excellence in Physics, Ministry of Education,Bangkok 10400

2015-06-11

We consider F-strings with arbitrary configurations in the Minkowski directions of a higher-dimensional spacetime, which also wrap and spin around S{sup 1} subcycles of constant radius in an arbitrary internal manifold, and determine the relation between the higher-dimensional and the effective four-dimensional quantities that govern the string dynamics. We show that, for any such configuration, the motion of the windings in the compact space may render the string effectively tensionless from a four-dimensional perspective, so that it remains static with respect to the large dimensions. Such a critical configuration occurs when (locally) exactly half the square of the string lengthmore » lies in the large dimensions and half lies in the compact space. The critical solution is then seen to arise as a special case, in which the wavelength of the windings is equal to their circumference. As examples, long straight strings and circular loops are considered in detail, and the solutions to the equations of motion that satisfy the tensionless condition are presented. These solutions are then generalized to planar loops and arbitrary three-dimensional configurations. Under the process of dimensional reduction, in which higher-dimensional motion is equivalent to an effective worldsheet current (giving rise to a conserved charge), this phenomenon may be seen as the analogue of the tensionless condition which arises for superconducting and chiral-current carrying cosmic strings.« less

Dynamics of cosmic strings with higher-dimensional windings

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

Yamauchi, Daisuke; Lake, Matthew J., E-mail: yamauchi@resceu.s.u-tokyo.ac.jp, E-mail: matthewj@nu.ac.th

2015-06-01

We consider F-strings with arbitrary configurations in the Minkowski directions of a higher-dimensional spacetime, which also wrap and spin around S{sup 1} subcycles of constant radius in an arbitrary internal manifold, and determine the relation between the higher-dimensional and the effective four-dimensional quantities that govern the string dynamics. We show that, for any such configuration, the motion of the windings in the compact space may render the string effectively tensionless from a four-dimensional perspective, so that it remains static with respect to the large dimensions. Such a critical configuration occurs when (locally) exactly half the square of the string lengthmore » lies in the large dimensions and half lies in the compact space. The critical solution is then seen to arise as a special case, in which the wavelength of the windings is equal to their circumference. As examples, long straight strings and circular loops are considered in detail, and the solutions to the equations of motion that satisfy the tensionless condition are presented. These solutions are then generalized to planar loops and arbitrary three-dimensional configurations. Under the process of dimensional reduction, in which higher-dimensional motion is equivalent to an effective worldsheet current (giving rise to a conserved charge), this phenomenon may be seen as the analogue of the tensionless condition which arises for superconducting and chiral-current carrying cosmic strings.« less

Power suppression at large scales in string inflation

NASA Astrophysics Data System (ADS)

Cicoli, Michele; Downes, Sean; Dutta, Bhaskar

2013-12-01

We study a possible origin of the anomalous suppression of the power spectrum at large angular scales in the cosmic microwave background within the framework of explicit string inflationary models where inflation is driven by a closed string modulus parameterizing the size of the extra dimensions. In this class of models the apparent power loss at large scales is caused by the background dynamics which involves a sharp transition from a fast-roll power law phase to a period of Starobinsky-like slow-roll inflation. An interesting feature of this class of string inflationary models is that the number of e-foldings of inflation is inversely proportional to the string coupling to a positive power. Therefore once the string coupling is tuned to small values in order to trust string perturbation theory, enough e-foldings of inflation are automatically obtained without the need of extra tuning. Moreover, in the less tuned cases the sharp transition responsible for the power loss takes place just before the last 50-60 e-foldings of inflation. We illustrate these general claims in the case of Fibre Inflation where we study the strength of this transition in terms of the attractor dynamics, finding that it induces a pivot from a blue to a redshifted power spectrum which can explain the apparent large scale power loss. We compute the effects of this pivot for example cases and demonstrate how magnitude and duration of this effect depend on model parameters.

Geodesics In A Spinning String Spacetime

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

Culetu, Hristu

2006-11-28

The geodesics equations for a rotating observer in a spinning string geometry are investigated using the Euler - Lagrange equations. For test particles with vanishing angular momentum, the radial equation of motion does not depend on the angular velocity {omega} but on the angular momentum of the string. A massless particle moves tachyonic but iteed tends asymptotically to unit velocity after a time of the order of few Planck time b. The spacetime has a horizon at r = 0, irrespective of the value of {omega} but its angular velocity is given by {omega} - 1/b. The Sagnac time delaymore » is computed proving to depend both on {omega} and the radius of the circular orbit. The velocity of an ingoing massive test particle approaches zero very close to the spinning string, as if it were rejected by it.« less

Little string origin of surface defects

NASA Astrophysics Data System (ADS)

Haouzi, Nathan; Schmid, Christian

2017-05-01

We derive a large class of codimension-two defects of 4d \\mathcal{N}=4 Super Yang-Mills (SYM) theory from the (2, 0) little string. The origin of the little string is type IIB theory compactified on an ADE singularity. The defects are D-branes wrapping the 2-cycles of the singularity. We use this construction to make contact with the description of SYM defects due to Gukov and Witten [1]. Furthermore, we provide a geometric perspective on the nilpotent orbit classification of codimension-two defects, and the connection to ADE-type Toda CFT. The only data needed to specify the defects is a set of weights of the algebra obeying certain constraints, which we give explicitly. We highlight the differences between the defect classification in the little string theory and its (2 , 0) CFT limit.

A black hole quartet: New solutions and applications to string theory

NASA Astrophysics Data System (ADS)

Padi, Megha

In this thesis, we study a zoo of black hole solutions which help us connect string theory to the universe we live in. The intuition for how to attack fundamental problems can often be found in a toy model. In Chapter 2, we show that three-dimensional topologically massive gravity with a negative cosmological constant -ℓ -2 and coupling constant has "warped AdS3" solutions with SL(2, R ) x U(1) isometry. For muℓ > 3, we show that certain discrete quotients of warped AdS3 lead to black holes. Their thermodynamics is consistent with the existence of a holographic dual CFT with central charges cR = 15mℓ 2+81Gmm ℓ2+27 and cL = 12mℓ 2Gmm ℓ2+27 . The entropy of many supersymmetric black holes have been accounted for, but more realistic non-supersymmetric black holes have been largely overlooked. In Chapter 3, we derive new single-centered and multi-centered non-BPS black hole solutions for several four dimensional models which, after Kaluza-Klein reduction, admit a description in terms of a sigma model with symmetric target space. In particular, we provide the exact solution with generic charges and asymptotic moduli in N=2 supergravity coupled to one vector multiplet. As it stands, the current formulation of string theory allows for an extremely large number of possible solutions (or vacua). We first analyze this landscape by looking for universal characteristics. In Chapter 4, we provide evidence for the conjecture that gravity is always the weakest force in any string compactification. We show that, in several examples arising in string theory, higher-derivative corrections always make extremal non-supersymmetric black holes lighter than the classical bound M/Q = 1. In Chapter 5, we construct novel black hole bound states, called orientiholes, that are T-dual to IIB orientifold compactifications. The gravitational entropy of such orientiholes provides an "experimental" estimate of the number of vacua in various sectors of the IIB landscape. Furthermore

Cosmic strings and the large-scale structure

NASA Technical Reports Server (NTRS)

Stebbins, Albert

1988-01-01

A possible problem for cosmic string models of galaxy formation is presented. If very large voids are common and if loop fragmentation is not much more efficient than presently believed, then it may be impossible for string scenarios to produce the observed large-scale structure with Omega sub 0 = 1 and without strong environmental biasing.

THE FLOW AROUND A COSMIC STRING. I. HYDRODYNAMIC SOLUTION

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

Beresnyak, Andrey; Nordita, KTH Royal Institute of Technology and Stockholm University, SE-10691

2015-05-10

Cosmic strings are linear topological defects which are hypothesized to be produced during inflation. Most searches for strings have relied on the string’s lensing of background galaxies or the cosmic microwave background. In this paper, I obtained a solution for the supersonic flow of collisional gas past the cosmic string which has two planar shocks with a shock compression ratio that depends on the angle defect of the string and its speed. The shocks result in the compression and heating of the gas and, given favorable conditions, particle acceleration. Gas heating and over-density in an unusual wedge shape can bemore » detected by observing the Hi line at high redshifts. Particle acceleration can occur in the present-day universe when the string crosses the hot gas contained in galaxy clusters and, since the consequences of such a collision persist for cosmological timescales, could be located by looking at unusual large-scale radio sources situated on a single spatial plane.« less

The structural dynamics of the American five-string banjo

NASA Astrophysics Data System (ADS)

Dickey, Joe

2003-11-01

The American five-string banjo is unique among musical instruments in that many significant parameters that effect tone are easily adjusted. This is probably why so many banjo players fiddle with their banjo. The instrument is a combination of canonical vibrating systems (strings, and a circular membrane) and therefore more amenable to analysis and modeling than most other musical instruments (e.g., the violin). Such an analysis is presented here. The model is a harmonically driven string which excites the other strings and a membrane under tension, causing the membrane to radiate sound. Three figures-of-merit, FOMs, are assumed. They are loudness, brightness, and decay of the sound. The effects of a number of parameters on the proposed FOMs are investigated. Among these are the loss factor and tension of the membrane, the mass of the bridge, and the location on the string of the excitation. It is noted that the calculated effects of the changes agree with generally accepted setup practices.

Match-bounded String Rewriting Systems

NASA Technical Reports Server (NTRS)

Geser, Alfons; Hofbauer, Dieter; Waldmann, Johannes

2003-01-01

We introduce a new class of automated proof methods for the termination of rewriting systems on strings. The basis of all these methods is to show that rewriting preserves regular languages. To this end, letters are annotated with natural numbers, called match heights. If the minimal height of all positions in a redex is h+1 then every position in the reduct will get height h+1. In a match-bounded system, match heights are globally bounded. Using recent results on deleting systems, we prove that rewriting by a match-bounded system preserves regular languages. Hence it is decidable whether a given rewriting system has a given match bound. We also provide a sufficient criterion for the abence of a match-bound. The problem of existence of a match-bound is still open. Match-boundedness for all strings can be used as an automated criterion for termination, for match-bounded systems are terminating. This criterion can be strengthened by requiring match-boundedness only for a restricted set of strings, for instance the set of right hand sides of forward closures.

LETTER TO THE EDITOR: A disintegrating cosmic string

NASA Astrophysics Data System (ADS)

Griffiths, J. B.; Docherty, P.

2002-06-01

We present a simple sandwich gravitational wave of the Robinson-Trautman family. This is interpreted as representing a shock wave with a spherical wavefront which propagates into a Minkowski background minus a wedge (i.e. the background contains a cosmic string). The deficit angle (the tension) of the string decreases through the gravitational wave, which then ceases. This leaves an expanding spherical region of Minkowski space behind it. The decay of the cosmic string over a finite interval of retarded time may be considered to generate the gravitational wave.

Novel and Viable Acetylcholinesterase Target Site for Developing Effective and Environmentally Safe Insecticides

PubMed Central

Pang, Yuan-Ping; Brimijoin, Stephen; Ragsdale, David W; Zhu, Kun Yan; Suranyi, Robert

2012-01-01

Insect pests are responsible for human suffering and financial losses worldwide. New and environmentally safe insecticides are urgently needed to cope with these serious problems. Resistance to current insecticides has resulted in a resurgence of insect pests, and growing concerns about insecticide toxicity to humans discourage the use of insecticides for pest control. The small market for insecticides has hampered insecticide development; however, advances in genomics and structural genomics offer new opportunities to develop insecticides that are less dependent on the insecticide market. This review summarizes the literature data that support the hypothesis that an insect-specific cysteine residue located at the opening of the acetylcholinesterase active site is a promising target site for developing new insecticides with reduced off-target toxicity and low propensity for insect resistance. These data are used to discuss the differences between targeting the insect-specific cysteine residue and targeting the ubiquitous catalytic serine residue of acetylcholinesterase from the perspective of reducing off-target toxicity and insect resistance. Also discussed is the prospect of developing cysteine-targeting anticholinesterases as effective and environmentally safe insecticides for control of disease vectors, crop damage, and residential insect pests within the financial confines of the present insecticide market. PMID:22280344

Tensor modes on the string theory landscape

NASA Astrophysics Data System (ADS)

Westphal, Alexander

2013-04-01

We attempt an estimate for the distribution of the tensor mode fraction r over the landscape of vacua in string theory. The dynamics of eternal inflation and quantum tunneling lead to a kind of democracy on the landscape, providing no bias towards large-field or small-field inflation regardless of the class of measure. The tensor mode fraction then follows the number frequency distributions of inflationary mechanisms of string theory over the landscape. We show that an estimate of the relative number frequencies for small-field vs large-field inflation, while unattainable on the whole landscape, may be within reach as a regional answer for warped Calabi-Yau flux compactifications of type IIB string theory.

Cysteine Inhibits Mercury Methylation by Geobacter sulfurreducens PCA Mutant Δ omcBESTZ

DOE PAGES

Lin, Hui; Lu, Xia; Liang, Liyuan; ...

2015-04-21

For cysteine enhances Hg uptake and methylation by Geobacter sulfurreducens PCA wild type (WT) strain in short-term assays. The prevalence of this enhancement in other strains remains poorly understood. We examined the influence of cysteine concentration on time-dependent Hg(II) reduction, sorption and methylation by PCA-WT and its c-type cytochrome-deficient mutant ( omcBESTZ) in phosphate buffered saline. Without cysteine, the mutant methylated twice as much Hg(II) as the PCA-WT, whereas addition of cysteine inhibited Hg methylation, regardless of the reaction time. PCA-WT, but, exhibited both time-dependent and cysteine concentration-dependent methylation. In 144 hour assay, nearly complete sorption of the Hg(II) bymore » PCA-WT occurred in the presence of 1 mM cysteine, resulting in our highest observed methylmercury production. Moreover, the chemical speciation modeling and experimental data suggest that uncharged Hg(II) species are more readily taken up, and that this uptake is kinetic limiting, thereby affecting Hg methylation by both mutant and WT.« less

Cysteine cathepsin S processes leptin, inactivating its biological activity.

PubMed

Oliveira, Marcela; Assis, Diego M; Paschoalin, Thaysa; Miranda, Antonio; Ribeiro, Eliane B; Juliano, Maria A; Brömme, Dieter; Christoffolete, Marcelo Augusto; Barros, Nilana M T; Carmona, Adriana K

2012-08-01

Leptin is a 16  kDa hormone mainly produced by adipocytes that plays an important role in many biological events including the regulation of appetite and energy balance, atherosclerosis, osteogenesis, angiogenesis, the immune response, and inflammation. The search for proteolytic enzymes capable of processing leptin prompted us to investigate the action of cysteine cathepsins on human leptin degradation. In this study, we observed high cysteine peptidase expression and hydrolytic activity in white adipose tissue (WAT), which was capable of degrading leptin. Considering these results, we investigated whether recombinant human cysteine cathepsins B, K, L, and S were able to degrade human leptin. Mass spectrometry analysis revealed that among the tested enzymes, cathepsin S exhibited the highest catalytic activity on leptin. Furthermore, using a Matrigel assay, we observed that the leptin fragments generated by cathepsin S digestion did not exhibit angiogenic action on endothelial cells and were unable to inhibit food intake in Wistar rats after intracerebroventricular administration. Taken together, these results suggest that cysteine cathepsins may be putative leptin activity regulators in WAT.

Desulfurization of Cysteine-Containing Peptides Resulting from Sample Preparation for Protein Characterization by MS

PubMed Central

Wang, Zhouxi; Rejtar, Tomas; Zhou, Zhaohui Sunny; Karger, Barry L.

2010-01-01

In this paper, we have examined two cysteine modifications resulting from sample preparation for protein characterization by MS: (1) a previously observed conversion of cysteine to dehydroalanine, now found in the case of disulfide mapping and (2) a novel modification corresponding to conversion of cysteine to alanine. Using model peptides, the conversion of cysteine to dehydroalanine via β-elimination of a disulfide bond was seen to result from the conditions of typical tryptic digestion (37 °C, pH 7.0– 9.0) without disulfide reduction and alkylation.. Furthermore, the surprising conversion of cysteine to alanine was shown to occur by heating cysteine containing peptides in the presence of a phosphine (TCEP). The formation of alanine from cysteine, investigated by performing experiments in H2O or D2O, suggested a radical-based desulfurization mechanism unrelated to β-elimination. Importantly, an understanding of the mechanism and conditions favorable for cysteine desulfurization provides insight for the establishment of improved sample preparation procedures of protein analysis. PMID:20049891

String-fluid transition in systems with aligned anisotropic interactions.

PubMed

Brandt, P C; Ivlev, A V; Morfill, G E

2010-06-21

Systems with aligned anisotropic interactions between particles exhibit numerous phase transitions. A remarkable example of the fluid phase transition occurring in such systems is the formation of particle strings--the so-called "string" or "chain" fluids. We employ an approach based on the Ornstein-Zernike (OZ) equation, which allows us to calculate structural properties of fluids with aligned anisotropic interactions. We show that the string-fluid transition can be associated with the bifurcation of the "isotropic" correlation length into two distinct scales which characterize the longitudinal and transverse order in string fluids and, hence, may be used as a fingerprint of this transition. The comparison of the proposed OZ theory with the Monte Carlo simulations reveals fairly good agreement.

The Hubble Web: The Dark Matter Problem and Cosmic Strings

NASA Astrophysics Data System (ADS)

Alexander, Stephon

2009-07-01

I propose a reinterpretation of cosmic dark matter in which a rigid network of cosmic strings formed at the end of inflation. The cosmic strings fulfill three functions: At recombination they provide an accretion mechanism for virializing baryonic and warm dark matter into disks. These cosmic strings survive as configurations which thread spiral and elliptical galaxies leading to the observed flatness of rotation curves and the Tully-Fisher relation. We find a relationship between the rotational velocity of the galaxy and the string tension and discuss the testability of this model.

String Theory: Big Problem for Small Size

ERIC Educational Resources Information Center

Sahoo, S.

2009-01-01

String theory is the most promising candidate theory for a unified description of all the fundamental forces that exist in nature. It provides a mathematical framework that combines quantum theory with Einstein's general theory of relativity. The typical size of a string is of the order of 10[superscript -33] cm, called the Planck length. But due…

Input-independent, Scalable and Fast String Matching on the Cray XMT

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

Villa, Oreste; Chavarría-Miranda, Daniel; Maschhoff, Kristyn J

2009-05-25

String searching is at the core of many security and network applications like search engines, intrusion detection systems, virus scanners and spam filters. The growing size of on-line content and the increasing wire speeds push the need for fast, and often real- time, string searching solutions. For these conditions, many software implementations (if not all) targeting conventional cache-based microprocessors do not perform well. They either exhibit overall low performance or exhibit highly variable performance depending on the types of inputs. For this reason, real-time state of the art solutions rely on the use of either custom hardware or Field-Programmable Gatemore » Arrays (FPGAs) at the expense of overall system flexibility and programmability. This paper presents a software based implementation of the Aho-Corasick string searching algorithm on the Cray XMT multithreaded shared memory machine. Our so- lution relies on the particular features of the XMT architecture and on several algorith- mic strategies: it is fast, scalable and its performance is virtually content-independent. On a 128-processor Cray XMT, it reaches a scanning speed of ≈ 28 Gbps with a performance variability below 10 %. In the 10 Gbps performance range, variability is below 2.5%. By comparison, an Intel dual-socket, 8-core system running at 2.66 GHz achieves a peak performance which varies from 500 Mbps to 10 Gbps depending on the type of input and dictionary size.« less

Aho-Corasick String Matching on Shared and Distributed Memory Parallel Architectures

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

Tumeo, Antonino; Villa, Oreste; Chavarría-Miranda, Daniel

String matching is at the core of many critical applications, including network intrusion detection systems, search engines, virus scanners, spam filters, DNA and protein sequencing, and data mining. For all of these applications string matching requires a combination of (sometimes all) the following characteristics: high and/or predictable performance, support for large data sets and flexibility of integration and customization. Many software based implementations targeting conventional cache-based microprocessors fail to achieve high and predictable performance requirements, while Field-Programmable Gate Array (FPGA) implementations and dedicated hardware solutions fail to support large data sets (dictionary sizes) and are difficult to integrate and customize.more » The advent of multicore, multithreaded, and GPU-based systems is opening the possibility for software based solutions to reach very high performance at a sustained rate. This paper compares several software-based implementations of the Aho-Corasick string searching algorithm for high performance systems. We discuss the implementation of the algorithm on several types of shared-memory high-performance architectures (Niagara 2, large x86 SMPs and Cray XMT), distributed memory with homogeneous processing elements (InfiniBand cluster of x86 multicores) and heterogeneous processing elements (InfiniBand cluster of x86 multicores with NVIDIA Tesla C10 GPUs). We describe in detail how each solution achieves the objectives of supporting large dictionaries, sustaining high performance, and enabling customization and flexibility using various data sets.« less

Excessive L-cysteine induces vacuole-like cell death by activating endoplasmic reticulum stress and mitogen-activated protein kinase signaling in intestinal porcine epithelial cells.

PubMed

Ji, Yun; Wu, Zhenlong; Dai, Zhaolai; Sun, Kaiji; Zhang, Qing; Wu, Guoyao

2016-01-01

High intake of dietary cysteine is extremely toxic to animals and the underlying mechanism remains largely unknown. This study was conducted to test the hypothesis that excessive L-cysteine induces cell death by activating endoplasmic reticulum (ER) stress and mitogen-activated protein kinase (MAPK) signaling in intestinal porcine epithelial cells. Jejunal enterocytes were cultured in the presence of 0-10 mmol/L L-cysteine. Cell viability, morphologic alterations, mRNA levels for genes involved in ER stress, protein abundances for glucose-regulated protein 78, C/EBP homologous protein (CHOP), alpha subunit of eukaryotic initiation factor-2 (eIF2α), extracellular signal-regulated kinase (ERK1/2), p38 MAPK, and c-Jun N-terminal protein kinase (JNK1/2) were determined. The results showed that L-cysteine (5-10 mmol/L) reduced cell viability (P < 0.05) and led to vacuole-like cell death in intestinal porcine epithelial cells. These adverse effects of L-cysteine were not affected by the autophagy inhibitor 3-methyladenine. The protein abundances for CHOP, phosphorylated (p)-eIF2α, p-JNK1/2, p-p38 MAPK, and the spliced form of XBP-1 mRNA were enhanced (P < 0.05), whereas those for p-ERK1/2 were reduced (P < 0.05). Collectively, excessive L-cysteine induces vacuole-like cell death via the activation of ER stress and MAPK signaling in small intestinal epithelial cells. These signaling pathways may be potential targets for developing effective strategies to prevent the toxicity of dietary cysteine.

String tensions in deformed Yang-Mills theory

NASA Astrophysics Data System (ADS)

Poppitz, Erich; Shalchian T., M. Erfan

2018-01-01

We study k-strings in deformed Yang-Mills (dYM) with SU(N) gauge group in the semiclassically calculable regime on R^3× S^1 . Their tensions Tk are computed in two ways: numerically, for 2 ≤ N ≤ 10, and via an analytic approach using a re-summed perturbative expansion. The latter serves both as a consistency check on the numerical results and as a tool to analytically study the large-N limit. We find that dYM k-string ratios Tk/T1 do not obey the well-known sine- or Casimir-scaling laws. Instead, we show that the ratios Tk/T1 are bound above by a square root of Casimir scaling, previously found to hold for stringlike solutions of the MIT Bag Model. The reason behind this similarity is that dYM dynamically realizes, in a theoretically controlled setting, the main model assumptions of the Bag Model. We also compare confining strings in dYM and in other four-dimensional theories with abelian confinement, notably Seiberg-Witten theory, and show that the unbroken Z_N center symmetry in dYM leads to different properties of k-strings in the two theories; for example, a "baryon vertex" exists in dYM but not in softly-broken Seiberg-Witten theory. Our results also indicate that, at large values of N, k-strings in dYM do not become free.

N-acetyl cysteine, L-cysteine, and beta-mercaptoethanol augment selenium-glutathione peroxidase activity in glucose-6-phosphate dehydrogenase-deficient human erythrocytes.

PubMed

Alicigüzel, Y; Aslan, M

2004-09-01

In glucose-6-phosphate dehydrogenase (G6PD)-deficient erythrocytes, failure to maintain normal levels of reduced glutathione (GSH) due to decreased NADPH regeneration in the hexose monophosphate pathway results in acute hemolytic anemia following exposure to oxidative insults, such as ingestion of Vicia fava beans or use of certain drugs. GSH is a source of protection against oxidative attack, used by the selenium-dependent glutathione peroxidase (Se-GSH-Px)/reductase (GR) system to detoxify hydrogen peroxide and organic peroxides, provided that sufficient GSH is made available. In this study, Se-GSH-Px activity was analyzed in G6PD-deficient patients in the presence of reducing agents such as N-Acetyl cysteine, L-cysteine, and beta-mercaptoethanol. Se-GSH-Px activity was decreased in G6PD-deficient red blood cells (RBCs). N-Acetyl cysteine, L-cysteine, and beta-mercaptoethanol increased Se-GSH-Px activity in G6PD-deficient human erythrocytes, indicating that other reducing agents can be utilized to complement Se-GSH-Px activity in G6PD deficiency. Based on the increased susceptibility of G6PD-deficient patients to oxidative stress, the reported increase in Se-GSH-Px activity can facilitate the detoxification of reactive oxygen species.

Effect of L-cysteine on the oxidation of cyclohexane catalyzed by manganeseporphyrin.

PubMed

Zhou, Wei-You; Tian, Peng; Chen, Yong; He, Ming-Yang; Chen, Qun; Chen, Zai Xin

2015-06-01

Effect of L-cysteine as the cocatalyst on the oxidation of cyclohexane by tert-butylhydroperoxide (TBHP) catalyzed by manganese tetraphenylporphyrin (MnTPP) has been investigated. The results showed that L-cysteine could moderately improve the catalytic activity of MnTPP and significantly increase the selectivity of cyclohexanol. Different from imidazole and pyridine, the L-cysteine may perform dual roles in the catalytic oxidation of cyclohexane. Besides as the axial ligand for MnTPP, the L-cysteine could also react with cyclohexyl peroxide formed as the intermediate to produce alcohol as the main product. Copyright © 2015 Elsevier Ltd. All rights reserved.

Pauses enhance chunk recognition in song element strings by zebra finches.

PubMed

Spierings, Michelle; de Weger, Anouk; Ten Cate, Carel

2015-07-01

When learning a language, it is crucial to know which syllables of a continuous sound string belong together as words. Human infants achieve this by attending to pauses between words or to the co-occurrence of syllables. It is not only humans that can segment a continuous string. Songbirds learning their song tend to copy 'chunks' from one or more tutors' songs and combine these into their own song. In the tutor songs, these chunks are often separated by pauses and a high co-occurrence of elements, suggesting that these features affect chunking and song learning. We examined experimentally whether the presence of pauses and element co-occurrence affect the ability of adult zebra finches to discriminate strings of song elements. Using a go/no-go design, two groups of birds were trained to discriminate between two strings. In one group (Pause-group), pauses were inserted between co-occurring element triplets in the strings, and in the other group (No-pause group), both strings were continuous. After making a correct discrimination, an individual proceeded to a reversal training using string segments. Segments were element triplets consistent in co-occurrence, triplets that were partly consistent in composition and triplets consisting of elements that did not co-occur in the strings. The Pause-group was faster in discriminating between the two strings. This group also responded differently to consistent triplets in the reversal training, compared to inconsistent triplets. The No-pause group did not differentiate among the triplet types. These results indicate that pauses in strings of song elements aid song discrimination and memorization of co-occurring element groups.

From the currency rate quotations onto strings and brane world scenarios

NASA Astrophysics Data System (ADS)

Horváth, D.; Pincak, R.

2012-11-01

In the paper, we study the projections of the real exchange rate dynamics onto the string-like topology. Our approach is inspired by the contemporary movements in the string theory. The string map of data is defined here by the boundary conditions, characteristic length, real valued and the method of redistribution of information. As a practical matter, this map represents the detrending and data standardization procedure. We introduced maps onto 1-end-point and 2-end-point open strings that satisfy the Dirichlet and Neumann boundary conditions. The questions of the choice of extra-dimensions, symmetries, duality and ways to the partial compactification are discussed. Subsequently, we pass to higher dimensional and more complex objects. The 2D-Brane was suggested which incorporated bid-ask spreads. Polarization by the spread was considered which admitted analyzing arbitrage opportunities on the market where transaction costs are taken into account. The model of the rotating string which naturally yields calculation of angular momentum is suitable for tracking of several currency pairs. The systematic way which allows one suggest more structured maps suitable for a simultaneous study of several currency pairs was analyzed by means of the Gâteaux generalized differential calculus. The effect of the string and brane maps on test data was studied by comparing their mean statistical characteristics. The study revealed notable differences between topologies. We review the dependence on the characteristic string length, mean fluctuations and properties of the intra-string statistics. The study explores the coupling of the string amplitude and volatility. The possible utilizations of the string theory approach in financial markets are slight.

Detection of Cysteine Redox States in Mitochondrial Proteins in Intact Mammalian Cells.

PubMed

Habich, Markus; Riemer, Jan

2017-01-01

Import, folding, and activity regulation of mitochondrial proteins are important for mitochondrial function. Cysteine residues play crucial roles in these processes as their thiol groups can undergo (reversible) oxidation reactions. For example, during import of many intermembrane space (IMS) proteins, cysteine oxidation drives protein folding and translocation over the outer membrane. Mature mitochondrial proteins can undergo changes in the redox state of specific cysteine residues, for example, as part of their enzymatic reaction cycle or as adaptations to changes of the local redox environment which might influence their activity. Here we describe methods to study changes in cysteine residue redox states in intact cells. These approaches allow to monitor oxidation-driven protein import as well as changes of cysteine redox states in mature proteins during oxidative stress or during the reaction cycle of thiol-dependent enzymes like oxidoreductases.

The three-dimensional simulation analysis of dynamic response on perforated strings

NASA Astrophysics Data System (ADS)

Li, M. F.; Liu, H. F.; Dou, Y. H.; Cao, L. H.; Liu, Y. X.

2018-06-01

It analyzes the dynamic response and stresses of perforating tubular string to detonating impact load in oil-gas well in ANSYS, obtains the response of vibration displacement, velocity and acceleration of perforating tubularstring caused by detonating impact load, finds the influence of the length and wall thickness of perforating tubular string to working stresses. The result shows that:when the detonating impact load exerts the perforating tubular string with compressive and tensile axial force alternatively;the vibration displacement, velocity and acceleration of perfora-ting tubular string change periodically at same cycle;the closer to the perforating gun, the larger the amplitude of vi-bration velocity and acceleration;the closer to the packer the smaller the vibration displacement, the larger the work-ing equivalent stress of perforating tubular string;the longer or the thicker the perforating tubular string, the smaller the working equivalent stress and the higher the strength safety. Therefore, it uses the damping tube between packer and perforating gun as well as thick walled tubing to increase the strength safety of perforating tubular string.

Cosmic string detection with tree-based machine learning

NASA Astrophysics Data System (ADS)

Vafaei Sadr, A.; Farhang, M.; Movahed, S. M. S.; Bassett, B.; Kunz, M.

2018-07-01

We explore the use of random forest and gradient boosting, two powerful tree-based machine learning algorithms, for the detection of cosmic strings in maps of the cosmic microwave background (CMB), through their unique Gott-Kaiser-Stebbins effect on the temperature anisotropies. The information in the maps is compressed into feature vectors before being passed to the learning units. The feature vectors contain various statistical measures of the processed CMB maps that boost cosmic string detectability. Our proposed classifiers, after training, give results similar to or better than claimed detectability levels from other methods for string tension, Gμ. They can make 3σ detection of strings with Gμ ≳ 2.1 × 10-10 for noise-free, 0.9'-resolution CMB observations. The minimum detectable tension increases to Gμ ≳ 3.0 × 10-8 for a more realistic, CMB S4-like (II) strategy, improving over previous results.

Cosmic String Detection with Tree-Based Machine Learning

NASA Astrophysics Data System (ADS)

Vafaei Sadr, A.; Farhang, M.; Movahed, S. M. S.; Bassett, B.; Kunz, M.

2018-05-01

We explore the use of random forest and gradient boosting, two powerful tree-based machine learning algorithms, for the detection of cosmic strings in maps of the cosmic microwave background (CMB), through their unique Gott-Kaiser-Stebbins effect on the temperature anisotropies. The information in the maps is compressed into feature vectors before being passed to the learning units. The feature vectors contain various statistical measures of the processed CMB maps that boost cosmic string detectability. Our proposed classifiers, after training, give results similar to or better than claimed detectability levels from other methods for string tension, Gμ. They can make 3σ detection of strings with Gμ ≳ 2.1 × 10-10 for noise-free, 0.9΄-resolution CMB observations. The minimum detectable tension increases to Gμ ≳ 3.0 × 10-8 for a more realistic, CMB S4-like (II) strategy, improving over previous results.

String-theoretic deformation of the Parke-Taylor factor

NASA Astrophysics Data System (ADS)

Mizera, Sebastian; Zhang, Guojun

2017-09-01

Scattering amplitudes in a range of quantum field theories can be computed using the Cachazo-He-Yuan (CHY) formalism. In theories with color ordering, the key ingredient is the so-called Parke-Taylor factor. In this paper we give a fully SL (2 ,C )-covariant definition and study the properties of a new integrand called the "string Parke-Taylor" factor. It has an α' expansion whose leading coefficient is the field-theoretic Parke-Taylor factor. Its main application is that it leads to a CHY formulation of open string tree-level amplitudes. In fact, the definition of the string Parke-Taylor factor was motivated by trying to extend the compact formula for the first α' correction found by He and Zhang, while the main ingredient in its definition is a determinant of a matrix introduced in the context of string theory by Stieberger and Taylor.

Cysteine-functionalized silica-coated magnetite nanoparticles as potential nanoadsorbents

NASA Astrophysics Data System (ADS)

Enache, Daniela F.; Vasile, Eugenia; Simonescu, Claudia M.; Răzvan, Anca; Nicolescu, Alina; Nechifor, Aurelia-Cristina; Oprea, Ovidiu; Pătescu, Rodica-Elena; Onose, Cristian; Dumitru, Florina

2017-09-01

Fe3O4, Fe3O4@SiO2, and Fe3O4@SiO2@ICPTES-cysteine MNPs have been prepared by the deposition of silica onto magnetite nanoparticles via controlled hydrolysis of TEOS. The new formed silica surface has been functionalized by grafting 3-(triethoxysilyl) propyl isocyanate (ICPTES) and, subsequently, by condensation of isocyanate moiety with cysteine. The morphology of magnetic silica nanoparticles has been investigated by FTIR, PXRD, TEM-HRTEM/SEM/EDX as well as TG experiments. HRTEM microscopy revealed that the Fe3O4, Fe3O4@SiO2 and Fe3O4@SiO2@ICPTES-cysteine nanoparticles are all of spherical shape with particle of ca. 10-30 nm diameters and the silica-coated magnetites have a core-shell structure. Fe3O4, Fe3O4@SiO2, and Fe3O4@SiO2@ICPTES-cysteine MNPs have been tested for their sorption capacity of Pb(II) from synthetic aqueous solutions and the influence of pH solution, contact time, initial heavy metal ion concentrations, and adsorption isotherms on the sorption behavior were also studied. The kinetic studies revealed that the Pb(II) sorption process is mainly controlled by chemical mechanisms. Fe3O4@SiO2@ICPTES-cysteine, with a sorption capacity of 81.8 mg Pb(II)/g, has the potential to be an efficient Pb(II) adsorbent.

From decay to complete breaking: pulling the strings in SU(2) Yang-Mills theory.

PubMed

Pepe, M; Wiese, U-J

2009-05-15

We study {2Q+1} strings connecting two static charges Q in (2+1)D SU(2) Yang-Mills theory. While the fundamental {2} string between two charges Q=1/2 is unbreakable, the adjoint {3} string connecting two charges Q=1 can break. When a {4} string is stretched beyond a critical length, it decays into a {2} string by gluon pair creation. When a {5} string is stretched, it first decays into a {3} string, which eventually breaks completely. The energy of the screened charges at the ends of a string is well described by a phenomenological constituent gluon model.

Proteomic Approaches to Quantify Cysteine Reversible Modifications in Aging and Neurodegenerative Diseases

PubMed Central

Gu, Liqing; Robinson, Renã A. S.

2016-01-01

Cysteine is a highly reactive amino acid and is subject to a variety of reversible post-translational modifications (PTMs), including nitrosylation, glutathionylation, palmitoylation, as well as formation of sulfenic acid and disulfides. These modifications are not only involved in normal biological activities, such as enzymatic catalysis, redox signaling and cellular homeostasis, but can also be the result of oxidative damage. Especially in aging and neurodegenerative diseases, oxidative stress leads to aberrant cysteine oxidations that affect protein structure and function leading to neurodegeneration as well as other detrimental effects. Methods that can identify cysteine modifications by type, including the site of modification, as well as the relative stoichiometry of the modification can be very helpful for understanding the role of the thiol proteome and redox homeostasis in the context of disease. Cysteine reversible modifications however, are challenging to investigate as they are low abundant, diverse, and labile especially under endogenous conditions. Thanks to the development of redox proteomic approaches, large-scale quantification of cysteine reversible modifications is possible. These approaches cover a range of strategies to enrich, identify, and quantify cysteine reversible modifications from biological samples. This review will focus on nongel-based redox proteomics workflows that give quantitative information about cysteine PTMs and highlight how these strategies have been useful for investigating the redox thiol proteome in aging and neurodegenerative diseases. PMID:27666938

A nitric oxide/cysteine interaction mediates the activation of soluble guanylate cyclase

PubMed Central

Fernhoff, Nathaniel B.; Derbyshire, Emily R.; Marletta, Michael A.

2009-01-01

Nitric oxide (NO) regulates a number of essential physiological processes by activating soluble guanylate cyclase (sGC) to produce the second messenger cGMP. The mechanism of NO sensing was previously thought to result exclusively from NO binding to the sGC heme; however, recent studies indicate that heme-bound NO only partially activates sGC and additional NO is involved in the mechanism of maximal NO activation. Furthermore, thiol oxidation of sGC cysteines results in the loss of enzyme activity. Herein the role of cysteines in NO-stimulated sGC activity investigated. We find that the thiol modifying reagent methyl methanethiosulfonate specifically inhibits NO activation of sGC by blocking a non-heme site, which defines a role for sGC cysteine(s) in mediating NO binding. The nature of the NO/cysteine interaction was probed by examining the effects of redox active reagents on NO-stimulated activity. These results show that NO binding to, and dissociation from, the critical cysteine(s) does not involve a change in the thiol redox state. Evidence is provided for non-heme NO in the physiological activation of sGC in context of a primary cell culture of human umbilical vein endothelial cells. These findings have relevance to diseases involving the NO/cGMP signaling pathway. PMID:20007374

Power suppression at large scales in string inflation

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

Cicoli, Michele; Downes, Sean; Dutta, Bhaskar, E-mail: mcicoli@ictp.it, E-mail: sddownes@physics.tamu.edu, E-mail: dutta@physics.tamu.edu

2013-12-01

We study a possible origin of the anomalous suppression of the power spectrum at large angular scales in the cosmic microwave background within the framework of explicit string inflationary models where inflation is driven by a closed string modulus parameterizing the size of the extra dimensions. In this class of models the apparent power loss at large scales is caused by the background dynamics which involves a sharp transition from a fast-roll power law phase to a period of Starobinsky-like slow-roll inflation. An interesting feature of this class of string inflationary models is that the number of e-foldings of inflationmore » is inversely proportional to the string coupling to a positive power. Therefore once the string coupling is tuned to small values in order to trust string perturbation theory, enough e-foldings of inflation are automatically obtained without the need of extra tuning. Moreover, in the less tuned cases the sharp transition responsible for the power loss takes place just before the last 50-60 e-foldings of inflation. We illustrate these general claims in the case of Fibre Inflation where we study the strength of this transition in terms of the attractor dynamics, finding that it induces a pivot from a blue to a redshifted power spectrum which can explain the apparent large scale power loss. We compute the effects of this pivot for example cases and demonstrate how magnitude and duration of this effect depend on model parameters.« less

Cosmic string wakes

NASA Technical Reports Server (NTRS)

Stebbins, Albert; Veeraraghavan, Shoba; Silk, Joseph; Brandenberger, Robert; Turok, Neil

1987-01-01

Accretion of matter onto wakes left behind by horizon-sized pieces of cosmic string is investigated, and the effects of wakes on the large-scale structure of the universe are determined. Accretion of cold matter onto wakes, the effects of a long string on fluids with finite velocity dispersion or sound speeds, the interactions between loops and wakes, and the conditions for wakes to survive disruption by loops are discussed. It is concluded that the most important wakes are those which were formed at the time of equal matter and radiation density. This leads to sheetlike overdense regions of galaxies with a mean separation in agreement with the scale of the bubbles of de Lapparent, Geller, and Huchra (1986). However, for the value of G(mu) favored from galaxy formation considerations in a universe with cold dark matter, a wake accretes matter from a distance of only about 1.5 Mpc, which is much less than the distance between the wakes.

Text String Detection from Natural Scenes by Structure-based Partition and Grouping

PubMed Central

Yi, Chucai; Tian, YingLi

2012-01-01

Text information in natural scene images serves as important clues for many image-based applications such as scene understanding, content-based image retrieval, assistive navigation, and automatic geocoding. However, locating text from complex background with multiple colors is a challenging task. In this paper, we explore a new framework to detect text strings with arbitrary orientations in complex natural scene images. Our proposed framework of text string detection consists of two steps: 1) Image partition to find text character candidates based on local gradient features and color uniformity of character components. 2) Character candidate grouping to detect text strings based on joint structural features of text characters in each text string such as character size differences, distances between neighboring characters, and character alignment. By assuming that a text string has at least three characters, we propose two algorithms of text string detection: 1) adjacent character grouping method, and 2) text line grouping method. The adjacent character grouping method calculates the sibling groups of each character candidate as string segments and then merges the intersecting sibling groups into text string. The text line grouping method performs Hough transform to fit text line among the centroids of text candidates. Each fitted text line describes the orientation of a potential text string. The detected text string is presented by a rectangle region covering all characters whose centroids are cascaded in its text line. To improve efficiency and accuracy, our algorithms are carried out in multi-scales. The proposed methods outperform the state-of-the-art results on the public Robust Reading Dataset which contains text only in horizontal orientation. Furthermore, the effectiveness of our methods to detect text strings with arbitrary orientations is evaluated on the Oriented Scene Text Dataset collected by ourselves containing text strings in non

Text string detection from natural scenes by structure-based partition and grouping.

PubMed

Yi, Chucai; Tian, YingLi

2011-09-01

Text information in natural scene images serves as important clues for many image-based applications such as scene understanding, content-based image retrieval, assistive navigation, and automatic geocoding. However, locating text from a complex background with multiple colors is a challenging task. In this paper, we explore a new framework to detect text strings with arbitrary orientations in complex natural scene images. Our proposed framework of text string detection consists of two steps: 1) image partition to find text character candidates based on local gradient features and color uniformity of character components and 2) character candidate grouping to detect text strings based on joint structural features of text characters in each text string such as character size differences, distances between neighboring characters, and character alignment. By assuming that a text string has at least three characters, we propose two algorithms of text string detection: 1) adjacent character grouping method and 2) text line grouping method. The adjacent character grouping method calculates the sibling groups of each character candidate as string segments and then merges the intersecting sibling groups into text string. The text line grouping method performs Hough transform to fit text line among the centroids of text candidates. Each fitted text line describes the orientation of a potential text string. The detected text string is presented by a rectangle region covering all characters whose centroids are cascaded in its text line. To improve efficiency and accuracy, our algorithms are carried out in multi-scales. The proposed methods outperform the state-of-the-art results on the public Robust Reading Dataset, which contains text only in horizontal orientation. Furthermore, the effectiveness of our methods to detect text strings with arbitrary orientations is evaluated on the Oriented Scene Text Dataset collected by ourselves containing text strings in nonhorizontal

Covariant open bosonic string field theory on multiple D-branes in the proper-time gauge

NASA Astrophysics Data System (ADS)

Lee, Taejin

2017-12-01

We construct a covariant open bosonic string field theory on multiple D-branes, which reduces to a non-Abelian group Yang-Mills gauge theory in the zero-slope limit. Making use of the first quantized open bosonic string in the proper time gauge, we convert the string amplitudes given by the Polyakov path integrals on string world sheets into those of the second quantized theory. The world sheet diagrams generated by the constructed open string field theory are planar in contrast to those of the Witten's cubic string field theory. However, the constructed string field theory is yet equivalent to the Witten's cubic string field theory. Having obtained planar diagrams, we may adopt the light-cone string field theory technique to calculate the multi-string scattering amplitudes with an arbitrary number of external strings. We examine in detail the three-string vertex diagram and the effective four-string vertex diagrams generated perturbatively by the three-string vertex at tree level. In the zero-slope limit, the string scattering amplitudes are identified precisely as those of non-Abelian Yang-Mills gauge theory if the external states are chosen to be massless vector particles.

Hydromonochord: Visualizing String Vibration by Water Swirls

ERIC Educational Resources Information Center

Sommer, Wilfried; Meier-Boke, Ralf; Meinzer, Nicholas

2010-01-01

The hydromonochord is a horizontal vibrating string that just makes contact with the surface of a water bath. The motion of the string sets up a pattern of swirls on the surface of the water, thus complementing the usual pattern of nodes and antinodes. The device is based on the traditional monochord. A water basin (Fig. 1) has two slits in the…

Dual little strings and their partition functions

NASA Astrophysics Data System (ADS)

Bastian, Brice; Hohenegger, Stefan; Iqbal, Amer; Rey, Soo-Jong

2018-05-01

We study the topological string partition function of a class of toric, double elliptically fibered Calabi-Yau threefolds XN ,M at a generic point in the Kähler moduli space. These manifolds engineer little string theories in five dimensions or lower and are dual to stacks of M5-branes probing a transverse orbifold singularity. Using the refined topological vertex formalism, we explicitly calculate a generic building block which allows us to compute the topological string partition function of XN ,M as a series expansion in different Kähler parameters. Using this result, we give further explicit proof for a duality found previously in the literature, which relates XN ,M˜XN',M' for N M =N'M' and gcd (N ,M )=gcd (N',M') .

The effective supergravity of little string theory

NASA Astrophysics Data System (ADS)

Antoniadis, Ignatios; Delgado, Antonio; Markou, Chrysoula; Pokorski, Stefan

2018-02-01

In this work we present the minimal supersymmetric extension of the five-dimensional dilaton-gravity theory that captures the main properties of the holographic dual of little string theory. It is described by a particular gauging of N=2 supergravity coupled with one vector multiplet associated with the string dilaton, along the U(1) subgroup of SU(2) R-symmetry. The linear dilaton in the fifth coordinate solution of the equations of motion (with flat string frame metric) breaks half of the supersymmetries to N=1 in four dimensions. Interest in the linear dilaton model has lately been revived in the context of the clockwork mechanism, which has recently been proposed as a new source of exponential scale separation in field theory.

Amplitudes on plane waves from ambitwistor strings

NASA Astrophysics Data System (ADS)

Adamo, Tim; Casali, Eduardo; Mason, Lionel; Nekovar, Stefan

2017-11-01

In marked contrast to conventional string theory, ambitwistor strings remain solvable worldsheet theories when coupled to curved background fields. We use this fact to consider the quantization of ambitwistor strings on plane wave metric and plane wave gauge field backgrounds. In each case, the worldsheet model is anomaly free as a consequence of the background satisfying the field equations. We derive vertex operators (in both fixed and descended picture numbers) for gravitons and gluons on these backgrounds from the worldsheet CFT, and study the 3-point functions of these vertex operators on the Riemann sphere. These worldsheet correlation functions reproduce the known results for 3-point scattering amplitudes of gravitons and gluons in gravitational and gauge theoretic plane wave backgrounds, respectively.

Computer Center: BASIC String Models of Genetic Information Transfer.

ERIC Educational Resources Information Center

Spain, James D., Ed.

1984-01-01

Discusses some of the major genetic information processes which may be modeled by computer program string manipulation, focusing on replication and transcription. Also discusses instructional applications of using string models. (JN)

Closed timelike curves produced by pairs of moving cosmic strings - Exact solutions

NASA Technical Reports Server (NTRS)

Gott, J. Richard, III

1991-01-01

Exact solutions of Einstein's field equations are presented for the general case of two moving straight cosmic strings that do not intersect. The solutions for parallel cosmic strings moving in opposite directions show closed timelike curves (CTCs) that circle the two strings as they pass, allowing observers to visit their own past. Similar results occur for nonparallel strings, and for masses in (2+1)-dimensional spacetime. For finite string loops the possibility that black-hole formation may prevent the formation of CTCs is discussed.

Line segment confidence region-based string matching method for map conflation

NASA Astrophysics Data System (ADS)

Huh, Yong; Yang, Sungchul; Ga, Chillo; Yu, Kiyun; Shi, Wenzhong

2013-04-01

In this paper, a method to detect corresponding point pairs between polygon object pairs with a string matching method based on a confidence region model of a line segment is proposed. The optimal point edit sequence to convert the contour of a target object into that of a reference object was found by the string matching method which minimizes its total error cost, and the corresponding point pairs were derived from the edit sequence. Because a significant amount of apparent positional discrepancies between corresponding objects are caused by spatial uncertainty and their confidence region models of line segments are therefore used in the above matching process, the proposed method obtained a high F-measure for finding matching pairs. We applied this method for built-up area polygon objects in a cadastral map and a topographical map. Regardless of their different mapping and representation rules and spatial uncertainties, the proposed method with a confidence level at 0.95 showed a matching result with an F-measure of 0.894.

Effects of ordinary and superconducting cosmic strings on primordial nucleosynthesis

NASA Technical Reports Server (NTRS)

Hodges, Hardy M.; Turner, Michael S.

1988-01-01

A precise calculation is done of the primordial nucleosynthesis constraint on the energy per length of ordinary and superconducting cosmic strings. A general formula is provided for the constraint on the string tension for ordinary strings. Using the current values for the various parameters that describe the evolution of loops, the constraint for ordinary strings is G mu less than 2.2 x 10 to the minus 5 power. Our constraint is weaker than previously quoted limits by a factor of approximately 5. For superconducting loops, with currents generated by primordial magnetic fields, the constraint can be less or more stringent than this limit, depending on the strength of the magnetic field. It is also found in this case that there is a negligible amount of entropy production if the electromagnetic radiation from strings thermalizes with the radiation background.

Vibration of a string against multiple spring-mass-damper stoppers

NASA Astrophysics Data System (ADS)

Shin, Ji-Hwan; Talib, Ezdiani; Kwak, Moon K.

2018-02-01

When a building sways due to strong wind or an earthquake, the elevator rope can undergo resonance, resulting in collision with the hoist-way wall. In this study, a hard stopper and a soft stopper comprised of a spring-mass-damper system installed along the hoist-way wall were considered to prevent the string from undergoing excessive vibrations. The collision of the string with multiple hard stoppers and multiple spring-mass-damper stoppers was investigated using an analytical method. The result revealed new formulas and computational algorithms that are suitable for simulating the vibration of the string against multiple stoppers. The numerical results show that the spring-mass-damper stopper is more effective in suppressing the vibrations of the string and reducing structural failure. The proposed algorithms were shown to be efficient to simulate the motion of the string against a vibration stopper.

Black strings, low viscosity fluids, and violation of cosmic censorship.

PubMed

Lehner, Luis; Pretorius, Frans

2010-09-03

We describe the behavior of 5-dimensional black strings, subject to the Gregory-Laflamme instability. Beyond the linear level, the evolving strings exhibit a rich dynamics, where at intermediate stages the horizon can be described as a sequence of 3-dimensional spherical black holes joined by black string segments. These segments are themselves subject to a Gregory-Laflamme instability, resulting in a self-similar cascade, where ever-smaller satellite black holes form connected by ever-thinner string segments. This behavior is akin to satellite formation in low-viscosity fluid streams subject to the Rayleigh-Plateau instability. The simulation results imply that the string segments will reach zero radius in finite asymptotic time, whence the classical space-time terminates in a naked singularity. Since no fine-tuning is required to excite the instability, this constitutes a generic violation of cosmic censorship.

In vivo inhibition of cysteine proteases provides evidence for the involvement of 'senescence-associated vacuoles' in chloroplast protein degradation during dark-induced senescence of tobacco leaves.

PubMed

Carrión, Cristian A; Costa, María Lorenza; Martínez, Dana E; Mohr, Christina; Humbeck, Klaus; Guiamet, Juan J

2013-11-01

Breakdown of leaf proteins, particularly chloroplast proteins, is a massive process in senescing leaves. In spite of its importance in internal N recycling, the mechanism(s) and the enzymes involved are largely unknown. Senescence-associated vacuoles (SAVs) are small, acidic vacuoles with high cysteine peptidase activity. Chloroplast-targeted proteins re-localize to SAVs during senescence, suggesting that SAVs might be involved in chloroplast protein degradation. SAVs were undetectable in mature, non-senescent tobacco leaves. Their abundance, visualized either with the acidotropic marker Lysotracker Red or by green fluorescent protein (GFP) fluorescence in a line expressing the senescence-associated cysteine protease SAG12 fused to GFP, increased during senescence induction in darkness, and peaked after 2-4 d, when chloroplast dismantling was most intense. Increased abundance of SAVs correlated with higher levels of SAG12 mRNA. Activity labelling with a biotinylated derivative of the cysteine protease inhibitor E-64 was used to detect active cysteine proteases. The two apparently most abundant cysteine proteases of senescing leaves, of 40kDa and 33kDa were detected in isolated SAVs. Rubisco degradation in isolated SAVs was completely blocked by E-64. Treatment of leaf disks with E-64 in vivo substantially reduced degradation of Rubisco and leaf proteins. Overall, these results indicate that SAVs contain most of the cysteine protease activity of senescing cells, and that SAV cysteine proteases are at least partly responsible for the degradation of stromal proteins of the chloroplast.

The Cysteine Dioxgenase Knockout Mouse: Altered Cysteine Metabolism in Nonhepatic Tissues Leads to Excess H2S/HS− Production and Evidence of Pancreatic and Lung Toxicity

PubMed Central

Roman, Heather B.; Hirschberger, Lawrence L.; Krijt, Jakub; Valli, Alessandro; Kožich, Viktor

2013-01-01

Abstract Aims: To define the consequences of loss of cysteine dioxygenase (CDO) on cysteine metabolism at the tissue level, we determined levels of relevant metabolites and enzymes and evidence of H2S/HS− (gaseous hydrogen sulfide and its conjugate base) toxicity in liver, pancreas, kidney, and lung of CDO−/− mice that were fed either a taurine-free or taurine-supplemented diet. Results: CDO−/− mice had low tissue and serum taurine and hypotaurine levels and high tissue levels of cysteine, consistent with the loss of CDO. CDO−/− mice had elevated urinary excretion of thiosulfate, high tissue and serum cystathionine and lanthionine levels, and evidence of inhibition and destabilization of cytochrome c oxidase, which is consistent with excess production of H2S/HS−. Accumulation of cystathionine and lanthionine appeared to result from cystathionine β-synthase (CBS)-mediated cysteine desulfhydration. Very high levels of hypotaurine in pancreas of wild-type mice and very high levels of cystathionine and lanthionine in pancreas of CDO−/− mice were observed, suggesting a unique cysteine metabolism in the pancreas. Innovation: The CDO−/− mouse model provides new insights into tissue-specific cysteine metabolism, particularly the role of pancreas in metabolism of excess cysteine by CBS-catalyzed reactions, and will be a useful model for studying the effects of excess endogenous production of H2S/HS−. Conclusion: The CDO−/− mouse clearly demonstrates that H2S/HS− production in tissues can exceed the capacity of the animal to oxidize sulfide to sulfate and demonstrates that pancreas and lung are more susceptible to toxicity from endogenous H2S/HS−production than are liver and kidney. Antioxid. Redox Signal. 19, 1321–1336. PMID:23350603

On the gauge chosen by the bosonic open string

NASA Astrophysics Data System (ADS)

Pesando, Igor

2017-05-01

String theory gives S matrix elements from which is not possible to read any gauge information. Using factorization we go off shell in the simplest and most naive way and we read which are the vertices suggested by string. To compare with the associated Effective Field Theory it is natural to use color ordered vertices. The α‧ = 0 color ordered vertices suggested by string theory are more efficient than the usual ones since the three gluon color ordered vertex has three terms instead of six and the four gluon one has one term instead of three. They are written in the so called Gervais-Neveu gauge. The full Effective Field Theory is in a generalization of the Gervais-Neveu gauge with α‧ corrections. Moreover a field redefinition is required to be mapped to the field used by string theory. We also give an intuitive way of understanding why string choose this gauge in terms of the minimal number of couplings necessary to reproduce the non-abelian amplitudes starting from color ordered ones.

Constraints on Cosmic Strings from the LIGO-Virgo Gravitational-Wave Detectors

NASA Astrophysics Data System (ADS)

Aasi, J.; Abadie, J.; Abbott, B. P.; Abbott, R.; Abbott, T.; Abernathy, M. R.; Accadia, T.; Acernese, F.; Adams, C.; Adams, T.; Adhikari, R. X.; Affeldt, C.; Agathos, M.; Aggarwal, N.; Aguiar, O. D.; Ajith, P.; Allen, B.; Allocca, A.; Amador Ceron, E.; Amariutei, D.; Anderson, R. A.; Anderson, S. B.; Anderson, W. G.; Arai, K.; Araya, M. C.; Arceneaux, C.; Areeda, J.; Ast, S.; Aston, S. M.; Astone, P.; Aufmuth, P.; Aulbert, C.; Austin, L.; Aylott, B. E.; Babak, S.; Baker, P. T.; Ballardin, G.; Ballmer, S. W.; Barayoga, J. C.; Barker, D.; Barnum, S. H.; Barone, F.; Barr, B.; Barsotti, L.; Barsuglia, M.; Barton, M. A.; Bartos, I.; Bassiri, R.; Basti, A.; Batch, J.; Bauchrowitz, J.; Bauer, Th. S.; Bebronne, M.; Behnke, B.; Bejger, M.; Beker, M. G.; Bell, A. S.; Bell, C.; Belopolski, I.; Bergmann, G.; Berliner, J. M.; Bersanetti, D.; Bertolini, A.; Bessis, D.; Betzwieser, J.; Beyersdorf, P. T.; Bhadbhade, T.; Bilenko, I. A.; Billingsley, G.; Birch, J.; Bitossi, M.; Bizouard, M. A.; Black, E.; Blackburn, J. K.; Blackburn, L.; Blair, D.; Blom, M.; Bock, O.; Bodiya, T. P.; Boer, M.; Bogan, C.; Bond, C.; Bondu, F.; Bonelli, L.; Bonnand, R.; Bork, R.; Born, M.; Boschi, V.; Bose, S.; Bosi, L.; Bowers, J.; Bradaschia, C.; Brady, P. R.; Braginsky, V. B.; Branchesi, M.; Brannen, C. A.; Brau, J. E.; Breyer, J.; Briant, T.; Bridges, D. O.; Brillet, A.; Brinkmann, M.; Brisson, V.; Britzger, M.; Brooks, A. F.; Brown, D. A.; Brown, D. D.; Brückner, F.; Bulik, T.; Bulten, H. J.; Buonanno, A.; Buskulic, D.; Buy, C.; Byer, R. L.; Cadonati, L.; Cagnoli, G.; Calderón Bustillo, J.; Calloni, E.; Camp, J. B.; Campsie, P.; Cannon, K. C.; Canuel, B.; Cao, J.; Capano, C. D.; Carbognani, F.; Carbone, L.; Caride, S.; Castiglia, A.; Caudill, S.; Cavaglià, M.; Cavalier, F.; Cavalieri, R.; Cella, G.; Cepeda, C.; Cesarini, E.; Chakraborty, R.; Chalermsongsak, T.; Chao, S.; Charlton, P.; Chassande-Mottin, E.; Chen, X.; Chen, Y.; Chincarini, A.; Chiummo, A.; Cho, H. S.; Chow, J.; Christensen, N.; Chu, Q.; Chua, S. S. Y.; Chung, S.; Ciani, G.; Clara, F.; Clark, D. E.; Clark, J. A.; Cleva, F.; Coccia, E.; Cohadon, P.-F.; Colla, A.; Colombini, M.; Constancio, M.; Conte, A.; Conte, R.; Cook, D.; Corbitt, T. R.; Cordier, M.; Cornish, N.; Corsi, A.; Costa, C. A.; Coughlin, M. W.; Coulon, J.-P.; Countryman, S.; Couvares, P.; Coward, D. M.; Cowart, M.; Coyne, D. C.; Craig, K.; Creighton, J. D. E.; Creighton, T. D.; Crowder, S. G.; Cumming, A.; Cunningham, L.; Cuoco, E.; Dahl, K.; Canton, T. Dal; Damjanic, M.; Danilishin, S. L.; D'Antonio, S.; Danzmann, K.; Dattilo, V.; Daudert, B.; Daveloza, H.; Davier, M.; Davies, G. S.; Daw, E. J.; Day, R.; Dayanga, T.; De Rosa, R.; Debreczeni, G.; Degallaix, J.; Del Pozzo, W.; Deleeuw, E.; Deléglise, S.; Denker, T.; Dent, T.; Dereli, H.; Dergachev, V.; DeRosa, R.; DeSalvo, R.; Dhurandhar, S.; Di Fiore, L.; Di Lieto, A.; Di Palma, I.; Di Virgilio, A.; Díaz, M.; Dietz, A.; Dmitry, K.; Donovan, F.; Dooley, K. L.; Doravari, S.; Drago, M.; Drever, R. W. P.; Driggers, J. C.; Du, Z.; Dumas, J.-C.; Dwyer, S.; Eberle, T.; Edwards, M.; Effler, A.; Ehrens, P.; Eichholz, J.; Eikenberry, S. S.; Endrőczi, G.; Essick, R.; Etzel, T.; Evans, K.; Evans, M.; Evans, T.; Factourovich, M.; Fafone, V.; Fairhurst, S.; Fang, Q.; Farinon, S.; Farr, B.; Farr, W.; Favata, M.; Fazi, D.; Fehrmann, H.; Feldbaum, D.; Ferrante, I.; Ferrini, F.; Fidecaro, F.; Finn, L. S.; Fiori, I.; Fisher, R.; Flaminio, R.; Foley, E.; Foley, S.; Forsi, E.; Fotopoulos, N.; Fournier, J.-D.; Franco, S.; Frasca, S.; Frasconi, F.; Frede, M.; Frei, M.; Frei, Z.; Freise, A.; Frey, R.; Fricke, T. T.; Fritschel, P.; Frolov, V. V.; Fujimoto, M.-K.; Fulda, P.; Fyffe, M.; Gair, J.; Gammaitoni, L.; Garcia, J.; Garufi, F.; Gehrels, N.; Gemme, G.; Genin, E.; Gennai, A.; Gergely, L.; Ghosh, S.; Giaime, J. A.; Giampanis, S.; Giardina, K. D.; Giazotto, A.; Gil-Casanova, S.; Gill, C.; Gleason, J.; Goetz, E.; Goetz, R.; Gondan, L.; González, G.; Gordon, N.; Gorodetsky, M. L.; Gossan, S.; Goßler, S.; Gouaty, R.; Graef, C.; Graff, P. B.; Granata, M.; Grant, A.; Gras, S.; Gray, C.; Greenhalgh, R. J. S.; Gretarsson, A. M.; Griffo, C.; Groot, P.; Grote, H.; Grover, K.; Grunewald, S.; Guidi, G. M.; Guido, C.; Gushwa, K. E.; Gustafson, E. K.; Gustafson, R.; Hall, B.; Hall, E.; Hammer, D.; Hammond, G.; Hanke, M.; Hanks, J.; Hanna, C.; Hanson, J.; Harms, J.; Harry, G. M.; Harry, I. W.; Harstad, E. D.; Hartman, M. T.; Haughian, K.; Hayama, K.; Heefner, J.; Heidmann, A.; Heintze, M.; Heitmann, H.; Hello, P.; Hemming, G.; Hendry, M.; Heng, I. S.; Heptonstall, A. W.; Heurs, M.; Hild, S.; Hoak, D.; Hodge, K. A.; Holt, K.; Holtrop, M.; Hong, T.; Hooper, S.; Horrom, T.; Hosken, D. J.; Hough, J.; Howell, E. J.; Hu, Y.; Hua, Z.; Huang, V.; Huerta, E. A.; Hughey, B.; Husa, S.; Huttner, S. H.; Huynh, M.; Huynh-Dinh, T.; Iafrate, J.; Ingram, D. R.; Inta, R.; Isogai, T.; Ivanov, A.; Iyer, B. R.; Izumi, K.; Jacobson, M.; James, E.; Jang, H.; Jang, Y. J.; Jaranowski, P.; Jiménez-Forteza, F.; Johnson, W. W.; Jones, D.; Jones, D. I.; Jones, R.; Jonker, R. J. G.; Ju, L.; Haris, K.; Kalmus, P.; Kalogera, V.; Kandhasamy, S.; Kang, G.; Kanner, J. B.; Kasprzack, M.; Kasturi, R.; Katsavounidis, E.; Katzman, W.; Kaufer, H.; Kaufman, K.; Kawabe, K.; Kawamura, S.; Kawazoe, F.; Kéfélian, F.; Keitel, D.; Kelley, D. B.; Kells, W.; Keppel, D. G.; Khalaidovski, A.; Khalili, F. Y.; Khazanov, E. A.; Kim, B. K.; Kim, C.; Kim, K.; Kim, N.; Kim, W.; Kim, Y.-M.; King, E. J.; King, P. J.; Kinzel, D. L.; Kissel, J. S.; Klimenko, S.; Kline, J.; Koehlenbeck, S.; Kokeyama, K.; Kondrashov, V.; Koranda, S.; Korth, W. Z.; Kowalska, I.; Kozak, D.; Kremin, A.; Kringel, V.; Królak, A.; Kucharczyk, C.; Kudla, S.; Kuehn, G.; Kumar, A.; Kumar, P.; Kumar, R.; Kurdyumov, R.; Kwee, P.; Landry, M.; Lantz, B.; Larson, S.; Lasky, P. D.; Lawrie, C.; Lazzarini, A.; Le Roux, A.; Leaci, P.; Lebigot, E. O.; Lee, C.-H.; Lee, H. K.; Lee, H. M.; Lee, J.; Lee, J.; Leonardi, M.; Leong, J. R.; Leroy, N.; Letendre, N.; Levine, B.; Lewis, J. B.; Lhuillier, V.; Li, T. G. F.; Lin, A. C.; Littenberg, T. B.; Litvine, V.; Liu, F.; Liu, H.; Liu, Y.; Liu, Z.; Lloyd, D.; Lockerbie, N. A.; Lockett, V.; Lodhia, D.; Loew, K.; Logue, J.; Lombardi, A. L.; Lorenzini, M.; Loriette, V.; Lormand, M.; Losurdo, G.; Lough, J.; Luan, J.; Lubinski, M. J.; Lück, H.; Lundgren, A. P.; Macarthur, J.; Macdonald, E.; Machenschalk, B.; MacInnis, M.; Macleod, D. M.; Magana-Sandoval, F.; Mageswaran, M.; Mailand, K.; Majorana, E.; Maksimovic, I.; Malvezzi, V.; Man, N.; Manca, G. M.; Mandel, I.; Mandic, V.; Mangano, V.; Mantovani, M.; Marchesoni, F.; Marion, F.; Márka, S.; Márka, Z.; Markosyan, A.; Maros, E.; Marque, J.; Martelli, F.; Martin, I. W.; Martin, R. M.; Martinelli, L.; Martynov, D.; Marx, J. N.; Mason, K.; Masserot, A.; Massinger, T. J.; Matichard, F.; Matone, L.; Matzner, R. A.; Mavalvala, N.; May, G.; Mazumder, N.; Mazzolo, G.; McCarthy, R.; McClelland, D. E.; McGuire, S. C.; McIntyre, G.; McIver, J.; Meacher, D.; Meadors, G. D.; Mehmet, M.; Meidam, J.; Meier, T.; Melatos, A.; Mendell, G.; Mercer, R. A.; Meshkov, S.; Messenger, C.; Meyer, M. S.; Miao, H.; Michel, C.; Mikhailov, E. E.; Milano, L.; Miller, J.; Minenkov, Y.; Mingarelli, C. M. F.; Mitra, S.; Mitrofanov, V. P.; Mitselmakher, G.; Mittleman, R.; Moe, B.; Mohan, M.; Mohapatra, S. R. P.; Mokler, F.; Moraru, D.; Moreno, G.; Morgado, N.; Mori, T.; Morriss, S. R.; Mossavi, K.; Mours, B.; Mow-Lowry, C. M.; Mueller, C. L.; Mueller, G.; Mukherjee, S.; Mullavey, A.; Munch, J.; Murphy, D.; Murray, P. G.; Mytidis, A.; Nagy, M. F.; Nanda Kumar, D.; Nardecchia, I.; Nash, T.; Naticchioni, L.; Nayak, R.; Necula, V.; Nelemans, G.; Neri, I.; Neri, M.; Newton, G.; Nguyen, T.; Nishida, E.; Nishizawa, A.; Nitz, A.; Nocera, F.; Nolting, D.; Normandin, M. E.; Nuttall, L. K.; Ochsner, E.; O'Dell, J.; Oelker, E.; Ogin, G. H.; Oh, J. J.; Oh, S. H.; Ohme, F.; Oppermann, P.; O'Reilly, B.; Ortega Larcher, W.; O'Shaughnessy, R.; Osthelder, C.; Ott, C. D.; Ottaway, D. J.; Ottens, R. S.; Ou, J.; Overmier, H.; Owen, B. J.; Padilla, C.; Pai, A.; Palomba, C.; Pan, Y.; Pankow, C.; Paoletti, F.; Paoletti, R.; Papa, M. A.; Paris, H.; Pasqualetti, A.; Passaquieti, R.; Passuello, D.; Pedraza, M.; Peiris, P.; Penn, S.; Perreca, A.; Phelps, M.; Pichot, M.; Pickenpack, M.; Piergiovanni, F.; Pierro, V.; Pinard, L.; Pindor, B.; Pinto, I. M.; Pitkin, M.; Poeld, J.; Poggiani, R.; Poole, V.; Poux, C.; Predoi, V.; Prestegard, T.; Price, L. R.; Prijatelj, M.; Principe, M.; Privitera, S.; Prix, R.; Prodi, G. A.; Prokhorov, L.; Puncken, O.; Punturo, M.; Puppo, P.; Quetschke, V.; Quintero, E.; Quitzow-James, R.; Raab, F. J.; Rabeling, D. S.; Rácz, I.; Radkins, H.; Raffai, P.; Raja, S.; Rajalakshmi, G.; Rakhmanov, M.; Ramet, C.; Rapagnani, P.; Raymond, V.; Re, V.; Reed, C. M.; Reed, T.; Regimbau, T.; Reid, S.; Reitze, D. H.; Ricci, F.; Riesen, R.; Riles, K.; Robertson, N. A.; Robinet, F.; Rocchi, A.; Roddy, S.; Rodriguez, C.; Rodruck, M.; Roever, C.; Rolland, L.; Rollins, J. G.; Romano, R.; Romanov, G.; Romie, J. H.; Rosińska, D.; Rowan, S.; Rüdiger, A.; Ruggi, P.; Ryan, K.; Salemi, F.; Sammut, L.; Sandberg, V.; Sanders, J.; Sannibale, V.; Santiago-Prieto, I.; Saracco, E.; Sassolas, B.; Sathyaprakash, B. S.; Saulson, P. R.; Savage, R.; Schilling, R.; Schnabel, R.; Schofield, R. M. S.; Schreiber, E.; Schuette, D.; Schulz, B.; Schutz, B. F.; Schwinberg, P.; Scott, J.; Scott, S. M.; Seifert, F.; Sellers, D.; Sengupta, A. S.; Sentenac, D.; Sergeev, A.; Shaddock, D.; Shah, S.; Shahriar, M. S.; Shaltev, M.; Shapiro, B.; Shawhan, P.; Shoemaker, D. H.; Sidery, T. L.; Siellez, K.; Siemens, X.; Sigg, D.; Simakov, D.; Singer, A.; Singer, L.; Sintes, A. M.; Skelton, G. R.; Slagmolen, B. J. J.; Slutsky, J.; Smith, J. R.; Smith, M. R.; Smith, R. J. E.; Smith-Lefebvre, N. D.; Soden, K.; Son, E. J.; Sorazu, B.; Souradeep, T.; Sperandio, L.; Staley, A.; Steinert, E.; Steinlechner, J.; Steinlechner, S.; Steplewski, S.; Stevens, D.; Stochino, A.; Stone, R.; Strain, K. A.; Straniero, N.; Strigin, S.; Stroeer, A. S.; Sturani, R.; Stuver, A. L.; Summerscales, T. Z.; Susmithan, S.; Sutton, P. J.; Swinkels, B.; Szeifert, G.; Tacca, M.; Talukder, D.; Tang, L.; Tanner, D. B.; Tarabrin, S. P.; Taylor, R.; ter Braack, A. P. M.; Thirugnanasambandam, M. P.; Thomas, M.; Thomas, P.; Thorne, K. A.; Thorne, K. S.; Thrane, E.; Tiwari, V.; Tokmakov, K. V.; Tomlinson, C.; Toncelli, A.; Tonelli, M.; Torre, O.; Torres, C. V.; Torrie, C. I.; Travasso, F.; Traylor, G.; Tse, M.; Ugolini, D.; Unnikrishnan, C. S.; Vahlbruch, H.; Vajente, G.; Vallisneri, M.; van den Brand, J. F. J.; Van Den Broeck, C.; van der Putten, S.; van der Sluys, M. V.; van Heijningen, J.; van Veggel, A. A.; Vass, S.; Vasúth, M.; Vaulin, R.; Vecchio, A.; Vedovato, G.; Veitch, J.; Veitch, P. J.; Venkateswara, K.; Verkindt, D.; Verma, S.; Vetrano, F.; Viceré, A.; Vincent-Finley, R.; Vinet, J.-Y.; Vitale, S.; Vlcek, B.; Vo, T.; Vocca, H.; Vorvick, C.; Vousden, W. D.; Vrinceanu, D.; Vyachanin, S. P.; Wade, A.; Wade, L.; Wade, M.; Waldman, S. J.; Walker, M.; Wallace, L.; Wan, Y.; Wang, J.; Wang, M.; Wang, X.; Wanner, A.; Ward, R. L.; Was, M.; Weaver, B.; Wei, L.-W.; Weinert, M.; Weinstein, A. J.; Weiss, R.; Welborn, T.; Wen, L.; Wessels, P.; West, M.; Westphal, T.; Wette, K.; Whelan, J. T.; Whitcomb, S. E.; White, D. J.; Whiting, B. F.; Wibowo, S.; Wiesner, K.; Wilkinson, C.; Williams, L.; Williams, R.; Williams, T.; Willis, J. L.; Willke, B.; Wimmer, M.; Winkelmann, L.; Winkler, W.; Wipf, C. C.; Wittel, H.; Woan, G.; Worden, J.; Yablon, J.; Yakushin, I.; Yamamoto, H.; Yancey, C. C.; Yang, H.; Yeaton-Massey, D.; Yoshida, S.; Yum, H.; Yvert, M.; ZadroŻny, A.; Zanolin, M.; Zendri, J.-P.; Zhang, F.; Zhang, L.; Zhao, C.; Zhu, H.; Zhu, X. J.; Zotov, N.; Zucker, M. E.; Zweizig, J.; LIGO Scientific Collaboration; Virgo Collaboration

2014-04-01

Cosmic strings can give rise to a large variety of interesting astrophysical phenomena. Among them, powerful bursts of gravitational waves (GWs) produced by cusps are a promising observational signature. In this Letter we present a search for GWs from cosmic string cusps in data collected by the LIGO and Virgo gravitational wave detectors between 2005 and 2010, with over 625 days of live time. We find no evidence of GW signals from cosmic strings. From this result, we derive new constraints on cosmic string parameters, which complement and improve existing limits from previous searches for a stochastic background of GWs from cosmic microwave background measurements and pulsar timing data. In particular, if the size of loops is given by the gravitational backreaction scale, we place upper limits on the string tension Gμ below 10-8 in some regions of the cosmic string parameter space.

Constraints on Cosmic Strings from the LIGO-Virgo Gravitational-Wave Detectors

NASA Technical Reports Server (NTRS)

Aasi, J.; Abadie, J.; Abbott, B.P.; Abbott, R.; Abbott, T.; Abernathy, M.R.; Accadia, T.; Adams, C.; Adams, T.; Adhikari, R.X.;

Constraints on cosmic strings from the LIGO-Virgo gravitational-wave detectors.

PubMed

Aasi, J; Abadie, J; Abbott, B P; Abbott, R; Abbott, T; Abernathy, M R; Accadia, T; Acernese, F; Adams, C; Adams, T; Adhikari, R X; Affeldt, C; Agathos, M; Aggarwal, N; Aguiar, O D; Ajith, P; Allen, B; Allocca, A; Amador Ceron, E; Amariutei, D; Anderson, R A; Anderson, S B; Anderson, W G; Arai, K; Araya, M C; Arceneaux, C; Areeda, J; Ast, S; Aston, S M; Astone, P; Aufmuth, P; Aulbert, C; Austin, L; Aylott, B E; Babak, S; Baker, P T; Ballardin, G; Ballmer, S W; Barayoga, J C; Barker, D; Barnum, S H; Barone, F; Barr, B; Barsotti, L; Barsuglia, M; Barton, M A; Bartos, I; Bassiri, R; Basti, A; Batch, J; Bauchrowitz, J; Bauer, Th S; Bebronne, M; Behnke, B; Bejger, M; Beker, M G; Bell, A S; Bell, C; Belopolski, I; Bergmann, G; Berliner, J M; Bersanetti, D; Bertolini, A; Bessis, D; Betzwieser, J; Beyersdorf, P T; Bhadbhade, T; Bilenko, I A; Billingsley, G; Birch, J; Bitossi, M; Bizouard, M A; Black, E; Blackburn, J K; Blackburn, L; Blair, D; Blom, M; Bock, O; Bodiya, T P; Boer, M; Bogan, C; Bond, C; Bondu, F; Bonelli, L; Bonnand, R; Bork, R; Born, M; Boschi, V; Bose, S; Bosi, L; Bowers, J; Bradaschia, C; Brady, P R; Braginsky, V B; Branchesi, M; Brannen, C A; Brau, J E; Breyer, J; Briant, T; Bridges, D O; Brillet, A; Brinkmann, M; Brisson, V; Britzger, M; Brooks, A F; Brown, D A; Brown, D D; Brückner, F; Bulik, T; Bulten, H J; Buonanno, A; Buskulic, D; Buy, C; Byer, R L; Cadonati, L; Cagnoli, G; Calderón Bustillo, J; Calloni, E; Camp, J B; Campsie, P; Cannon, K C; Canuel, B; Cao, J; Capano, C D; Carbognani, F; Carbone, L; Caride, S; Castiglia, A; Caudill, S; Cavaglià, M; Cavalier, F; Cavalieri, R; Cella, G; Cepeda, C; Cesarini, E; Chakraborty, R; Chalermsongsak, T; Chao, S; Charlton, P; Chassande-Mottin, E; Chen, X; Chen, Y; Chincarini, A; Chiummo, A; Cho, H S; Chow, J; Christensen, N; Chu, Q; Chua, S S Y; Chung, S; Ciani, G; Clara, F; Clark, D E; Clark, J A; Cleva, F; Coccia, E; Cohadon, P-F; Colla, A; Colombini, M; Constancio, M; Conte, A; Conte, R; Cook, D; Corbitt, T R; Cordier, M; Cornish, N; Corsi, A; Costa, C A; Coughlin, M W; Coulon, J-P; Countryman, S; Couvares, P; Coward, D M; Cowart, M; Coyne, D C; Craig, K; Creighton, J D E; Creighton, T D; Crowder, S G; Cumming, A; Cunningham, L; Cuoco, E; Dahl, K; Dal Canton, T; Damjanic, M; Danilishin, S L; D'Antonio, S; Danzmann, K; Dattilo, V; Daudert, B; Daveloza, H; Davier, M; Davies, G S; Daw, E J; Day, R; Dayanga, T; De Rosa, R; Debreczeni, G; Degallaix, J; Del Pozzo, W; Deleeuw, E; Deléglise, S; Denker, T; Dent, T; Dereli, H; Dergachev, V; DeRosa, R; DeSalvo, R; Dhurandhar, S; Di Fiore, L; Di Lieto, A; Di Palma, I; Di Virgilio, A; Díaz, M; Dietz, A; Dmitry, K; Donovan, F; Dooley, K L; Doravari, S; Drago, M; Drever, R W P; Driggers, J C; Du, Z; Dumas, J-C; Dwyer, S; Eberle, T; Edwards, M; Effler, A; Ehrens, P; Eichholz, J; Eikenberry, S S; Endrőczi, G; Essick, R; Etzel, T; Evans, K; Evans, M; Evans, T; Factourovich, M; Fafone, V; Fairhurst, S; Fang, Q; Farinon, S; Farr, B; Farr, W; Favata, M; Fazi, D; Fehrmann, H; Feldbaum, D; Ferrante, I; Ferrini, F; Fidecaro, F; Finn, L S; Fiori, I; Fisher, R; Flaminio, R; Foley, E; Foley, S; Forsi, E; Fotopoulos, N; Fournier, J-D; Franco, S; Frasca, S; Frasconi, F; Frede, M; Frei, M; Frei, Z; Freise, A; Frey, R; Fricke, T T; Fritschel, P; Frolov, V V; Fujimoto, M-K; Fulda, P; Fyffe, M; Gair, J; Gammaitoni, L; Garcia, J; Garufi, F; Gehrels, N; Gemme, G; Genin, E; Gennai, A; Gergely, L; Ghosh, S; Giaime, J A; Giampanis, S; Giardina, K D; Giazotto, A; Gil-Casanova, S; Gill, C; Gleason, J; Goetz, E; Goetz, R; Gondan, L; González, G; Gordon, N; Gorodetsky, M L; Gossan, S; Goßler, S; Gouaty, R; Graef, C; Graff, P B; Granata, M; Grant, A; Gras, S; Gray, C; Greenhalgh, R J S; Gretarsson, A M; Griffo, C; Groot, P; Grote, H; Grover, K; Grunewald, S; Guidi, G M; Guido, C; Gushwa, K E; Gustafson, E K; Gustafson, R; Hall, B; Hall, E; Hammer, D; Hammond, G; Hanke, M; Hanks, J; Hanna, C; Hanson, J; Harms, J; Harry, G M; Harry, I W; Harstad, E D; Hartman, M T; Haughian, K; Hayama, K; Heefner, J; Heidmann, A; Heintze, M; Heitmann, H; Hello, P; Hemming, G; Hendry, M; Heng, I S; Heptonstall, A W; Heurs, M; Hild, S; Hoak, D; Hodge, K A; Holt, K; Holtrop, M; Hong, T; Hooper, S; Horrom, T; Hosken, D J; Hough, J; Howell, E J; Hu, Y; Hua, Z; Huang, V; Huerta, E A; Hughey, B; Husa, S; Huttner, S H; Huynh, M; Huynh-Dinh, T; Iafrate, J; Ingram, D R; Inta, R; Isogai, T; Ivanov, A; Iyer, B R; Izumi, K; Jacobson, M; James, E; Jang, H; Jang, Y J; Jaranowski, P; Jiménez-Forteza, F; Johnson, W W; Jones, D; Jones, D I; Jones, R; Jonker, R J G; Ju, L; K, Haris; Kalmus, P; Kalogera, V; Kandhasamy, S; Kang, G; Kanner, J B; Kasprzack, M; Kasturi, R; Katsavounidis, E; Katzman, W; Kaufer, H; Kaufman, K; Kawabe, K; Kawamura, S; Kawazoe, F; Kéfélian, F; Keitel, D; Kelley, D B; Kells, W; Keppel, D G; Khalaidovski, A; Khalili, F Y; Khazanov, E A; Kim, B K; Kim, C; Kim, K; Kim, N; Kim, W; Kim, Y-M; King, E J; King, P J; Kinzel, D L; Kissel, J S; Klimenko, S; Kline, J; Koehlenbeck, S; Kokeyama, K; Kondrashov, V; Koranda, S; Korth, W Z; Kowalska, I; Kozak, D; Kremin, A; Kringel, V; Królak, A; Kucharczyk, C; Kudla, S; Kuehn, G; Kumar, A; Kumar, P; Kumar, R; Kurdyumov, R; Kwee, P; Landry, M; Lantz, B; Larson, S; Lasky, P D; Lawrie, C; Lazzarini, A; Le Roux, A; Leaci, P; Lebigot, E O; Lee, C-H; Lee, H K; Lee, H M; Lee, J; Lee, J; Leonardi, M; Leong, J R; Leroy, N; Letendre, N; Levine, B; Lewis, J B; Lhuillier, V; Li, T G F; Lin, A C; Littenberg, T B; Litvine, V; Liu, F; Liu, H; Liu, Y; Liu, Z; Lloyd, D; Lockerbie, N A; Lockett, V; Lodhia, D; Loew, K; Logue, J; Lombardi, A L; Lorenzini, M; Loriette, V; Lormand, M; Losurdo, G; Lough, J; Luan, J; Lubinski, M J; Lück, H; Lundgren, A P; Macarthur, J; Macdonald, E; Machenschalk, B; MacInnis, M; Macleod, D M; Magana-Sandoval, F; Mageswaran, M; Mailand, K; Majorana, E; Maksimovic, I; Malvezzi, V; Man, N; Manca, G M; Mandel, I; Mandic, V; Mangano, V; Mantovani, M; Marchesoni, F; Marion, F; Márka, S; Márka, Z; Markosyan, A; Maros, E; Marque, J; Martelli, F; Martin, I W; Martin, R M; Martinelli, L; Martynov, D; Marx, J N; Mason, K; Masserot, A; Massinger, T J; Matichard, F; Matone, L; Matzner, R A; Mavalvala, N; May, G; Mazumder, N; Mazzolo, G; McCarthy, R; McClelland, D E; McGuire, S C; McIntyre, G; McIver, J; Meacher, D; Meadors, G D; Mehmet, M; Meidam, J; Meier, T; Melatos, A; Mendell, G; Mercer, R A; Meshkov, S; Messenger, C; Meyer, M S; Miao, H; Michel, C; Mikhailov, E E; Milano, L; Miller, J; Minenkov, Y; Mingarelli, C M F; Mitra, S; Mitrofanov, V P; Mitselmakher, G; Mittleman, R; Moe, B; Mohan, M; Mohapatra, S R P; Mokler, F; Moraru, D; Moreno, G; Morgado, N; Mori, T; Morriss, S R; Mossavi, K; Mours, B; Mow-Lowry, C M; Mueller, C L; Mueller, G; Mukherjee, S; Mullavey, A; Munch, J; Murphy, D; Murray, P G; Mytidis, A; Nagy, M F; Nanda Kumar, D; Nardecchia, I; Nash, T; Naticchioni, L; Nayak, R; Necula, V; Nelemans, G; Neri, I; Neri, M; Newton, G; Nguyen, T; Nishida, E; Nishizawa, A; Nitz, A; Nocera, F; Nolting, D; Normandin, M E; Nuttall, L K; Ochsner, E; O'Dell, J; Oelker, E; Ogin, G H; Oh, J J; Oh, S H; Ohme, F; Oppermann, P; O'Reilly, B; Ortega Larcher, W; O'Shaughnessy, R; Osthelder, C; Ott, C D; Ottaway, D J; Ottens, R S; Ou, J; Overmier, H; Owen, B J; Padilla, C; Pai, A; Palomba, C; Pan, Y; Pankow, C; Paoletti, F; Paoletti, R; Papa, M A; Paris, H; Pasqualetti, A; Passaquieti, R; Passuello, D; Pedraza, M; Peiris, P; Penn, S; Perreca, A; Phelps, M; Pichot, M; Pickenpack, M; Piergiovanni, F; Pierro, V; Pinard, L; Pindor, B; Pinto, I M; Pitkin, M; Poeld, J; Poggiani, R; Poole, V; Poux, C; Predoi, V; Prestegard, T; Price, L R; Prijatelj, M; Principe, M; Privitera, S; Prix, R; Prodi, G A; Prokhorov, L; Puncken, O; Punturo, M; Puppo, P; Quetschke, V; Quintero, E; Quitzow-James, R; Raab, F J; Rabeling, D S; Rácz, I; Radkins, H; Raffai, P; Raja, S; Rajalakshmi, G; Rakhmanov, M; Ramet, C; Rapagnani, P; Raymond, V; Re, V; Reed, C M; Reed, T; Regimbau, T; Reid, S; Reitze, D H; Ricci, F; Riesen, R; Riles, K; Robertson, N A; Robinet, F; Rocchi, A; Roddy, S; Rodriguez, C; Rodruck, M; Roever, C; Rolland, L; Rollins, J G; Romano, R; Romanov, G; Romie, J H; Rosińska, D; Rowan, S; Rüdiger, A; Ruggi, P; Ryan, K; Salemi, F; Sammut, L; Sandberg, V; Sanders, J; Sannibale, V; Santiago-Prieto, I; Saracco, E; Sassolas, B; Sathyaprakash, B S; Saulson, P R; Savage, R; Schilling, R; Schnabel, R; Schofield, R M S; Schreiber, E; Schuette, D; Schulz, B; Schutz, B F; Schwinberg, P; Scott, J; Scott, S M; Seifert, F; Sellers, D; Sengupta, A S; Sentenac, D; Sergeev, A; Shaddock, D; Shah, S; Shahriar, M S; Shaltev, M; Shapiro, B; Shawhan, P; Shoemaker, D H; Sidery, T L; Siellez, K; Siemens, X; Sigg, D; Simakov, D; Singer, A; Singer, L; Sintes, A M; Skelton, G R; Slagmolen, B J J; Slutsky, J; Smith, J R; Smith, M R; Smith, R J E; Smith-Lefebvre, N D; Soden, K; Son, E J; Sorazu, B; Souradeep, T; Sperandio, L; Staley, A; Steinert, E; Steinlechner, J; Steinlechner, S; Steplewski, S; Stevens, D; Stochino, A; Stone, R; Strain, K A; Straniero, N; Strigin, S; Stroeer, A S; Sturani, R; Stuver, A L; Summerscales, T Z; Susmithan, S; Sutton, P J; Swinkels, B; Szeifert, G; Tacca, M; Talukder, D; Tang, L; Tanner, D B; Tarabrin, S P; Taylor, R; ter Braack, A P M; Thirugnanasambandam, M P; Thomas, M; Thomas, P; Thorne, K A; Thorne, K S; Thrane, E; Tiwari, V; Tokmakov, K V; Tomlinson, C; Toncelli, A; Tonelli, M; Torre, O; Torres, C V; Torrie, C I; Travasso, F; Traylor, G; Tse, M; Ugolini, D; Unnikrishnan, C S; Vahlbruch, H; Vajente, G; Vallisneri, M; van den Brand, J F J; Van Den Broeck, C; van der Putten, S; van der Sluys, M V; van Heijningen, J; van Veggel, A A; Vass, S; Vasúth, M; Vaulin, R; Vecchio, A; Vedovato, G; Veitch, J; Veitch, P J; Venkateswara, K; Verkindt, D; Verma, S; Vetrano, F; Viceré, A; Vincent-Finley, R; Vinet, J-Y; Vitale, S; Vlcek, B; Vo, T; Vocca, H; Vorvick, C; Vousden, W D; Vrinceanu, D; Vyachanin, S P; Wade, A; Wade, L; Wade, M; Waldman, S J; Walker, M; Wallace, L; Wan, Y; Wang, J; Wang, M; Wang, X; Wanner, A; Ward, R L; Was, M; Weaver, B; Wei, L-W; Weinert, M; Weinstein, A J; Weiss, R; Welborn, T; Wen, L; Wessels, P; West, M; Westphal, T; Wette, K; Whelan, J T; Whitcomb, S E; White, D J; Whiting, B F; Wibowo, S; Wiesner, K; Wilkinson, C; Williams, L; Williams, R; Williams, T; Willis, J L; Willke, B; Wimmer, M; Winkelmann, L; Winkler, W; Wipf, C C; Wittel, H; Woan, G; Worden, J; Yablon, J; Yakushin, I; Yamamoto, H; Yancey, C C; Yang, H; Yeaton-Massey, D; Yoshida, S; Yum, H; Yvert, M; Zadrożny, A; Zanolin, M; Zendri, J-P; Zhang, F; Zhang, L; Zhao, C; Zhu, H; Zhu, X J; Zotov, N; Zucker, M E; Zweizig, J

2014-04-04

Cosmic strings can give rise to a large variety of interesting astrophysical phenomena. Among them, powerful bursts of gravitational waves (GWs) produced by cusps are a promising observational signature. In this Letter we present a search for GWs from cosmic string cusps in data collected by the LIGO and Virgo gravitational wave detectors between 2005 and 2010, with over 625 days of live time. We find no evidence of GW signals from cosmic strings. From this result, we derive new constraints on cosmic string parameters, which complement and improve existing limits from previous searches for a stochastic background of GWs from cosmic microwave background measurements and pulsar timing data. In particular, if the size of loops is given by the gravitational backreaction scale, we place upper limits on the string tension Gμ below 10(-8) in some regions of the cosmic string parameter space.

Relativistic strings - From soap films to a grand unified theory

NASA Astrophysics Data System (ADS)

Nesterenko, V. V.

1986-11-01

The concept of relativistic strings is considered in connection with the theory of minimal surfaces (e.g., soap films stretched onto closed wire contours). The role of relativistic strings in hadron physics is discussed. Attention is then given to the creation of a grand unified theory on the basis of the superstring concept. Finally, the role of relativistic strings in cosmology is examined.

Bypassing Protein Corona Issue on Active Targeting: Zwitterionic Coatings Dictate Specific Interactions of Targeting Moieties and Cell Receptors.

PubMed

Safavi-Sohi, Reihaneh; Maghari, Shokoofeh; Raoufi, Mohammad; Jalali, Seyed Amir; Hajipour, Mohammad J; Ghassempour, Alireza; Mahmoudi, Morteza

2016-09-07

Surface functionalization strategies for targeting nanoparticles (NP) to specific organs, cells, or organelles, is the foundation for new applications of nanomedicine to drug delivery and biomedical imaging. Interaction of NPs with biological media leads to the formation of a biomolecular layer at the surface of NPs so-called as "protein corona". This corona layer can shield active molecules at the surface of NPs and cause mistargeting or unintended scavenging by the liver, kidney, or spleen. To overcome this corona issue, we have designed biotin-cysteine conjugated silica NPs (biotin was employed as a targeting molecule and cysteine was used as a zwitterionic ligand) to inhibit corona-induced mistargeting and thus significantly enhance the active targeting capability of NPs in complex biological media. To probe the targeting yield of our engineered NPs, we employed both modified silicon wafer substrates with streptavidin (i.e., biotin receptor) to simulate a target and a cell-based model platform using tumor cell lines that overexpress biotin receptors. In both cases, after incubation with human plasma (thus forming a protein corona), cellular uptake/substrate attachment of the targeted NPs with zwitterionic coatings were significantly higher than the same NPs without zwitterionic coating. Our results demonstrated that NPs with a zwitterionic surface can considerably facilitate targeting yield of NPs and provide a promising new type of nanocarriers in biological applications.

Geometric phase for a static two-level atom in cosmic string spacetime

NASA Astrophysics Data System (ADS)

Cai, Huabing; Ren, Zhongzhou

2018-05-01

We investigate the geometric phase of a static two-level atom immersed in a bath of fluctuating vacuum electromagnetic field in the background of a cosmic string. Our results indicate that due to the existence of the string, the geometric phase depends crucially on the position and the polarizability of the atom relative to the string. This can be ascribed to the fact that the presence of the string profoundly modify the distribution of electric field in Minkowski spacetime. So in principle, we can detect the cosmic string by experiments involving geometric phase.

Violin Pedagogy and the Physics of the Bowed String

NASA Astrophysics Data System (ADS)

McLeod, Alexander Rhodes

The paper describes the mechanics of violin tone production using non-specialist language, in order to present a scientific understanding of tone production accessible to a broad readership. As well as offering an objective understanding of tone production, this model provides a powerful tool for analyzing the technique of string playing. The interaction between the bow and the string is quite complex. Literature reviewed for this study reveals that scientific investigations have provided important insights into the mechanics of string playing, offering explanations for factors which both contribute to and limit the range of tone colours and dynamics that stringed instruments can produce. Also examined in the literature review are significant works of twentieth century violin pedagogy exploring tone production on the violin, based on the practical experience of generations of teachers and performers. Hermann von Helmholtz described the stick-slip cycle which drives the string in 1863, which replaced earlier ideas about the vibration of violin strings. Later, scientists such as John Schelleng and Lothar Cremer were able to demonstrate how the mechanics of the bow-string interaction can create different tone colours. Recent research by Anders Askenfelt, Knut Guettler, and Erwin Schoonderwaldt have continued to refine earlier research in this area. The writings of Lucien Capet, Leopold Auer, Carl Flesch, Paul Rolland, Kato Havas, Ivan Galamian, and Simon Fischer are examined and analyzed. Each author describes a different approach to tone production on the violin, representing a different understanding of the underlying mechanism. Analyzing these writings within the context of a scientific understanding of tone production makes it possible to compare these approaches more consistently, and to synthesize different concepts drawn from the diverse sources evaluated.

Cysteine Racemization on IgG Heavy and Light Chains

PubMed Central

Zhang, Qingchun; Flynn, Gregory C.

2013-01-01

Under basic pH conditions, the heavy chain 220-light chain 214 (H220-L214) disulfide bond, found in the flexible hinge region of an IgG1, can convert to a thioether. Similar conditions also result in racemization of the H220 cysteine. Here, we report that racemization occurs on both H220 and L214 on an IgG1 with a λ light chain (IgG1λ) but almost entirely on H220 of an IgGl with a κ light chain (IgG1κ) under similar conditions. Likewise, racemization was detected at significant levels on H220 and L214 on endogenous human IgG1λ but only at the H220 position on IgG1κ. Low but measurable levels of d-cysteines were found on IgG2 cysteines in the hinge region, both with monoclonal antibodies incubated under basic pH conditions and on antibodies isolated from human serum. A simplified reaction mechanism involving reversible β-elimination on the cysteine is presented that accounts for both base-catalyzed racemization and thioether formation at the hinge disulfide. PMID:24142697

New symmetries and ghost structure of covariant string theories

NASA Astrophysics Data System (ADS)

Neveu, A.; Nicolai, H.; West, P.

1986-02-01

It is shown that there exists an infinite set of new symmetries of the previously given covariant string formulations. These symmetries have themselves an infinite set of hidden local symmetries and so on. A new physically equivalent further extended string action is given in which the infinite set of symmetries is most easily displayed. A quantization involving gauge fixing and ghosts of the various covariant string actions is given. permanent address: Kings College, Mathematics Department, London WC2R 2LS, UK.

Width of the confining string in Yang-Mills theory.

PubMed

Gliozzi, F; Pepe, M; Wiese, U-J

2010-06-11

We investigate the transverse fluctuations of the confining string connecting two static quarks in (2+1)D SU(2) Yang-Mills theory using Monte Carlo calculations. The exponentially suppressed signal is extracted from the large noise by a very efficient multilevel algorithm. The resulting width of the string increases logarithmically with the distance between the static quark charges. Corrections at intermediate distances due to universal higher-order terms in the effective string action are calculated analytically. They accurately fit the numerical data.

Cysteine Cathepsin Activity Regulation by Glycosaminoglycans

PubMed Central

Lenarčič, Brigita

2014-01-01

Cysteine cathepsins are a group of enzymes normally found in the endolysosomes where they are primarily involved in intracellular protein turnover but also have a critical role in MHC II-mediated antigen processing and presentation. However, in a number of pathologies cysteine cathepsins were found to be heavily upregulated and secreted into extracellular milieu, where they were found to degrade a number of extracellular proteins. A major role in modulating cathepsin activities play glycosaminoglycans, which were found not only to facilitate their autocatalytic activation including at neutral pH, but also to critically modulate their activities such as in the case of the collagenolytic activity of cathepsin K. The interaction between cathepsins and glycosaminoglycans will be discussed in more detail. PMID:25587532

Modal analysis of a nonuniform string with end mass and variable tension

NASA Technical Reports Server (NTRS)

Rheinfurth, M. H.; Galaboff, Z. J.

1983-01-01

Modal synthesis techniques for dynamic systems containing strings describe the lateral displacements of these strings by properly chosen shape functions. An iterative algorithm is provided to calculate the natural modes of a nonuniform string and variable tension for some typical boundary conditions including one end mass. Numerical examples are given for a string in a constant and a gravity gradient force field.

The implications of the COBE diffuse microwave radiation results for cosmic strings

NASA Technical Reports Server (NTRS)

Bennett, David P.; Stebbins, Albert; Bouchet, Francois R.

1992-01-01

We compare the anisotropies in the cosmic microwave background radiation measured by the COBE experiment to those predicted by cosmic string theories. We use an analytic model for the Delta T/T power spectrum that is based on our previous numerical simulations of strings, under the assumption that cosmic strings are the sole source of the measured anisotropy. This implies a value for the string mass per unit length of 1.5 +/- 0.5 x 10 exp -6 C-squared/G. This is within the range of values required for cosmic strings to successfully seed the formation of large-scale structures in the universe. These results clearly encourage further studies of Delta T/T and large-scale structure in the cosmic string model.

A Catalytic Mechanism for Cysteine N-Terminal Nucleophile Hydrolases, as Revealed by Free Energy Simulations

PubMed Central

Lodola, Alessio; Branduardi, Davide; De Vivo, Marco; Capoferri, Luigi; Mor, Marco; Piomelli, Daniele; Cavalli, Andrea

2012-01-01

The N-terminal nucleophile (Ntn) hydrolases are a superfamily of enzymes specialized in the hydrolytic cleavage of amide bonds. Even though several members of this family are emerging as innovative drug targets for cancer, inflammation, and pain, the processes through which they catalyze amide hydrolysis remains poorly understood. In particular, the catalytic reactions of cysteine Ntn-hydrolases have never been investigated from a mechanistic point of view. In the present study, we used free energy simulations in the quantum mechanics/molecular mechanics framework to determine the reaction mechanism of amide hydrolysis catalyzed by the prototypical cysteine Ntn-hydrolase, conjugated bile acid hydrolase (CBAH). The computational analyses, which were confirmed in water and using different CBAH mutants, revealed the existence of a chair-like transition state, which might be one of the specific features of the catalytic cycle of Ntn-hydrolases. Our results offer new insights on Ntn-mediated hydrolysis and suggest possible strategies for the creation of therapeutically useful inhibitors. PMID:22389698

Cysteine-sparing CADASIL mutations in NOTCH3 show proaggregatory properties in vitro.

PubMed

Wollenweber, Frank Arne; Hanecker, Patrizia; Bayer-Karpinska, Anna; Malik, Rainer; Bäzner, Hansjörg; Moreton, Fiona; Muir, Keith W; Müller, Susanna; Giese, Armin; Opherk, Christian; Dichgans, Martin; Haffner, Christof; Duering, Marco

2015-03-01

Mutations in NOTCH3 cause cerebral autosomal-dominant arteriopathy with subcortical infarcts and leukoencephalopathy (CADASIL), the most common monogenic cause of stroke and vascular dementia. Misfolding and aggregation of NOTCH3 proteins triggered by cysteine-affecting mutations are considered to be the key disease mechanisms. However, the significance of cysteine-sparing mutations is still debated. We studied a family with inherited small vessel disease by standardized medical history, clinical examination, MRI, ultrastructural analysis of skin biopsies, and Sanger sequencing of all NOTCH3 exons. In addition, we performed in vitro characterization of NOTCH3 variants using recombinant protein fragments and a single-particle aggregation assay. We identified a novel cysteine-sparing NOTCH3 mutation (D80G) in 4 family members, which was absent in a healthy sibling. All mutation carriers exhibited a CADASIL typical brain imaging and clinical phenotype, whereas skin biopsy showed inconsistent results. In vitro aggregation behavior of the D80G mutant was similar compared with cysteine-affecting mutations. This was reproduced with cysteine-sparing mutations from previously reported families having a phenotype consistent with CADASIL. Our findings support the view that cysteine-sparing mutations, such as D80G, might cause CADASIL with a phenotype largely indistinguishable from cysteine mutations. The in vitro aggregation analysis of atypical NOTCH3 mutations offers novel insights into pathomechanisms and might represent a tool for estimating their clinical significance. © 2015 American Heart Association, Inc.

Melt dumping in string stabilized ribbon growth

DOEpatents

Sachs, Emanuel M.

1986-12-09

A method and apparatus for stabilizing the edge positions of a ribbon drawn from a melt includes the use of wettable strings drawn in parallel up through the melt surface, the ribbon being grown between the strings. A furnace and various features of the crucible used therein permit continuous automatic growth of flat ribbons without close temperature control or the need for visual inspection.

Bound states in string nets

NASA Astrophysics Data System (ADS)

Schulz, Marc Daniel; Dusuel, Sébastien; Vidal, Julien

2016-11-01

We discuss the emergence of bound states in the low-energy spectrum of the string-net Hamiltonian in the presence of a string tension. In the ladder geometry, we show that a single bound state arises either for a finite tension or in the zero-tension limit depending on the theory considered. In the latter case, we perturbatively compute the binding energy as a function of the total quantum dimension. We also address this issue in the honeycomb lattice where the number of bound states in the topological phase depends on the total quantum dimension. Finally, the internal structure of these bound states is analyzed in the zero-tension limit.

Effects of cysteine introduction into three homologous cytochromes C.

PubMed

Kobayashi, Yoshiko; Sonoyama, Takafumi; Takeda, Taku; Sambongi, Yoshihiro

2009-05-01

A cysteine residue was systematically introduced into three homologous cytochromes c from Hydrogenobacter thermophilus, Hydrogenophilus thermoluteolus, and Pseudomonas aeruginosa at a conserved position. The H. thermoluteolus variant showed the most decreased thermal stability as compared with the wild type, which might have been due in part to crosslinked polymer formation. The effects of cysteine introduction differed even at the conserved position in these homologous proteins.

Effects of L-cysteine on lead acetate induced neurotoxicity in albino mice.

PubMed

Mahmoud, Y I; Sayed, S S

2016-07-01

Lead is a toxic heavy metal that adversely affects nervous tissues; it often occurs as an environmental pollutant. We investigated histological changes in the cerebral cortex, hippocampus and cerebellum of adult albino mice following exposure to lead acetate. We also studied the possible ameliorative effect of the chelating agent, L-cysteine, on lead-induced neurotoxicity. We divided albino mice into six groups: 1) vehicle-only control, 2) L-cysteine control, 3 and 4) treated for 7 days with 20 and 40 mg/kg lead acetate, respectively, and 5 and 6) treated for 7 days with 20 and 40 mg/kg lead acetate, respectively, followed by 50 mg/kg L-cysteine for 7 days. Lead acetate administration caused disorganization of cell layers, neuronal loss and degeneration, and neuropil vacuolization. Brain sections from lead-intoxicated mice treated with L-cysteine showed fewer pathological changes; the neuropil showed less vacuolization and the neurons appeared less damaged. L-cysteine at the dose we used only marginally alleviated lead-induced toxicity.

Chiral phase transition from string theory.

PubMed

Parnachev, Andrei; Sahakyan, David A

2006-09-15

The low energy dynamics of a certain D-brane configuration in string theory is described at weak t'Hooft coupling by a nonlocal version of the Nambu-Jona-Lasinio model. We study this system at finite temperature and strong t'Hooft coupling, using the string theory dual. We show that for sufficiently low temperatures chiral symmetry is broken, while for temperatures larger then the critical value, it gets restored. We compute the latent heat and observe that the phase transition is of the first order.

Symbol-string sensitivity and children's reading.

PubMed

Pammer, Kristen; Lavis, Ruth; Hansen, Peter; Cornelissen, Piers L

2004-06-01

In this study of primary school children, a novel 'symbol-string' task is used to assess sensitivity to the position of briefly presented non-alphabetic but letter-like symbols. The results demonstrate that sensitivity in the symbol-string task explains a unique proportion of the variability in children's contextual reading accuracy. Moreover, developmental dyslexic readers show reduced sensitivity in this task, compared to chronological age controls. The results suggest that limitations set by visuo-spatial processes and/or attentional iconic memory resources may constrain children's reading accuracy.

Protein sequence comparison based on K-string dictionary.

PubMed

Yu, Chenglong; He, Rong L; Yau, Stephen S-T

2013-10-25

The current K-string-based protein sequence comparisons require large amounts of computer memory because the dimension of the protein vector representation grows exponentially with K. In this paper, we propose a novel concept, the "K-string dictionary", to solve this high-dimensional problem. It allows us to use a much lower dimensional K-string-based frequency or probability vector to represent a protein, and thus significantly reduce the computer memory requirements for their implementation. Furthermore, based on this new concept, we use Singular Value Decomposition to analyze real protein datasets, and the improved protein vector representation allows us to obtain accurate gene trees. © 2013.

Evidence for a scaling solution in cosmic-string evolution

NASA Technical Reports Server (NTRS)

Bennett, David P.; Bouchet, Francois R.

1988-01-01

Numerical simulations are used to study the most fundamental issue of cosmic-string evolution: the existence of a scaling solution. Strong evidence is found that a scaling solution does indeed exist. This justifies the main assumption on which the cosmic-string theories of galaxy formation is based. The main conclusion coincides with that of Albrecht and Turok (1985) but the results are not consistent with theirs. In fact, the results indicate that the details of string evolution are very different from the standard dogma.

Synthesis of the sulfur amino acids: cysteine and methionine.

PubMed

Wirtz, Markus; Droux, Michel

2005-12-01

This review will assess new features reported for the molecular and biochemical aspects of cysteine and methionine biosynthesis in Arabidopsis thaliana with regards to early published data from other taxa including crop plants and bacteria (Escherichia coli as a model). By contrast to bacteria and fungi, plant cells present a complex organization, in which the sulfur network takes place in multiple sites. Particularly, the impact of sulfur amino-acid biosynthesis compartmentalization will be addressed in respect to localization of sulfur reduction. To this end, the review will focus on regulation of sulfate reduction by synthesis of cysteine through the cysteine synthase complex and the synthesis of methionine and its derivatives. Finally, regulatory aspects of sulfur amino-acid biosynthesis will be explored with regards to interlacing processes such as photosynthesis, carbon and nitrogen assimilation.

Facile and green synthesis of highly stable L-cysteine functionalized copper nanoparticles