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1.
Public Health ; 155: 62-68, 2018 Feb.
Article in English | MEDLINE | ID: mdl-29306625

ABSTRACT

OBJECTIVES: This study investigates morbidity and mortality suffered by divers in the USA and Canada. STUDY DESIGN: Prospectively recruited probability-weighted sample for estimating the national burden of injury and a weighted retrospective survey for estimating exposure. METHODS: The National Electronic Surveillance System and Canadian Hospitals Injury Reporting and Prevention Program (CHIRPP) were searched for scuba diving injuries. The Divers Alert Network diving fatality database was searched for deaths, and Sports and Fitness Industry Association estimates for diving were obtained from annual surveys. RESULTS: In the USA, there were an estimated 1394 emergency department (ED) presentations annually for scuba-related injuries. The majority (80%) were treated and/or released. There were an estimated 306 million dives made by the US residents 2006-2015 and concurrently 563 recreational diving deaths, a fatality rate of 0.18 per 105 dives and 1.8 per 105 diver-years. There were 658 diving deaths in the US 2006-2015 and 13,943 ED presentations for scuba injuries, giving a ratio of 47 diving deaths in the USA for every 1000 ED presentations. There were 98 cases of scuba-related injuries identified in the CHIRPP data. The prevalence of scuba-related injuries for patients aged 3-17 years was 1.5 per 105 cases, and the prevalence of scuba-related injuries to patients 18-62 years was 16.5 per 105 cases. DISCUSSION: In Canada and the USA, only one out of every 10,000 ED presentations is due to a scuba-related injury. That there are 47 deaths for every 1000 ED presentations for scuba injuries speaks to the relatively unforgiving environment in which scuba diving takes place. For 1.8 deaths per million recreational dives, mortality in scuba diving is nonetheless relatively low.


Subject(s)
Diving/injuries , Recreation , Wounds and Injuries/epidemiology , Adolescent , Adult , Canada/epidemiology , Child , Child, Preschool , Databases, Factual , Emergency Service, Hospital/statistics & numerical data , Female , Humans , Male , Middle Aged , Prevalence , Retrospective Studies , United States/epidemiology , Wounds and Injuries/mortality , Young Adult
2.
Health Promot Chronic Dis Prev Can ; 37(1): 30-31, 2017 Jan.
Article in English, French | MEDLINE | ID: mdl-28102994

ABSTRACT

INTRODUCTION: Although fatality and hospitalization rates for burns in Canada have declined over time, less serious cases still commonly present to the emergency department (ED). METHODS: The Canadian Hospitals Injury Reporting and Prevention Program (CHIRPP) is an injury and poisoning surveillance system administered by the Public Health Agency of Canada, operating in emergency departments of 17 hospitals. RESULTS: Overall, cases reported in 2013 were scalds and contact burns from hot objects. The leading direct causes of scalds were hot beverages and hot water. The leading causes of contact burns were stoves/ovens and fireplaces/accessories. While the overall proportion of burns was highest among females, males comprised a higher proportion of burns from all mechanisms except scalds.


INTRODUCTION: Bien que les taux de mortalité et d'hospitalisation associés à des brûlures au Canada aient diminué avec le temps, des cas moins graves se présentent encore couramment aux services d'urgence. MÉTHODOLOGIE: Le Système canadien hospitalier d'information et de recherche en prévention des traumatismes (SCHIRPT) révèle les causes majeures de brûlures thermiques et échaudures en 2013. RÉSULTATS: Au total, la moitié des blessures déclarées cette même année étaient des échaudures et des brûlures résultant d'un contact avec un objet brûlant. Les deux principales causes d'échaudures étaient les boissons chaudes et l'eau chaude. Les deux principales causes directes des brûlures par contact étaient les cuisinières et fours.


Subject(s)
Burns/epidemiology , Emergency Service, Hospital , Adolescent , Adult , Age Distribution , Aged , Canada/epidemiology , Child , Child, Preschool , Female , Hospitalization , Humans , Infant , Infant, Newborn , Male , Middle Aged , Population Surveillance , Sex Distribution , Young Adult
4.
Health Promot Chronic Dis Prev Can ; 36(6): 112-7, 2016 Jun.
Article in English, French | MEDLINE | ID: mdl-27284703

ABSTRACT

This status report on the Canadian Hospitals Injury Reporting and Prevention Program (CHIRPP), an emergency department-based injury and poisoning surveillance system, describes the result of migrating from a centralized data entry and coding process to a decentralized process, the web-based eCHIRPP system, in 2011. This secure system is improving the CHIRPP's overall flexibility and timeliness, which are key attributes of an effective surveillance system. The integrated eCHIRPP platform enables near real-time data entry and access, has user-friendly data management and analysis tools, and allows for easier communication and connectivity across the CHIRPP network through an online collaboration centre. Current pilot testing of automated data monitoring and trend analysis tools-designed to monitor and flag incoming data according to predefined criteria (for example, a new consumer product)-is revealing eCHIRPP's potential for providing early warnings of new hazards, issues and trends.


RÉSUMÉ: Ce rapport d'étape sur le Système canadien hospitalier d'information et de recherche en prévention des traumatismes (SCHIRPT), un système de surveillance des blessures et des empoisonnements utilisé par les services d'urgence, décrit le résultat de la migration d'un processus d'entrée et de codage des données centralisé vers le processus décentralisé de l'eSCHIRPT, réalisée en 2011. Ce système sécurisé accroît la souplesse et la rapidité globales du SCHIRPT, attributs clés d'un système de surveillance efficace. La plate-forme intégrée de l'eSCHIRPT permet une entrée de données et un accès aux données en temps quasi réel, comprend des outils conviviaux de gestion et d'analyse des données et facilite la communication et la connectivité au sein du réseau du SCHIRPT grâce à un centre de collaboration en ligne. L'essai pilote mené actuellement sur les outils automatisés de contrôle de données et d'analyse des tendances ­ destinés à surveiller et à mettre en évidence les données d'entrée à partir de critères prédéfinis (par exemple un nouveau produit de consommation) ­ révèle le potentiel de détection rapide des nouveaux dangers, enjeux et tendances que possède l'eSCHIRPT.


Subject(s)
Emergency Service, Hospital , Patient Safety , Public Health Surveillance , Risk Management , Wounds and Injuries/prevention & control , Canada/epidemiology , Humans , Wounds and Injuries/epidemiology
5.
Phys Rev Lett ; 115(11): 117801, 2015 Sep 11.
Article in English | MEDLINE | ID: mdl-26406855

ABSTRACT

An electronically coarse-grained model for water reveals a persistent vestige of the liquid-gas transition deep into the supercritical region. A crossover in the density dependence of the molecular dipole arises from the onset of nonpercolating hydrogen bonds. The crossover points coincide with the Widom line in the scaling region but extend farther, tracking the heat capacity maxima, offering evidence for liquidlike and gaslike state points in a "one-phase" fluid. The effect is present even in dipole-limit models, suggesting that it is common for all molecular liquids exhibiting dipole enhancement in the liquid phase.

6.
Methods ; 68(2): 371-7, 2014 Jul 01.
Article in English | MEDLINE | ID: mdl-24704357

ABSTRACT

Of all the ways in which complex materials (including many biological systems) can be explored, imaging is perhaps the most powerful because delivering high information content directly. This is particular relevant in aspects of cellular localization where the physical proximity of molecules is crucial in biochemical processes. A great deal of effort in imaging has been spent on enabling chemically selective imaging so that only specific features are revealed. This is almost always achieved by adding fluorescent chemical labels to specific molecules. Under appropriate illumination conditions only the molecules (via their labels) will be visible. The technique is simple and elegant but does suffer from fundamental limitations: (1) the fluorescent labels may fade when illuminated (a phenomenon called photobleaching) thereby constantly decreasing signal contrast over the course of image acquisition. To combat photobleaching one must reduce observation times or apply unfavourably low excitation levels all of which reduce the information content of images; (2) the fluorescent species may be deactivated by various environmental factors (the general term is fluorescence quenching); (3) the presence of fluorescent labels may introduce unexpected complications or may interfere with processes of interest (4) Some molecules of interest cannot be labelled. In these circumstances we require a fundamentally different strategy. One of the most promising alternative is based on a technique called Coherent Anti-Stokes Raman scattering (CARS). CARS is a fundamentally more complex process than is fluorescence and the experimental procedures and optical systems required to deliver high quality CARS images are intricate. However, the rewards are correspondingly very high: CARS probes the chemically distinct vibrations of the constituent molecules in a complex system and is therefore also chemically selective as are fluorescence-based methods. Moreover,the potentially severe problems of fluorescence bleaching and quenching are circumvented and high-resolution three dimensional images can be obtained on completely unlabelled specimens. We review here aspects of CARS and Multiphoton fluorescence techniques to cellular localization and measurement.


Subject(s)
Cell Tracking/methods , Imaging, Three-Dimensional/methods , Spectrum Analysis, Raman/methods , Biophysical Phenomena , Fluorescence , Humans , Microscopy, Fluorescence, Multiphoton/methods
7.
Analyst ; 138(22): 6997-7005, 2013 Nov 21.
Article in English | MEDLINE | ID: mdl-24093127

ABSTRACT

An MRSA assay requiring neither labeling nor amplification of target DNA has been developed. Sequence specific binding of fragments of bacterial genomic DNA is detected at femtomolar concentrations using electrochemical impedance spectroscopy (EIS). This has been achieved using systematic optimisation of probe chemistry (PNA self-assembled monolayer film on gold electrode), electrode film structure (the size and nature of the chemical spacer) and DNA fragmentation, as these are found to play an important role in assay performance. These sensitivity improvements allow the elimination of the PCR step and DNA labeling and facilitate the development of a simple and rapid point of care test for MRSA. Assay performance is then evaluated and specific direct detection of the MRSA diagnostic mecA gene from genomic DNA, extracted directly from bacteria without further treatment is demonstrated for bacteria spiked into saline (10(6) cells per mL) on gold macrodisc electrodes and into human wound fluid (10(4) cells per mL) on screen printed gold electrodes. The latter detection level is particularly relevant to clinical requirements and point of care testing where the general threshold for considering a wound to be infected is 10(5) cells per mL. By eliminating the PCR step typically employed in nucleic acid assays, using screen printed electrodes and achieving sequence specific discrimination under ambient conditions, the test is extremely simple to design and engineer. In combination with a time to result of a few minutes this means the assay is well placed for use in point of care testing.


Subject(s)
Bacterial Typing Techniques/methods , Electrochemical Techniques , Methicillin-Resistant Staphylococcus aureus , Point-of-Care Systems/standards , Staphylococcal Infections/diagnosis , Humans , Polymerase Chain Reaction
8.
Phys Rev Lett ; 110(22): 227801, 2013 May 31.
Article in English | MEDLINE | ID: mdl-23767748

ABSTRACT

We introduce an electronically coarse-grained description of water representing all long range, many-body electronic responses via an embedded quantum oscillator. Leading-order response coefficients and gas phase electrostatic moments are exactly reproduced. Molecular dynamics, using electronic path integral sampling, shows that this framework is sufficient for a realistic liquid to emerge naturally with transferability extending further to nonambient state points and to the free water surface. The model allows the strength of many-body dispersion and polarization to be adjusted independently and these are found to have significant effects on the condensed phase.

9.
Chronic Dis Inj Can ; 32(4): 229-30, 2012 Sep.
Article in English | MEDLINE | ID: mdl-23046806

ABSTRACT

Injury in Review, 2012 Edition: Spotlight on Road and Transport Safety, the first national public health report of its kind, synthesizes road- and transport-related injury statistics from a variety of sources. It profiles injury patterns among Canadians aged up to 24 years, explains risks and protective factors, and makes recommendations for action. The findings inform the development of targeted injury prevention efforts.


Subject(s)
Accidents, Traffic/statistics & numerical data , Hospitalization/statistics & numerical data , Motor Vehicles/statistics & numerical data , Wounds and Injuries/epidemiology , Accidents, Traffic/trends , Adolescent , Adult , Age Distribution , Aged , Alcohol Drinking , Asphyxia/mortality , Canada/epidemiology , Child , Child, Preschool , Female , Humans , Infant , Male , Middle Aged , Off-Road Motor Vehicles/statistics & numerical data , Seat Belts/statistics & numerical data , Sex Distribution , Suicide/statistics & numerical data , Wounds and Injuries/mortality , Young Adult
10.
Drugs Today (Barc) ; 47(1): 5-15, 2011 Jan.
Article in English | MEDLINE | ID: mdl-21373646

ABSTRACT

HIV has shifted from an acute illness to a chronic condition that can be successfully managed long-term with combination antiretroviral therapy. Rilpivirine (TMC-278) is a second-generation non-nucleoside reverse transcriptase inhibitor (NNRTI) that is positioned to become an importation therapy option for HIV-1-infected patients, particularly for those that are naive to therapy. In phase III studies this agent demonstrated similar virologic and immunologic efficacy compared to a current standard of care, efavirenz, while causing less adverse events. A higher proportion of rilpivirine-treated patients did experience virologic failure, however, and providers will need to weigh this risk with the improved tolerability of rilpivirine. In vitro studies have demonstrated that rilpivirine, as a diarylpyrimidine NNRTI with greater flexibility, has a higher genetic barrier to resistance when compared to first-generation NNRTI agents. Longer-term clinical data will be necessary to better understand rilpivirine's durability and activity against viral resistance in patients. Rilpivirine will be available as a stand-alone agent and will also be coformulated with tenofovir and emtricitabine to create a safe and effective antiretroviral regimen that can be administered as a single daily-dosed tablet.


Subject(s)
Acquired Immunodeficiency Syndrome/drug therapy , Anti-HIV Agents/therapeutic use , HIV Reverse Transcriptase/antagonists & inhibitors , HIV-1/drug effects , Nitriles/therapeutic use , Pyrimidines/therapeutic use , Clinical Trials as Topic , Drug Resistance, Viral , Humans , Nitriles/adverse effects , Nitriles/pharmacokinetics , Nitriles/pharmacology , Pyrimidines/adverse effects , Pyrimidines/pharmacokinetics , Pyrimidines/pharmacology , Rilpivirine
11.
J Phys Chem B ; 114(23): 7942-50, 2010 Jun 17.
Article in English | MEDLINE | ID: mdl-20491462

ABSTRACT

The structure of a short fragment of the human HIV-1 membrane glycoprotein gp41 has been examined using a combination of parallel tempering molecular dynamics (PTMD) and far UV circular dichroism spectroscopy. The aim is to resolve conflicting reports on the solution state conformational bias in this membrane proximal domain spanning the epitope for the 2F5 monoclonal antibody. We conclude that gp41(659-671) exhibits conformational plasticity in which competing folding propensities are present and can be influenced by local microenvironment. Contrary to previous reports, the 3(10) helix does not emerge as a dominant motif from either simulation or experiment, and this peptide is therefore not a model system for this fold type. Other fold groups such as turn motifs are identifiable at elevated temperatures in the PTMD trajectories and are potentially relevant in antibody binding. Helical populations in pure water are significantly overestimated according to the CHARMM parametrization. However, circular dichroism (CD) data show that helices are promoted in membrane mimetic solvents. As this is a membrane proximal peptide, the helical motif may well have physiological significance.


Subject(s)
Epitopes/chemistry , HIV Antibodies/chemistry , HIV Envelope Protein gp41/immunology , Amino Acid Sequence , Circular Dichroism , Humans , Molecular Dynamics Simulation , Protein Structure, Tertiary
12.
Biosens Bioelectron ; 24(3): 422-8, 2008 Nov 15.
Article in English | MEDLINE | ID: mdl-18541422

ABSTRACT

The molecular conformation of a synthetic branched, 4-way DNA Holliday junction (HJ) was electrochemically switched between the open and closed (stacked) conformers. Switching was achieved by electrochemically induced quantitative release of Mg(2+) ions from the oxidised poly(N-methylpyrrole) film (PPy), which contained polyacrylate as an immobile counter anion and Mg(2+) ions as charge compensating mobile cations. This increase in the Mg(2+) concentration screened the electrostatic repulsion between the widely separated arms in the open HJ configuration, inducing switching to the closed conformation. Upon electrochemical reduction of PPy, entrapment of Mg(2+) ions back into the PPy film induced the reverse HJ switching from the closed to open state. The conformational transition was monitored using fluorescence resonance energy transfer (FRET) between donor and acceptor dyes each located at the terminus of one of the arms. The demonstrated electrochemical control of the conformation of the used probe-target HJ complex, previously reported as a highly sequence specific nanodevice for detecting of unlabelled target [Buck, A.H., Campbell, C.J., Dickinson, P., Mountford, C.P., Stoquert, H.C., Terry, J.G., Evans, S.A.G., Keane, L., Su, T.J., Mount, A.R., Walton, A.J., Beattie, J.S., Crain, J., Ghazal, P., 2007. Anal. Chem., 79, 4724-4728], allows the development of electronically addressable DNA nanodevices and label-free gene detection assays.


Subject(s)
DNA, Cruciform/chemistry , Electrochemistry/methods , Magnesium/chemistry , Biosensing Techniques , DNA/analysis , Fluorescence Resonance Energy Transfer , Pyrroles/chemistry , Sodium/chemistry
13.
J Phys Chem B ; 112(14): 4290-7, 2008 Apr 10.
Article in English | MEDLINE | ID: mdl-18341318

ABSTRACT

Free proline amino acid is a natural cryoprotectant expressed by numerous organisms under low-temperature stress. Previous reports have suggested that complex assemblies underlie its functional properties. We investigate here aqueous proline solutions as a function of temperature using combinations of Raman spectroscopy, Rayleigh-Brillouin light scattering, and molecular dynamics simulations with the view to revealing the molecular origins of the mixtures' functionality as a cryoprotectant. The evolution of the Brillouin frequency shifts and line widths with temperature shows that, above a critical proline concentration, the water-like dynamics is suppressed and viscoelastic behavior emerges: Here, the Landau-Placzek ratio also shows a temperature-independent maximum arising from concentration fluctuations. Molecular dynamics simulations reveal that the water-water correlations in the mixtures depend much more weakly on temperature than does bulk water. By contrast, the water OH Raman bands exhibit strong red-shifts on cooling similar to those seen in ices; however, no evidence of ice lattice phonons is observed in the low-frequency spectrum. We attribute this primarily to enhanced proline-water hydrogen bonding. In general, the picture that emerges is that aqueous proline is a heterogeneous mixture on molecular length scales (characterized by significant concentration fluctuations rather than well-defined aggregates). Simulations reveal that proline also appears to suppress the normal dependence of water structure on temperature and preserves the ambient-temperature correlations even in very cold solutions. The water structure in cold proline solutions therefore appears to be similar to that at a higher effective temperature. This, coupled with the emergence of glassy dynamics offers a molecular explanation for the functional properties of proline as a cryoprotectant without the need to invoke previously proposed complex aggregates.


Subject(s)
Cryoprotective Agents/chemistry , Light , Proline/chemistry , Computer Simulation , Mathematics , Models, Chemical , Models, Molecular , Molecular Structure , Temperature , Water/chemistry
14.
J Phys Chem B ; 112(8): 2439-44, 2008 Feb 28.
Article in English | MEDLINE | ID: mdl-18247590

ABSTRACT

This paper investigates the properties of a simple DNA-based nanodevice capable of detecting single base mutations in unlabeled nucleic acid target sequences. Detection is achieved by a two-stage process combining first complementary-base hybridization of a target and then a conformational change as molecular recognition criteria. A probe molecule is constructed from a single DNA strand designed to adopt a partial cruciform structure with a pair of exposed (unhybridized) strands. Upon target binding, a switchable cruciform construct (similar to a Holliday junction) is formed which can adopt open and closed junction conformations. Switching between these forms occurs by junction folding in the presence of divalent ions. It has been shown from the steady-state fluorescence of judiciously labeled constructs that there are differences between the fluorescence resonance energy transfer (FRET) efficiencies of closed forms, dependent on the target sequence near the branch point, where the arms of the cruciform cross. This difference in FRET efficiency is attributed to structural variations between these folded junctions with their different branch point sequences arising from the single base mutations. This provides a robust means for the discrimination of single nucleotide mismatches in a specific region of the target. In this paper, these structural differences are analyzed by fitting observed time-resolved donor fluorescence decay data to a Gaussian distribution of donor-acceptor separations. This shows the closest mean separation (approximately 40 A) for the perfectly matched case, whereas larger separations (up to 50 A) are found for the single point mutations. These differences therefore indicate a structural basis for the observed FRET differences in the closed configuration which underpins the operation of these devices as biosensors capable of resolving single base mutations.


Subject(s)
Base Pair Mismatch , DNA/chemistry , DNA/genetics , Nanotechnology , Nucleic Acid Conformation , Base Sequence , Fluorescence Resonance Energy Transfer , Staining and Labeling
15.
Science ; 317(5835): 219-22, 2007 Jul 13.
Article in English | MEDLINE | ID: mdl-17626878

ABSTRACT

A single sheet of carbon, graphene, exhibits unexpected electronic properties that arise from quantum state symmetries, which restrict the scattering of its charge carriers. Understanding the role of defects in the transport properties of graphene is central to realizing future electronics based on carbon. Scanning tunneling spectroscopy was used to measure quasiparticle interference patterns in epitaxial graphene grown on SiC(0001). Energy-resolved maps of the local density of states reveal modulations on two different length scales, reflecting both intravalley and intervalley scattering. Although such scattering in graphene can be suppressed because of the symmetries of the Dirac quasiparticles, we show that, when its source is atomic-scale lattice defects, wave functions of different symmetries can mix.

16.
J Phys Chem B ; 111(28): 8210-22, 2007 Jul 19.
Article in English | MEDLINE | ID: mdl-17592868

ABSTRACT

The structure of aqueous L-proline amino acid has been the subject of much debate centering on the validity of various proposed models, differing widely in the extent to which local and long-range correlations are present. Here, aqueous proline is investigated by atomistic, replica exchange molecular dynamics simulations, and the results are compared to neutron diffraction and small angle neutron scattering (SANS) data, which have been reported recently (McLain, S.; Soper, A.; Terry, A.; Watts, A. J. Phys. Chem. B 2007, 111, 4568). Comparisons between neutron experiments and simulation are made via the static structure factor S(Q) which is measured and computed from several systems with different H/D isotopic compositions at a concentration of 1:20 molar ratio. Several different empirical water models (TIP3P, TIP4P, and SPC/E) in conjunction with the CHARMM22 force field are investigated. Agreement between experiment and simulation is reasonably good across the entire Q range although there are significant model-dependent variations in some cases. In general, agreement is improved slightly upon application of approximate quantum corrections obtained from gas-phase path integral simulations. Dimers and short oligomeric chains formed by hydrogen bonds (frequently bifurcated) coexist with apolar (hydrophobic) contacts. These emerge as the dominant local motifs in the mixture. Evidence for long-range association is more equivocal: No long-range structures form spontaneously in the MD simulations, and no obvious low-Q signature is seen in the SANS data. Moreover, associations introduced artificially to replicate a long-standing proposed mesoscale structure for proline correlations as an initial condition are annealed out by parallel tempering MD simulations. However, some small residual aggregates do remain, implying a greater degree of long-range order than is apparent in the SANS data.


Subject(s)
Models, Molecular , Neutron Diffraction/methods , Proline/chemistry , Computer Simulation , Hydrogen Bonding , Quantum Theory , Water/chemistry
17.
J Fluoresc ; 16(6): 839-45, 2006 Nov.
Article in English | MEDLINE | ID: mdl-17031573

ABSTRACT

Conformational transitions in a 4-way DNA junction when titrated with ionic solutions are studied using time-resolved fluorescence resonance energy transfer. Parameters characterising the transition in terms of critical ion concentration (c1/2) and the Hill coefficient for ion binding are obtained by fitting a simple two-state model using steady-state spectra. Data obtained from a fluorescence lifetime plate reader and analysed by fitting a single exponential to donor fluorescence lifetime decays are shown to be in good agreement with the parameters obtained from steady-state measurements. Fluorescence lifetimes, however, offer advantages, particularly in being independent of fluorophore concentration, output intensity, inhomogeneity in the excitation source and output wavelength. We demonstrate preliminary FRET-FLIM images of DNA junction solutions obtained using a picosecond gated CCD which are in agreement with results from a fluorescence lifetime plate reader. The results suggest that time-resolved FRET-FLIM is sensitive to subtle structural changes and may be useful in assays based on 4-way DNA junctions.


Subject(s)
DNA, Cruciform/chemistry , Fluorescence Resonance Energy Transfer/methods , Microscopy, Fluorescence/methods , Nucleic Acid Conformation
18.
Biophys Chem ; 124(3): 214-21, 2006 Dec 01.
Article in English | MEDLINE | ID: mdl-16716492

ABSTRACT

A Holliday junction (HJ) consists of four DNA double helices, with a branch point discontinuity at the intersection of the component strands. At low ionic strength, the HJ adopts an open conformation, with four widely spaced arms, primarily due to strong electrostatic repulsion between the phosphate groups on the backbones. At high ionic strength, screening of this repulsion induces a switch to a more compact (closed) junction conformation. Fluorescent labelling with dyes placed on the HJ arms allows this conformational switch to be detected optically using fluorescence resonance energy transfer (FRET), producing a sensitive fluorescent output of the switch state. This paper presents a systematic and quantitative survey of the switch characteristics of such a labelled HJ. A short HJ (arm length 8 bp) is shown to be prone to dissociation at low switching ion concentration, whereas an HJ of arm length 12 bp is shown to be stable over all switching ion concentrations studied. The switching characteristics of this HJ have been systematically and quantitatively studied for a variety of switching ions, by measuring the required ion concentration, the sharpness of the switching transition and the fluorescent output intensity of the open and closed states. This stable HJ is shown to have favourable switch characteristics for a number of inorganic switching ions, making it a promising candidate for use in nanoscale biomolecular switch devices.


Subject(s)
DNA, Cruciform/chemistry , DNA, Cruciform/drug effects , Fluorescent Dyes/chemistry , Ions/pharmacology , Nucleic Acid Conformation/drug effects , Spectrometry, Fluorescence , Spermidine/pharmacology
19.
Phys Rev Lett ; 96(15): 156801, 2006 Apr 21.
Article in English | MEDLINE | ID: mdl-16712182

ABSTRACT

Gold deposited on Si(553) leads to self-assembly of atomic chains, which are broken into finite segments by defects. Scanning tunneling microscopy is used to investigate the distribution of chain lengths and the correlation between defects separating the chains. The length distribution reveals oscillations that indicate changes in the cohesive energy as a function of chain length. We present a possible interpretation in terms of the electronic scattering vectors at the Fermi surface of the surface states. The pairwise correlation function between defects shows long-range correlations that extend beyond nearest-neighbor defects, indicating coupling between chains.

20.
Nature ; 440(7081): 181-3, 2006 Mar 09.
Article in English | MEDLINE | ID: mdl-16525465

ABSTRACT

Gamma-ray bursts (GRBs) and their afterglows are the most brilliant transient events in the Universe. Both the bursts themselves and their afterglows have been predicted to be visible out to redshifts of z approximately 20, and therefore to be powerful probes of the early Universe. The burst GRB 000131, at z = 4.50, was hitherto the most distant such event identified. Here we report the discovery of the bright near-infrared afterglow of GRB 050904 (ref. 4). From our measurements of the near-infrared afterglow, and our failure to detect the optical afterglow, we determine the photometric redshift of the burst to be z = 6.39 - 0.12 + 0.11 (refs 5-7). Subsequently, it was measured spectroscopically to be z = 6.29 +/- 0.01, in agreement with our photometric estimate. These results demonstrate that GRBs can be used to trace the star formation, metallicity, and reionization histories of the early Universe.

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