The Deep Lens Survey Transient Search I : Short Timescale and Astrometric Variability

We report on the methodology and first results from the Deep Lens Survey transient search. We utilize image subtraction on survey data to yield all sources of optical variability down to 24th magnitude. Images are analyzed immediately after acquisition, at the telescope and in near-real time, to allow for followup in the case of time-critical events. All classes of transients are posted to the web upon detection. Our observing strategy allows sensitivity to variability over several decades in timescale. The DLS is the first survey to classify and report all types of photometric and astrometric variability detected, including solar system objects, variable stars, supernovae, and short timescale phenomena. Three unusual optical transient events were detected, flaring on thousand-second timescales. All three events were seen in the B passband, suggesting blue color indices for the phenomena. One event (OT 20020115) is determined to be from a flaring Galactic dwarf star of spectral type dM4. From the remaining two events, we find an overall rate of \eta = 1.4 events deg-2 day-1 on thousand-second timescales, with a 95% confidence limit of \eta < 4.3. One of these events (OT 20010326) originated from a compact precursor in the field of galaxy cluster Abell 1836, and its nature is uncertain. For the second (OT 20030305) we find strong evidence for an extended extragalactic host. A dearth of such events in the R passband yields an upper 95% confidence limit on short timescale astronomical variability between 19.5 < R < 23.4 of \eta_R < 5.2. We report also on our ensemble of astrometrically variable objects, as well as an example of photometric variability with an undetected precursor.Comment: 24 pages, 12 figures, 3 tables. Accepted for publication in ApJ. Variability data available at http://dls.bell-labs.com/transients.htm

Lysine Biosynthesis in Bacteria: A Metallodesuccinylase as a Potential Antimicrobial Target

In this review, we summarize the recent literature on dapE-encoded N-succinyl-l,l-diaminopimelic acid desuccinylase (DapE) enzymes, with an emphasis on structure–function studies that provide insight into the catalytic mechanism. Crystallographic data have also provided insight into residues that might be involved in substrate and hence inhibitor recognition and binding. These data have led to the design and synthesis of several new DapE inhibitors, which are described along with what is known about how inhibitors interact with the active site of DapE enzymes, including the efficacy of a moderately strong DapE inhibitor

An Analytical Method for Detecting Toxic Metal Cations Using Cyclotriveratrylene Derivative Capped Gold Nanoparticles

Cyclotriveratrylene-oxime (CTV-oxime) derivatives that terminate with a dithiolate linker were synthesized enabling the supramolecular scaffold to adhere to gold nanoparticles (AuNPs) with the bowl-shaped cavity of the CTV scaffold exposed for utilization in host–guest chemistry. Exposure of these CTV functionalized AuNPs to varying concentrations of di- and trivalent metal cations resulted in the formation of large CTV-AuNP polymeric clusters and an accompanying a shift in the plasmon resonance. These interactions between the CTV-AuNPs and the metal cations in solution provides proof-of-concept that supramolecular functionalized AuNPs can be used as a simple and straightforward, on-site detection system for toxic metal cations in solution. The order of binding affinity of the metals studied based on observed Kd values is Cu2+ \u3e Zn2+ \u3e Pb2+ \u3e Hg2+ \u3e Eu3+ \u3e Cd2+

A new model for the X-ray continuum of the magnetized accreting pulsars

Accreting highly magnetized pulsars in binary systems are among the brightest X-ray emitters in our Galaxy. Although a number of high statistical quality broad-band (0.1-100 keV) X-ray observations are available, the spectral energy distribution of these sources is usually investigated by adopting pure phenomenological models, rather than models linked to the physics of accretion. In this paper, a detailed spectral study of the X-ray emission recorded from the high-mass X-ray binary pulsars Cen X-3, 4U 0115+63, and Her X-1 is carried out by using BeppoSAX and joined Suzaku+NuStar data, together with an advanced version of the compmag model. The latter provides a physical description of the high energy emission from accreting pulsars, including the thermal and bulk Comptonization of cyclotron and bremsstrahlung seed photons along the neutron star accretion column. The compmag model is based on an iterative method for solving second-order partial differential equations, whose convergence algorithm has been improved and consolidated during the preparation of this paper. Our analysis shows that the broad-band X-ray continuum of all considered sources can be self-consistently described by the compmag model. The cyclotron absorption features, not included in the model, can be accounted for by using Gaussian components. From the fits of the compmag model to the data we inferred the physical properties of the accretion columns in all sources, finding values reasonably close to those theoretically expected according to our current understanding of accretion in highly magnetized neutron stars. The updated version of the compmag model has been tailored to the physical processes that are known to occur in the columns of highly magnetized accreting neutron stars and it can thus provide a better understanding of the high energy radiation from these sources.Comment: 19 pages, 10 figures, accepted for publication in A&

{BiQ} Analyzer {HiMod}: An Interactive Software Tool for High-throughput Locus-specific Analysis of 5-Methylcytosine and its Oxidized Derivatives

Recent data suggest important biological roles for oxidative modifications of methylated cytosines, specifically hydroxymethylation, formylation and carboxylation. Several assays are now available for profiling these DNA modifications genome-wide as well as in targeted, locus-specific settings. Here we present BiQ Analyzer HiMod, a user-friendly software tool for sequence alignment, quality control and initial analysis of locus-specific DNA modification data. The software supports four different assay types, and it leads the user from raw sequence reads to DNA modification statistics and publication-quality plots. BiQ Analyzer HiMod combines well-established graphical user interface of its predecessor tool, BiQ Analyzer HT, with new and extended analysis modes. BiQ Analyzer HiMod also includes updates of the analysis workspace, an intuitive interface, a custom vector graphics engine and support of additional input and output data formats. The tool is freely available as a stand-alone installation package from http://biq-analyzer-himod.bioinf.mpi-inf.mpg.de/

Inhibitors of Bacterial \u3cem\u3eN\u3c/em\u3e-succinyl-L,L-diaminopimelic Acid Desuccinylase (DapE) and Demonstration of in vitro Antimicrobial Activity

The dapE-encoded N-succinyl-L,L-diaminopimelic acid desuccinylase (DapE) is a critical bacterial enzyme for the construction of the bacterial cell wall. A screen biased toward compounds containing zinc-binding groups (ZBG’s) including thiols, carboxylic acids, boronic acids, phosphonates and hydroxamates has delivered a number of micromolar inhibitors of DapE from Haemophilus influenzae, including the low micromolar inhibitor L-captopril (IC50 = 3.3 μM, Ki = 1.8 μM). In vitro antimicrobial activity was demonstrated for l-captopril against Escherichia coli

Magnetically tuned spin dynamics resonance

We present the experimental observation of a magnetically tuned resonance phenomenon resulting from spin mixing dynamics of ultracold atomic gases. In particular we study the magnetic field dependence of spin conversion in F=2 87Rb spinor condensates in the crossover from interaction dominated to quadratic Zeeman dominated dynamics. We discuss the observed phenomenon in the framework of spin dynamics as well as matter wave four wave mixing. Furthermore we show that the validity range of the single mode approximation for spin dynamics is significantly extended in the regime of high magnetic field