Identifying RR lyrae variable stars in six years of the dark energy survey

We present a search for RR Lyrae stars using the full six-year data set from the Dark Energy Survey covering ∼5000 deg2 of the southern sky. Using a multistage multivariate classification and light-curve template-fitting scheme, we identify RR Lyrae candidates with a median of 35 observations per candidate. We detect 6971 RR Lyrae candidates out to ∼335 kpc, and we estimate that our sample is >70% complete at ∼150 kpc. We find excellent agreement with other wide-area RR Lyrae catalogs and RR Lyrae studies targeting the Magellanic Clouds and other Milky Way satellite galaxies. We fit the smooth stellar halo density profile using a broken-power-law model with fixed halo flattening (q = 0.7), and we find strong evidence for a break at = - R 32.1+ kpc 0 0.9 1.1 with an inner slope of = - - n 2.54+ 1 0.09 0.09 and an outer slope of = - - n 5.42+ 2 0.14 0.13. We use our catalog to perform a search for Milky Way satellite galaxies with large sizes and low luminosities. Using a set of simulated satellite galaxies, we find that our RR Lyrae-based search is more sensitive than those using resolved stellar populations in the regime of large (rh 500 pc), low-surface-brightness dwarf galaxies. A blind search for large, diffuse satellites yields three candidate substructures. The first can be confidently associated with the dwarf galaxy Eridanus II. The second has a distance and proper motion similar to the ultrafaint dwarf galaxy Tucana II but is separated by ∼5 deg. The third is close in projection to the globular cluster NGC 1851 but is ∼10 kpc more distant and appears to differ in proper motion. © 2021 Institute of Physics Publishing. All rights reserved

Conformations of closed DNA

We examine the conformations of a model for a short segment of closed DNA. The molecule is represented as a cylindrically symmetric elastic rod with a constraint corresponding to a specification of the linking number. We obtain analytic expressions leading to the spatial configuration of a family of solutions representing distortions that interpolate between the circular form of DNA and a figure-eight form that represents the onset of interwinding. We are also able to generate knotted loops. We suggest ways to use our approach to produce other configurations relevant to studies of DNA structure. The stability of the distorted configurations is assessed, along with the effects of fluctuations on the free energy of the various configurations.Comment: 39 pages in REVTEX with 14 eps figures. Submitted to Phys. Rev. E. This manuscript updates, expands and revises, to a considerable extent, a previously posted manuscript, entitled "Conformations of Circular DNA," which appeared as cond-mat/970104

Alternate SlyA and H-NS nucleoprotein complexes control hlyE expression in Escherichia coli K-12

Haemolysin E is a cytolytic pore-forming toxin found in several Escherichia coli and Salmonella enterica strains. Expression of hlyE is repressed by the global regulator H-NS (histone-like nucleoid structuring protein), but can be activated by the regulator SlyA. Expression of a chromosomal hlyE–lacZ fusion in an E. coli slyA mutant was reduced to 60% of the wild-type level confirming a positive role for SlyA. DNase I footprint analysis revealed the presence of two separate SlyA binding sites, one located upstream, the other downstream of the hlyE transcriptional start site. These sites overlap AT-rich H-NS binding sites. Footprint and gel shift data showed that whereas H-NS prevented binding of RNA polymerase (RNAP) at the hlyE promoter (PhlyE), SlyA allowed binding of RNAP, but inhibited binding of H-NS. Accordingly, in vitro transcription analyses showed that addition of SlyA protein relieved H-NS-mediated repression of hlyE. Based on these observations a model for SlyA/H-NS regulation of hlyE expression is proposed in which the relative concentrations of SlyA and H-NS govern the nature of the nucleoprotein complexes formed at PhlyE. When H-NS is dominant RNAP binding is inhibited and hlyE expression is silenced; when SlyA is dominant H-NS binding is inhibited allowing RNAP access to the promoter facilitating hlyE transcription

Molecular details of quinolone–DNA interactions: solution structure of an unusually stable DNA duplex with covalently linked nalidixic acid residues and non-covalent complexes derived from it

Quinolones are antibacterial drugs that are thought to bind preferentially to disturbed regions of DNA. They do not fall into the classical categories of intercalators, groove binders or electrostatic binders to the backbone. We solved the 3D structure of the DNA duplex (ACGCGU-NA)(2), where NA denotes a nalidixic acid residue covalently linked to the 2′-position of 2′-amino-2′-deoxyuridine, by NMR and restrained torsion angle molecular dynamics (MD). In the complex, the quinolones stack on G:C base pairs of the core tetramer and disrupt the terminal A:U base pair. The displaced dA residues can stack on the quinolones, while the uracil rings bind in the minor groove. The duplex-bridging interactions of the drugs and the contacts of the displaced nucleotides explain the high UV-melting temperature for d(ACGCGU-NA)(2) of up to 53°C. Further, non-covalently linked complexes between quinolones and DNA of the sequence ACGCGT can be generated via MD using constraints obtained for d(ACGCGU-NA)(2). This is demonstrated for unconjugated nalidixic acid and its 6-fluoro derivative. The well-ordered and tightly packed structures thus obtained are compatible with a published model for the quinolone–DNA complex in the active site of gyrases

Selection of Resistant Bacteria at Very Low Antibiotic Concentrations

The widespread use of antibiotics is selecting for a variety of resistance mechanisms that seriously challenge our ability to treat bacterial infections. Resistant bacteria can be selected at the high concentrations of antibiotics used therapeutically, but what role the much lower antibiotic concentrations present in many environments plays in selection remains largely unclear. Here we show using highly sensitive competition experiments that selection of resistant bacteria occurs at extremely low antibiotic concentrations. Thus, for three clinically important antibiotics, drug concentrations up to several hundred-fold below the minimal inhibitory concentration of susceptible bacteria could enrich for resistant bacteria, even when present at a very low initial fraction. We also show that de novo mutants can be selected at sub-MIC concentrations of antibiotics, and we provide a mathematical model predicting how rapidly such mutants would take over in a susceptible population. These results add another dimension to the evolution of resistance and suggest that the low antibiotic concentrations found in many natural environments are important for enrichment and maintenance of resistance in bacterial populations

Chemical Abundance Analysis of Tucana III, the Second rr-process Enhanced Ultra-Faint Dwarf Galaxy

We present a chemical abundance analysis of four additional confirmed member stars of Tucana III, a Milky Way satellite galaxy candidate in the process of being tidally disrupted as it is accreted by the Galaxy. Two of these stars are centrally located in the core of the galaxy while the other two stars are located in the eastern and western tidal tails. The four stars have chemical abundance patterns consistent with the one previously studied star in Tucana III: they are moderately enhanced in $r$-process elements, i.e. they have $\approx +$0.4 dex. The non-neutron-capture elements generally follow trends seen in other dwarf galaxies, including a metallicity range of 0.44 dex and the expected trend in $\alpha$-elements, i.e., the lower metallicity stars have higher Ca and Ti abundance. Overall, the chemical abundance patterns of these stars suggest that Tucana III was an ultra-faint dwarf galaxy, and not a globular cluster, before being tidally disturbed. As is the case for the one other galaxy dominated by $r$-process enhanced stars, Reticulum II, Tucana III's stellar chemical abundances are consistent with pollution from ejecta produced by a binary neutron star merger, although a different $r$-process element or dilution gas mass is required to explain the abundances in these two galaxies if a neutron star merger is the sole source of $r$-process enhancement.Comment: 18 pages, 10 figures; accepted by Ap