Geometry and Topology of Escape II: Homotopic Lobe Dynamics

We continue our study of the fractal structure of escape-time plots for chaotic maps. In the preceding paper, we showed that the escape-time plot contains regular sequences of successive escape segments, called epistrophes, which converge geometrically upon each endpoint of every escape segment. In the present paper, we use topological techniques to: (1) show that there exists a minimal required set of escape segments within the escape-time plot; (2) develop an algorithm which computes this minimal set; (3) show that the minimal set eventually displays a recursive structure governed by an ``Epistrophe Start Rule'': a new epistrophe is spawned Delta = D+1 iterates after the segment to which it converges, where D is the minimum delay time of the complex.Comment: 13 pages, 8 figures, to appear in Chaos, second of two paper

Geometry and Topology of Escape I: Epistrophes

We consider a dynamical system given by an area-preserving map on a two-dimensional phase plane and consider a one-dimensional line of initial conditions within this plane. We record the number of iterates it takes a trajectory to escape from a bounded region of the plane as a function along the line of initial conditions, forming an ``escape-time plot''. For a chaotic system, this plot is in general not a smooth function, but rather has many singularities at which the escape time is infinite; these singularities form a complicated fractal set. In this article we prove the existence of regular repeated sequences, called ``epistrophes'', which occur at all levels of resolution within the escape-time plot. (The word ``epistrophe'' comes from rhetoric and means ``a repeated ending following a variable beginning''.) The epistrophes give the escape-time plot a certain self-similarity, called ``epistrophic'' self-similarity, which need not imply either strict or asymptotic self-similarity.Comment: 15 pages, 9 figures, to appear in Chaos, first of two paper

A Bayesian approach to RFI mitigation

Interfering signals such as Radio Frequency Interference from ubiquitous satellite constellations are becoming an endemic problem in fields involving physical observations of the electromagnetic spectrum. To address this we propose a novel data cleaning methodology. Contamination is simultaneously flagged and managed at the likelihood level. It is modeled in a Bayesian fashion through a piecewise likelihood that is constrained by a Bernoulli prior distribution. The techniques described in this paper can be implemented with just a few lines of code.Comment: 6 pages, 4 figures, accepted by Physical Review D (APS

Depth profiling of the elemental surface composition of the oral microorganism S. salivarius HB and fibrillar mutants by X-ray photoelectron spectroscopy

X-ray photoelectron spectroscopy (XPS) on microbial cell surfaces requires freeze-drying of cells, and as a result, the cell surface appendages flatten out on the cell surface and form a collapsed fibrillar mass. At present, it is unclear how the density, length and composition of these fibrils influence the elemental surface composition as probed by XPS. The sampling depth of XPS can be varied by changing the electron take-off angle. In this article, we made a depth profiling of the collapsed fibrillar mass of Streptococcus salivarius HB and fibril-deficient mutants by angle-dependent XPS. Methylamine tungstate negative staining and ruthenium red staining followed by sectioning revealed distinct classes of fibrils with various lengths on each of the strains. Interpretation of the angle dependence of the oxygen/carbon (O/C) and phosphorus/carbon (P/C) surface concentration ratios of these strains was difficult. However, the angle dependence of the nitrogen/carbon (N/C) surface concentration ratio could be fully interpreted: N/C did not vary with sampling depth on a bald strain, S. salivarius HBC12 and on S. salivarius HB7, a strain with a dense array of fibrils of uniform length. N/C decreased with sampling depth in case of a sparsely fibrillated strain, S. salivarius HBV51 and eventually reached the value observed for the bald strain, HBC12. A high N/C at small sampling depth was observed for S. salivarius HB with protruding, protein rich fibrils. We conclude that elemental depth profiling of microbial cell surfaces by XPS can be interpreted to coincide with structural and biochemical information on the cell surface as obtained by electron microscopy and can therefore be considered as a useful technique to study structural features of cell surfaces in combination with electron microscopy.</p

Design of the Spitzer Space Telescope Heritage Archive

It is predicted that Spitzer Space Telescope’s cryogen will run out in April 2009, and the final reprocessing for the cryogenic mission is scheduled to end in April 2011, at which time the Spitzer archive will be transferred to the NASA/IPAC Infrared Science Archive (IRSA) for long-term curation. The Spitzer Science Center (SSC) and IRSA are collaborating to design and deploy the Spitzer Heritage Archive (SHA), which will supersede the current Spitzer archive. It will initially contain the raw and final reprocessed cryogenic science products, and will eventually incorporate the final products from the Warm mission. The SHA will be accompanied by tools deemed necessary to extract the full science content of the archive and by comprehensive documentation

The Digital Sky Project: Prototyping Virtual Observatory Technologies

Astronomy is entering a new era as multiple, large area, digital sky surveys are in production. The resulting datasets are truly remarkable in their own right; however, a revolutionary step arises in the aggregation of complimentary multi-wavelength surveys (i.e., the cross-identification of a billion sources). The federation of these large datasets is already underway, and is producing a major paradigm shift as Astronomy has suddenly become an immensely data-rich field. This new paradigm will enable quantitatively and qualitatively new science, from statistical studies of our Galaxy and the large-scale structure in the universe, to discoveries of rare, unusual, or even completely new types of astronomical objects and phenomena. Federating and then exploring these large datasets, however, is an extremely challenging task. The Digital Sky project was initiated with this task in mind and is working to develop the techniques and technologies necessary to solve the problems inherent in federating these large databases, as well as the mining of the resultant aggregate data.Comment: 8 pages, 3 Figures, uses newpasp.sty (included). To be published in the proceedings of the conference "Virtual Observatories of the Future," editors R.J. Brunner, S.G. Djorgovski, and Alex S. Szala

Association of a Novel High Molecular Weight, Serine-Rich Protein (SrpA) with Fibril-Mediated Adhesion of the Oral Biofilm Bacterium Streptococcus Cristatus

The surface of the oral plaque bacterium Streptococcus cristatus is decorated with a lateral tuft of fibrils. The fibrillar tuft functions in the adhesion of S. cristatus to heterologous bacterial species in the plaque biofilm. The tuft typically consists of a densely packed fringe of shorter fibrils 238 ± 19 nm long with longer, less abundant fibrils 403 ± 66 nm long projecting through the fringe of short fibrils. The two types of fibrils in the tufts of S. cristatus have been refractory to biochemical separation, complicating their characterization. A hexadecane partition assay was used to enrich for subpopulations of S. cristatus CR311 (type strain NCTC 12479) having distinct fibrillar morphotypes. Negative staining in the TEM revealed that cells of a hydrophobic subpopulation of S. cristatus (CR311var1) carried only the long fibrils (395 ± 32 nm). A hydrophilic subpopulation of S. cristatus (CR311var3) consisted of mixed morphotypes having no fibrils or remnant short fibrils (223 ± 49 nm). No long fibrils were observed on any cells in the CR311var3 subpopulation. The CR311var3 morphotype, unlike the wild-type strain and CR311var1, was not able to form corncobs with either Corynebacterium matruchotii or Fusobacterium nucleatum. Variant CR311var3 did not express the novel gene srpA, which encodes a high molecular weight (321,882 Da) serine-rich protein, SrpA. The SrpA protein contains two extensive repeat motifs of 17 and 71 amino acids and a gram-positive cell wall anchor consensus sequence (LPNTG). The unusual properties of SrpA most closely resemble those of Fap1, the fimbrial-associated adhesin protein of Streptococcus parasanguis. The association of long fibrils, high surface hydrophobicity, ability to form corncob formations, and expression of the srpA gene suggest that SrpA is a long fibril protein in S. cristatus

The spectral and chemical measurement of pollutants on snow near South Pole, Antarctica

Remote sensing of light-absorbing particles (LAPs), or dark colored impurities, such as black carbon (BC) and dust on snow, is a key remaining challenge in cryospheric surface characterization and application to snow, ice, and climate models. We present a quantitative data set of in situ snow reflectance, measured and modeled albedo, and BC and trace element concentrations from clean to heavily fossil fuel emission contaminated snow near South Pole, Antarctica. Over 380 snow reflectance spectra (350–2500 nm) and 28 surface snow samples were collected at seven distinct sites in the austral summer season of 2014–2015. Snow samples were analyzed for BC concentration via a single particle soot photometer and for trace element concentration via an inductively coupled plasma mass spectrometer. Snow impurity concentrations ranged from 0.14 to 7000 part per billion (ppb) BC, 9.5 to 1200 ppb sulfur, 0.19 to 660 ppb iron, 0.013 to 1.9 ppb chromium, 0.13 to 120 ppb copper, 0.63 to 6.3 ppb zinc, 0.45 to 82 parts per trillion (ppt) arsenic, 0.0028 to 6.1 ppb cadmium, 0.062 to 22 ppb barium, and 0.0044 to 6.2 ppb lead. Broadband visible to shortwave infrared albedo ranged from 0.85 in pristine snow to 0.62 in contaminated snow. LAP radiative forcing, the enhanced surface absorption due to BC and trace elements, spanned from \u3c1 W m­–2 for clean snow to ~70 W m­–2 for snow with high BC and trace element content. Measured snow reflectance differed from modeled snow albedo due to specific impurity-dependent absorption features, which we recommend be further studied and improved in snow albedo models

Enhanced neuro-ophthalmologic evaluation to support separation of craniopagus twins

Craniopagus conjoined twins are extraordinarily rare and present unique challenges to the multidisciplinary team. There is a paucity of literature on optimizing neuro-ophthalmologic evaluation in craniopagus twins. Herein, we present our enhanced neuro-ophthalmologic evaluation and management in 17-month-old male craniopagus twins, uniquely using handheld optical coherence tomography (OCT) plus portable slit-lamp biomicroscopy, indirect ophthalmoscopy and modified forced-choice preferential looking assessment. Staged surgical separation was supported by enhanced neuro-ophthalmologic evaluation, detailed radiology, three-dimensional printing and virtual reality simulation. This represents the fourth separation of craniopagus twins by our unit