Characterizing Scales of Genetic Recombination and Antibiotic Resistance in Pathogenic Bacteria Using Topological Data Analysis

Pathogenic bacteria present a large disease burden on human health. Control of these pathogens is hampered by rampant lateral gene transfer, whereby pathogenic strains may acquire genes conferring resistance to common antibiotics. Here we introduce tools from topological data analysis to characterize the frequency and scale of lateral gene transfer in bacteria, focusing on a set of pathogens of significant public health relevance. As a case study, we examine the spread of antibiotic resistance in Staphylococcus aureus. Finally, we consider the possible role of the human microbiome as a reservoir for antibiotic resistance genes.Comment: 12 pages, 6 figures. To appear in AMT 2014 Special Session on Advanced Methods of Interactive Data Mining for Personalized Medicin

Magnetic resonance imaging findings and the clinical characteristics of children with cerebral palsy at a public sector hospital in Gauteng Province, South Africa

The research for this study was done in partial fulfilment of the requirements for CN’s master’s degree from the University of the Witwatersrand.BACKGROUND. Cerebral palsy (CP) is a common cause of physical impairment in children. Brain magnetic resonance imaging (MRI) can define different neuropathological patterns of brain injury in CP. There are limited data available on MRI findings of children with CP in Africa. Objective. To describe the clinical characteristics, risk factors and MRI findings of children with CP attending a developmental clinic at a tertiary hospital in South Africa; and to assess possible associations between the clinical characteristics and pathogenic neuro-imaging patterns. METHODS. This was a retrospective cross-sectional study. The cohort of 112 children was identified from the clinic’s REDcap database. Clinical information was obtained from existing medical records of the patients. Findings from brain MRI reports were classified according to the MRI classification system (MRICS) for CP. The MRI reports were rated independently by two study investigators. A descriptive analysis was conducted. RESULTS. A total of 112 patient files and MRI brain reports were reviewed. Spastic CP was the most common type of CP (n=75%). The most common perinatal risk factors included prematurity (31%) and low birthweight (28%). Nineteen (17%) children acquired CP after the neonatal period. CP sub-type showed a significant association with functional motor impairment classified as per the gross motor function classification system (GMFCS), p<0.001. Predominant grey matter injury (PGMI) was the most common pathogenic MRI pattern identified (30%). The radiological findings (per MRICS) had a significant association with both the CP sub-type (p<0.005) and functional impairment according to the GMFCS (p<0.001). CONCLUSION. Standardised classification of neuro-imaging findings can assist in defining the pathogenesis and clinical manifestations of CP.http://www.sajch.org.za/index.php/SAJCHam2023Immunolog

Superconductivity and single crystal growth of Ni0:05TaS2

Superconductivity was discovered in a Ni0:05TaS2 single crystal. A Ni0:05TaS2 single crystal was successfully grown via the NaCl/KCl flux method. The obtained lattice constant c of Ni0:05TaS2 is 1.1999 nm, which is significantly smaller than that of 2H-TaS2 (1.208 nm). Electrical resistivity and magnetization measurements reveal that the superconductivity transition temperature of Ni0:05TaS2 is enhanced from 0.8 K (2H-TaS2) to 3.9 K. The charge-density-wave transition of the matrix compound 2H-TaS2 is suppressed in Ni0:05TaS2. The success of Ni0:05TaS2 single crystal growth via a NaCl/KCl flux demonstrates that NaCl/KCl flux method will be a feasible method for single crystal growth of the layered transition metal dichalcogenides.Comment: 13pages, 6 figures, Published in SS

Mitochondrial DNA diversity and population structure of humpback whales from their wintering areas in the Indian and South Atlantic Oceans (Wintering Regions A,B, C and X). Scientific Committee document SC/56/SH3, International Whaling Commission, July 2004, Sorrento, Italy

Humpback whales in the Southern Hemisphere are separated by the International Whaling Commission (IWC) into seven wintering Regions (A-G) based on tropical distribution. To better evaluate the significance of these stock subdivisions, an analysis of mtDNA was conducted for the eastern and western South Atlantic (Regions A and B), the southwestern Indian Ocean (Region C) and the northern Indian Ocean (Region X). A total of 1,416 individual whales representing eleven sampling sites within the four wintering Regions were sequenced for a portion of the mtDNA control region. A hierarchical analysis of molecular variance (AMOVA) using FST and FST supported the division of wintering Regions based on IWC designated boundaries of A, B, C, and X. Pairwise comparisons further confirmed the A, B and C divisions, although varying degrees of heterogeneity (particularly molecular distances) were detected for proposed sub-divisions within Regions B and C. Overall, this large-scale mtDNA analysis for humpback whales in the Indian and South Atlantic Oceans supports wintering Region designations by the IWC. However, additional analyses and consideration of biological parameters such as gene flow are needed so that ‘within-region’ genetic analyses can help evaluate population structure and recovery in a management context

Model Kebijakan Penanggulangan Korupsi di Universitas Negeri YOGYAKARTA

Penelitian ini bertujuan untuk mengetahui kebijakan Universitas Negeri Yogyakarta dalam menanggulangi korupsi dan menemukan model kebijakan yang diinginkan Universitas Negeri Yogyakarta dalam menanggulangi korupsi. Penelitian ini adalah penelitian survei dengan pendekatan kuantitatif dan kualitatif. Sampel penelitian ditentukan secara multy stage sampling dengan teknik pengumpulan data dengan angket, dokumen dan diperkuat dengan pengumpulan data melalui Focus Group Discussion (FGD), dan validasi instrumen melalui validitas isi (content validity). Data dianalisis secara deskriptif. Hasil penelitian menunjukkan bahwa kebijakan penanggulangan korupsi di UNY tidak ada secara khusus dikeluarkan. Kebijakan yang ada mengikuti dan mempertahankan kebijakan yang lebih tinggi, yaitu dari Pemerintah. Model kebijakan penangggulangan korupsi di UNY yang digunakan adalah Model Rasional, yaitu kebijakan penanggulangan korupsi yang dikeluarkan merupakan aspirasi semua staf yang ada di unit kerja dan harus menekankan pada aspek efisiensi atas beban kerja pada unit kerja yang bersangkutan. Adapun kebijakan yang sudah ada yang berasal dari Pemerintah pusat dijadikan pedoman

Superdeformed rotational bands in the Mercury region; A Cranked Skyrme-Hartree-Fock-Bogoliubov study

A study of rotational properties of the ground superdeformed bands in \Hg{0}, \Hg{2}, \Hg{4}, and \Pb{4} is presented. We use the cranked Hartree-Fock-Bogoliubov method with the {\skm} parametrization of the Skyrme force in the particle-hole channel and a seniority interaction in the pairing channel. An approximate particle number projection is performed by means of the Lipkin-Nogami prescription. We analyze the proton and neutron quasiparticle routhians in connection with the present information on about thirty presently observed superdeformed bands in nuclei close neighbours of \Hg{2}.Comment: 26 LaTeX pages, 14 uuencoded postscript figures included, Preprint IPN-TH 93-6

Low-Luminosity Accretion in Black Hole X-ray Binaries and Active Galactic Nuclei

At luminosities below a few percent of Eddington, accreting black holes switch to a hard spectral state which is very different from the soft blackbody-like spectral state that is found at higher luminosities. The hard state is well-described by a two-temperature, optically thin, geometrically thick, advection-dominated accretion flow (ADAF) in which the ions are extremely hot (up to $10^{12}$ K near the black hole), the electrons are also hot ($\sim10^{9-10.5}$ K), and thermal Comptonization dominates the X-ray emission. The radiative efficiency of an ADAF decreases rapidly with decreasing mass accretion rate, becoming extremely low when a source reaches quiescence. ADAFs are expected to have strong outflows, which may explain why relativistic jets are often inferred from the radio emission of these sources. It has been suggested that most of the X-ray emission also comes from a jet, but this is less well established.Comment: To appear in "From X-ray Binaries to Quasars: Black Hole Accretion on All Mass Scales" edited by T. Maccarone, R. Fender, L. Ho, to be published as a special edition of "Astrophysics and Space Science" by Kluwe

Designing spin-spin interactions with one and two dimensional ion crystals in planar micro traps

We discuss the experimental feasibility of quantum simulation with trapped ion crystals, using magnetic field gradients. We describe a micro structured planar ion trap, which contains a central wire loop generating a strong magnetic gradient of about 20 T/m in an ion crystal held about 160 \mu m above the surface. On the theoretical side, we extend a proposal about spin-spin interactions via magnetic gradient induced coupling (MAGIC) [Johanning, et al, J. Phys. B: At. Mol. Opt. Phys. 42 (2009) 154009]. We describe aspects where planar ion traps promise novel physics: Spin-spin coupling strengths of transversal eigenmodes exhibit significant advantages over the coupling schemes in longitudinal direction that have been previously investigated. With a chip device and a magnetic field coil with small inductance, a resonant enhancement of magnetic spin forces through the application of alternating magnetic field gradients is proposed. Such resonantly enhanced spin-spin coupling may be used, for instance, to create Schr\"odinger cat states. Finally we investigate magnetic gradient interactions in two-dimensional ion crystals, and discuss frustration effects in such two-dimensional arrangements.Comment: 20 pages, 13 figure