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  • 1
    Publication Date: 2014-09-02
    Description: Coxsackievirus B3 (CV-B3) is a cardiovirulent enterovirus that utilizes a 5' untranslated region (5'UTR) to complete critical viral processes. Here, we directly compared the structure of a 5'UTR from a virulent strain with that of a naturally occurring avirulent strain. Using chemical probing analysis, we identified a structural difference between the two 5'UTRs in the highly substituted stem-loop II region (SLII). For the remainder of the 5'UTR, we observed conserved structure. Comparative sequence analysis of 170 closely related enteroviruses revealed that the SLII region lacks conservation. To investigate independent folding and function, two chimeric CV-B3 strains were created by exchanging nucleotides 104–184 and repeating the 5'UTR structural analysis. Neither the parent SLII nor the remaining domains of the background 5'UTR were structurally altered by the exchange, supporting an independent mechanism of folding and function. We show that the attenuated 5'UTR lacks structure in the SLII cardiovirulence determinant.
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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  • 2
    Publication Date: 2016-09-03
    Description: The essential mycobacterial transcriptional regulators RbpA and CarD act to modulate transcription by associating to the initiation complex and increasing the flux of transcript production. Each of these factors interacts directly with the promoter DNA template and with RNA polymerase (RNAP) holoenzyme. We recently reported on the energetics of CarD-mediated open complex stabilization on the Mycobacterium tuberculosis rrnA P3 ribosomal promoter using a stopped-flow fluorescence assay. Here, we apply this approach to RbpA and show that RbpA stabilizes RNAP-promoter open complexes (RP o ) via a distinct mechanism from that of CarD. Furthermore, concentration-dependent stopped-flow experiments with both factors reveal positive linkage (cooperativity) between RbpA and CarD with regard to their ability to stabilize RP o . The observation of positive linkage between RbpA and CarD demonstrates that the two factors can act on the same transcription initiation complex simultaneously. Lastly, with both factors present, the kinetics of open complex formation is significantly faster than in the presence of either factor alone and approaches that of E. coli RNAP on the same promoter. This work provides a quantitative framework for the molecular mechanisms of these two essential transcription factors and the critical roles they play in the biology and pathology of mycobacteria.
    Print ISSN: 0305-1048
    Electronic ISSN: 1362-4962
    Topics: Biology
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  • 3
    Publication Date: 1985-06-01
    Description: The unsteady two-dimensional heat-transfer problem of melting around a horizontal heated cylinder is studied numerically. The cylinder is heated isothermally. A physical model is introduced which accounts for the effects of density change upon melting and subcooling effect, as well as natural convection. Most previous work has assumed that the density number (ratio of solid density to liquid density) is unity. In practice, all solid materials exhibit some density change upon melting. If the density number is greater than one, this induces a blowing effect at the phase-change boundary. If the density number is less than one, a suction effect is produced. This study indicates that the density-change effect on heat transfer during melting is minor. Subcooling results when the solid is at a temperature below the melting temperature. When the melting process begins, some of the available thermal energy must be used as sensible heat, to raise the solid's temperature to the melting point. As a result, less thermal energy is available for melting. Subcooling effects are found to have a substantial effect on the heat-transfer process. The effects of natural convection have been clearly documented, and indicate that natural convection must be included in any realistic model of the melting process. Detailed predictions of the effects of density change and subcooling on the melting process are given. Information on the temperature and flow fields for representative values of Stefan, Rayleigh, Prandtl, subcooling and density number is given. Further results from the numerical solutions include information on local and average heat-transfer rates and sensible-heat gain as well as melt volume as a function of time. Comparisons are made with earlier numerical and analytical results. © 1985, Cambridge University Press. All rights reserved.
    Print ISSN: 0022-1120
    Electronic ISSN: 1469-7645
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics , Physics
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  • 4
    Publication Date: 1982-10-01
    Description: Fully developed laminar flow for a horizontal heated curved tube is studied numerically. The tube is heated so as to maintain a constant axial temperature gradient. A physical model is introduced that accounts for the combined effects of both buoyancy and centrifugal force. Results, for a Prandtl number of one, are presented for a moderate range of Dean numbers and the product of the Reynolds and Rayleigh numbers. Detailed predictions of the flow resistance, the average heat-transfer rate and the secondary-flow streamlines are given. Also presented are results on the position of the local maxima of shear stress and heat-transfer rate. The numerical results reveal that the mass-flow rate is drastically reduced owing to the secondary flow for a given axial pressure gradient. Consequently, the total heat-transfer rate decreases for a more-curved tube as well as for a larger axial temperature gradient. A flow-regime map is provided to indicate the three basic regimes where (i) centrifugal force dominates, (ii) both buoyancy and centrifugal forces are important, and (iii) buoyancy force dominates. © 1982, Cambridge University Press. All rights reserved.
    Print ISSN: 0022-1120
    Electronic ISSN: 1469-7645
    Topics: Mechanical Engineering, Materials Science, Production Engineering, Mining and Metallurgy, Traffic Engineering, Precision Mechanics , Physics
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  • 5
    Publication Date: 1996-01-01
    Print ISSN: 0003-0007
    Electronic ISSN: 1520-0477
    Topics: Geography , Physics
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  • 6
    Publication Date: 2019-08-16
    Description: Decreases in shelter temperature during eclipse events were quantified on the basis of observations, numerical model simulations, and complementary conceptual evaluations. Observations for the annular eclipse on 10 May 1994 over the United States are presented, and these provide insights into the temporal and spatial changes in the shelter temperature. The observations indicated near-surface temperature drops of as much as 6 C. Numerical model simulations for this eclipse event, which provide a complementary evaluation of the spatial and temporal patterns of the temperature drops, predict similar decreases. Interrelationships between the temperature drop, degree of solar irradiance reduction, and timing of the peak eclipse are also evaluated for late spring, summer, and winter sun conditions. These simulations suggest that for total eclipses the drops in shelter temperature in midlatitudes can be as high as 7 C for a spring morning eclipse.
    Keywords: Meteorology and Climatology
    Type: J-16391 , Bulletin of the American Meteorological Society; 77; 1; 89-99
    Format: text
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