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  • 1
    Publication Date: 2016-02-03
    Description: In a set of problems ranging from 4-D seismic to salt boundary estimation, updates to the velocity model often have a highly localized nature. Numerical techniques for these applications such as full-waveform inversion (FWI) require an estimate of the wavefield to compute the model updates. When dealing with localized problems, it is wasteful to compute these updates in the global domain, when we only need them in our region of interest. This paper introduces a local solver that generates forward and adjoint wavefields which are, to machine precision, identical to those generated by a full-domain solver evaluated within the region of interest. This means that the local solver computes all interactions between model updates within the region of interest and the inhomogeneities in the background model outside. Because no approximations are made in the calculation of the forward and adjoint wavefields, the local solver can compute the identical gradient in the region of interest as would be computed by the more expensive full-domain solver. In this paper, the local solver is used to efficiently generate the FWI gradient at the boundary of a salt body. This gradient is then used in a level set method to automatically update the salt boundary.
    Keywords: Seismology
    Print ISSN: 0956-540X
    Electronic ISSN: 1365-246X
    Topics: Geosciences
    Published by Oxford University Press on behalf of The Deutsche Geophysikalische Gesellschaft (DGG) and the Royal Astronomical Society (RAS).
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  • 2
    Publication Date: 2016-10-20
    Description: Sialic acids are nine-carbon backbone carbohydrates found in prominent outermost positions of glycosylated molecules in mammals. Mimicry of sialic acid (N-acetylneuraminic acid, Neu5Ac) enables some pathogenic bacteria to evade host defenses. Fusobacterium nucleatum is a ubiquitous oral bacterium also linked with invasive infections throughout the body. We employed multidisciplinary approaches to test predictions that F. nucleatum engages in de novo synthesis of sialic acids. Here we show that F. nucleatum sbsp. polymorphum ATCC10953 NeuB (putative Neu5Ac synthase) restores Neu5Ac synthesis to an Escherichia coli neuB mutant. Moreover, purified F. nucleatum NeuB participated in synthesis of Neu5Ac from N -acetylmannosamine and phosphoenolpyruvate in vitro . Further studies support the interpretation that F. nucleatum ATCC10953 NeuA encodes a functional CMP-sialic acid synthetase and suggest that it may also contain a C -terminal sialic acid O-acetylesterase. We also performed BLAST queries of F. nucleatum genomes, revealing that only 4/31 strains encode a complete pathway for de novo Neu5Ac synthesis. Biochemical studies including mass spectrometry were consistent with the bioinformatic predictions, showing that F. nucleatum ATCC10953 synthesizes high levels of Neu5Ac, whereas ATCC23726 and ATCC25586 do not express detectable levels above background. While there are a number of examples of sialic acid mimicry in other phyla, these experiments provide the first biochemical and genetic evidence that a member of the phylum Fusobacterium can engage in de novo Neu5Ac synthesis.
    Print ISSN: 0959-6658
    Electronic ISSN: 1460-2423
    Topics: Biology , Medicine
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