Correction of Optical Aberrations in Elliptic Neutron Guides

Modern, nonlinear ballistic neutron guides are an attractive concept in neutron beam delivery and instrumentation, because they offer increased performance over straight or linearly tapered guides. However, like other ballistic geometries they have the potential to create significantly non-trivial instrumental resolution functions. We address the source of the most prominent optical aberration, namely coma, and we show that for extended sources the off-axis rays have a different focal length from on-axis rays, leading to multiple reflections in the guide system. We illustrate how the interplay between coma, sources of finite size, and mirrors with non-perfect reflectivity can therefore conspire to produce uneven distributions in the neutron beam divergence, the source of complicated resolution functions. To solve these problems, we propose a hybrid elliptic-parabolic guide geometry. Using this new kind of neutron guide shape, it is possible to condition the neutron beam and remove almost all of the aberrations, whilst providing the same performance in beam current as a standard elliptic neutron guide. We highlight the positive implications for a number of neutron scattering instrument types that this new shape can bring.Comment: Presented at NOP2010 Conference in Alpe d'Huez, France, in March 201

Variant Plasmodium ovale isolated from a patient infected in Ghana

Recent data have found that Plasmodium ovale can be separated in two distinct species: classic and variant P. ovale based on multilocus typing of different genes. This study presents a P. ovale isolate from a patient infected in Ghana together with an analysis of the small subunit RNA, cytochrome b, cytochrome c oxidase I, cysteine protease and lactate dehydrogenase genes, which show that the sample is a variant P. ovale and identical or highly similar to variant P. ovale isolated from humans in South-East Asia and Africa, and from a chimpanzee in Cameroon. The split between the variant and classic P. ovale is estimated to have occurred 1.7 million years ago

Unusual Metabolism and Hypervariation in the Genome of a Gracilibacterium (BD1-5) from an Oil-Degrading Community.

The candidate phyla radiation (CPR) comprises a large monophyletic group of bacterial lineages known almost exclusively based on genomes obtained using cultivation-independent methods. Within the CPR, Gracilibacteria (BD1-5) are particularly poorly understood due to undersampling and the inherent fragmented nature of available genomes. Here, we report the first closed, curated genome of a gracilibacterium from an enrichment experiment inoculated from the Gulf of Mexico and designed to investigate hydrocarbon degradation. The gracilibacterium rose in abundance after the community switched to dominance by Colwellia Notably, we predict that this gracilibacterium completely lacks glycolysis, the pentose phosphate and Entner-Doudoroff pathways. It appears to acquire pyruvate, acetyl coenzyme A (acetyl-CoA), and oxaloacetate via degradation of externally derived citrate, malate, and amino acids and may use compound interconversion and oxidoreductases to generate and recycle reductive power. The initial genome assembly was fragmented in an unusual gene that is hypervariable within a repeat region. Such extreme local variation is rare but characteristic of genes that confer traits under pressure to diversify within a population. Notably, the four major repeated 9-mer nucleotide sequences all generate a proline-threonine-aspartic acid (PTD) repeat. The genome of an abundant Colwellia psychrerythraea population has a large extracellular protein that also contains the repeated PTD motif. Although we do not know the host for the BD1-5 cell, the high relative abundance of the C. psychrerythraea population and the shared surface protein repeat may indicate an association between these bacteria.IMPORTANCE CPR bacteria are generally predicted to be symbionts due to their extensive biosynthetic deficits. Although monophyletic, they are not monolithic in terms of their lifestyles. The organism described here appears to have evolved an unusual metabolic platform not reliant on glucose or pentose sugars. Its biology appears to be centered around bacterial host-derived compounds and/or cell detritus. Amino acids likely provide building blocks for nucleic acids, peptidoglycan, and protein synthesis. We resolved an unusual repeat region that would be invisible without genome curation. The nucleotide sequence is apparently under strong diversifying selection, but the amino acid sequence is under stabilizing selection. The amino acid repeat also occurs in a surface protein of a coexisting bacterium, suggesting colocation and possibly interdependence

Modeling and Simulation as Boundary Objects to Facilitate Interdisciplinary Research

Peer Reviewedhttps://deepblue.lib.umich.edu/bitstream/2027.42/150614/1/sres2564.pdfhttps://deepblue.lib.umich.edu/bitstream/2027.42/150614/2/sres2564_am.pd

Nonsense-Mediated RNA Decay Influences Human Embryonic Stem Cell Fate.

Nonsense-mediated RNA decay (NMD) is a highly conserved pathway that selectively degrades specific subsets of RNA transcripts. Here, we provide evidence that NMD regulates early human developmental cell fate. We found that NMD factors tend to be expressed at higher levels in human pluripotent cells than in differentiated cells, raising the possibility that NMD must be downregulated to permit differentiation. Loss- and gain-of-function experiments in human embryonic stem cells (hESCs) demonstrated that, indeed, NMD downregulation is essential for efficient generation of definitive endoderm. RNA-seq analysis identified NMD target transcripts induced when NMD is suppressed in hESCs, including many encoding signaling components. This led us to test the role of TGF-β and BMP signaling, which we found NMD acts through to influence definitive endoderm versus mesoderm fate. Our results suggest that selective RNA decay is critical for specifying the developmental fate of specific human embryonic cell lineages

Widespread erosion on high plateaus during recent glaciations in Scandinavia

Glaciers create some of Earth’s steepest topography; yet, many areas that were repeatedly overridden by ice sheets in the last few million years include extensive plateaus. The distinct geomorphic contrast between plateaus and the glacial troughs that dissect them has sustained two long-held hypotheses: first, that ice sheets perform insignificant erosion beyond glacial troughs, and, second, that the plateaus represent ancient pre-glacial landforms bearing information of tectonic and geomorphic history prior to Pliocene–Pleistocene global cooling (~3.5 Myr ago). Here we show that the Fennoscandian ice sheets drove widespread erosion across plateaus far beyond glacial troughs. We apply inverse modelling to 118 new cosmogenic 10Be and 26Al measurements to quantify ice sheet erosion on the plateaus fringing the Sognefjorden glacial trough in western Norway. Our findings demonstrate substantial modification of the pre-glacial landscape during the Quaternary, and that glacial erosion of plateaus is important when estimating the global sediment flux to the oceans

SparsePak: A Formatted Fiber Field-Unit for The WIYN Telescope Bench Spectrograph. II. On-Sky Performance

We present a performance analysis of SparsePak and the WIYN Bench Spectrograph for precision studies of stellar and ionized gas kinematics of external galaxies. We focus on spectrograph configurations with echelle and low-order gratings yielding spectral resolutions of ~10000 between 500-900nm. These configurations are of general relevance to the spectrograph performance. Benchmarks include spectral resolution, sampling, vignetting, scattered light, and an estimate of the system absolute throughput. Comparisons are made to other, existing, fiber feeds on the WIYN Bench Spectrograph. Vignetting and relative throughput are found to agree with a geometric model of the optical system. An aperture-correction protocol for spectrophotometric standard-star calibrations has been established using independent WIYN imaging data and the unique capabilities of the SparsePak fiber array. The WIYN point-spread-function is well-fit by a Moffat profile with a constant power-law outer slope of index -4.4. We use SparsePak commissioning data to debunk a long-standing myth concerning sky-subtraction with fibers: By properly treating the multi-fiber data as a ``long-slit'' it is possible to achieve precision sky subtraction with a signal-to-noise performance as good or better than conventional long-slit spectroscopy. No beam-switching is required, and hence the method is efficient. Finally, we give several examples of science measurements which SparsePak now makes routine. These include H$\alpha$ velocity fields of low surface-brightness disks, gas and stellar velocity-fields of nearly face-on disks, and stellar absorption-line profiles of galaxy disks at spectral resolutions of ~24,000.Comment: To appear in ApJSupp (Feb 2005); 19 pages text; 7 tables; 27 figures (embedded); high-resolution version at http://www.astro.wisc.edu/~mab/publications/spkII_pre.pd

Full Information Product Pricing: An Information Strategy for Harnessing Consumer Choice to Create a More Sustainable World

Research and practice in the information systems (IS) field have been evolving over time, nourishing and promoting the development of applications that transform the relationships of individuals, corporations, and governments. Building on this evolution, we push forward a vision of the potential influence of the IS field into one of the most important problems of our times, an increasingly unsustainable world, which is traditionally considered the product of imperfect markets or market externalities. We describe our work in Full Information Product Pricing (FIPP) and our vision of a FIPP global socio-technical system, I-Choose, as a way to connect consumer choice and values with environmental, social, and economic effects of production and distribution practices. FIPP and I-Choose represent a vision about how information systems research can contribute to interdisciplinary research in supply chains, governance, and market economies to provide consumers with information packages that help them better understand how, where, and by whom the products they buy are produced. We believe that such a system will have important implications for international trade and agreements, for public policy, and for making a more sustainable world