Ab Initio Calculation of Impurity Effects in Copper Oxide Materials

We describe a method for calculating, within density functional theory, the electronic structure associated with typical defects which substitute for Cu in the CuO2 planes of high-Tc superconducting materials. The focus is primarily on Bi2Sr2CaCu2O8, the material on which most STM measurements of impurity resonances in the superconducting state have been performed. The magnitudes of the effective potentials found for Zn, Ni and vacancies on the in-plane Cu sites in this host material are remarkably consistent with phenomenological fits of potential scattering models to STM resonance energies. The effective potential ranges are quite short, of order 1 A with weak long range tails, in contrast to some current models of extended potentials which attempt to fit STM data. For the case of Zn and Cu vacancies, the effective potentials are strongly repulsive, and states on the impurity site near the Fermi level are simply removed. The local density of states (LDOS) just above the impurity is nevertheless found to be a maximum in the case of Zn and a local minimum in case of the vacancy, in agreement with experiment. The Zn and Cu vacancy patterns are explained as due to the long-range tails of the effective impurity potential at the sample surface. The case of Ni is richer due to the Ni atom's strong hybridization with states near the Fermi level; in particular, the short range part of the potential is attractive, and the LDOS is found to vary rapidly with distance from the surface and from the impurity site. We propose that the current controversy surrounding the observed STM patterns can be resolved by properly accounting for the effective impurity potentials and wave-functions near the cuprate surface. Other aspects of the impurity states for all three species are discussed.Comment: 37 pp. pdf including figures, submitted to Phys. Rev.

Poly(β-Amino Ester)-Nanoparticle Mediated Transfection of Retinal Pigment Epithelial Cells In Vitro and In Vivo

A variety of genetic diseases in the retina, including retinitis pigmentosa and leber congenital amaurosis, might be excellent targets for gene delivery as treatment. A major challenge in non-viral gene delivery remains finding a safe and effective delivery system. Poly(beta-amino ester)s (PBAEs) have shown great potential as gene delivery reagents because they are easily synthesized and they transfect a wide variety of cell types with high efficacy in vitro. We synthesized a combinatorial library of PBAEs and evaluated them for transfection efficacy and toxicity in retinal pigment epithelial (ARPE-19) cells to identify lead polymer structures and transfection formulations. Our optimal polymer (B5-S5-E7 at 60 w/w polymer∶DNA ratio) transfected ARPE-19 cells with 44±5% transfection efficacy, significantly higher than with optimized formulations of leading commercially available reagents Lipofectamine 2000 (26±7%) and X-tremeGENE HP DNA (22±6%); (p<0.001 for both). Ten formulations exceeded 30% transfection efficacy. This high non-viral efficacy was achieved with comparable cytotoxicity (23±6%) to controls; optimized formulations of Lipofectamine 2000 and X-tremeGENE HP DNA showed 15±3% and 32±9% toxicity respectively (p>0.05 for both). Our optimal polymer was also significantly better than a gold standard polymeric transfection reagent, branched 25 kDa polyethyleneimine (PEI), which achieved only 8±1% transfection efficacy with 25±6% cytotoxicity. Subretinal injections using lyophilized GFP-PBAE nanoparticles resulted in 1.1±1×103-fold and 1.5±0.7×103-fold increased GFP expression in the retinal pigment epithelium (RPE)/choroid and neural retina respectively, compared to injection of DNA alone (p = 0.003 for RPE/choroid, p<0.001 for neural retina). The successful transfection of the RPE in vivo suggests that these nanoparticles could be used to study a number of genetic diseases in the laboratory with the potential to treat debilitating eye diseases

ECOLOGICAL IMPLICATIONS OF ANTI-PATHOGEN EFFECTS OF TROPICAL FUNGAL ENDOPHYTES AND MYCORRHIZAE

We discuss studies of foliar endophytic fungi (FEE) and arbuscular mycorrhizal fungi (AMF) associated with Theobroma cacao in Panama. Direct, experimentally controlled comparisons of endophyte free (E—) and endophyte containing (E+) plant tissues in T. cacao show that foliar endophytes (FEE) that commonly occur in healthy host leaves enhance host defenses against foliar damage due to the pathogen (Phytophthora palmivora). Similarly, root inoculations with commonly occurring AMF also reduce foliar damage due to the same pathogen. These results suggest that endophytic fungi can play a potentially important mutualistic role by augmenting host defensive responses against pathogens. There are two broad classes of potential mechanisms by which endophytes could contribute to host protection: (1) inducing or increasing the expression of intrinsic host defense mechanisms and (2) providing additional sources of defense, extrinsic to those of the host (e.g., endophytebased chemical antibiosis). The degree to which either of these mechanisms predominates holds distinct consequences for the evolutionary ecology of host-endophyte-pathogen relationships. More generally, the growing recognition that plants are composed of a mosaic of plant and fungal tissues holds a series of implications for the study of plant defense, physiology, and genetics.We discuss studies of foliar endophytic fungi (FEE) and arbuscular mycorrhizal fungi (AMF) associated with Theobroma cacao in Panama. Direct, experimentally controlled comparisons of endophyte free (E—) and endophyte containing (E+) plant tissues in T. cacao show that foliar endophytes (FEE) that commonly occur in healthy host leaves enhance host defenses against foliar damage due to the pathogen (Phytophthora palmivora). Similarly, root inoculations with commonly occurring AMF also reduce foliar damage due to the same pathogen. These results suggest that endophytic fungi can play a potentially important mutualistic role by augmenting host defensive responses against pathogens. There are two broad classes of potential mechanisms by which endophytes could contribute to host protection: (1) inducing or increasing the expression of intrinsic host defense mechanisms and (2) providing additional sources of defense, extrinsic to those of the host (e.g., endophytebased chemical antibiosis). The degree to which either of these mechanisms predominates holds distinct consequences for the evolutionary ecology of host-endophyte-pathogen relationships. More generally, the growing recognition that plants are composed of a mosaic of plant and fungal tissues holds a series of implications for the study of plant defense, physiology, and genetics

Predicate Abstraction for Linked Data Structures

We present Alias Refinement Types (ART), a new approach to the verification of correctness properties of linked data structures. While there are many techniques for checking that a heap-manipulating program adheres to its specification, they often require that the programmer annotate the behavior of each procedure, for example, in the form of loop invariants and pre- and post-conditions. Predicate abstraction would be an attractive abstract domain for performing invariant inference, existing techniques are not able to reason about the heap with enough precision to verify functional properties of data structure manipulating programs. In this paper, we propose a technique that lifts predicate abstraction to the heap by factoring the analysis of data structures into two orthogonal components: (1) Alias Types, which reason about the physical shape of heap structures, and (2) Refinement Types, which use simple predicates from an SMT decidable theory to capture the logical or semantic properties of the structures. We prove ART sound by translating types into separation logic assertions, thus translating typing derivations in ART into separation logic proofs. We evaluate ART by implementing a tool that performs type inference for an imperative language, and empirically show, using a suite of data-structure benchmarks, that ART requires only 21% of the annotations needed by other state-of-the-art verification techniques

Superconductivity and Stoichiometry in the BSCCO-family Materials

We report on magnetization, c-axis and ab-plane resistivity, critical current, electronic band structure and superconducting gap properties. Bulk measurements and photoemission data were taken on similar samples.Comment: 4 pages, latex, to be published in Journal of Superconductivity. two figures available from Jian Ma at [email protected]

Lunar multispectral mosaics from Galileo's second Earth-Moon flyby

Galileo's Solid-State Imaging (SSI) experiment acquired about 800 images of the Moon from the second Earth-Moon flyby (EM2) in December of 1992. Ten major sequences were acquired; each consists of mosaics of the entire or nearly entire visible and illuminated surface from each viewing geometry in at least six spectral filters (effective wavelengths for the Moon of 420, 564, 660, 756, 890, and 990 nm). The geometries of LUNMOS numbers 3, 4, 5, and 6 were designed to provide stereo data at the best possible resolutions. The purpose of this abstract is to describe the sequences, calibration, processing, and mosaicking, and to present a set of color products in a poster session

Stroke Severity Predicted by Aortic Atheroma Detected by Ultra-Fast and Cardiac-Gated Chest Tomography†

Background and Purpose: The presence of aortic atherosclerosis is an independent risk factor for secondary stroke. The present study was designed to have an initial exploration of the correlation between the load and extent of aortic atheroma (AA) and initial stroke severity or clinical outcome 3 months after stroke. Methods: Cardiac-gated chest tomography (CGCT) was used to detect and measure AA in patients with acute ischemic stroke as shown by our group in prior prospective studies and this is part four sub-exploratory study of the same cohort. The National Institute of Health Stroke Scale (NIHSS) was used to assess the initial stroke severity, and the modified Rankin Scale (mRS) was used to assess 3-month outcome. Results: Thirty-two patients underwent CGCT for evaluation of AA, and 21 were found to have AA. AA was more prevalent in patient with NIHSS >6 (14/17 versus 7/15, p-value 0.03). Applying the multiple logistic regression and propensity score adjustment (using the propensity of having AA given the baseline features as covariates) showed a non-significant trend that AA is three times more likely to be associated with NIHSS >6 (p = 0.08, OR 3.08, 95% CI 0.94–13.52). There was no evidence of association of AA with 3-month functional outcome (mRS): 11/14 (78.6%) mRS >1 had AA, and 10/18 (55.5%) of those with mRS ≤1 had AA (p = 0.27). Conclusion: In our current study with limited sample number and exploratory nature, the presence of AA on CGCT with acute ischemic stroke patients may be associated with worse neurological deficit at presentation. There was no evidence of association with 3-month functional outcome using the mRS

Lunar impact basins: New data for the nearside northern high latitudes and eastern limb from the second Galileo flyby

During the December 1992 Galileo Earth/Moon encounter the northern half of the nearside, the eastern limb, and parts of the western farside of the Moon were illuminated and in view, a geometry that was complementary to the first lunar encounter in December, 1990, which obtained images of the western limb and eastern farside. The Galileo Solid State Imaging System (SSI) obtained multispectral images for these regions during the second encounter and color ratio composite images were compiled using combinations of band ratios chosen on the basis of telescopic spectra and laboratory spectra of lunar samples. Ratios of images taken at 0.41 and 0.76 micron are sensitive to changes in the slope in the visible portion of the spectrum, and ratios of 0.99 and 0.76 micron relate to the strength of near-infrared absorptions due to iron-rich mafic minerals (0.76/0.99 ratio) such as olivine and pyroxene. Results of the analyses of the compositional diversity of the crust, maria, and Copernican craters are presented elsewhere. Primary objectives for lunar basin analysis for the second encounter include analysis of: the north polar region and the Humboldtianum basin; the characteristics of the Imbrium basin along its northern border and the symmetry of associated deposits; the origin of light plains north of Mare Frigoris and associated with several other basins; the nature and significance of pre-basin substrate; the utilization of the stereo capability to assess subtle basis structure; the identification of previously unrecognized ancient basins; basin deposits and structure for limb and farside basins; and assessment of evidence for proposed ancient basins. These data and results will be applied to addressing general problems of evaluation of the nature and origin of basin deposits, investigation of mode of ejecta emplacement and ejecta mixing, analysis of the origin of light plains deposits, analysis of basin deposit symmetry/asymmetry, investigation of basin depth of excavation and crustal stratigraphy, and assessment of models for basin formation and evolution. Here we discuss some preliminary results concerning lunar impact basins, their deposits, and prebasin substrates, using the same approaches that we employed for the Orientale and South Pole-Aitken basins using the data from the first encounter

Surface evolution of the Anhur region on comet 67P/Churyumov-Gerasimenko from high-resolution OSIRIS images

Context. The southern hemisphere of comet 67P/Churyumov-Gerasimenko (67P) became observable by the Rosetta mission in March 2015, a fe months before cometary southern vernal equinox. The Anhur region in th southern part of the comet's larger lobe was found to be highly eroded resolution images of the Anhur region pre- and post-perihelion acquire by the OSIRIS imaging system on board the Rosetta mission. The Narro Angle Camera is particularly useful for studying the evolution in Anhu in terms of morphological changes and color variations. Methods Radiance factor images processed by the OSIRIS pipeline wer coregistered, reprojected onto the 3D shape model of the comet, an corrected for the illumination conditions. Results: We find number of morphological changes in the Anhur region that are related t formation of new scarps; removal of dust coatings; localized resurfacin in some areas, including boulders displacements; and vanishin structures, which implies localized mass loss that we estimate to b higher than 50 million kg. The strongest changes took place in an nearby the Anhur canyon-like structure, where significant dust cover wa removed, an entire structure vanished, and many boulders wer rearranged. All such changes are potentially associated with one of th most intense outbursts registered by Rosetta during its observations which occurred one day before perihelion passage. Moreover, in the nich at the foot of a new observed scarp, we also see evidence of water ic exposure that persisted for at least six months. The abundance of wate ice, evaluated from a linear mixing model, is relatively high (>20%) Our results confirm that the Anhur region is volatile-rich and probabl is the area on 67P with the most pristine exposures near perihelion. Th movies associated to Figs. 2, 7, 8, and 10 are available at http://https://www. anda.or

Pervasive effects of a dominant foliar endophytic fungus on host genetic and phenotypic expression in a tropical tree

It is increasingly recognized that macro-organisms (corals, insects, plants, vertebrates) consist of both host tissues and multiple microbial symbionts that play essential roles in their host’s ecological and evolutionary success. Consequently, identifying benefits and costs of symbioses, as well as mechanisms underlying them are research priorities. All plants surveyed under natural conditions harbor foliar endophytic fungi (FEF) in their leaf tissues, often at high densities. Despite producing no visible effects on their hosts, experiments have nonetheless shown that FEF reduce pathogen and herbivore damage. Here, combining results from three genomic, and two physiological experiments, we demonstrate pervasive genetic and phenotypic effects of the apparently asymptomatic endophytes on their hosts. Specifically, inoculation of endophyte-free (E−) Theobroma cacao leaves with Colletotrichum tropicale (E+), the dominant FEF species in healthy T. cacao, induces consistent changes in the expression of hundreds of host genes, including many with known defensive functions. Further, E+ plants exhibited increased lignin and cellulose content, reduced maximum rates of photosynthesis (Amax), and enrichment of nitrogen-15 and carbon-13 isotopes. These phenotypic changes observed in E+ plants correspond to changes in expression of specific functional genes in related pathways. Moreover, a cacao gene (Tc00g04254) highly up-regulated by C. tropicale also confers resistance to pathogen damage in the absence of endophytes or their products in host tissues. Thus, the benefits of increased pathogen resistance in E+ plants are derived in part from up-regulation of intrinsic host defense responses, and appear to be offset by potential costs including reduced photosynthesis, altered host nitrogen metabolism, and endophyte heterotrophy of host tissues. Similar effects are likely in most plant-endophyte interactions, and should be recognized in the design and interpretation of genetic and phenotypic studies of plantsIt is increasingly recognized that macro-organisms (corals, insects, plants, vertebrates) consist of both host tissues and multiple microbial symbionts that play essential roles in their host’s ecological and evolutionary success. Consequently, identifying benefits and costs of symbioses, as well as mechanisms underlying them are research priorities. All plants surveyed under natural conditions harbor foliar endophytic fungi (FEF) in their leaf tissues, often at high densities. Despite producing no visible effects on their hosts, experiments have nonetheless shown that FEF reduce pathogen and herbivore damage. Here, combining results from three genomic, and two physiological experiments, we demonstrate pervasive genetic and phenotypic effects of the apparently asymptomatic endophytes on their hosts. Specifically, inoculation of endophyte-free (E−) Theobroma cacao leaves with Colletotrichum tropicale (E+), the dominant FEF species in healthy T. cacao, induces consistent changes in the expression of hundreds of host genes, including many with known defensive functions. Further, E+ plants exhibited increased lignin and cellulose content, reduced maximum rates of photosynthesis (Amax), and enrichment of nitrogen-15 and carbon-13 isotopes. These phenotypic changes observed in E+ plants correspond to changes in expression of specific functional genes in related pathways. Moreover, a cacao gene (Tc00g04254) highly up-regulated by C. tropicale also confers resistance to pathogen damage in the absence of endophytes or their products in host tissues. Thus, the benefits of increased pathogen resistance in E+ plants are derived in part from up-regulation of intrinsic host defense responses, and appear to be offset by potential costs including reduced photosynthesis, altered host nitrogen metabolism, and endophyte heterotrophy of host tissues. Similar effects are likely in most plant-endophyte interactions, and should be recognized in the design and interpretation of genetic and phenotypic studies of plant