Variation in VKORC1 is associated with vascular dementia

BACKGROUND: The genetic variant rs9923231 (VKORC1) is associated with differences in the coagulation of blood and consequentially with sensitivity to the drug warfarin. Variation in VKORC1 has been linked in a gene-based test to dementia/Alzheimer’s disease in the parents of participants, with suggestive evidence for an association for rs9923231 (p = 1.8×10(–7)), which was included in the genome-wide significant KAT8 locus. OBJECTIVE: Our study aimed to investigate whether the relationship between rs9923231 and dementia persists only for certain dementia sub-types, and if those taking warfarin are at greater risk. METHODS: We used logistic regression and data from 238,195 participants from UK Biobank to examine the relationship between VKORC1, risk of dementia, and the interplay with warfarin use. RESULTS: Parental history of dementia, APOE variant, atrial fibrillation, diabetes, hypertension, and hypercholesterolemia all had strong associations with vascular dementia (p < 4.6×10(–6)). The T-allele in rs9923231 was linked to a lower warfarin dose (β(perT - allele) = –0.29, p < 2×10(–16)) and risk of vascular dementia (OR = 1.17, p = 0.010), but not other dementia sub-types. However, the risk of vascular dementia was not affected by warfarin use in carriers of the T-allele. CONCLUSION: Our study reports for the first time an association between rs9923231 and vascular dementia, but further research is warranted to explore potential mechanisms and specify the relationship between rs9923231 and features of vascular dementia

Three-dimensional digital template atlas of the Macaque brain

We present a new 3D template atlas of the anatomical subdivisions of the macaque brain, which is based on and aligned to the magnetic resonance imaging (MRI) data set and histological sections of the Saleem and Logothetis atlas. We describe the creation and validation of the atlas that, when registered with macaque structural or functional MRI scans, provides a straightforward means to estimate the boundaries between architectonic areas, either in a 3D volume with different planesof sections, or on an inflated brain surface (cortical flat map). As such, this new template atlas is intended for use as a reference standard for macaque brain research. Atlases and templates are available as both volumes and surfaces in standard NIFTI and GIFTI formats

Autonomous Ocean Measurements in the California Current Ecosystem

Event-scale phenomena, of limited temporal duration or restricted spatial extent, often play a disproportionately large role in ecological processes occurring in the ocean water column. Nutrient and gas fluxes, upwelling and downwelling, transport of biogeochemically important elements, predator-prey interactions, and other processes may be markedly influenced by such events, which are inadequately resolved from infrequent ship surveys. The advent of autonomous instrumentation, including underwater gliders, profiling floats, surface drifters, enhanced moorings, coastal high-frequency radars, and satellite remote sensing, now provides the capability to resolve such phenomena and assess their role in structuring pelagic ecosystems. These methods are especially valuable when integrated together, and with shipboard calibration measurements and experimental programs

Tropical coastal habitats as surrogates of fish community structure, grazing, and fisheries value

Habitat maps are frequently invoked as surrogates of biodiversity to aid the design of networks of marine reserves. Maps are used to maximize habitat heterogeneity in reserves because this is likely to maximize the number of species protected. However, the technique's efficacy is limited by intra-habitat variability in the species present and their abundances. Although communities are expected to vary among patches of the same habitat, this variability is poorly documented and rarely incorporated into reserve planning. To examine intra-habitat variability in coral-reef fishes, we generated a data set from eight tropical coastal habitats and six islands in the Bahamian archipelago using underwater visual censuses. Firstly, we provide further support for habitat heterogeneity as a surrogate of biodiversity as each predefined habitat type supported a distinct assemblage of fishes. Intrahabitat variability in fish community structure at scales of hundreds of kilometers (among islands) was significant in at least 75% of the habitats studied, depending on whether presence/absence, density, or biomass data were used. Intra-habitat variability was positively correlated with the mean number of species in that habitat when density and biomass data were used. Such relationships provide a proxy for the assessment of intra-habitat variability when detailed quantitative data are scarce. Intra-habitat variability was examined in more detail for one habitat (forereefs visually dominated by Montastraea corals). Variability in community structure among islands was driven by small, demersal families (e. g., territorial pomacentrid and labrid fishes). Finally, we examined the ecological and economic significance of intra-habitat variability in fish assemblages on Montastraea reefs by identifying how this variability affects the composition and abundances of fishes in different functional groups, the key ecosystem process of parrotfish grazing, and the ecosystem service of value of commercially important finfish. There were significant differences in a range of functional groups and grazing, but not fisheries value. Variability at the scale of tens of kilometers (among reefs around an island) was less than that among islands. Caribbean marine reserves should be replicated at scales of hundreds of kilometers, particularly for species-rich habitats, to capture important intra-habitat variability in community structure, function, and an ecosystem process

Hybrid selection for sequencing pathogen genomes from clinical samples

We have adapted a solution hybrid selection protocol to enrich pathogen DNA in clinical samples dominated by human genetic material. Using mock mixtures of human and Plasmodium falciparum malaria parasite DNA as well as clinical samples from infected patients, we demonstrate an average of approximately 40-fold enrichment of parasite DNA after hybrid selection. This approach will enable efficient genome sequencing of pathogens from clinical samples, as well as sequencing of endosymbiotic organisms such as Wolbachia that live inside diverse metazoan phyla

Thermohaline structure in the California Current System : observations and modeling of spice variance

Author Posting. © American Geophysical Union, 2012. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research 117 (2012): C02008, doi:10.1029/2011JC007589.Upper ocean thermohaline structure in the California Current System is investigated using sustained observations from autonomous underwater gliders and a numerical state estimate. Both observations and the state estimate show layers distinguished by the temperature and salinity variability along isopycnals (i.e., spice variance). Mesoscale and submesoscale spice variance is largest in the remnant mixed layer, decreases to a minimum below the pycnocline near 26.3 kg m−3, and then increases again near 26.6 kg m−3. Layers of high (low) meso- and submesoscale spice variance are found on isopycnals where large-scale spice gradients are large (small), consistent with stirring of large-scale gradients to produce smaller scale thermohaline structure. Passive tracer adjoint calculations in the state estimate are used to investigate possible mechanisms for the formation of the layers of spice variance. Layers of high spice variance are found to have distinct origins and to be associated with named water masses; high spice variance water in the remnant mixed layer has northerly origin and is identified as Pacific Subarctic water, while the water in the deeper high spice variance layer has southerly origin and is identified as Equatorial Pacific water. The layer of low spice variance near 26.3 kg m−3 lies between the named water masses and does not have a clear origin. Both effective horizontal diffusivity, κh, and effective diapycnal diffusivity, κv, are elevated relative to the diffusion coefficients set in the numerical simulation, but changes in κh and κv with depth are not sufficient to explain the observed layering of thermohaline structure.We gratefully acknowledge funding from the Gordon and Betty Moore Foundation, the Coastal Ocean Currents Monitoring Project (COCMP), and NOAA. R. E. Todd was partially supported by the Postdoctoral Scholar Program at the Woods Hole Oceanographic Institution, with funding provided by the Cooperative Institute for the North Atlantic Region.2012-08-0

An Accreting White Dwarf near the Chandrasekhar Limit in the Andromeda Galaxy

The iPTF (Intermediate Palomar Transient Factory) detection of the most recent outburst of the recurrent nova system RX J0045.4+4154 in the Andromeda Galaxy has enabled the unprecedented study of a massive (mass is greater than 1.3 solar masses) accreting white dwarf (WD). We detected this nova as part of the near daily iPTF monitoring of M31 to a depth of R (red band-pass filter) approximately equal to magnitude 21 and triggered optical photometry, spectroscopy and soft X-ray monitoring of the outburst. Peaking at an absolute magnitude of MR (red, mid-infrared band-pass filter) equals magnitude 6.6, and with a decay time of 1 magnitude per day, it is a faint and very fast nova. It shows optical emission lines of He/N and expansion velocities of 1900 to 2600 kilometers per second 1-4 days after the optical peak. The Swift monitoring of the X-ray evolution revealed a supersoft source (SSS) with kT (energy: Boltzmann constant times temperature) (sub eff (effective)) approximately equal to 90-110 electronvolts that appeared within 5 days after the optical peak, and lasted only 12 days. Most remarkably, this is not the first event from this system, rather it is a recurrent nova with a time between outbursts of approximately 1 year, the shortest known. Recurrent X-ray emission from this binary was detected by ROSAT in 1992 and 1993, and the source was well characterized as a mass greater than 1.3 solar masses WD SSS. Based on the observed recurrence time between different outbursts, the duration and effective temperature of the SS phase, MESA models of accreting WDs allow us to constrain the accretion rate to mass greater than 1.7x10 (sup 7) solar masses per year and WD mass greater than 1.30 solar masses. If the WD keeps 30 percent of the accreted material, it will take less than a million years to reach core densities high enough for carbon ignition (if made of C/O) or electron capture (if made of O/Ne) to end the binary evolution

SN 2000cx and SN 2013bh: extremely rare, nearly twin Type Ia supernovae

The Type Ia supernova (SN Ia) SN 2000cx was one of the most peculiar transients ever discovered, with a rise to maximum brightness typical of a SN Ia, but a slower decline and a higher photospheric temperature. 13 yr later SN 2013bh (also known as iPTF13abc), a near identical twin, was discovered and we obtained optical and near-infrared photometry and low-resolution optical spectroscopy from discovery until about 1 month past r-band maximum brightness. The spectra of both objects show iron-group elements [Co II, Ni II, Fe  II, Fe  III and high-velocity features (HVFs) of Ti  II], intermediate-mass elements (Si II, Si III and S  II) and separate normal velocity features (∼12 000 km s^(−1)) and HVFs (∼24 000 km s^(−1)) of Ca II. Persistent absorption from Fe III and Si III, along with the colour evolution, implies high blackbody temperatures for SNe 2013bh and 2000cx (∼12 000 K). Both objects lack narrow Na I D absorption and exploded in the outskirts of their hosts, indicating that the SN environments were relatively free of interstellar or circumstellar material and may imply that the progenitors came from a relatively old and low-metallicity stellar population. Models of SN 2000cx, seemingly applicable to SN 2013bh, imply the production of up to ∼1 M_⊙ of ^(56)Ni and (4.3–5.5) × 10^(−3) M_⊙ of fast-moving Ca ejecta