Transcriptional ontogeny of the developing liver

<p>Abstract</p> <p>Background</p> <p>During embryogenesis the liver is derived from endodermal cells lining the digestive tract. These endodermal progenitor cells contribute to forming the parenchyma of a number of organs including the liver and pancreas. Early in organogenesis the fetal liver is populated by hematopoietic stem cells, the source for a number of blood cells including nucleated erythrocytes. A comprehensive analysis of the transcriptional changes that occur during the early stages of development to adulthood in the liver was carried out.</p> <p>Results</p> <p>We characterized gene expression changes in the developing mouse liver at gestational days (GD) 11.5, 12.5, 13.5, 14.5, 16.5, and 19 and in the neonate (postnatal day (PND) 7 and 32) compared to that in the adult liver (PND67) using full-genome microarrays. The fetal liver, and to a lesser extent the neonatal liver, exhibited dramatic differences in gene expression compared to adults. Canonical pathway analysis of the fetal liver signature demonstrated increases in functions important in cell replication and DNA fidelity whereas most metabolic pathways of intermediary metabolism were under expressed. Comparison of the dataset to a number of previously published microarray datasets revealed 1) a striking similarity between the fetal liver and that of the pancreas in both mice and humans, 2) a nucleated erythrocyte signature in the fetus and 3) under expression of most xenobiotic metabolism genes throughout development, with the exception of a number of transporters associated with either hematopoietic cells or cell proliferation in hepatocytes.</p> <p>Conclusions</p> <p>Overall, these findings reveal the complexity of gene expression changes during liver development and maturation, and provide a foundation to predict responses to chemical and drug exposure as a function of early life-stages.</p

HIV-1 Tat causes cognitive deficits and selective loss of parvalbumin, somatostatin, and neuronal nitric oxide synthase expressing hippocampal CA1 interneuron subpopulations

Memory deficits are characteristic of HIV-associated neurocognitive disorders (HAND) and co-occur with hippocampal pathology. The HIV-1 transactivator of transcription (Tat), a regulatory protein, plays a significant role in these events, but the cellular mechanisms involved are poorly understood. Within the hippocampus, diverse populations of interneurons form complex networks; even subtle disruptions can drastically alter synaptic output, resulting in behavioral dysfunction. We hypothesized that HIV-1 Tat would impair cognitive behavior and injure specific hippocampal interneuron subtypes. Male transgenic mice that inducibly expressed HIV-1 Tat (or non-expressing controls) were assessed for cognitive behavior or had hippocampal CA1 subregions evaluated via interneuron subpopulation markers. Tat exposure decreased spatial memory in a Barnes maze and mnemonic performance in a novel object recognition test. Tat reduced the percentage of neurons expressing neuronal nitric oxide synthase (nNOS) without neuropeptide Y immunoreactivity in the stratum pyramidale and the stratum radiatum, parvalbumin in the stratum pyramidale, and somatostatin in the stratum oriens, which are consistent with reductions in interneuron-specific interneuron type 3 (IS3), bistratified, and oriens-lacunosum-moleculare interneurons, respectively. The findings reveal that an interconnected ensemble of CA1 nNOS-expressing interneurons, the IS3 cells, as well as subpopulations of parvalbumin- and somatostatin-expressing interneurons are preferentially vulnerable to HIV-1 Tat. Importantly, the susceptible interneurons form a microcircuit thought to be involved in feedback inhibition of CA1 pyramidal cells and gating of CA1 pyramidal cell inputs. The identification of vulnerable CA1 hippocampal interneurons may provide novel insight into the basic mechanisms underlying key functional and neurobehavioral deficits associated with HAND

Quantifying CO2 Removal at Enhanced Weathering Sites: a Multiproxy Approach

Enhanced weathering is a carbon dioxide (CO 2) mitigation strategy that promises large scale atmospheric CO 2 removal. The main challenge associated with enhanced weathering is monitoring, reporting, and verifying (MRV) the amount of carbon removed as a result of enhanced weathering reactions. Here, we study a CO 2 mineralization site in Consett, Co. Durham, UK, where steel slags have been weathered in a landscaped deposit for over 40 years. We provide new radiocarbon, δ 13 C, 87 Sr/ 86 Sr, and major element data in waters, calcite precipitates, and soils to quantify the rate of carbon removal. We demonstrate that measuring the radiocarbon activity of CaCO 3 deposited in waters draining the slag deposit provides a robust constraint on the carbon source being sequestered (80% from the atmosphere, 2σ = 8%) and use downstream alkalinity measurements to determine the proportion of carbon exported to the ocean. The main phases dissolving in the slag are hydroxide minerals (e.g., portlandite) with minor contributions (<3%) from silicate minerals. We propose a novel method for quantifying carbon removal rates at enhanced weathering sites, which is a function of the radiocarbon-apportioned sources of carbon being sequestered, and the proportion of carbon being exported from the catchment to the oceans

A framework for experimental-data-driven assessment of Magnetized Liner Inertial Fusion stagnation image metrics

A variety of spherical crystal x-ray imager (SCXI) diagnostics have been developed and fielded on Magnetized Liner Inertial Fusion (MagLIF) experiments at the Sandia National Laboratories Z-facility. These different imaging modalities provide detailed insight into different physical phenomena such as mix of liner material into the hot fuel, cold liner emission, or reduce impact of liner opacity. However, several practical considerations ranging from the lack of a consistent spatial fiducial for registration to different point-spread-functions and tuning crystals or using filters to highlight specific spectral regions make it difficult to develop broadly applicable metrics to compare experiments across our stagnation image database without making significant unverified assumptions. We leverage experimental data for a model-free assessment of sensitivities to instrumentation-based features for any specified image metric. In particular, we utilize a database of historical and recent MagLIF data including $N_{\text{scans}} = 139$ image plate scans gathered across $N_{\text{exp}} = 67$ different experiments to assess the impact of a variety of features in the experimental observations arising from uncertainties in registration as well as discrepancies in signal-to-noise ratio and instrument resolution. We choose a wavelet-based image metric known as the Mallat Scattering Transform for the study and highlight how alternate metric choices could also be studied. In particular, we demonstrate a capability to understand and mitigate the impact of signal-to-noise, image registration, and resolution difference between images. This is achieved by utilizing multiple scans of the same image plate, sampling random translations and rotations, and applying instrument specific point-spread-functions found by ray tracing to high-resolution datasets, augmenting our data in an effectively model-free fashion.Comment: 17 pages, 14 figure

An analysis of fast photochemistry over high northern latitudes during spring and summer using in-situ observations from ARCTAS and TOPSE

Observations of chemical constituents and meteorological quantities obtained during the two Arctic phases of the airborne campaign ARCTAS (Arctic Research of the Composition of the Troposphere from Aircraft and Satellites) are analyzed using an observationally constrained steady state box model. Measurements of OH and HO2 from the Penn State ATHOS instrument are compared to model predictions. Forty percent of OH measurements below 2 km are at the limit of detection during the spring phase (ARCTAS-A). While the median observed-to-calculated ratio is near one, both the scatter of observations and the model uncertainty for OH are at the magnitude of ambient values. During the summer phase (ARCTAS-B), model predictions of OH are biased low relative to observations and demonstrate a high sensitivity to the level of uncertainty in NO observations. Predictions of HO2 using observed CH2O and H2O2 as model constraints are up to a factor of two larger than observed. A temperature-dependent terminal loss rate of HO2 to aerosol recently proposed in the literature is shown to be insufficient to reconcile these differences. A comparison of ARCTAS-A to the high latitude springtime portion of the 2000 TOPSE campaign (Tropospheric Ozone Production about the Spring Equinox) shows similar meteorological and chemical environments with the exception of peroxides; observations of H2O2 during ARCTAS-A were 2.5 to 3 times larger than those during TOPSE. The cause of this difference in peroxides remains unresolved and has important implications for the Arctic HOx budget. Unconstrained model predictions for both phases indicate photochemistry alone is unable to simultaneously sustain observed levels of CH2O and H2O2; however when the model is constrained with observed CH2O, H2O2 predictions from a range of rainout parameterizations bracket its observations. A mechanism suitable to explain observed concentrations of CH2O is uncertain. Free tropospheric observations of acetaldehyde (CH3CHO) are 2–3 times larger than its predictions, though constraint of the model to those observations is sufficient to account for less than half of the deficit in predicted CH2O. The box model calculates gross O3 formation during spring to maximize from 1–4 km at 0.8 ppbv d−1, in agreement with estimates from TOPSE, and a gross production of 2–4 ppbv d−1 in the boundary layer and upper troposphere during summer. Use of the lower observed levels of HO2 in place of model predictions decreases the gross production by 25–50%. Net O3 production is near zero throughout the ARCTAS-A troposphere, and is 1–2 ppbv in the boundary layer and upper altitudes during ARCTAS-B

Two Extraordinary Substellar Binaries at the T/Y Transition and the Y-Band Fluxes of the Coolest Brown Dwarfs

Using Keck laser guide star adaptive optics imaging, we have found that the T9 dwarf WISE J1217+1626 and T8 dwarf WISE J1711+3500 are exceptional binaries, with unusually wide separations (~0.8 arcsec, 8-15 AU), large near-IR flux ratios (~2-3 mags), and small mass ratios (~0.5) compared to previously known field ultracool binaries. Keck/NIRSPEC H-band spectra give a spectral type of Y0 for WISE J1217+1626B, and photometric estimates suggest T9.5 for WISE J1711+3500B. The WISE J1217+1626AB system is very similar to the T9+Y0 binary CFBDSIR J1458+1013AB; these two systems are the coldest known substellar multiples, having secondary components of ~400 K and being planetary-mass binaries if their ages are <~1 Gyr. Both WISE J1217+1626B and CFBDSIR J1458+1013B have strikingly blue Y-J colors compared to previously known T dwarfs, including their T9 primaries. Combining all available data, we find that Y-J color drops precipitously between the very latest T dwarfs and the Y dwarfs. The fact that this is seen in (coeval, mono-metallicity) binaries demonstrates that the color drop arises from a change in temperature, not surface gravity or metallicity variations among the field population. Thus, the T/Y transition established by near-IR spectra coincides with a significant change in the ~1 micron fluxes of ultracool photospheres. One explanation is the depletion of potassium, whose broad absorption wings dominate the far-red optical spectra of T dwarfs. This large color change suggests that far-red data may be valuable for classifying objects of <~500 K.Comment: ApJ, in press (accepted Aug 1, 2012). Small cosmetic changes in version 2 to match final publicatio

Radiometric measurements of the microwave emissivity of foam

Includes bibliographical references.Radiometric measurements of the microwave emissivity of foam were conducted during May 2000 at the Naval Research Laboratory's Chesapeake Bay Detachment using radiometers operating at 10.8 and 36.5 GHz. Horizontal and vertical polarization measurements were performed at 36.5 GHz; horizontal, vertical, +45°, ­45°, left-circular, and right-circular polarization measurements were obtained at 10.8 GHz. These measurements were carried out over a range of incidence angles from 30° to 60°. Surface foam was generated by blowing compressed air through a matrix of gas-permeable tubing supported by an aluminum frame and floats. Video micrographs of the foam were used to measure bubble size distribution and foam layer thickness. A video camera was boresighted with the radiometers to determine the beam-fill fraction of the foam generator. Results show emissivities that were greater than 0.9 and approximately constant in value over the range of incidence angles for vertically polarized radiation at both 10.8 and 36.5 GHz, while emissivities of horizontally polarized radiation showed a gradual decrease in value as incidence angle increased. Emissivities at +45°, ­45°, left-circular, and right-circular polarizations were all very nearly equal to each other and were in turn approximately equal to the average values of the horizontal and vertical emissivities in each case.This work was sponsored by the Department of the Navy, Office of Naval Research under Award N0014-00-1-280 to the University of Massachusetts, Award N00014-00-0152 to the University of Washington, and Award N0001400WX21032 to the Naval Research Laboratory

Assessing precipitation, evapotranspiration, and NDVI as controls of U.S. Great Plains plant production

Productivity throughout the North American Great Plains grasslands is generally considered to be water limited, with the strength of this limitation increasing as precipitation decreases. We hypothesize that cumulative actual evapotranspiration water loss (AET) from April to July is the precipitation-related variable most correlated to aboveground net primary production (ANPP) in the U.S. Great Plains (GP). We tested this by evaluating the relationship of ANPP to AET, precipitation, and plant transpiration (Tr). We used multi-year ANPP data from five sites ranging from semiarid grasslands in Colorado and Wyoming to mesic grasslands in Nebraska and Kansas, mean annual NRCS ANPP, and satellite-derived normalized difference vegetation index (NDVI) data. Results from the five sites showed that cumulative April-to-July AET, precipitation, and Tr were well correlated (R2: 0.54–0.70) to annual changes in ANPP for all but the wettest site. AET and Tr were better correlated to annual changes in ANPP compared to precipitation for the drier sites, and precipitation in August and September had little impact on productivity in drier sites. April-to-July cumulative precipitation was best correlated (R2 = 0.63) with interannual variability in ANPP in the most mesic site, while AET and Tr were poorly correlated with ANPP at this site. Cumulative growing season (May-to-September) NDVI (iNDVI) was strongly correlated with annual ANPP at the five sites (R2 = 0.90). Using iNDVI as a surrogate for ANPP, we found that county-level cumulative April–July AET was more strongly correlated to ANPP than precipitation for more than 80% of the GP counties, with precipitation tending to perform better in the eastern more mesic portion of the GP. Including the ratio of AET to potential evapotranspiration (PET) improved the correlation of AET to both iNDVI and mean county-level NRCS ANPP. Accounting for how different precipitation-related variables control ANPP (AET in drier portion, precipitation in wetter portion) provides opportunity to develop spatially explicit forecasting of ANPP across the GP for enhancing decision-making by land managers and use of grassland ANPP for biofuels

Towards an Improved High Resolution Global Long-Term Solar Resource Database

This paper presents an overview of an ongoing project to develop and deliver a solar mapping processing system to the National Renewable Energy Laboratory (NREL) using the data sets that are planned for production at the National Climatic Data Center (NCDC). NCDC will be producing a long-term radiance and cloud property data set covering the globe every three hours at an approximate resolution of 10 x 10 km. NASA, the originators of the Surface meteorology and Solar Energy web portal are collaborating with SUNY-Albany to develop the production system and solar algorithms. The initial result will be a global long-term solar resource data set spanning over 25 years. The ultimate goal of the project is to also deliver this data set and production system to NREL for continual production. The project will also assess the impact of providing these new data to several NREL solar decision support tools