Boulder Streams, Debris Fans, and Pleistocene Climate Change in the Blue Ridge Mountains of Central Virginia

The west slope of the Blue Ridge mountains in central Virginia is a polygenetic landscape containing interglacial and periglacial features. This paper proposes a general model relating the distribution and origin of hillslope and toeslope Quaternary landforms to climatically influenced geomorphic processes. Two generations of interglacial debris fans in the study area differ in their degree of soil development and clast weathering. Boulder streams, which clog debris flow chutes for the upper debris fans, are interpreted as solifluction features formed during successive periglacial episodes. Growth of the boulder streams and associated talus slopes can influence the magnitude and frequency of debris flows and fan formation during interglacials

Resolution of inflammation: a new therapeutic frontier

Dysregulated inflammation is a central pathological process in diverse disease states. Traditionally, therapeutic approaches have sought to modulate the pro- or anti-inflammatory limbs of inflammation, with mixed success. However, insight into the pathways by which inflammation is resolved has highlighted novel opportunities to pharmacologically manipulate these processes — a strategy that might represent a complementary (and perhaps even superior) therapeutic approach. This Review discusses the state of the art in the biology of resolution of inflammation, highlighting the opportunities and challenges for translational research in this field

Effects of Linking a Soil-Water-Balance Model with a Groundwater-Flow Model

A previously published regional groundwater-flow model in north-central Nebraska was sequentially linked with the recently developed soil-water-balance (SWB) model to analyze effects to groundwater-flow model parameters and calibration results. The linked models provided a more detailed spatial and temporal distribution of simulated recharge based on hydrologic processes, improvement of simulated groundwater-level changes and base flows at specific sites in agricultural areas, and a physically based assessment of the relative magnitude of recharge for grassland, nonirrigated cropland, and irrigated cropland areas. Root-mean-squared (RMS) differences between the simulated and estimated or measured target values for the previously published model and linked models were relatively similar and did not improve for all types of calibration targets. However, without any adjustment to the SWB-generated recharge, the RMS difference between simulated and estimated base-flow target values for the groundwater-flow model was slightly smaller than for the previously published model, possibly indicating that the volume of recharge simulated by the SWB code was closer to actual hydrogeologic conditions than the previously published model provided. Groundwater-level and base-flow hydrographs showed that temporal patterns of simulated groundwater levels and base flows were more accurate for the linked models than for the previously published model at several sites, particularly in agricultural areas

Altitude, Age, and Quality of Groundwater, Papio-Missouri River Natural Resources District, Eastern Nebraska, 1992 to 2009

The United States Geological Survey (USGS), in cooperation with the Papio-Missouri River Natural Resources District (PMRNRD), conducted this study to map the water-level altitude of 2009 within the Elkhorn River Valley, Missouri River Valley, and Platte River Valley alluvial aquifers; to present the predevelopment potentiometric-surface altitude within the Dakota aquifer; and to describe the age and quality of groundwater in the five principal aquifers of the PMRNRD in eastern Nebraska using data collected from 1992 to 2009. In addition, implications of alternatives to the current PMRNRD groundwater-quality monitoring approach are discussed.In the PMRNRD, groundwater altitude, relative to National Geodetic Vertical Datum of 1929, ranged from about 1,080 feet (ft) to 1,180 ft in the Elkhorn River Valley alluvial aquifer and from about 960 ft to 1,080 ft in the Missouri River Valley and Platte River Valley alluvial aquifers. In the PMRNRD, the estimated altitude of the potentiometric surface of the Dakota aquifer, predevelopment, ranged from about 1,100 ft to 1,200 ft.To assess groundwater age and quality, groundwater samples were collected from a total of 217 wells from 1992 to 2009 for analysis of various analytes. Groundwater samples collected in the PMRNRD from 1992 to 2009 and interpreted in this report were analyzed for age-dating analytes (chlorofluorocarbons), dissolved gases, major ions, trace elements, nutrients, stable isotope ratios, pesticides and pesticide degradates, volatile organic compounds, explosives, and 222radon.Apparent groundwater age was estimated from concentrations of chlorofluorocarbons measured in samples collected in 2000. Apparent groundwater-recharge dates ranged from older than 1940 in samples from wells screened in the Missouri River Valley alluvial aquifer to the early 1980s in samples from wells screened in the Dakota aquifer.Concentrations of major ions in the most recent sample per well collected from 1992 to 2009 indicate that the predominant water type was calcium bicarbonate. Samples from 4 wells exceeded the United States Environmental Protection Agency (EPA) Secondary Drinking Water Regulation (SDWR) for sulfate [250 milligrams per liter (mg/L)], and samples from 4 wells exceeded the EPA Drinking Water Advisory Table for sodium (30–60 mg/L).Eighteen of the 21 trace elements analyzed in samples from PMRNRD wells have EPA drinking-water standards. Sixteen of the trace elements with EPA standards were detected in the selected samples. In the samples selected for trace-element analysis, the only trace-element concentration that exceeded an enforceable EPA drinking-water standard, the Maximum Contaminant Level (MCL), was for arsenic; arsenic concentration exceeded the EPA MCL of 10 micrograms per liter (μg/L) in 4 percent of the samples. Trace-element concentrations that exceeded the EPA SDWR or Lifetime Health Advisory level were iron (46 percent of the samples were greater than EPA SDWR of 300 μg/L), manganese (70 percent of the samples were greater than EPA SDWR of 50 μg/L), and strontium (4 percent of the samples were greater than EPA Lifetime Health Advisory level of 4,000 μg/L).The concentration of nitrate plus nitrite as nitrogen (nitrate-N) in the most recent nutrient samples collected from the network wells and from one randomly selected well in the well nests from 1992 to 2009 for most wells (80 percent) ranged from less than 0.06 to 8.55 mg/L, with a median value of 0.12 mg/L. Concentrations of nitrate-N in 13 (7 percent) nutrient samples, 1992 to 2009, were greater than or equal to the EPA MCL and Nebraska Title-118 standard of 10 mg/L, and concentrations of nitrate-N in 35 (18 percent) nutrient samples, 1992 to 2009, were greater than or equal to 5 mg/L, which is the PMRNRD action level for possible management implementation to reduce nitrate concentrations in groundwater.Of the 61 pesticides or pesticide degradates analyzed from 2007 to 2009, 21 were detected. Three of the 21 pesticides detected (alachlor, atrazine, and metolachlor) have established health-based criteria; all detections of these compounds were at concentrations less than their EPA standards. From 2007 to 2009, 1 or more pesticide compounds were detected in 16 of the 82 network wells and in 18 of the 26 wells in well nests. From 2007 to 2009, the individual pesticide compounds that were detected most frequently were alachlor ethane sulfonic acid, a degradate of alachlor; deethylcyanazine acid, a degradate of cyanazine; and atrazine.Analytes with concentrations that exceeded 30 percent of the applicable Nebraska Title-118 standard were identified so that the PMRNRD can plan to monitor groundwater in the area and consider possible actions should the analyte concentrations continue to rise. The analytical results from the most recent samples collected in the network wells and all the wells in well nests from 1992 to 2009 indicate that, in at least 1 sample, there was a concentration that exceeded 30 percent of the Nebraska Title-118 standard for at least 1 of 3 major ions (chloride, fluoride, and sulfate), 1 nutrient (nitrate-N), 1 pesticide (atrazine), or 3 trace elements (arsenic, iron, and manganese). In addition, 30 percent of the EPA MCL or Nebraska Title-118 standard for gross alpha activity likely was exceeded in samples from three wells screened in the Dakota aquifer. Study findings indicate that some alternatives to the current PMRNRD groundwater-sampling approach that could be considered are to collect fewer samples for nutrient analysis and to collect samples periodically for determining concentrations of additional analytes, particularly the analytes with concentrations that were at least 30 percent or more than the Nebraska Title-118 standard

Simulation of Groundwater Flow and Analysis of the Effects of Water-management Options in the North Platte Natural Resources District, Nebraska

The North Platte Natural Resources District (NPNRD) has been actively collecting data and studying groundwater resources because of concerns about the future availability of the highly inter-connected surface-water and groundwater resources. This report, prepared by the U.S. Geological Survey in cooperation with the North Platte Natural Resources District, describes a groundwater-flow model of the North Platte River valley from Bridgeport, Nebraska, extending west to 6 miles into Wyoming. The model was built to improve the understanding of the interaction of surface-water and groundwater resources, and as an optimization tool, the model is able to analyze the effects of water-management options on the simulated stream base flow of the North Platte River. The groundwater system and related sources and sinks of water were simulated using a newton formulation of the U.S. Geological Survey modular three-dimensional groundwater model, referred to as MODFLOW–NWT, which provided an improved ability to solve nonlinear unconfined aquifer simulations with wetting and drying of cells. Using previously published aquifer-base-altitude contours in conjunction with newer test-hole and geophysical data, a new base-of-aquifer altitude map was generated because of the strong effect of the aquifer-base topography on groundwater-flow direction and magnitude. The largest inflow to groundwater is recharge originating from water leaking from canals, which is much larger than recharge originating from infiltration of precipitation. The largest component of groundwater discharge from the study area is to the North Platte River and its tributaries, with smaller amounts of discharge to evapotranspiration and groundwater withdrawals for irrigation. Recharge from infiltration of precipitation was estimated with a daily soil-water-balance model. Annual recharge from canal seepage was estimated using available records from the Bureau of Reclamation and then modified with canal-seepage potentials estimated using geophysical data. Groundwater withdrawals were estimated using land-cover data, precipitation data, and published crop water-use data. For fields irrigated with surface water and groundwater, surface-water deliveries were subtracted from the estimated net irrigation requirement, and groundwater withdrawal was assumed to be equal to any demand unmet by surface water.The groundwater-flow model was calibrated to measured groundwater levels and stream base flows estimated using the base-flow index method. The model was calibrated through automated adjustments using statistical techniques through parameter estimation using the parameter estimation suite of software (PEST). PEST was used to adjust 273 parameters, grouped as hydraulic conductivity of the aquifer, spatial multipliers to recharge, temporal multipliers to recharge, and two specific recharge parameters. Base flow of the North Platte River at Bridgeport, Nebraska, streamgage near the eastern, downstream end of the model was one of the primary calibration targets. Simulated base flow reasonably matched estimated base flow for this streamgage during 1950–2008, with an average difference of 15 percent. Overall, 1950–2008 simulated base flow followed the trend of the estimated base flow reasonably well, in cases with generally increasing or decreasing base flow from the start of the simulation to the end. Simulated base flow also matched estimated base flow reasonably well for most of the North Platte River tributaries with estimated base flow. Average simulated groundwater budgets during 1989–2008 were nearly three times larger for irrigation seasons than for non-irrigation seasons.The calibrated groundwater-flow model was used with the Groundwater-Management Process for the 2005 version of the U.S. Geological Survey modular three-dimensional groundwater model, MODFLOW–2005, to provide a tool for the NPNRD to better understand how water-management decisions could affect stream base flows of the North Platte River at Bridgeport, Nebr., streamgage in a future period from 2008 to 2019 under varying climatic conditions. The simulation-optimization model was constructed to analyze the maximum increase in simulated stream base flow that could be obtained with the minimum amount of reductions in groundwater withdrawals for irrigation. A second analysis extended the first to analyze the simulated base-flow benefit of groundwater withdrawals along with application of intentional recharge, that is, water from canals being released into rangeland areas with sandy soils. With optimized groundwater withdrawals and intentional recharge, the maximum simulated stream base flow was 15–23 cubic feet per second (ft3/s) greater than with no management at all, or 10–15 ft3/s larger than with managed groundwater withdrawals only. These results indicate not only the amount that simulated stream base flow can be increased by these management options, but also the locations where the management options provide the most or least benefit to the simulated stream base flow. For the analyses in this report, simulated base flow was best optimized by reductions in groundwater withdrawals north of the North Platte River and in the western half of the area. Intentional recharge sites selected by the optimization had a complex distribution but were more likely to be closer to the North Platte River or its tributaries. Future users of the simulation-optimization model will be able to modify the input files as to type, location, and timing of constraints, decision variables of groundwater withdrawals by zone, and other variables to explore other feasible management scenarios that may yield different increases in simulated future base flow of the North Platte River

Selected Approaches to Estimate Water-budget Components of the High Plains, 1940 through 1949 and 2000 through 2009

The High Plains aquifer, underlying almost 112 million acres in the central United States, is one of the largest aquifers in the Nation. It is the primary water supply for drinking water, irrigation, animal production, and industry in the region. Expansion of irrigated agriculture throughout the past 60 years has helped make the High Plains one of the most productive agricultural regions in the Nation. Extensive withdrawals of groundwater for irrigation have caused water-level declines in many parts of the aquifer and increased concerns about the long-term sustainability of the aquifer.Quantification of water-budget components is a prerequisite for effective water-resources management. Components analyzed as part of this study were precipitation, evapotranspiration, recharge, surface runoff, groundwater discharge to streams, groundwater fluxes to and from adjacent geologic units, irrigation, and groundwater in storage. These components were assessed for 1940 through 1949 (representing conditions prior to substantial groundwater development and referred to as “pregroundwater development” throughout this report) and 2000 through 2009. Because no single method can perfectly quantify the magnitude of any part of a water budget at a regional scale, results from several methods and previously published work were compiled and compared for this study when feasible. Results varied among the several methods applied, as indicated by the range of average annual volumes given for each component listed in the following paragraphs.Precipitation was derived from three sources: the Parameter-Elevation Regressions on Independent Slopes Model, data developed using Next Generation Weather Radar and measured precipitation from weather stations by the Office of Hydrologic Development at the National Weather Service for the Sacramento-Soil Moisture Accounting model, and precipitation measured at weather stations and spatially distributed using an inverse-distance-weighted interpolation method. Precipitation estimates using these sources, as a 10-year average annual total volume for the High Plains, ranged from 192 to 199 million acre-feet (acre-ft) for 1940 through 1949 and from 185 to 199 million acre-ft for 2000 through 2009.Evapotranspiration was obtained from three sources: the National Weather Service Sacramento-Soil Moisture Accounting model, the Simplified-Surface-Energy-Balance model using remotely sensed data, and the Soil-Water-Balance model. Average annual total evapotranspiration estimated using these sources was 148 million acre-ft for 1940 through 1949 and ranged from 154 to 193 million acre-ft for 2000 through 2009. The maximum amount of shallow groundwater lost to evapotranspiration was approximated for areas where the water table was within 5 feet of land surface. The average annual total volume of evapotranspiration from shallow groundwater was 9.0 million acre-ft for 1940 through 1949 and ranged from 9.6 to 12.6 million acre-ft for 2000 through 2009.Recharge was estimated using two soil-water-balance models as well as previously published studies for various locations across the High Plains region. Average annual total recharge ranged from 8.3 to 13.2 million acre-ft for 1940 through 1949 and from 15.9 to 35.0 million acre-ft for 2000 through 2009.Surface runoff and groundwater discharge to streams were determined using discharge records from streamflow-gaging stations near the edges of the High Plains and the Base-Flow Index program. For 1940 through 1949, the average annual net surface runoff leaving the High Plains was 1.9 million acre-ft, and the net loss from the High Plains aquifer by groundwater discharge to streams was 3.1 million acre-ft. For 2000 through 2009, the average annual net surface runoff leaving the High Plains region was 1.3 million acre-ft and the net loss by groundwater discharge to streams was 3.9 million acre-ft.For 2000 through 2009, the average annual total estimated groundwater pumpage volume from two soil-water-balance models ranged from 8.7 to 16.2 million acre-ft. Average annual irrigation application rates for the High Plains ranged from 8.4 to 16.2 inches per year. The USGS Water-Use Program published estimated total annual pumpage from the High Plains aquifer for 2000 and 2005. Those volumes were greater than those estimated from the two soil-water-balance models.Total groundwater in storage in the High Plains aquifer was estimated as 3,173 million acre-ft prior to groundwater development and 2,907 million acre-ft in 2007. The average annual decrease of groundwater in storage between 2000 and 2007 was 10 million acre-ft per year

Guidelines for the use and interpretation of assays for monitoring autophagy

In 2008 we published the first set of guidelines for standardizing research in autophagy. Since then, research on this topic has continued to accelerate, and many new scientists have entered the field. Our knowledge base and relevant new technologies have also been expanding. Accordingly, it is important to update these guidelines for monitoring autophagy in different organisms. Various reviews have described the range of assays that have been used for this purpose. Nevertheless, there continues to be confusion regarding acceptable methods to measure autophagy, especially in multicellular eukaryotes. A key point that needs to be emphasized is that there is a difference between measurements that monitor the numbers or volume of autophagic elements (e.g., autophagosomes or autolysosomes) at any stage of the autophagic process vs. those that measure flux through the autophagy pathway (i.e., the complete process); thus, a block in macroautophagy that results in autophagosome accumulation needs to be differentiated from stimuli that result in increased autophagic activity, defined as increased autophagy induction coupled with increased delivery to, and degradation within, lysosomes (in most higher eukaryotes and some protists such as Dictyostelium) or the vacuole (in plants and fungi). In other words, it is especially important that investigators new to the field understand that the appearance of more autophagosomes does not necessarily equate with more autophagy. In fact, in many cases, autophagosomes accumulate because of a block in trafficking to lysosomes without a concomitant change in autophagosome biogenesis, whereas an increase in autolysosomes may reflect a reduction in degradative activity. Here, we present a set of guidelines for the selection and interpretation of methods for use by investigators who aim to examine macroautophagy and related processes, as well as for reviewers who need to provide realistic and reasonable critiques of papers that are focused on these processes. These guidelines are not meant to be a formulaic set of rules, because the appropriate assays depend in part on the question being asked and the system being used. In addition, we emphasize that no individual assay is guaranteed to be the most appropriate one in every situation, and we strongly recommend the use of multiple assays to monitor autophagy. In these guidelines, we consider these various methods of assessing autophagy and what information can, or cannot, be obtained from them. Finally, by discussing the merits and limits of particular autophagy assays, we hope to encourage technical innovation in the field

Erratum to: Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition) (Autophagy, 12, 1, 1-222, 10.1080/15548627.2015.1100356

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