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  • 3
    Publication Date: 2012-11-01
    Electronic ISSN: 1940-3372
    Topics: Biology
    Published by Wiley
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  • 4
    Publication Date: 2012-11-01
    Electronic ISSN: 1940-3372
    Topics: Biology
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  • 5
    Publication Date: 2012
    Description: Abstract Experimental study of the effects of projected climate change on plant phenology allows us to isolate effects of warming on life history events such as leaf out. We simulated a 2°C temperature increase and 20% precipitation increase in a recently harvested temperate deciduous forest community in central Pennsylvania, USA, and observed the leaf out phenology of all species in 2009 and 2010. Over 130 plant species were monitored weekly in study plots, but due to high variability in species composition among plots, species were grouped into five functional groups: short forbs, tall forbs, shrubs, small trees, and large trees. Tall forbs and large trees, which usually emerge in the late spring, advanced leaf out 14‐18 days in response to warming. Short forbs, shrubs, and small trees emerge early in spring and did not alter their phenology in response to warming or increased precipitation treatments. Earlier leaf out of tall forbs and large trees coincided with almost three weeks of increased community‐level leaf area index (LAI), indicating greater competition and a condensed spring green‐up period. While phenology of large trees and tall forbs appears to be strongly influenced by temperature‐based growth cues, our results suggest that photoperiod and chilling cues more strongly influence the leaf out of other functional groups. Reduced freeze events and warmer temperatures from predicted climate change will interact with non‐temperature growth cues to have cascading consequences throughout the ecosystem.
    Print ISSN: 1354-1013
    Electronic ISSN: 1365-2486
    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 6
    Publication Date: 2012-03-09
    Description: We examined the relationships between large wood (LW) export and precipitation patterns and intensity by analyzing the data on the annual volume of LW removed from 42 reservoirs and the daily precipitation at or near the reservoir sites. We also calculated the effective precipitation by considering the antecedent precipitation. Both daily and effective precipitation data were used as explanatory variables to explain LW export. The model selection revealed that the precipitation pattern and intensity controlling LW export varied with latitude in the Japanese archipelago. In small watersheds with narrow channel widths and low discharges, mass movements, such as landslides and debris flows, are major factors in the production and transport of LW. In this case, the effective precipitation required to initiate mass movements regulated the LW export and did not vary with the latitude. In intermediate and large watersheds with wide channel widths and high stream discharges, heavy rainfall and subsequent floods regulated buoyant depth, influencing the initiation of LW movement. In southern and central Japan, intense rainfall accompanied by typhoons or localized torrential downpours causes geomorphic disturbances, which introduce abundant pieces of LW into the channels. However, these pieces continue to be removed by repeated rainfall events. Therefore, LW export is supply-limited and potentially produces less LW accumulation. Conversely, in northern Japan, where typhoons and torrential downpours are rare, LW export is transport-limited because LW pieces recruited by bank erosion, tree mortality, and windthrow accumulate and persist on valley floors. These pieces may be easily exported by infrequent flooding.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 7
    Publication Date: 2012-03-09
    Description: We developed a method to measure in situ the isotopic composition of liquid water with minimal supervision and, most important, with a temporal resolution of less than a minute. For this purpose a microporous hydrophobic membrane contactor (Membrana) was combined with an isotope laser spectrometer (Picarro). The contactor, originally designed for degassing liquids, was used with N2 as a carrier gas in order to transform a small fraction of liquid water to water vapor. The generated water vapor was then analyzed continuously by the Picarro analyzer. To prove the membrane's applicability, we determined the specific isotope fractionation factor for the phase change through the contactor's membrane across an extended temperature range (8°C–21°C) and with different waters of known isotopic compositions. This fractionation factor is needed to subsequently derive the liquid water isotope ratio from the measured water vapor isotope ratios. The system was tested with a soil column experiment, where the isotope values derived with the new method corresponded well (R2 = 0.998 for δ18O and R2 = 0.997 for δ2H) with those of liquid water samples taken simultaneously and analyzed with a conventional method (cavity ring-down spectroscopy). The new method supersedes taking liquid samples and employs only relatively cheap and readily available components. This makes it a relatively inexpensive, fast, user-friendly, and easily reproducible method. It can be applied in both the field and laboratory wherever a water vapor isotope analyzer can be run and whenever real-time isotope data of liquid water are required at high temporal resolution.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 8
    Publication Date: 2012-03-09
    Description: Transit time of discharge is a hydrological characteristic used in water resource management. Previous studies have demonstrated large spatial variation in the mean transit time (MTT) of stream base flow in meso-scale catchments. Various relationships between topography and MTT have been reported. Although it is generally assumed that base flow MTT is controlled by the depth of the hydrologically active layer that recharges a stream, this hypothesis has not been tested in field studies. This study confirmed that the depth of hydrologically active soil and bedrock controls spatial variation in MTT. The study used isotopic and geochemical tracer data gathered in the 4.27 km2 Fudoji catchment, central Japan. The results, together with previously documented relationships between topography and MTT, indicate that the depth of the hydrologically active layer is sometimes, but not always, related to topography. A comprehensive understanding of the factors that control base flow production in mountainous catchments will require further study of the water flow path depths that recharge streams.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 9
    Publication Date: 2012-03-10
    Description: Ecology, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 0012-9658
    Electronic ISSN: 1939-9170
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 10
    Publication Date: 2012-03-10
    Description: This paper examines the long-term historical changes in frequency and amplitude of hydroclimatic extremes in the Blue Nile basin using data from the second half of 20th century. The temporal variability of basin-wide rainfall extremes and river flow extremes from four gauging stations was investigated under the hypothesis of no trend and no persistence in time. On the basis of a quantile anomaly analysis method, decadal variations in extreme daily, monthly, and annual quantiles were studied, and the periods of statistical significance were identified. The analysis showed that high and low river flows and rainfall depths do not vary in time in a fully random way but show a particular variation pattern. Their extremes show significant decadal variations. The 1980s had statistically significant negative anomalies in extremes in comparison with the long-term reference period of 1964–2009, while the 1960s–1970s and the 1990s–2000s had positive anomalies, although less significant. There is neither consistent increasing nor decreasing trend in rainfall and flow extremes of recent years. Therefore, anticipated trends due to global warming could not be identified. Conversely, low-flow extremes show an increasing trend during the last decade, which could be related to the effect of water regulation works at the outlet of Lake Tana. Moreover, similar patterns and statistically significant correlations were found between climatic indices representing the Pacific and Atlantic Oceans and the Blue Nile rainfall and flow extremes. Changes that occur on the Pacific Ocean appear to be a main driver for the decadal oscillations in climate and related high and low Blue Nile water availability for Ethiopia, Sudan, and Egypt.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 11
    Publication Date: 2012-02-24
    Description: Ecology, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 0012-9658
    Electronic ISSN: 1939-9170
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 12
    Publication Date: 2012-02-22
    Description: At least half of the world's population resides in the coastal zone and the livelihoods of billions of people are affected either directly or indirectly by the production and sustainability of nearshore fisheries. Landscape change, specifically development of tree plantations, is accelerating worldwide as developing countries integrate into global markets to sell goods, offer climate-mitigation services (carbon), and/or provide renewable energy. These changes can release excess nutrients into adjacent coastal waters causing eutrophication that alters the structure and function of coastal ecosystems. This study examined the relationship between coastal drainage basin land use/ land cover change (LCLUC), specifically development of tree plantations, patterns of chlorophyll a in nearshore coastal waters, and the biological condition of commercially important shellfish, Concholepas concholepas ( loco ) in southern Chile. Locos (N= 1,374) were sampled across 13 watersheds (35,853 km 2 ) and 42 fisheries management areas (spanning 250 km of coastline). Locos harvested from management areas influenced by tree plantations had approximately 30% more endobiont (shell-boring) phoronids, almost twice as many endobiont polychaetes and twice as many epibiont (shell-attaching) barnacles than locos from areas in close proximity to watersheds dominated by native forests (15-20% of the watershed). Phoronid infested locos from coastal waters adjacent to watersheds with tree plantations were of relatively poor biological condition (smaller and narrower in width) and of reduced market value. Our study suggests that tree plantations result in indirect ecological impacts to coastal fisheries (more nutrients and higher phytoplankton biomass, resulting in smaller, low quality locos), and costs are born by coastal fishers (lower prices for locos). Increases in tree plantations could thus potentially significantly impact coastal fisheries worldwide and such problems should be managed as an interconnected network of land use change, oceanic ecosystems, and economic systems that are considered an integrated socio-ecological system.
    Print ISSN: 1354-1013
    Electronic ISSN: 1365-2486
    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 13
    Publication Date: 2012-02-22
    Description: Glacial retreat creates new habitat which is colonised and developed by plants and animals during the process of primary succession. While there has been much debate about the relative role of deterministic and stochastic processes during terrestrial succession, evidence from freshwater ecosystems remains minimal and a general consensus is lacking. Using a unique 27 year record of community assembly following glacial recession in southeast Alaska, we demonstrate significant change in the trait composition of stream invertebrate communities as catchment glacial cover decreased from 〉70% to zero. Functional diversity increased significantly as glacier cover decreased and taxonomic richness increased. Null modelling approaches led to a key finding that niche filtering processes were dominant when glacial cover was extensive, reflecting water temperature and dispersal constraints. Thereafter the community shifted towards co-occurrence of stochastic and deterministic assembly processes. A further novel discovery was that intrinsic functional redundancy developed throughout the study, particularly because new colonisers possessed similar traits to taxa already present. Rapid glacial retreat is occurring in Arctic and alpine environments worldwide and the assembly processes observed in this study provide new fundamental insights into how glacially influenced stream ecosystems will respond. These findings support tolerance as a key primary successional mechanism in this system, and have broader value for developing our understanding of how biological communities in river ecosystems assemble or restructure in response to environmental change.
    Print ISSN: 1354-1013
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    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 14
    Publication Date: 2012-02-22
    Description: Few studies exist on infiltration processes in badlands, although infiltration and subsurface lateral flows are known to contribute to soil erosion and to control slope instability. Our investigation was carried out in a 100 m² plot located in a 0.5 ha landslide in black marls (South-East France). An artificial sprinkling was performed with an intensity of 10 mm.h -1 during 66.4 h interrupted with 8.4 h. breaks. KBr and KCl were used as tracers. A pseudo-steady state was reached after 25-35 hours and 250-350 mm of rainfall. The runoff coefficient was 40% (ratio total runoff volume/total sprinkling water amount). Pre-event water (PE) contributed to the groundwater recharge at the very beginning of the experiment but PE contribution dropped steadily while the soil was saturating. After around 200 mm cumulative rainfall, PE contribution started to rise steeply before reaching a nearly constant value. This original mechanism implies an efficient transfer process of PE. It was assumed from the description of the material structure and from hydrological evidences that PE was mainly drained from a structure porosity made of the marl's flaked nature. Total pre-event water contributions ranged from 25 to 79 % (PE contribution was over 50 % in 2/3 of the observations wells). Over the recession phase, release of pre-event water occurred from the drainage of a texture porosity. The study showed that at the plot scale, infiltration processes proved well organised despite the high heterogeneity and anisotropy of the material. It was possible to propose a general conceptual model explaining the hydrological processes over time and area. The peculiar structure of regolith originating from black marl is preserved over a large part of the weathering time, so that the material structure (type, orientation of grains, small/large pores) remains a first order control of water flow generation in Black marl soils. Copyright © 2012 John Wiley & Sons, Ltd.
    Print ISSN: 0885-6087
    Electronic ISSN: 1099-1085
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 15
    Publication Date: 2012-02-22
    Description: In this work, the multifractal properties of hourly rainfall data recorded at a location in Southern Spain have been related to the scale properties of the corresponding Intensity-Duration-Frequency (IDF) curves. Four parametric models for the IDF curves have been fitted to the quantiles of rainfall obtained by using the Generalized Pareto frequency distribution function with the extreme data series obtained for the same place. The scaling of the rainfall intensity moments has been analysed and the empirical moments scaling exponent function has been obtained. The corresponding values of q 1 and γ 1 have been empirical and theoretically calculated and compared to some characteristics of the different IDF models. Thus, the scaling behaviour of IDF curves has been analysed and the best model has been selected. Copyright © 2012 John Wiley & Sons, Ltd.
    Print ISSN: 0885-6087
    Electronic ISSN: 1099-1085
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  • 16
    Publication Date: 2012-02-22
    Description: Major sources of greenhouse gas (GHG) emissions from agricultural crop production are nitrous oxide (N 2 O) emissions resulting from the application of mineral and organic fertiliser, and carbon dioxide (CO 2 ) emissions from soil carbon losses. Consequently, choice of fertiliser type, optimising fertiliser application rates and timing, reducing microbial denitrification and improving soil carbon management are focus areas for mitigation. We have integrated separate models derived from global data on fertiliser induced soil N 2 O emissions, soil nitrification inhibitors, and the effects of tillage and soil inputs of soil C stocks into a single model in order to determine optimal mitigation options as a function of soil type, climate, and fertilisation rates. After Monte Carlo sampling of input variables we aggregated the outputs according to climate, soil and fertiliser factors to consider the benefits of several possible emissions mitigation strategies, and identified the most beneficial option for each factor class on a per hectare basis. The optimal mitigation for each soil-climate-region was then mapped to propose geographically specific optimal GHG mitigation strategies for crops with varying N requirements. The use of empirical models reduces the requirements for validation (since they are calibrated on globally or continentally observed phenomena). However, since they are relatively simple in structure, they may not be applicable for accurate site specific prediction of GHG emissions. The value of this modelling approach is for initial screening and ranking of potential agricultural mitigation options and to explore the potential impact of regional agricultural GHG abatement policies. Given the clear association between management practice and crop productivity, it is essential to incorporate characterisation of the yield effect on a given crop before recommending any mitigation practice.
    Print ISSN: 1354-1013
    Electronic ISSN: 1365-2486
    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 17
    Publication Date: 2012-02-22
    Description: Biogeochemical cycles in the coastal ocean are changing and will continue to change in response to a changing climate. Effects on the oxygen and carbon cycles are particularly important, as either episodic or permanent shifts toward lower oxygen and/or higher inorganic carbon conditions can impact coastal ecosystems negatively. Here we study the sensitivity of these cycles to changes that may occur in the coastal ocean, focusing on a summer wind-driven upwelling region off southern Vancouver Island shelf. We use a quasi 2-D configuration of the Regional Ocean Modeling System (ROMS) to perform six sensitivity experiments. Results indicate that carbon and oxygen cycles in this region may be significantly affected by an altered upwelling season, a shallower offshore Oxygen Minimum Zone, and a carbon-enriched environment. Combinations of these scenarios suggest a potentially increasing risk for the development of coastal hypoxia and corrosive conditions in the region.
    Print ISSN: 0148-0227
    Topics: Biology , Geosciences
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 18
    Publication Date: 2012-02-24
    Description: Longitudinal and diel measurements of dual isotope composition (δ15N and δ18O) in nitrate (NO3-N) were made in the Ichetucknee River, a large (∼8 m3 s−1), entirely spring-fed river in North Florida, to determine whether isotopic variation can deconvolve assimilatory and dissimilatory removal. Comparing nitrate concentrations and isotope composition during the day and night we predicted (1) daytime declines in total fractionation due to low assimilatory fractionation and (2) diurnal variation in dual isotope coupling between 1:1 (assimilation) and 2:1 (denitrification). Five daytime longitudinal transects comprising 10 sampling stations showed consistent NO3-N removal (25–35% of inputs) and modest fractionation (15εtotal between −2 and −6‰, enriching the residual nitrate pool). Lower fractionation (by ∼1‰) during two nighttime transects, suggests higher fractionation due to assimilation than denitrification. Total fractionation was significantly negatively associated with discharge, input [NO3-N], N mass removal, and fractional water loss. Despite well-constrained mass balance estimates that denitrification dominated total N removal, isotope coupling was consistently 1:1, both for longitudinal and diel sampling. Hourly samples on two dates at the downstream location showed significant diel variation in concentration ([NO3-N] amplitude = 60 to 90 μg N L−1) and isotope composition (δ15N amplitude = −0.7‰ to −1.6‰). Total fractionation differed between day and night only on one date but estimated assimilatory fractionation assuming constant denitrification was highly variable and implausibly large (for N, 15ε = −2 to −25‰), suggesting that fractionation and removal due to denitrification is not diurnally constant. Pronounced counterclockwise hysteresis in the relationship between [NO3-N] and δ15N suggests diel variation in N isotope dynamics. Together, low fractionation, isotope versus concentration hysteresis, and consistent 1:1 isotope coupling suggests that denitrification is controlled by NO3− diffusion into the benthic sediments, the length of which is mediated by riverine oxygen dynamics. While using dual isotope behavior to deconvolve removal pathways was not possible, isotope measurements did yield valuable information about riverine N cycling and transformations.
    Print ISSN: 0148-0227
    Topics: Biology , Geosciences
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  • 19
    Publication Date: 2012-02-25
    Description: Thermokarst lakes are thought to have been an important source of methane (CH4) during the last deglaciation when atmospheric CH4 concentrations increased rapidly. Here we demonstrate that meltwater from permafrost ice serves as an H source to CH4 production in thermokarst lakes, allowing for region-specific reconstructions of δDCH4 emissions from Siberian and North American lakes. δDCH4 reflects regionally varying δD values of precipitation incorporated into ground ice at the time of its formation. Late Pleistocene-aged permafrost ground ice was the dominant H source to CH4 production in primary thermokarst lakes, whereas Holocene-aged permafrost ground ice contributed H to CH4 production in later generation lakes. We found that Alaskan thermokarst lake δDCH4 was higher (−334 ± 17‰) than Siberian lake δDCH4 (−381 ± 18‰). Weighted mean δDCH4 values for Beringian lakes ranged from −385‰ to −382‰ over the deglacial period. Bottom-up estimates suggest that Beringian thermokarst lakes contributed 15 ± 4 Tg CH4 yr−1 to the atmosphere during the Younger Dryas and 25 ± 5 Tg CH4 yr−1 during the Preboreal period. These estimates are supported by independent, top-down isotope mass balance calculations based on ice core δDCH4 and δ13CCH4 records. Both approaches suggest that thermokarst lakes and boreal wetlands together were important sources of deglacial CH4.
    Print ISSN: 0148-0227
    Topics: Biology , Geosciences
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  • 20
    Publication Date: 2012-03-13
    Description: As part of the Mercury Experiment to Assess Atmospheric Loading in Canada and the U.S. (METAALICUS), different stable Hg(II) isotope spikes were applied to the upland and wetland areas of a boreal catchment between 2001 and 2006 to examine retention of newly deposited Hg(II). In the present study, a Geographical Information Systems (GIS)-based approach was used to quantify canopy and ground vegetation pools of experimentally applied upland and wetland spike Hg within the METAALICUS watershed over the terrestrial loading phase of the experiment. A chemical kinetic model was also used to describe the changes in spike Hg concentrations of canopy and ground vegetation over time. An examination of the fate of spike Hg initially present on canopy vegetation using a mass balance approach indicated that the largest percentage flux from the canopy over one year post-spray was emission to the atmosphere (upland: 45%; wetland: 71%), followed by litterfall (upland: 14%; wetland: 10%) and throughfall fluxes (upland: 12%; wetland: 9%) and longer term retention of spike in the forest canopy (11% for both upland and wetland). Average half-lives (t1/2) of spike on deciduous (110 ± 30 days) and coniferous (180 ± 40 days) canopy and ground vegetation (890 ± 620 days) indicated that retention of new atmospheric Hg(II) on terrestrial (especially ground) vegetation delays downward transport of new atmospheric Hg(II) into the soil profile and runoff into lakes.
    Print ISSN: 0886-6236
    Electronic ISSN: 1944-9224
    Topics: Biology , Chemistry and Pharmacology , Geography , Geosciences , Physics
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  • 21
    Publication Date: 2012-03-14
    Description: Climate change may considerably impact the carbon (C) dynamics and C stocks of forest soils. To assess the combined effects of warming and reduced precipitation on soil CO 2 efflux, we conducted a two-way factorial manipulation experiment (4 °C soil warming + throughfall exclusion) in a temperate spruce forest from 2008 until 2010. Soil was warmed by heating cables throughout the growing seasons. Soil drought was simulated by throughfall exclusions with three 100 m 2 roofs during 25 days in July/August 2008 and 2009. Soil warming permanently increased the CO 2 efflux from soil whereas throughfall exclusion led to a sharp decrease in soil CO 2 efflux (45% and 50% reduction during roof installation in 2008 and 2009, respectively). In 2008, CO 2 efflux did not recover after natural rewetting and remained lowered until autumn. In 2009, CO 2 efflux recovered shortly after rewetting, but relapsed again for several weeks. Drought offset the increase in soil CO 2 efflux by warming in 2008 (growing season CO 2 efflux in t C ha −1 : control: 7.1 ± 1.0; warmed: 9.5 ± 1.7; warmed + roof: 7.4 ± 0.3; roof: 5.9 ± 0.4) and in 2009 (control: 7.6 ± 0.8; warmed + roof: 8.3 ± 1.0). Throughfall exclusion mainly affected the organic layer and the top 5 cm of the mineral soil. Radiocarbon data suggest that heterotrophic and autotrophic respiration were affected to the same extent by soil warming and drying. Microbial biomass in the mineral soil (0 - 5 cm) was not affected by the treatments. Our results suggest that warming causes significant C losses from the soil as long as precipitation patterns remain steady at our site. If summer droughts become more severe in the future, warming induced C losses will likely be offset by reduced soil CO 2 efflux during and after summer drought.
    Print ISSN: 1354-1013
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    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 22
    Publication Date: 2012-03-14
    Description: Major-ion compositions of groundwater are employed in this study of the water-rock interactions and hydrogeochemical evolution within a carbonate aquifer system. The groundwater samples were collected from boreholes or underground tunnels in the Ordovician limestone of Yanzhou Coalfield where catastrophic groundwater inflows can be hazardous to mining and impact use of the groundwater as a water supply. The concentration of TDS ranged from 961 to 3,555 mg/l and indicates moderately to highly mineralized water. The main water-type of the middle Ordovician limestone groundwater is Ca-Mg-SO 4 , with SO 4 2- ranging from 537 mg/l to 2,297 mg/l, and average values of Ca 2+ and Mg 2+ of 455.7 mg/l and 116.6 mg/l, respectively. The water samples were supersaturated with respect to calcite and dolomite and undersaturated or saturated with respect to gypsum. Along the general flow direction, deduced from increases of TDS and Cl - , the main water-rock interactions that caused hydrogeochemical evolution of the groundwater within the aquifer were the dissolution of gypsum, the precipitation of calcite, the dissolution or precipitation of dolomite, and ion exchange. Ion exchange is the major cause for the lower mole concentration of Ca 2+ than that of SO 4 2- . The groundwater level of Ordovician aquifer is much higher than that of C-P coal-bearing aquifers, so the potential flow direction is upward and the pyrite in coal is not a possible source of sulfate, additional data on the stable sulfur and oxygen isotopic composition of the sulfate may be helpful to identify its origin. Although ion exchange probably accounts for the higher mole concentration of Na + than that of Cl - , the dissolution of aluminosilicate can not be ruled out. The data evaluation methods and results of this study could be useful in other areas to understand flow paths in aquifers and to provide information needed to identify the origin of groundwater. Copyright © 2012 John Wiley & Sons, Ltd.
    Print ISSN: 0885-6087
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  • 23
    Publication Date: 2012-03-14
    Description: We present a lake-wide investigation of Lake Superior carbon and organic matter biogeochemistry using radiocarbon, stable isotope, and carbon concentrations. Dissolved inorganic carbon (DIC) abundance in the lake was 121–122 Tg C, with offshore concentration and δ13C values being laterally homogenous and tightly coupled to the physical and thermal regime and biochemical processes. Offshore Δ14C of DIC (50–65‰) exhibited lateral homogeneity and was more 14C enriched than co-occurring atmospheric CO2 (∼38‰); nearshore Δ14C of DIC (36–38‰) was similar to atmospheric CO2. Dissolved organic carbon (DOC) abundance was 14.2–16.4 Tg C. DOC's concentration and δ13C were homogenous in June (mixed lake), but varied laterally during August (stratification) possibly due to spatial differences in lake productivity. Throughout sampling, DOC had modern radiocarbon values (14–58‰) indicating a semilabile nature with a turnover time of ≤60 years. Lake particulate organic carbon (POC, 0.9–1.3 Tg C) was consistently 13C depleted relative to DOC. The δ15N of epilimnetic particulate organic nitrogen shifted to more negative values during stratification possibly indicating greater use of nitrate (rather than ammonium) by phytoplankton in August. POC's radiocarbon was spatially heterogeneous (Δ14C range: 58‰ to −303‰), and generally 14C depleted relative to DOC and DIC. POC 14C depletion could not be accounted for by black carbon in the lake but, because of its spatial and temporal distribution, is attributed to sediment resuspension. The presence of old POC within the epilimnion of the open lake indicates possible benthic-pelagic coupling in the lake's organic carbon cycle; the ultimate fate of this old POC bears further investigation.
    Print ISSN: 0886-6236
    Electronic ISSN: 1944-9224
    Topics: Biology , Chemistry and Pharmacology , Geography , Geosciences , Physics
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  • 24
    Publication Date: 2012-03-14
    Description: Quantitative evaluation of the effect of climate variability and human activities on runoff is of great importance for water resources planning and management in term of maintaining the ecosystem integrity and sustaining the society development. In this paper, hydro-climatic data from 4 catchments (i.e., Luanhe River Catchment, Chaohe River Catchment, Hutuo River Catchment and Zhanghe River Catchment) in the Haihe River Basin from 1957–2000 were used to quantitatively attribute the hydrological response (i.e., runoff) to climate change and human activities separately. To separate the attributes, the temporal trends of annual precipitation, potential evapotranspiration (PET) and runoff during 1957–2000 were first explored by the Man-Kendall test. Despite that only Hutuo River Catchment was dominated by significant negative trend in annual precipitation, all four catchments presented significant negative trend in annual runoff varying from −0.859 mm a -1 (Chaohe River) to −1.996 mm a -1 (Zhanghe River). Change points in 1977 and 1979 are detected by precipitation-runoff double cumulative curves method and Pettitt's test for Zhanghe River and other three rivers, respectively, and are adopted to divide data set into two study periods as the pre-change period and post-change period. Three methods including hydrological model method, hydrological sensitivity analysis method and climate elasticity method were calibrated with the hydro-climatic data during the pre-change period. And then, hydrological runoff response to climate variability and human activities were quantitatively evaluated with the help of the three methods and based on the assumption that climate and human activities are the only drivers for streamflow and are independent to each other. Similar estimates of anthropogenic and climatic effects on runoff for catchments considered can be obtained from the three methods. We found that human activities were the main driving factors for the decline in annual runoff in Luanhe River Catchment, Chaohe River Catchment and Zhanghe River Catchment, accounting for over 50% of runoff reduction. However, Climate variability should be responsible for the decrease in annual runoff in the Hutuo River Catchment. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 25
    Publication Date: 2012-03-14
    Description: Measurements of river water quality at Haridwar, India, taken during 2005 – 2006 show that the river water does not meet the WHO and Bureau of Indian Standards criteria of drinking water quality, especially with respect to total coliform and fecal-coliform. This study investigates the removal of pathogens at a river bank filtration (RBF) site in Haridwar. Using the quality of river water and the quality of abstracted water from a nearby production well, semi-empirical models based on the concept of filtration coefficient are developed and tested for their effectiveness in removing pathogens under varying bacteriological quality of source water. A two-tier model which includes the effect of clogged layer is developed to obtain an equivalent filtration coefficient. This coefficient is found to be linearly related with natural logarithm of the concentration of pathogens in the source water. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 26
    Publication Date: 2012-03-14
    Description: Nonpoint source pollution and hydromodification are the leading causes of impairment to our nation's rivers and streams. Roadside ditch networks, ubiquitous in both rural and urban landscapes, intercept and shunt substantial quantities of overland runoff and shallow groundwater to stream systems. By altering natural flowpaths, road ditches contribute not only to hydromodification but also potentially to nonpoint-source (NPS) pollution by acting as hydrologic links between agricultural fields and natural streams. Unfortunately, the impacts of these alterations on watershed hydrology and water quality are not well understood. Through a series of field measurements, including field surveys and discharge monitoring, this study examined the effect of road ditch networks on basin morphometry, field- and watershed-scale hydrology, and pollutant transport in a 38 km 2 agricultural watershed in south-central NY. Salient findings include: (i) 94% of road ditches discharged directly to natural streams, effectively doubling the drainage density, (ii) on average, road ditches increased peak and total event flows in their receiving streams by 78% and 57%, respectively, but displayed significant variation across ditches, (iii) ditches intercepted large quantities of surface and subsurface runoff from agricultural fields and therefore represent efficient conduits for the transport of agricultural NPS pollutants to sensitive receiving waterbodies. Our results provide useful information for hydrologists who wish to further understand how artificial drainage may be affecting watershed hydrology and for managers and engineers tasked with designing appropriate flood and NPS pollution control measures. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 27
    Publication Date: 2012-03-14
    Description: We coupled the process-based NIES Integrated Catchment-based Eco-hydrology (NICE) model to an urban canopy model (UCM) and the Regional Atmospheric Modeling System (RAMS) in order to simulate the effect of urban geometry and anthropogenic exhaustion on the hydrothermal changes in the atmospheric/land and the interfacial areas of the Japanese megalopolis. The simulation was conducted with multi-scale in horizontally regional–urban–point levels, and in vertically atmosphere–surface–unsaturated–saturated layers. The model reproduced reasonably the observed hydrothermal values by using ground-truth data in various types of natural/artificial land covers. The simulated results also suggested that the latent heat flux in new water-holding pavement (consisting of porous asphalt and water-holding filler made of steel by-products based on silica compound) has a strong impact on hydrologic cycle and cooling temperature in comparison with the observed heat budget by newly incorporating the effect of water amount on the heat conductivity in the pavement. Furthermore, the model predicted the hydrothermal changes under two types of land cover scenarios to promote evaporation and to reduce air temperature against heat island phenomenon. Finally, we evaluated the relationship between the effect of groundwater use to ameliorate the heat island and the effect of infiltration on the water cycle in the catchment. These procedures to integrate the multi-scaled model simulation with political scenario based on the effective management of water resources as heat sink/source would be very powerful approaches to recovering a sound hydrologic cycle and create thermally-pleasing environments in the megalopolis. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 28
    Publication Date: 2012-03-14
    Description: Soil and vadose zone profiles are used as an archive of changes in groundwater recharge and water quality following changes in land use in an area of the Loess Plateau of China. A typical rain-fed loess-terrace agriculture region in Hequan, Guyuan is taken as an example and multiple tracers (chloride mass balance, stable isotopes, tritium, and water chemistry) are used to examine groundwater recharge mechanisms and to evaluate soil water chloride as an archive for recharge rate and water quality. Results show that groundwater recharge beneath natural uncultivated grassland, used as a baseline, is about 94–100 mm yr -1 and the time it takes for annual precipitation to reach water table through the thick unsaturated zone is from decades to hundreds of years (tritium free). This recharge rate is 2–3 orders of magnitude more than in the other semiarid areas with similar annual rainfall and with deep rooted vegetation and relatively high temperature. Most of the water that eventually becomes recharge originally infiltrated in the summer months. The conversion from native grassland to winter wheat has reduced groundwater recharge by 42–50% (50–55 mm yr -1 for recharge), and from winter wheat to alfalfa resulted in a significant chloride accumulation in the upper soil zone which terminated deep drainage. The paper also evaluates the time lag between potential recharge and actual recharge to aquifer and between increase in solute concentration in soil moisture and that in the aquifer following land-use change due to the deep unsaturated zone. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 29
    Publication Date: 2012-03-14
    Description: Shallow upland drains, grips, have been hypothesized as responsible for increased downstream flow magnitudes. Observations provide counterfactual evidence, often relating to the difficulty of inferring conclusions from statistical correlation and paired catchment comparisons; and the complexity of designing field experiments to test grip impacts at the catchment-scale. Drainage should provide drier antecedent moisture conditions, providing more storage at the start of an event; but, grips have higher flow velocities than overland flow so potentially delivering flow more rapidly to the drainage network. We develop and apply a model for assessing the impacts of grips upon flow hydrographs. The model was calibrated on the gripped case; then the gripped case was compared with the intact case by removing all grips. This comparison showed that even given parameter uncertainty, the intact case had significantly higher flood peaks and lower baseflows, mirroring field observations of the hydrological response of intact peat. The simulations suggest that this is because delivery effects may not to translate into catchment-scale impacts for three reasons. First, in our case, the proportions of flow path lengths that were hillslope were not changed significantly by gripping. Second, the structure of the grip network as compared with the structure of the drainage basin mitigated against grip-related increases in the concentration of runoff in the drainage network, although it did marginally reduce the mean timing of that concentration at the catchment outlet. Third, the effect of the latter upon downstream flow magnitudes can only be assessed by reference to the peak timing of other tributary basins, emphasizing that drain effects are both relative and scale dependent. However, given the importance of hillslope flow paths, we show that if upland drainage causes significant changes in surface roughness on hillslopes, then critical and important feedbacks may impact upon the speed of hydrological response. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 30
    Publication Date: 2012-03-14
    Description: Natural soil pipes are found in peatlands but little is known about their hydrological role. This paper presents the most complete set of pipe discharge data to date from a deep blanket peatland in northern England. In a 17.4-ha catchment, we identified 24 perennially-flowing and 60 ephemerally-flowing pipe outlets. Eight pipe outlets along with the catchment outlet were continuously gauged over an 18-month period. The pipes in the catchment were estimated to produce around 13.7 % of annual streamflow with individual pipes often producing large peak flows (maximum peak of 3.8 L s -1 ). Almost all pipes, whether ephemeral, perennially-flowing, shallow or deep (outlets 〉 1 m below the peat surface), showed increased discharge within a mean of 3 hours after rainfall commencement and were dominated by stormflow, indicating good connectivity between the peatland surface and the pipes. However, almost all pipes had a longer time period between hydrograph peak and return to baseflow compared to the stream (mean of 23.9 hours for pipes, 19.7 hours for stream). As a result, the proportion of streamflow produced by the pipes at any given time increased at low flows and formed the most important component of stream discharge for the lowest 10 % of flows. Thus, a small number of perennially-flowing pipes became more important to the stream system under low flow conditions and probably received water via matrix flow during periods between storms. Given the importance of pipes to streamflow in blanket peatlands, further research is required into their wider role in influencing stream-water chemistry, water temperature and fluvial carbon fluxes, as well as their role in altering local hydrochemical cycling within the peat mass itself. Enhanced piping within peatlands caused by environmental change may lead to changes in streamflow regime with larger low flows and more prolonged drainage of the peat. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 31
    Publication Date: 2012-03-14
    Description: The hydrology of Quebec (Canada) boreal fens is poorly documented. Many peatlands are located in watersheds with impounded rivers. In such cases, their presence influences reservoir inflows. In recent years, some fens have been subjected to an increase of their wet area, a sign that they may be evolving towards an aquatic ecosystem. This dynamic process is referred to as aqualysis. This paper presents the seasonal and monthly hydrological budgets of a small watershed including a highly aqualysed fen (James Bay region). Monitoring of precipitation ( P ), runoff ( Q ) and groundwater levels ( WL ) was conducted during the ice-free season. Three semi-empirical equations (Thornthwaite, Priestley-Taylor and Penman-Monteith) were used and compared to calculate potential evapotranspiration ( PET ). The first two equations, having fewer parameters, estimate higher PET values than the third equation. The use of pressure level gauges installed in wells, for the calculation of peatland water storage, is inconclusive. Swelling of peat, peat decomposition and plant composition could be responsible for non-negligible amounts of absorbed water, which are not entirely accounted for by well levels. The estimation of peat matrix water storage is potentially the largest source of error and the limiting factor to calculate water balances in this environment. The results show that the groundwater level and the water storage vary depending on the season and especially after a heavy rainfall. Finally, the results illustrate the complexity of water routing through the site and, thus, raise several questions to be resolved in the future. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 32
    Publication Date: 2012-03-17
    Description: Ecological Applications, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 33
    Publication Date: 2012-03-16
    Description: A perturbation of the global carbon cycle has often been used for interpreting the Frasnian-Famennian (F-F) mass extinction. However, the changes of atmospheric CO2 level (pCO2) during this interval are much debatable. To illustrate the carbon cycle during F-F transition, paired inorganic (δ13Ccarb) and organic (δ13Corg) carbon isotope analyses were carried out on two late Devonian carbonate sequences (Dongcun and Yangdi) from south China. The larger amplitude shift of δ13Corg compared to δ13Ccarb and its resultant Δ13C (Δ13C = δ13Ccarb − δ13Corg) decrease indicate decreased atmospheric CO2 level around the F-F boundary. The onset of pCO2 level decrease predates that of marine regressions, which coincide with the beginning of conodont extinctions, suggesting that temperature decrease induced by decreased greenhouse effect of atmospheric CO2 might have contributed to the F-F mass extinction.
    Print ISSN: 0148-0227
    Topics: Biology , Geosciences
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  • 34
    Publication Date: 2012-03-15
    Description: Question Relationships between species richness and environmental drivers such as productivity and disturbance are sensitive to the scale over which they are measured, but the extent to which this scale-dependence is important for experimental studies conducted over small scale ranges is not well known. We ask whether the response of species richness to experimental manipulation of productivity and disturbance varies across small spatial scales (0.016–4 m 2 ). We show that species–area relationships are well suited to summarize cross-scale responses of species richness, and ask whether the responses of species–area relationships to experimental manipulations are more consistent than richness at any single scale. Location Northern Californian coastal grasslands. Methods We applied disturbance and productivity reduction treatments over 4 yr at two sites. We assessed changes in species richness over five grain sizes, encompassing a 256-fold range of plot size. This allowed us to construct a species–area relationship for each experimental plot in each sampling year. We used the slope of the species–area relationship to summarize changes in species richness across multiple spatial scales. Results Richness responses were scale-dependent and complex, causing changes at any one scale to be difficult to interpret. Disturbance either increased or had no effect on richness, while reducing productivity had idiosyncratic effects among sites, scales and years. Both treatments, however, had consistent and interpretable effects on the species–area relationship. Reducing productivity increased the slope of the species–area relationship, while disturbance decreased it. Conclusions Our results suggest that the productivity–richness and disturbance–richness relationships are scale-dependent, and that improved generality could be achieved by focusing attention on the response of the species–area relationship to these factors. We showed that experimental disturbance and reverse fertilization treatments can have scale-dependent effects on grassland species richness, even at small (0.016 – 4 m 2 ) scales. Richness responses at any one scale were idiosyncratic among sites and years, but characteristics of the species-area relationship were more predictable and consistent. We recommend increased focus on responses of the species-area relationship to experimental manipulations.
    Print ISSN: 1100-9233
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  • 35
    Publication Date: 2012-03-11
    Description: Ecology, Volume 93, Issue 1, Page 9-16, January 2012.
    Print ISSN: 0012-9658
    Electronic ISSN: 1939-9170
    Topics: Biology
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  • 36
    Publication Date: 2012-03-11
    Description: Ecology, Volume 93, Issue 1, Page 111-121, January 2012.
    Print ISSN: 0012-9658
    Electronic ISSN: 1939-9170
    Topics: Biology
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  • 37
    Publication Date: 2012-03-11
    Description: Emissions of the trace gas nitrous oxide (N 2 O) play an important role for the greenhouse effect and stratospheric ozone depletion, but the impacts of climate change on N 2 O fluxes and the underlying microbial drivers remain unclear. The aim of this study was to determine effects of sustained climate change on field N 2 O fluxes and associated microbial enzymatic activities, microbial population abundance and community diversity in an extensively managed, upland grassland. We recorded N 2 O fluxes, nitrification and denitrification, microbial population size involved in these processes and community structure of nitrite reducers ( nir K) in a grassland exposed for four years to elevated atmospheric CO 2 (+ 200 ppm), elevated temperature (+ 3.5°C) and reduction of summer precipitations (-20%) as part of a long-term, multifactor climate change experiment. Our results showed that both warming and simultaneous application of warming, summer drought and elevated CO 2 had a positive effect on N 2 O fluxes, nitrification, N 2 O release by denitrification and the population size of N 2 O reducers and NH 4 oxidizers. In situ N 2 O fluxes showed a stronger correlation with microbial population size under warmed conditions compared with the control site. Specific lineages of nir K denitrifier communities responded significantly to temperature. In addition, nir K community composition showed significant changes in response to drought. Path analysis explained more than 85% of in situ N 2 O fluxes variance by soil temperature, denitrification activity and specific denitrifying lineages. Overall, our study underlines that climate-induced changes in grassland N 2 O emissions reflect climate-induced changes in microbial community structure, which in turn modify microbial processes.
    Print ISSN: 1354-1013
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    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 38
    Publication Date: 2012-03-11
    Description: Understanding how species and ecosystems respond to climate change requires spatially and temporally rich data for a diverse set of species and habitats, combined with models that test and predict responses. Yet current work is hampered by the long-known problems of inadequate management of data and insufficient description of analytical procedures, especially in the field of ecology. Despite recent institutional incentives to share data and new data archiving infrastructure, many ecologists do not archive and publish their data and code. Given current rapid rates of global change, the consequences of this are extreme: because an ecological dataset collected at a certain place and time represents an irreproducible set of observations, ecologists doing local, independent research possess, in their file cabinets and spreadsheets, a wealth of information about the natural world and how it is changing. Although large-scale initiatives will increasingly enable and reward open science, we believe that change demands action and personal commitment by individuals—from students and PIs. Here, we outline the major benefits of sharing data and analytical procedures in the context of global change ecology, and provide guidelines for overcoming common obstacles and concerns. If individual scientists and labs can embrace a culture of archiving and sharing we can accelerate the pace of the scientific method and redefine how local science can most robustly scale up to globally-relevant questions.
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  • 39
    Publication Date: 2012-03-11
    Description: Changes in C 4 grass distribution and abundance are frequently observed in Quaternary, Holocene and future environmental-change scenarios. However, the factors driving these dynamics are not fully understood, and conflicting theories have been reported. In this paper, we present a very large dataset of modern altitudinal distribution profiles of C 3 and C 4 grasses covering the entire Neotropical Andes, which was compared with actual climate data. The results of multivariate analysis demonstrate that, in the Neotropical Andes, mean annual temperature is the main factor governing the modern altitudinal distribution of C 3 and C 4 grass species. The C 3 and C 4 grass distributions were compared with simulations based on the Lund-Potsdam-Jena dynamic global vegetation model (LPJ-DGVM), which allowed the present grass distribution to be estimated. Finally, the DGVM was employed to simulate past and future scenarios, using the IPCC's climate projections for 2100 and PMIP2 models for the Holocene Optimum (HO, 6000 yrs BP) and the Last Glacial Maximum (LGM, 21000 yrs BP). The results were found to be significantly different to those obtained using a simple photosynthetic model. According to LPJ forced with the PMIP2 models for the LGM, during the LGM, the C 4 grasses would not have reached higher altitudes than found in the present day.
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  • 40
    Publication Date: 2012-02-04
    Description: Potential climate change effects on aspects of conjunctive management of water resources can be evaluated by linking climate models with fully integrated groundwater–surface water models. The objective of this study is to develop a modeling system that links global climate models with regional hydrologic models, using the California Central Valley as a case study. The new method is a supply and demand modeling framework that can be used to simulate and analyze potential climate change and conjunctive use. Supply-constrained and demand-driven linkages in the water system in the Central Valley are represented with the linked climate models, precipitation-runoff models, agricultural and native vegetation water use, and hydrologic flow models to demonstrate the feasibility of this method. Simulated precipitation and temperature were used from the GFDL-A2 climate change scenario through the 21st century to drive a regional water balance mountain hydrologic watershed model (MHWM) for the surrounding watersheds in combination with a regional integrated hydrologic model of the Central Valley (CVHM). Application of this method demonstrates the potential transition from predominantly surface water to groundwater supply for agriculture with secondary effects that may limit this transition of conjunctive use. The particular scenario considered includes intermittent climatic droughts in the first half of the 21st century followed by severe persistent droughts in the second half of the 21st century. These climatic droughts do not yield a valley-wide operational drought but do cause reduced surface water deliveries and increased groundwater abstractions that may cause additional land subsidence, reduced water for riparian habitat, or changes in flows at the Sacramento–San Joaquin River Delta. The method developed here can be used to explore conjunctive use adaptation options and hydrologic risk assessments in regional hydrologic systems throughout the world.
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  • 41
    Publication Date: 2012-02-10
    Description: Ecological Applications, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
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  • 42
    Publication Date: 2012-02-11
    Description: Micro-relief heterogeneity can lead to substantial variability in microclimate and hence niche opportunities on a small scale. We explored the relationship between plant species richness and small-scale heterogeneity of micro-relief on the subtropical island of La Palma, Canary Islands. Overall, we sampled 40 plots in laurel and pine forests at four altitudinal bands. Species richness was recorded separately for various growth forms (i.e., mosses, herbaceous and woody plants). Site conditions such as altitude, slope, aspect, and tree density were measured. Micro-relief heterogeneity was characterized by surface structure and a subsequently derived surface heterogeneity index. The effect of micro-relief heterogeneity on species richness was analysed by means of linear mixed effect models and variance partitioning. Effects of micro-relief heterogeneity on species richness varied considerably between growth forms. While moss richness was affected significantly by micro-relief heterogeneity, herbaceous and woody plants richness responded mainly to larger-scale site conditions such as aspect and tree density. Our results stress the importance of small-scale relief heterogeneity for the explanation of spatial patterns of species richness. This poses new challenges as small-scale heterogeneity is largely underrepresented, e.g. with regard to its application in species distribution models.
    Electronic ISSN: 1424-2818
    Topics: Biology
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  • 43
    Publication Date: 2012-02-11
    Description: Ecological Applications, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
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  • 44
    Publication Date: 2012-02-11
    Description: A large increase in near-infrared (NIR) reflectance of Amazon forests during the light-rich dry season and a corresponding decrease during the light-poor wet season has been observed in satellite measurements. This increase has been variously interpreted as seasonal change in leaf area resulting from net leaf flushing in the dry season or net leaf abscission in the wet season, enhanced photosynthetic activity during the dry season from flushing new leaves and as change in leaf scattering and absorption properties between younger and older leaves covered with epiphylls. Reconciling these divergent views using theory and observations is the goal of this article. The observed changes in NIR reflectance of Amazon forests could be due to similar, but small, changes in NIR leaf albedo (reflectance plus transmittance) resulting from the exchange of older leaves for newer ones, but with the total leaf area unchanged. However, this argument ignores accumulating evidence from ground-based reports of higher leaf area in the dry season than the wet season, seasonal changes in litterfall and does not satisfactorily explain why NIR reflectance of these forests decreases in the wet season. More plausibly, the increase in NIR reflectance during the dry season and the decrease during the wet season would result from changes in both leaf area and leaf optical properties. Such change would be consistent with known phenological behavior of tropical forests, ground-based reports of seasonal changes in leaf area, litterfall, leaf optical properties and fluxes of evapotranspiration, and thus, would reconcile the various seemingly divergent views.
    Print ISSN: 0148-0227
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  • 45
    Publication Date: 2012-02-11
    Description: An efficient approach is developed to analytically evaluate solute transport in a horizontal, divergent radial flow field with a multistep injection flow rate and an arbitrary input concentration history. By assuming a piecewise steady state flow and transforming the time domain to the cumulative injected flow domain, the concentration distribution is found to be completely determined by the total volume of injected flow and independent of specific flow rates. Thus, on the cumulative flow domain, the transport problem with a temporally varying velocity field can be transformed into a steady state flow problem. Linear convolution can then be applied on the cumulative injected flow domain to evaluate the solution for an arbitrarily time-dependent input concentration. Solutions on the regular time domain can be conveniently obtained by mapping the solution on the cumulative injected flow domain to the time domain. Furthermore, we theoretically examine the conditions for the assumption of piecewise steady state flow to be valid. On the basis of the critical time scale of the “pseudosteady state condition,” defined as when velocity changes accomplish 99% of their steady state differences, and the relative error in the mean travel time of plume front, we obtain conditions for neglecting the transitional period between two pumping steps. Such conditions include the following: (1) the duration of a pumping step, tp, must be longer than the critical time scale, tc, i.e., tp ≥ tc = 25r2S/T, where r is the radial distance, S is the storage coefficient, and T is the transmissivity, or similarly, a maximum problem domain needs to be defined for a given pumping strategy. (2) the maximum well pumping rate, qmax, should satisfy qmax ≤ πθT/25S, where θ is the effective porosity. When both conditions are satisfied, transitional periods may be neglected.
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  • 46
    Publication Date: 2012-02-12
    Description: Meander bends in alluvial rivers morphologically evolve toward meander cutoff with narrowing intra-meander necks, and this should steepen hydraulic gradients and intensify intra-meander hyporheic flux. This research used dye tracking and head loss measurements in a 1:500 planimetrically scaled laboratory river table to quantify the spatial and temporal intensification of intra-meander flux rates at two evolution ages. The younger meander bend, M1, had a sinuosity of 2.3, a river neck width of 0.39 cm, and 0.6% river slope, and the older meander bend, M3, had a sinuosity of 5.2, a river neck width of 0.12 cm, and 0.5% river slope. Flux into and out of the meander bend was estimated along the normalized curvilinear distance s *, with the meander neck at s * = 0.1 and s * = 0.9, the meander centroid at s * = 0.37 and s * = 0.63, and the apex at s * = 0.5. Between the meander centroid and neck we documented a 60% spatial intensification for M1 and a 90% spatial intensification for M3. Between M1 and M3 we documented a 135% temporal intensification at the neck and a 100% intensification at the centroid. Our empirical spatial and temporal intensification rates involving the M1 and the M3 scenario were 1 to 3 times lower than theoretical rates derived from a river evolution model with equivalent M1 and M3 planimetry. Over estimation by the theoretical model was attributed to exaggerated head loss caused by the model neglecting groundwater contributions to river stage. Hyporheic exchange provides critical ecosystem services and its spatial and temporal variation with meander evolution should be considered in river management. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 47
    Publication Date: 2012-02-14
    Description: Watershed models which combine hydrology and water quality are being widely utilized in integrated watershed management for the determination of best water management practices. In this study, the hydrology of the Lower Porsuk Stream Watershed in Turkey has been modeled with SWAT to determine optimal water management strategies. The calibration and validation process have been accomplished using data from two monitoring stations. The model has been run for the 1978–2009 period and while the 1998–2004 period has been used for calibration, the validation has spanned the whole period. The SWATCup calibration and uncertainity program has been utilized for this purpose. No significant differences have been detected among different iteration numbers in the calibration period. The monthly Nash-Sutcliffe and R 2 performance indicatiors for the upstream Esenkara station have been 0.74 and 0.88, respectively for the calibration period, and 0.87 and 0.87, respectively for the validation period. The Kıranharmanı station which is located close to the watershed outlet has shown values of 0.59 and 0.72, respectively for the calibration period, and 0.44 and 0.56, respectively for the validation period. There are uncertanities in the abstracted irrigation and groundwater quantities which have reflected in the results in the Kıranharmanı station which is more affected as it lies downstream of the irrigation areas. The effects of different irrigation practices on the flow regime have been also investigated. A scenario has been implemented in which drip irrigation wholly replaces conventional furrow and sprinkler irrigation. The scenario has shown increases in stream flows by 87 % for the whole year. The adoption of more efficient irrigation practices thus results in reducing the water stress induced by irrigation demands. With this study a modeling framework has been founded to aid water management applications in the Lower Porsuk Stream Watershed by generating scenarios for best management practices. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 48
    Publication Date: 2012-02-14
    Print ISSN: 0885-6087
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  • 49
    Publication Date: 2012-02-14
    Description: Many observations and studies have shown that water resources amount in the Hai River Basin decreased significantly over the last half of the twentieth century. This study attempts to attribute the observed changes in the water resources amount in the basin over a 40 year period (1961–2000) to different factors, including natural climate variability, climate change induced by anthropogenic forcing of greenhouse gas emissions (referred to as anthropogenic forcing hereafter), and local human activity. First, the temporal variation of the annual water resources amount in the basin during the past 40 years is analyzed by employing the moving-average method, the linear regression method, and the Mann-Kendall method. Second, through setting different scenarios, the effects on the water resources amount due to different factors, including natural climate variability, anthropogenic forcing, and local human activity, are obtained using the parallel climate model, the distributed hydrological model water and energy transfer processes in large river basins, and the statistical downscaling model. Third, the fingerprint-based attribution method is used to obtain the signal strengths of observed changes in water resources amount during 1961–2000 and changes in the water resources amount under different scenarios. Finally, by comparing the signal strengths, the observed changes in water resources amount in the basin can be attributed to different factors. The results indicate that natural climate variability and local human activity may be two factors responsible for the observed changes in the water resources amount during the past 40 years in the basin, with local human activity being the main factor and accounting for about 60% of the changes.
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  • 50
    Publication Date: 2012-02-15
    Description: Mechanisms to mitigate global climate change by sequestering carbon (C) in different ‘sinks’ have been proposed as at least temporary measures. Of the major global C pools, terrestrial ecosystems hold the potential to capture and store substantially increased volumes of C in soil organic matter (SOM) through changes in management that are also of benefit to the multitude of ecosystem services that soils provide. This potential can only be realised by determining the amount of SOM stored in soils now, with subsequent quantification of how this is affected by management strategies intended to increase SOM concentrations, and used in soil C models for the prediction of the roles of soils in future climate change. An apparently obvious method to increase C stocks in soils is to augment the soil C pools with the longest mean residence times (MRT). Computer simulation models of soil C dynamics, e.g. RothC and Century, partition these refractory constituents into slow and passive pools with MRTs of centuries to millennia. This partitioning is assumed to reflect (i) the average biomolecular properties of SOM in the pools with reference to their source in plant litter, (ii) the accessibility of the SOM to decomposer organisms or catalytic enzymes, or (iii) constraints imposed on decomposition by environmental conditions, including soil moisture and temperature. However, contemporary analytical approaches suggest that the chemical composition of these pools is not necessarily predictable because, despite considerable progress with understanding decomposition processes and the role of decomposer organisms, along with refinements in simulation models, little progress has been made in reconciling biochemical properties with the kinetically-defined pools. In this review, we will explore how advances in quantitative analytical technologies have redefined the new understanding of SOM dynamics and how this is impacting on the development and application of new modelling approaches to soil C.
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  • 51
    Publication Date: 2012-02-15
    Description: It is often assumed that daytime patterns of ecosystem carbon assimilation are mostly driven by direct physiological responses to exogenous environmental cues. Under limited environmental variability, little variation in carbon assimilation should thus be expected unless endogenous plant controls on carbon assimilation, which regulate photosynthesis in time, are active. We evaluated this assumption with eddy flux data, and we selected periods when net ecosystem exchange (NEE) was decoupled from environmental variability in seven sites from highly contrasting biomes across a 74º latitudinal gradient over a total of 36 site-years. Under relatively constant conditions of light, temperature, and other environmental factors, significant diurnal NEE oscillations were observed at six sites, where daily NEE variation was between 20% and 90% of that under variable environmental conditions. These results are consistent with fluctuations driven by the circadian clock and other endogenous processes. Our results open a promising avenue of research for a more complete understanding of ecosystem fluxes that integrates from cellular to ecosystem processes.
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  • 52
    Publication Date: 2012-02-15
    Description: Flood events can induce temporal changes in streambed elevation and particle-size composition, which may influence the bed's hydraulic properties and stream-aquifer fluxes during and after an event. This study combines a set of previously developed modeling approaches to create a synthetic flood event during which bed sediment is entrained and deposited as a function of hydraulic conditions and particle size. One simulated river reach in a state of approximate dynamic equilibrium is chosen to investigate the impacts of size-selective sediment transport on stream-aquifer interaction. Along this reach, the preferential entrainment of fine sediment during the flood's rising limb leads to overall bed coarsening, and increases in vertical hydraulic conductivity (Kbv) and downward fluxes of floodwater into the streambed. Progressively finer sediment layers are deposited during the event's falling limb, causing the redevelopment of a colmation (clogging) layer on the bed surface and a decline in overall Kbv by the event's conclusion. This reduction in Kbv leads to prolonged retention of event water in the streambed (after the reach reverts from losing to gaining river conditions) when compared with what is expected if pre-event Kbv values are used to estimate river-aquifer exchanges. This process of sequential bed coarsening and fining during a flood event provides a mechanistic explanation for the event size-and-duration threshold, inferred in some systems, that must be exceeded for significant amounts of flood recharge to occur. The major consequences of these processes—enhanced infiltration and prolonged floodwater retention—have potentially major implications for groundwater-surface water interactions, water quality, contaminant transport, and riparian biogeochemistry.
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  • 53
    Publication Date: 2012-02-15
    Description: Nonstationary oscillation (NSO) processes are observed in a number of hydroclimatic data series. Stochastic simulation models are useful to study the impacts of the climatic variations induced by NSO processes into hydroclimatic regimes. Reproducing NSO processes in a stochastic time series model is, however, a difficult task because of the complexity of the nonstationary behaviors. In the current study, a novel stochastic simulation technique that reproduces the NSO processes embedded in hydroclimatic data series is presented. The proposed model reproduces NSO processes by utilizing empirical mode decomposition (EMD) and nonparametric simulation techniques (i.e., k-nearest-neighbor resampling and block bootstrapping). The model was first tested with synthetic data sets from trigonometric functions and the Rössler system. The North Atlantic Oscillation (NAO) index was then examined as a real case study. This NAO index was then employed as an exogenous variable for the stochastic simulation of streamflows at the Romaine River in the province of Quebec, Canada. The results of the application to the synthetic data sets and the real-world case studies indicate that the proposed model preserves well the NSO processes along with the key statistical characteristics of the observations. It was concluded that the proposed model possesses a reasonable simulation capacity and a high potential as a stochastic model, especially for hydroclimatic data sets that embed NSO processes.
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  • 54
    Publication Date: 2012-02-15
    Description: Vegetation zonation and tidal hydrology are basic attributes of intertidal salt marshes, but specific links among vegetation zonation, plant water use, and spatiotemporally dynamic hydrology have eluded thorough characterization. We developed a quantitative model of an intensively studied salt marsh field site, integrating coupled 2-D surface water and 3-D groundwater flow and zonal plant water use. Comparison of model scenarios with and without heterogeneity in (1) evapotranspiration rates and rooting depths, according to mapped vegetation zonation, and (2) sediment hydraulic properties from inferred geological heterogeneity revealed the coupled importance of both sources of ecohydrological variability at the site. Complex spatial variations in root zone pressure heads, saturations, and vertical groundwater velocities emerged in the model but only when both sources of ecohydrological variability were represented together and with tidal dynamics. These regions of distinctive root zone hydraulic conditions, caused by the intersection of vegetation and sediment spatial patterns, were termed “ecohydrological zones” (EHZ). Five EHZ emerged from different combinations of sediment hydraulic properties and evapotranspiration rates, and two EHZ emerged from local topography. Simulated pressure heads and groundwater dynamics among the EHZ were validated with field data. The model and data showed that hydraulic differences between EHZ were masked shortly after a flooding tide but again became prominent during prolonged marsh exposure. We suggest that ecohydrological zones, which reflect the combined influences of topographic, sediment, and vegetation heterogeneity and do not emphasize one influence over the others, are the fundamental spatial habitat units comprising the salt marsh ecosystem.
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  • 55
    Publication Date: 2012-02-16
    Description: Quantification of biophysical parameters of urban trees is important for urban planning, and for assessing carbon sequestration and ecosystem services. Airborne lidar has been used extensively in recent years to estimate biophysical parameters of trees in forested ecosystems. However, similar studies are largely lacking for individual trees in urban landscapes. Prediction models to estimate biophysical parameters such as height, crown area, diameter at breast height, and biomass for over two thousand individual trees were developed using best subsets multiple linear regression for a study area in central Oklahoma, USA using point cloud distributional metrics from an Optech ALTM 2050 lidar system. A high level of accuracy was attained for estimating individual tree height (R2 = 0.89), dbh (R2 = 0.82), crown diameter (R2 = 0.90), and biomass (R2 = 0.67) using lidar-based metrics for pooled data of all tree species. More variance was explained in species-specific estimates of biomass (R2 = 0.68 for Juniperus virginiana to 0.84 for Ulmus parviflora) than in estimates from broadleaf deciduous (R2 = 0.63) and coniferous (R2 = 0.45) taxonomic groups—or the data set analysed as a whole (R2 = 0.67). The metric crown area performed particularly well for most of the species-specific biomass equations, which suggests that tree crowns should be delineated accurately, whether manually or using automatic individual tree detection algorithms, to obtain a good estimation of biomass using lidar-based metrics.
    Electronic ISSN: 2072-4292
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 56
    Publication Date: 2012-02-18
    Description: In recent decades, copula functions have been applied in bivariate drought duration and severity frequency analysis. Among a number of potential copulas, Clayton has been mostly employed in drought analysis. In this research, we study the influence of the tail shape of various copula functions (i.e. Gumbel, Frank, Clayton, and Gaussian) on drought bivariate frequency analysis. The appropriateness of Clayton copula for the characterization of drought characteristics is also investigated. Drought data are extracted from standardized precipitation index (SPI) time series for four stations in Canada (La Tuque and Grande Prairie) and Iran (Anzali and Zahedan). Both duration and severity datasets are positively skewed. Different marginal distributions were first fitted to drought duration and severity data. The gamma and exponential distributions were respectively selected for drought duration and severity according to the positive skewness and Kolmogorov- Smirnov test. The results of copula modeling show that the Clayton copula function is not an appropriate choice for the employed datasets in the current study, and does not give more drought risk information than an independent model for which the duration and severity dependence is not significant. The reason is that the dependence of two variables in the upper tail of Clayton copula is very weak and similar to the independent case, while the observed data in the transformed domain of cumulative density function shows high association in the upper tail. Instead, the Frank and Gumbel copula functions show better performance than Clayton function for drought bivariate frequency analysis. Copyright © 2012 John Wiley & Sons, Ltd.
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  • 57
    Publication Date: 2012-02-18
    Print ISSN: 0885-6087
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  • 58
    Publication Date: 2012-02-18
    Description: Question Previous studies show that large-seeded species increase their abundance in Mediterranean annual grasslands in growing seasons with dry autumns. One possible explanation is that large-seeded species have larger seedlings, which provide an advantage under drier conditions. We address the following questions: is seed mass correlated with seedling survival in annual legumes? Is this correlation influenced by the watering regime? Can seedling growth characteristics explain the differential survival of small- and large-seeded species? Location Annual Mediterranean grassland, Central Spain. Methods An experiment was conducted with six grassland legume species of different seed sizes, subjected to six different watering regimes, monitoring survival and morphological variables (shoot and root growth) for 40 d. Results Large seeds provide an advantage for seedling survival, but in extreme drought conditions, seedling survival in small-seeded species equals that of seedlings from large-seeded species. Seedlings from larger seeds are larger than those of small-seeded species, but have a lower root/shoot biomass ratio, leading to greater potential evapotranspiration, which could explain their loss of relative advantage under extreme droughts. Conclusion The hypothesis that seedlings from large-seeded species survive better than small-seeded species under drought conditions was not supported. Germination behaviour seems to be a more plausible explanation for the increased abundance in the field of large-seeded species in growing seasons with dry autumns. Large seeds provide an advantage for seedling survival, but in extreme drought conditions, seedling survival in small-seeded species equals that of seedlings from large-seeded species. Seedlings from larger seeds are larger than those of small-seeded species, but have a lower root/shoot biomass ratio, leading to greater potential evapotranspiration, which could explain their loss of relative advantage under extreme droughts.
    Print ISSN: 1100-9233
    Electronic ISSN: 1654-1103
    Topics: Biology
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  • 59
    Publication Date: 2012-02-18
    Description: Soil hydraulic parameters were upscaled from a 30 m resolution to a 1 km resolution using a new aggregation scheme (described in the companion paper) where the scale parameter was based on the topography. When soil hydraulic parameter aggregation or upscaling schemes ignore the effect of topography, their application becomes limited at hillslope scales and beyond, where topography plays a dominant role in soil deposition and formation. Hence the new upscaling algorithm was tested at the hillslope scale (1 km) across two locations: (1) the Little Washita watershed in Oklahoma, and (2) the Walnut Creek watershed in Iowa. The watersheds were divided into pixels of 1 km resolution and the effective soil hydraulic parameters obtained for each pixel. Each pixel/domain was then simulated using the physically based HYDRUS-3-D modeling platform. In order to account for the surface (runoff/on) and subsurface fluxes between pixels, an algorithm to route infiltration-excess runoff onto downstream pixels at daily time steps and to update the soil moisture states of the downstream pixels was applied. Simulated soil moisture states were compared across scales, and the coarse scale values compared against the airborne soil moisture data products obtained during the hydrology experiment field campaign periods (SGP97 and SMEX02) for selected pixels with different topographic complexities, soil distributions, and land cover. Results from these comparisons show good correlations between simulated and observed soil moisture states across time, topographic variations, location, elevation, and land cover. Stream discharge comparisons made at two gauging stations in the Little Washita watershed also provide reasonably good results as to the suitability of the upscaling algorithm used. Based only on the topography of the domain, the new upscaling algorithm was able to provide coarse resolution values for soil hydraulic parameters which effectively captured the variations in soil moisture across the watershed domains.
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  • 60
    Publication Date: 2012-02-18
    Description: Hydropower accounts for about 20% of the worldwide electrical power production. In mountainous regions this ratio is significantly higher. In this study we present how future projected climatic forcing, as described in regional climate models (RCMs), will affect water resources and subsequently hydropower production in downstream hydropower plants in a glacierized alpine valley (Vispa valley, Switzerland, 778 km2). In order to estimate future runoff generation and hydropower production, we used error-corrected and downscaled climate scenarios from regional climate models (RCMs) as well as glacier retreat projections from a dynamic glacier model and coupled them to a physically based hydrological model. Furthermore, we implemented all relevant hydropower operational rules in the hydrological model to estimate future hydropower production based on the runoff projections. The uncertainty of each modeling component (climate projections, glacier retreat, and hydrological projection) and the resulting propagation of uncertainty to the projected future water availability for energy production were assessed using an analysis of variance. While the uncertainty of the projections is considerable, the consistent trends observed in all projections indicate significant changes to the current situation. The model results indicate that future melt- and rainfall-runoff will increase during spring but decline during summer. The study concludes by outlining the most relevant expected changes for hydropower operations.
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  • 61
    Publication Date: 2012-02-19
    Description: Ecological Applications, Volume 22, Issue 1, Page 119-141, January 2012.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 62
    Publication Date: 2012-02-19
    Description: Ecological Applications, Volume 22, Issue 1, Page 374-383, January 2012.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
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  • 63
    Publication Date: 2012-02-18
    Description: Ecology, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 0012-9658
    Electronic ISSN: 1939-9170
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 64
    Publication Date: 2012-02-18
    Description: Ecological Applications, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
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  • 65
    Publication Date: 2012-02-21
    Description: The effect of spatial concentration fluctuations on the reaction of two solutes, A + B ⇀ C, is considered. In the absence of fluctuations, the concentration of solutes decays as Adet = Bdet ∼ t−1. Contrary to this, experimental and numerical studies suggest that concentrations decay significantly slower. Existing theory suggests a t−d/4 scaling in the asymptotic regime (d is the dimensionality of the problem). Here we study the effect of fluctuations using the classical diffusion-reaction equation with random initial conditions. Initial concentrations of the reactants are treated as correlated random fields. We use the method of moment equations to solve the resulting stochastic diffusion-reaction equation and obtain a solution for the average concentrations that deviates from ∼t−1 to ∼t−d/4 behavior at characteristic transition time t*. We also derive analytical expressions for t* as a function of Damköhler number and the coefficient of variation of the initial concentration.
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  • 66
  • 67
    Publication Date: 2012-12-25
    Description: The impact of climate change on the advancement of plant phenological events has been heavily studied in the last decade. While the majority of spring plant phenological events have been trending earlier, this is not universally true. Recent work has suggested that species that are not advancing in their spring phenological behavior are responding more to lack of winter chill than increased spring heat. One way to test this hypothesis is by evaluating the behavior of a species known to have a moderate to high chilling requirement and examining how it is responding to increased warming. This study used a 60-year data set for timing of leaf-out and male flowering of walnut ( Juglans regia ) cultivar ‘Payne’ to examine this issue. The spring phenological behavior of ‘Payne’ walnut differed depending on bud type. The vegetative buds, which have a higher chilling requirement, trended towards earlier leaf-out until about 1994, when they shifted to later leaf-out. The date of male bud pollen shedding advanced over the course of the whole record. Our findings suggest that many species which have exhibited earlier bud-break are responding to warmer spring temperatures, but may shift into responding more to winter temperatures (lack of adequate chilling) as warming continues. © 2012 Blackwell Publishing Ltd
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  • 68
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 Insulin stimulates glucose uptake through the membrane translocation of GLUT4 and GLUT1. Peroxisome proliferator-activated receptor γ (PPARγ) enhances insulin sensitivity. Here, we demonstrate that insulin stimulates GLUT4 and GLUT1 translocation, and glucose uptake, by activating the signaling pathway involving nicotinic acid adenine dinucleotide phosphate (NAADP), a calcium mobilizer, in adipocytes. We also demonstrate that PPARγ mediates insulin sensitization by enhancing NAADP production through upregulation of CD38, the only enzyme identified for NAADP synthesis. Insulin produced NAADP by both CD38-dependent and -independent pathways, whereas PPARγ produced NAADP by CD38-dependent pathway. Blocking the NAADP signaling pathway abrogated both insulin-stimulated and PPARγ-induced GLUT4 and GLUT1 translocation, thereby inhibiting glucose uptake. CD38 knockout partially inhibited insulin-stimulated glucose uptake. However, CD38 knockout completely blocked PPARγ-induced glucose uptake in adipocytes and PPARγ-mediated amelioration of glucose tolerance in diabetic mice. These results demonstrated that the NAADP signaling pathway is a critical molecular target for PPARγ-mediated insulin sensitization. Graphical abstract Highlights ► Insulin induces glucose uptake via NAADP-mediated calcium increase ► PPARγ mediates insulin sensitization by upregulating the NAADP-producing enzyme CD38 ► PPARγ agonists ameliorate glucose tolerance by CD38 upregulation
    Electronic ISSN: 2211-1247
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  • 69
    Publication Date: 2012-12-28
    Description: Available online 27 December 2012 Publication year: 2012 Source: Cell Reports Enveloped viruses have developed various adroit mechanisms to invade their host cells. This process requires one or more viral envelope glycoprotein to achieve cell attachment and membrane fusion. Members of the Flaviviridae such as flaviviruses possess only one envelope glycoprotein, E, whereas pestiviruses and hepacivirus encode two glycoproteins, E1 and E2. Although E2 is involved in cell attachment, it has been unclear which protein is responsible for membrane fusion. We report the crystal structures of the homodimeric glycoprotein E2 from the pestivirus bovine viral diarrhea virus 1 (BVDV1) at both neutral and low pH. Unexpectedly, BVDV1 E2 does not have a class II fusion protein fold, and at low pH the N-terminal domain is disordered, similarly to the intermediate postfusion state of E2 from sindbis virus, an alphavirus. Our results suggest that the pestivirus and possibly the hepacivirus fusion machinery are unlike any previously observed. Graphical abstract Highlights ► Structure of the major antigenically dominant protein of BVDV ► The overall fold of BVDV E2 shows no similarity to the class II fusion proteins ► At low pH, BVDV E2 N-terminal domain is disordered ► Entry mechanism of BVDV is probably applicable to hepatitis C virus
    Electronic ISSN: 2211-1247
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  • 70
    Publication Date: 2012-12-28
    Description: Mitochondrial function is achieved through the cooperative interaction of two genomes: one nuclear (nuDNA) and the other mitochondrial (mtDNA). The unusual transmission of mtDNA, predominantly maternal without recombination is predicted to affect the fitness of male offspring. Recent research suggests the strong sexual dimorphism in aging is one such fitness consequence. The uniparental inheritance of mtDNA results in a selection asymmetry; mutations that affect only males will not respond to natural selection, imposing a male-specific mitochondrial mutation load. Prior work has implicated this male-specific mutation load in disease and infertility, but new data from fruit flies suggests a prominent role for mtDNA in aging; across many taxa males almost invariably live shorter lives than females. Here we discuss this new work and identify some areas of future research that might now be encouraged to explore what may be the underpinning cause of the strong sexual dimorphism in aging. Editor's suggested further reading in BioEssays: Mitonuclear match: Optimizing fitness and fertility over generations drives ageing within generations Abstract Mitochondrial manoeuvres: Latest insights and hypotheses on mitochondrial partitioning during mitosis in Saccharomyces cerevisiae Abstract Mitochondria and the culture of the Borg Abstract The maternal inheritance of mtDNA results in a selection asymmetry; natural selection cannot act on mutations that affect only males. This asymmetry imposes a male-specific mutation load previously implicated in male disease and infertility. New work suggests this asymmetry underpins the strong sexual dimorphism in aging observed across taxa.
    Print ISSN: 0265-9247
    Electronic ISSN: 1521-1878
    Topics: Biology , Medicine
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  • 71
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    Elsevier
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 Controversy has recently arisen over the role of sirtuins in metazoan aging. In this issue of Cell Reports , Banerjee et al. demonstrate that Drosophila Sir2 is necessary for life span extension in response to dietary restriction and that its overexpression in the fat body increases the life span.
    Electronic ISSN: 2211-1247
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  • 72
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 Inhibition of sirtuin 2 (SIRT2) deacetylase mediates protective effects in cell and invertebrate models of Parkinson’s disease and Huntington’s disease (HD). Here we report the in vivo efficacy of a brain-permeable SIRT2 inhibitor in two genetic mouse models of HD. Compound treatment resulted in improved motor function, extended survival, and reduced brain atrophy and is associated with marked reduction of aggregated mutant huntingtin, a hallmark of HD pathology. Our results provide preclinical validation of SIRT2 inhibition as a potential therapeutic target for HD and support the further development of SIRT2 inhibitors for testing in humans. Graphical abstract Highlights ► Sirtuin 2 (SIRT2) inhibition is neuroprotective in two HD mouse models ► SIRT2 inhibitor treatment markedly reduces huntingtin aggregates in HD mouse brain ► SIRT2 is a promising therapeutic target for neurological protein aggregation disorders
    Electronic ISSN: 2211-1247
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  • 73
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 Planar cell polarity (PCP) refers to the collective orientation of cells within the epithelial plane. We show that progenitor cells forming the ducts of the embryonic pancreas express PCP proteins and exhibit an active PCP pathway. Planar polarity proteins are acquired at embryonic day 11.5 synchronously to apicobasal polarization of pancreas progenitors. Loss of function of the two PCP core components Celsr2 and Celsr3 shows that they control the differentiation of endocrine cells from polarized progenitors, with a prevalent effect on insulin-producing beta cells. This results in a decreased glucose clearance. Loss of Celsr2 and 3 leads to a reduction of Jun phosphorylation in progenitors, which, in turn, reduces beta cell differentiation from endocrine progenitors. These results highlight the importance of the PCP pathway in cell differentiation in vertebrates. In addition, they reveal that tridimensional organization and collective communication of cells are needed in the pancreatic epithelium in order to generate appropriate numbers of endocrine cells. Graphical abstract Highlights ► PCP proteins are restricted to progenitor cells in the embryonic pancreas ► The PCP core components Celsr2 and Celsr3 control endocrine cell differentiation ► This effect is mediated by the JNK pathway
    Electronic ISSN: 2211-1247
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  • 74
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 MicroRNAs (miRNAs) are small, noncoding RNAs that inhibit translation and promote mRNA decay. The levels of mature miRNAs are the result of different rates of transcription, processing, and turnover. The noncanonical polymerase Gld2 has been implicated in the stabilization of miR-122, possibly through catalyzing 3′ monoadenylation; however, there is little evidence that this relationship is one of cause and effect. Here, we biochemically characterize Gld2’s involvement in miRNA monoadenylation and its effect on miRNA stability. We find that Gld2 directly monoadenylates and stabilizes specific miRNA populations in human fibroblasts and that sensitivity to monoadenylation-induced stability depends on nucleotides in the miRNA 3′ end. These results establish a mechanism of miRNA stability and resulting posttranscriptional gene regulation. Graphical abstract Highlights ► Gld2 monoadenylates specific microRNAs (miRNAs) ► Monoadenylation stabilizes miRNA subpopulations and prolongs their activity ► Sensitivity to monoadenylation and stability depends on nucleotides in the miRNA 3′ end
    Electronic ISSN: 2211-1247
    Topics: Biology
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  • 75
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 In the cytoplasm, the correct delivery of membrane proteins is an essential and highly regulated process. The posttranslational targeting of the important tail-anchor membrane (TA) proteins has recently been under intense investigation. A specialized pathway, called the guided entry of TA proteins (GET) pathway in yeast and the transmembrane domain recognition complex (TRC) pathway in vertebrates, recognizes endoplasmic-reticulum-targeted TA proteins and delivers them through a complex series of handoffs. An early step is the formation of a complex between Sgt2/SGTA, a cochaperone with a presumed ubiquitin-like-binding domain (UBD), and Get5/UBL4A, a ubiquitin-like domain (UBL)-containing protein. We structurally characterize this UBD/UBL interaction for both yeast and human proteins. This characterization is supported by biophysical studies that demonstrate that complex formation is mediated by electrostatics, generating an interface that has high-affinity with rapid kinetics. In total, this work provides a refined model of the interplay of Sgt2 homologs in TA targeting. Graphical abstract Highlights ► Sgt2 homologs contain dimerization motifs that are novel UBDs ► The UBL of Get5 homologs has features that distinguish it from other UBLs ► Complex formation of Sgt2 and Get5 includes a conserved and dynamic interface ► The system can rapidly discriminate between other UBL pathways
    Electronic ISSN: 2211-1247
    Topics: Biology
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  • 76
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 Chimera formation after blastocyst injection or morula aggregation is the principal functional assay of the developmental potential of mouse embryonic stem cells (ESCs). This property, which demonstrates functional equivalence between ESCs and the preimplantation epiblast, is not shared by epiblast stem cell (EpiSC) lines. Here, we show that EpiSCs derived either from postimplantation embryos or from ESCs in vitro readily generate chimeras when grafted to postimplantation embryos in whole embryo culture. EpiSC derivatives integrate and differentiate to derivatives of all three embryonic germ layers and primordial germ cells. In contrast, grafted ESCs seldom proliferate in postimplantation embryos, and fail to acquire the identity of their host-derived neighbors. EpiSCs do not incorporate efficiently into embryonic day 8.5 embryos, a stage by which pluripotency has been lost. Thus, chimera formation by EpiSCs requires a permissive environment, the postimplantation epiblast, and demonstrates functional equivalence between this cell type and EpiSCs. Graphical abstract Highlights ► Epiblast stem cells (EpiSCs) form chimeras when injected into postimplantation epiblast ► Embryonic stem cells do not form postimplantation chimeras ► EpiSCs do not integrate if they are injected after gastrulation
    Electronic ISSN: 2211-1247
    Topics: Biology
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  • 77
    Publication Date: 2012-12-28
    Description: 27 December 2012 Publication year: 2012 Source: Cell Reports, Volume 2, Issue 6 An increased understanding of antitumor immunity is necessary for improving cell-based immunotherapies against human cancers. Here, we investigated the roles of two immune system-expressed microRNAs (miRNAs), miR-155 and miR-146a, in the regulation of antitumor immune responses. Our results indicate that miR-155 promotes and miR-146a inhibits interferon γ (IFNγ) responses by T cells and reduces solid tumor growth in vivo. Using a double-knockout (DKO) mouse strain deficient in both miR-155 and miR-146a, we have also identified an epistatic relationship between these two miRNAs. DKO mice had defective T cell responses and tumor growth phenotypes similar to miR-155 −/− mice. Further analysis of the T cell compartment revealed that miR-155 modulates IFNγ expression through a mechanism involving repression of Ship1. Our work reveals critical roles for miRNAs in the reciprocal regulation of CD4 + and CD8 + T cell-mediated antitumor immunity and demonstrates the dominant nature of miR-155 during its promotion of immune responses. Graphical abstract Highlights ► miR-155 promotes and miR-146a inhibits both CD4+ and CD8+ T cell antitumor responses ► DKO mice reveal epistasis between miR-155 and miR-146a during tumor immunity ► miR-155 regulation of IFNγ involves repression of its target Ship1 in T cells
    Electronic ISSN: 2211-1247
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  • 78
    Publication Date: 2012-12-28
    Description: Question Quantification of the effect of species traits on the assembly of communities is challenging from a statistical point of view. A key question is how species occurrence and abundance can be explained by the trait values of the species and the environmental values at the sites. Methods Using a sites × species abundance table, a site × environment data table and a species × trait data table, we address the above question using a novel generalized linear mixed model (GLMM) approach. The GLMM overcomes problems of pseudo-replication and heteroscedastic variance by including sites and species as random factors. The method is equally applicable to presence–absence data as to count and multinomial data. We present a tiered forward selection approach for obtaining a parsimonious model and compare the results with alternative methods (the fourth corner method and RLQ ordination). Results We illustrate the approach on a presence–absence version on two data sets. In the Dune Meadow data, species presence is parsimoniously explained by moisture and manure on the meadows in combination with seed mass and specific leaf area (SLA). In the Grazed Grassland data, species presence is parsimoniously explained by the grazing intensity and soil phosphorus in combination with the C:N ratio and flowering mode. Conclusions Our GLMM approach can be used to identify which species traits and environmental variables best explain the species distribution, and which traits are significantly correlated with environmental variables. We argue that the method is better suited for providing an interpretable and predictive model than the fourth corner method and RLQ. We propose a Generalized Linear Mixed Model (GLMM) for the functional response of species to environmental change. The model can be used to identify which functional traits and environmental variables are significantly related and which best explain the species distribution. We argue that the method is better suited for providing an interpretable model than the fourth corner method and RLQ.
    Print ISSN: 1100-9233
    Electronic ISSN: 1654-1103
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  • 79
    Publication Date: 2012-12-28
    Description: Alien species are considered one of the prime threats to biodiversity, driving major changes in ecosystem structure and function. Identifying the traits associated with alien introduction has been largely restricted to comparing indigenous and alien species or comparing alien species that differ in abundance or impact. However, a more complete understanding may emerge when the entire pool of potential alien species is used as a control, information that is rarely available. In the eastern Mediterranean the marine environment is undergoing an unparalleled species composition transformation, as a flood of aliens have entered from the Red Sea following the opening of the Suez Canal in 1869. In this study, we compile data on species traits, geographical distribution and environmental affinity of the entire pool of reef-associated fish species in the Red Sea and more generally across the Indo-Pacific. We use this extensive data to identify the prime characteristics separating Red Sea species that have become alien in the Mediterranean from those that have not. We find that alien species occupy a larger range of environments in their native ranges, explaining their ability to colonize the seasonal Mediterranean. Red Sea species that naturally experience high maximum temperatures in their native range have a high probability of becoming alien. Thus, contrary to predictions of an accelerating number of aliens following increased water temperatures, hotter summers in this region may prevent the establishment of many alien species. We further find that ecological trait diversity of alien species is substantially more evenly spaced and more divergent than random samples from the pool of Red Sea species, pointing at additional processes, such as competition, promoting ecological diversity among alien species. We use these results to provide a first quantitative ranking of the potential of Red Sea species to become established in the eastern Mediterranean. © 2012 Blackwell Publishing Ltd
    Print ISSN: 1354-1013
    Electronic ISSN: 1365-2486
    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 80
    Publication Date: 2012-12-30
    Description: Available online 29 December 2012 Publication year: 2012 Source: FEBS Open Bio A water-soluble selenoxide (DHS ox ) having a five-membered ring structure enables rapid and selective conversion of cysteinyl SH groups in a polypeptide chain into SS bonds in a wide pH and temperature range. It was previously demonstrated that the second-order rate constants for the SS formation with DHS ox would be proportional to the number of the free SH groups present in the substrate if there is no steric congestion around the SH groups. In the present study, kinetics of the SS formation with DHS ox was extensively studied at pH 4–10 and 25°C by using reduced ribonuclease A, recombinant hirudin variant (CX-397), insulin A- and B-chains, and relaxin A-chain, which have two to eight cysteine residues, as polythiol substrates. The obtained rate constants showed stochastic SS formation behaviors under most conditions. However, the rate constants for CX-397 at pH 8.0 and 10.0 were not proportional to the number of the free SH groups, suggesting that the SS intermediate ensembles possess densely packed structures under weakly basic conditions. The high two-electron redox potential of DHS ox (375 mV at 25°C) compared to L-cystine supported the high ability of DHS ox for SS formation in a polypeptide chain. Interestingly, the rate constants of the SS formation jumped up at a pH around the p K a value of the cysteinyl SH groups. The SS formation velocity was slightly decreased by addition of a denaturant due probably to the interaction between the denaturant and the peptide. The stochastic behaviors as well as the absolute values of the second-order rate constants in comparison to dithiothreitol (DTT red ) are useful to probe the chemical reactivity and conformation, hence the folding, of polypeptide chains. Graphical abstract Highlights ▸ DHS ox was applied as a SS-forming reagent for five polythiol peptides and DTT red . ▸ The SS formation velocities depend on the kind of substrate and solvent conditions. ▸ The SS-formation rate constants are proportional to the number of free SH groups. ▸ Folded structures and SH p K a modify the stochastic nature and absolute values of the rate constants. ▸ DHS ox is a useful probe of chemical reactivity and intermediate structures in oxidative protein folding.
    Electronic ISSN: 2211-5463
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  • 81
    Publication Date: 2012-12-19
    Description: Based on existing techniques in nonlinear physics that work in the Fourier domain, we develop a multivariate, wavelet-based method for the generation of synthetic discharge time series. This approach not only retains the cross-correlative structure of the original data (which makes it preferable to principal component methods that merely preserve the correlations) but also replicates the nonlinear properties of the original data. We argue that the temporal asymmetry of the typical hydrograph is the most important form of nonlinearity to preserve in the synthetic data. Using the derivative skewness as a measure of asymmetry and an example data set of 35 years of daily discharge data from 107 gauging stations in the United States, we compare two approaches that preserve the asymmetry of the original records. We generate synthetic data and then study the properties of fitting a generalized extreme value distribution to the annual maxima for a total flux time series. The synthetic series provides error bands for the fitted distribution that give a different way of assessing credible return periods. It is found that the best approach for studying extremes is to match the asymmetry of each series individually, rather than to formulate a global threshold criterion.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 82
    Publication Date: 2012-12-19
    Description: This article focuses on household water use in Spain by analyzing the influence of a detailed set of factors. We find that, although the presence of both water-saving equipment and water-conservation habits leads to water savings, the factors that influence each are not the same. In particular, our results show that those individuals most committed to the adoption of water-saving equipment and, at the same time, less committed to water-conservation habits tend to have higher incomes.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 83
    Publication Date: 2012-12-19
    Description: Wetlands are valuable ecosystems that provide many valuable services, yet many of these important ecosystems are at risk because of current trends in climate change. The Prairie Pothole Region (PPR) in the upper-midwest of the U.S. and south-central Canada, characterized by glacially-sculpted landscapes and abundant wetlands, is one such vulnerable region. According to regional/global climate model predictions, drought occurrence will increase in the PPR region through the 21st century and thus will probably cause the amount of water in wetlands to decline. Water surface area (WSA) of Kidder County, ND from 1984-2011 was measured by classifying TM/ETM+ images through the Modified Normalized Difference Water Index (MNDWI).We then developed a linear model based on the water surface area (WSA) of these wetlands and historical climate data, and used this to determine the wetland sensitivity to climate change and predict future wetlands WSA in the PPR. Our model based on Palmer Drought Severity Index (PDSI) of the current year (PDSI t-0 ) and two years previous (PDSI t-2 ) can explain 79% of the annual wetland WSA variance, suggesting a high sensitivity of wetlands to drought/climate change. We also predicted the PPR wetlands WSA in the 21st century under A1B scenario (a mid-carbon emission scenario) using simulated PDSI based on IPCC AR4 22-model ensemble climate. According to our prediction, the WSA of the PPR wetlands will decrease to less than half of the baseline WSA (defined as the mean wetlands WSA of the 2000s) by the mid of the 21st century, and to less than one-third by the 2080s, and will then slightly increase in the 2090s. This considerable future wetland loss caused only by climate change provides important implication to future wetland management and climate adaptation policy. Copyright © 2012 John Wiley & Sons, Ltd.
    Print ISSN: 0885-6087
    Electronic ISSN: 1099-1085
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 84
    Publication Date: 2012-12-19
    Description: In hydrology, the storage-discharge relationship is a fundamental catchment property. Understanding what controls this relationship is at the core of catchment science. To date, there are no direct methods to measure water storage at catchment scales (10 1 -10 3  km 2 ). In this study, we use direct measurements of terrestrial water storage dynamics by means of superconducting gravimetry in a small headwater catchment of the Regen River, Germany, to derive empirical storage-discharge relationships in nested catchments of increasing scale. Our results show that the local storage measurements are strongly related to streamflow dynamics at larger scales (〉 100 km 2 ; correlation coefficient = 0.78-0.81), but at small scale no such relationship exists (~ 1 km 2 ; correlation coefficients = -0.11). The geologic setting in the region can explain both the disconnection between local water storage and headwater runoff, and the connectivity between headwater storage and streams draining larger catchment areas. More research is required to understand what controls the form of the observed storage-discharge relationships at the catchment scale. This study demonstrates that high-precision gravimetry can provide new insights into the complex relationship between state and response of hydrological systems. Copyright © 2012 John Wiley & Sons, Ltd.
    Print ISSN: 0885-6087
    Electronic ISSN: 1099-1085
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 85
    Publication Date: 2012-12-20
    Description: Available online 19 December 2012 Publication year: 2012 Source: FEBS Open Bio The green fluorescent protein (GFP) is the most commonly used reporter protein for monitoring gene expression and protein localization in a variety of living and fixed cells, including not only prokaryotes, but also eukaryotes, e.g., yeasts, mammals, plants and fish. In general, it is thought that GFP is nontoxic to cells, although there are some reports on the side effect of GFP. However, details of the molecular mechanism concerning the side effect of GFP remain unclear. Here we show that Ku80, but not XRCC4, plays an important role in the mechanism of the resistance to cytotoxicity induced by enhanced GFP (EGFP). EGFP inhibited both cell proliferation and colony formation, and induced cell death in Ku80-deficient hamster cells, i.e., xrs-6 cells. In addition, Ku80 attenuated EGFP-induced cytotoxicity in the xrs-6 cells. No EGFP-induced cytotoxicity was observed in the NHEJ core protein XRCC4-deficient hamster cells, i.e., XR-1 cells. Furthermore, EGFP markedly enhanced X-ray-induced cytotoxicity in the xrs-6 cells. These results suggest that Ku80 plays a key role in the novel NHEJ-independent defense mechanism against EGFP-induced cytotoxicity. Caution should be taken in considering of the potential influence by the stress response mechanism, namely, the Ku80-dependent elimination mechanism of EGFP-induced cytotoxicity, being activated, even when using EGFP-expressing cells in which Ku80 functions normally.
    Electronic ISSN: 2211-5463
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  • 86
    Publication Date: 2012-12-20
    Description: In semiarid regions, the rooting strategies employed by vegetation can be critical to its survival. Arid regions are characterized by high variability in the arrival of rainfall, and species found in these areas have adapted mechanisms to ensure the capture of this scarce resource. Vegetation roots have strong control over this partitioning, and assuming a static root profile, predetermine the manner in which this partitioning is undertaken.A coupled, dynamic vegetation and hydrologic model, tRIBS + VEGGIE, was used to explore the role of vertical root distribution on hydrologic fluxes. Point-scale simulations were carried out using two spatially and temporally invariant rooting schemes: uniform: a one-parameter model and logistic: a two-parameter model. The simulations were forced with a stochastic climate generator calibrated to weather stations and rain gauges in the semiarid Walnut Gulch Experimental Watershed (WGEW) in Arizona. A series of simulations were undertaken exploring the parameter space of both rooting schemes and the optimal root distribution for the simulation, which was defined as the root distribution with the maximum mean transpiration over a 100-yr period, and this was identified. This optimal root profile was determined for five generic soil textures and two plant-functional types (PFTs) to illustrate the role of soil texture on the partitioning of moisture at the land surface. The simulation results illustrate the strong control soil texture has on the partitioning of rainfall and consequently the depth of the optimal rooting profile. High-conductivity soils resulted in the deepest optimal rooting profile with land surface moisture fluxes dominated by transpiration. As we move toward the lower conductivity end of the soil spectrum, a shallowing of the optimal rooting profile is observed and evaporation gradually becomes the dominate flux from the land surface. This study offers a methodology through which local plant, soil, and climate can be accounted for in the parameterization of rooting profiles in semiarid regions.
    Print ISSN: 0043-1397
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    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 87
    Publication Date: 2012-12-20
    Description: There has been a recent debate in the hydrological community about the relative merits of the informal generalized likelihood uncertainty estimation (GLUE) approach to uncertainty assessment in hydrological modeling versus formal probabilistic approaches. Some recent literature has suggested that the methods can give similar results in practice when properly applied. In this note, we show that the connection between formal Bayes and GLUE is not merely operational but goes deeper, with GLUE corresponding to a certain approximate Bayesian procedure even when the “generalized likelihood” is not a true likelihood. The connection we describe relates to recent approximate Bayesian computation (ABC) methods originating in genetics. ABC algorithms involve the use of a kernel function, and the generalized likelihood in GLUE can be thought of as relating to this kernel function rather than to the model likelihood. Two interpretations of GLUE emerge, one as a computational approximation to a Bayes procedure for a certain “error-free” model and the second as an exact Bayes procedure for a perturbation of that model in which the truncation of the generalized likelihood in GLUE plays a role. The intent of this study is to encourage cross-fertilization of ideas regarding GLUE and ABC in hydrologic applications. The connection we outline suggests the possibility of combining a formal likelihood with a kernel based on a generalized likelihood within the ABC framework and also allows advanced ABC computational methods to be used in GLUE applications. The model-based interpretation of GLUE may also be helpful in partially illuminating the implicit assumptions in different choices of generalized likelihood.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 88
    Publication Date: 2012-12-20
    Description: Satellite-passive microwave remote sensing has been extensively used to estimate snow water equivalent (SWE) in northern regions. Although passive microwave sensors operate independent of solar illumination and the lower frequencies are independent of atmospheric conditions, the coarse spatial resolution introduces uncertainties to SWE retrievals due to the surface heterogeneity within individual pixels. In this article, we investigate the coupling of a thermodynamic multilayered snow model with a passive microwave emission model. Results show that the snow model itself provides poor SWE simulations when compared to field measurements from two major field campaigns. Coupling the snow and microwave emission models with successive iterations to correct the influence of snow grain size and density significantly improves SWE simulations. This method was further validated using an additional independent data set, which also showed significant improvement using the two-step iteration method compared to standalone simulations with the snow model.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
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  • 89
    Publication Date: 2012-12-21
    Description: Available online 20 December 2012 Publication year: 2012 Source: Cell Reports In the fission yeast Schizosaccharomyces pombe , a chromosomal imprinting event controls the asymmetric pattern of mating-type switching. The orientation of DNA replication at the mating-type locus is instrumental in this process. However, the factors leading to imprinting are not fully identified and the mechanism is poorly understood. Here, we show that the replication fork pause at the mat1 locus ( MPS1 ), essential for imprint formation, depends on the lysine-specific demethylase Lsd1. We demonstrate that either Lsd1 or Lsd2 amine oxidase activity is required for these processes, working upstream of the imprinting factors Swi1 and Swi3 (homologs of mammalian Timeless and Tipin, respectively). We also show that the Lsd1/2 complex controls the replication fork terminators, within the rDNA repeats. These findings reveal a role for the Lsd1/2 demethylases in controlling polar replication fork progression, imprint formation, and subsequent asymmetric cell divisions. Graphical abstract Highlights ► The lysine-specific demethylase, Lsd1, is a mating-type switching mutant ► Lsd1 is essential for replication fork pausing at the mat1 locus ► Lsd1 is essential for replication fork arrest at the replication fork block at rDNA loci ► Lsd1 and Lsd2 act in a redundant manner for replication fork pausing
    Electronic ISSN: 2211-1247
    Topics: Biology
    Published by Elsevier on behalf of Cell Press.
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  • 90
    Publication Date: 2012-12-22
    Description: Available online 21 December 2012 Publication year: 2012 Source: Cell Reports Chromatin dynamics play a central role in maintaining genome integrity, but how this is achieved remains largely unknown. Here, we report that microrchidia CW-type zinc finger 2 (MORC2), an uncharacterized protein with a derived PHD finger domain and a conserved GHKL-type ATPase module, is a physiological substrate of p21-activated kinase 1 (PAK1), an important integrator of extracellular signals and nuclear processes. Following DNA damage, MORC2 is phosphorylated on serine 739 in a PAK1-dependent manner, and phosphorylated MORC2 regulates its DNA-dependent ATPase activity to facilitate chromatin remodeling. Moreover, MORC2 associates with chromatin and promotes gamma-H2AX induction in a PAK1 phosphorylation-dependent manner. Consequently, cells expressing MORC2-S739A mutation displayed a reduction in DNA repair efficiency and were hypersensitive to DNA-damaging agent. These findings suggest that the PAK1-MORC2 axis is critical for orchestrating the interplay between chromatin dynamics and the maintenance of genomic integrity through sequentially integrating multiple essential enzymatic processes. Graphical abstract Highlights ► MORC2 is a DNA damage-responsive phosphoprotein activated by PAK1 kinase ► MORC2 regulates phosphorylation-coupled, ATPase-dependent chromatin remodeling ► MORC2 facilitates gamma-H2AX induction independently of PIKK kinases ► MORC2 promotes DSB repair in a PAK1 phosphorylation-dependent manner
    Electronic ISSN: 2211-1247
    Topics: Biology
    Published by Elsevier on behalf of Cell Press.
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  • 91
    Publication Date: 2012-12-22
    Description: In this study, tundra N2O and CH4 fluxes were measured from one seabird sanctuary (SBT) and two non-seabird colonies (NST-I and NST-II) in Ny-Ålesund (79°55′N, 11°56′E), Svalbard during the summers of 2008 and 2009. N2O and CH4 fluxes from SBT showed large temporal and spatial variations depending on the intensity of seabird activity. High seabird activity sites showed large N2O and CH4 emissions while low N2O and CH4 emissions, even CH4 uptake occurred at medium and low seabird activity sites. Overall the mean fluxes were 18.3 ± 3.6 μg N2O m−2 h−1 and 53.5 ± 20.3 μg CH4 m−2 h−1 from tundra SBT whereas tundra NST-I and NST-II represented a relatively weak N2O source (8.3 ± 13.2 μg N2O m−2 h−1) and strong CH4 sink (−82.8 ± 22.3 μg CH4 m−2 h−1). Seabird activity was the strongest control of N2O and CH4 fluxes compared with soil temperature and moisture, and high N2O and CH4 emissions were created by soil physical and chemical processes (the sufficient supply of nutrients NH4+–N, NO3−–N, total nitrogen, total phosphorus and total carbon from seabird guano, seabird tramp and appropriate water content) related to the seabird activity. Our work suggests that tundra ecosystems impacted by seabird activity are the potential “hotspots” for N2O and CH4 emissions although these sources have been largely neglected at present. Furthermore the combination of seabird activity and warming climate will likely further enhance N2O and CH4 emissions from the High Arctic tundra.
    Print ISSN: 0148-0227
    Topics: Biology , Geosciences
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  • 92
    Publication Date: 2012-11-03
    Description: Ecological Applications, Volume 22, Issue 7, Page 2034, October 2012.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 93
    Publication Date: 2012-11-03
    Description: Ecological Applications, Volume 22, Issue 7, Page 1865-1875, October 2012.
    Print ISSN: 1051-0761
    Electronic ISSN: 1939-5582
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 94
    Publication Date: 2012-11-03
    Description: Arctic organisms are adapted to the strong seasonality of environmental forcing. A small timing mismatch between biological processes and the environment could potentially have significant consequences for the entire food web. Climate warming causes shrinking ice coverage and earlier ice retreat in the Arctic, which is likely to change the timing of primary production. In this study, we test predictions on the interactions among sea ice phenology and production timing of ice algae and pelagic phytoplankton. We do so using 1) a synthesis of available satellite observation data; and 2) the application of a coupled ice-ocean ecosystem model. The data and model results suggest that, over a large portion of the Arctic marginal seas, the timing variability of ice retreat at a specific location has a strong impact on the timing variability of pelagic phytoplankton peaks but weak or no impact on the timing of ice-algae blooms in those regions. The model predicts latitudinal and regional differences in the timing of ice algae biomass peak (varying from April to May) and the time lags between ice algae and pelagic phytoplankton peaks (varying from 45 to 90 days). The correlation between the time lag and ice retreat is significant in areas where ice retreat has no significant impact on ice-algae peak timing, suggesting that changes in pelagic phytoplankton peak timing control the variability of time lags. Phenological variability of primary production is likely to have consequences for higher trophic levels, particularly for the zooplankton grazers, whose main food source is composed of the dually pulsed algae production of the Arctic. © 2012 Blackwell Publishing Ltd
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    Topics: Biology , Energy, Environment Protection, Nuclear Power Engineering , Geography
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  • 95
    Publication Date: 2012-11-03
    Description: In this paper we present a visual analytics approach for deriving spatio-temporal patterns of collective human mobility from a vast mobile network traffic data set. More than 88 million movements between pairs of radio cells—so-called handovers—served as a proxy for more than two months of mobility within four urban test areas in Northern Italy. In contrast to previous work, our approach relies entirely on visualization and mapping techniques, implemented in several software applications. We purposefully avoid statistical or probabilistic modeling and, nonetheless, reveal characteristic and exceptional mobility patterns. The results show, for example, surprising similarities and symmetries amongst the total mobility and people flows between the test areas. Moreover, the exceptional patterns detected can be associated to real-world events such as soccer matches. We conclude that the visual analytics approach presented can shed new light on large-scale collective urban mobility behavior and thus helps to better understand the “pulse” of dynamic urban systems.
    Electronic ISSN: 2220-9964
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  • 96
    Publication Date: 2012-11-08
    Description: Ecology, Volume 0, Issue 0, Ahead of Print.
    Print ISSN: 0012-9658
    Electronic ISSN: 1939-9170
    Topics: Biology
    Published by Wiley on behalf of The Ecological Society of America (ESA).
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  • 97
    Publication Date: 2012-11-08
    Description: Existing analytical solutions to determine aquifer response to a change in stream stage are inappropriate where an unsaturated zone exists beneath the stream, as in the case of disconnected stream-aquifer systems. A better understanding of the relationship between aquifer response and transient stream stage in disconnected systems is therefore required, as this would also aid in the field determination of the status of connection between the stream and aquifer. We use a numerical model to examine transient stream stage and the corresponding water table response. Beneath disconnected streams, the magnitude of head change in the water table level is a balance between the cumulative infiltration during a flow event and the rate at which the water can disperse laterally. Increases in wave duration, stream width, and streambed permeability result in greater infiltrated water volume and therefore a higher peak response at the water table. Conversely, higher aquifer transmissivity and aquifer hydraulic conductivity allow the water to move laterally away from the stream faster, resulting in a smaller head change below the stream. Lower unsaturated storage results in a greater and faster aquifer response because the unsaturated zone can fill more quickly. Under some combinations of parameters, the magnitude of the disconnected head response is more than seven times greater than the change in stream stage driving streambed infiltration; an effect which can never occur beneath a connected stream. The results of this sensitivity analysis are compared to field data from a river in eastern Australia to determine periods of disconnection. Where the change in aquifer head is greater than the change in stream stage, disconnection between the stream and aquifer can be determined.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 98
    Publication Date: 2012-11-08
    Description: The ability to understand and predict the flux and fate of sediment delivered to the sea by rivers remains an outstanding scientific challenge. Approaches to this challenge are necessarily synthetic, spanning wide ranges in spatial and temporal scales. Here a conventional sediment transport theory used by engineers and sedimentologists at reach and channel scales is applied at the basin scale. Specifically, a straightforward expression proposed by Bagnold and modified accordingly predicts the observed importance of combined wetness and steepness of a source basin as a control of sediment supply to the sea. The reasonable, key assumption underlying the application of sediment transport theory in this context is that the river-mouth sites for which suspended-sediment loads are reported are alluviated, and thus characterized by transport-limited flux of sediment. This analysis also indicates the potential significance of additional, as yet poorly documented factors constraining sediment supply to the sea. These factors, some of which appear to covary systematically with climate, include river-profile concavity, river-mouth channel width and friction, and the characteristic size of sediment in transport.
    Print ISSN: 0043-1397
    Electronic ISSN: 1944-7973
    Topics: Architecture, Civil Engineering, Surveying , Geography
    Published by Wiley on behalf of American Geophysical Union (AGU).
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  • 99
    Publication Date: 2012-11-09
    Description: Publication year: 2012 Source: Cell Reports Hong Zan, Clayton A. White, Lisa M. Thomas, Thach Mai, Guideng Li, Zhenming Xu, Jinsong Zhang, Paolo Casali By diversifying the biological effector functions of antibodies, class switch DNA recombination (CSR) plays a critical role in the maturation of the immune response. It is initiated by activation-induced cytidine deaminase (AID)-mediated deoxycytosine deamination, yielding deoxyuridine (dU), and dU glycosylation by uracil DNA glycosylase (Ung) in antibody switch (S) region DNA. Here we showed that the translesion DNA synthesis polymerase Rev1 directly interacted with Ung and targeted in an AID-dependent and Ung-independent fashion the S regions undergoing CSR. Rev1 −/− Ung +/+ B cells reduced Ung recruitment to S regions, DNA-dU glycosylation, and CSR. Together with an S region spectrum of mutations similar to that of Rev1 +/+ Ung −/− B cells, this suggests that Rev1 operates in the same pathway as Ung, as emphasized by further decreased CSR in Rev1 −/− Msh2 −/− B cells. Rescue of CSR in Rev1 −/− B cells by a catalytically inactive Rev1 mutant shows that the important role of Rev1 in CSR is mediated by Rev1’s scaffolding function, not its enzymatic function. Graphical abstract Graphical Abstract Highlights ► Rev1 DNA polymerase plays an important role in class switch DNA recombination ► This role is mediated by Rev1’s scaffolding function, not its enzymatic function ► Rev1 interacts with Ung and recruits it to switch region DNA ► Rev1 enhances Ung-mediated dU glycosylation in DNA
    Electronic ISSN: 2211-1247
    Topics: Biology
    Published by Elsevier on behalf of Cell Press.
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  • 100
    Publication Date: 2012-11-09
    Description: Publication year: 2012 Source: Cell Reports Michihiko Sugimoto, Masayo Kondo, Michiko Hirose, Misao Suzuki, Kazuyuki Mekada, Takaya Abe, Hiroshi Kiyonari, Atsuo Ogura, Nobuo Takagi, Karen Artzt, Kuniya Abe After implantation, pluripotent epiblasts are converted to embryonic ectoderm through cell–cell interactions that significantly change the transcriptional and epigenetic networks. An entrée to understanding this vital developmental transition is the t w5 mutation of the mouse t complex. This mutation produces highly specific defects in the embryonic ectoderm before gastrulation, leading to death of the embryonic ectoderm. Using a positional cloning approach, we have now identified the mutated gene, completing a decades-long search. The gene, vacuolar protein sorting 52 ( Vps52 ), is a mouse homolog of yeast VPS52 that is involved in the retrograde trafficking of endosomes. Our data suggest that Vps52 acts in extraembryonic tissues to support the growth and differentiation of embryonic ectoderm via cell–cell interactions. It is also required in the formation of embryonic structures at a later stage of development, revealing hitherto unknown functions of Vps52 in the development of a multicellular organism. Graphical abstract Graphical Abstract Highlights ► Vps52 , part of retrograde transport to the Golgi, causes the t w5 lethal phenotype ► Vps52 acts in extraembryonic tissues to dictate embryonic ectoderm differentiation ► VPS52’s essential function in the embryo involves cell–cell interactions ► VPS52 also has an indispensable function later in development
    Electronic ISSN: 2211-1247
    Topics: Biology
    Published by Elsevier on behalf of Cell Press.
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