Estimation of Carbon Flux of Forest Ecosystem over Qilian Mountains by BIOME-BGC Model

Science.gov (United States)

Yan, Min; Tian, Xin; Li, Zengyuan; Chen, Erxue; Li, Chunmei

2014-11-01

The gross primary production (GPP) and net ecosystem exchange (NEE) are important indicators for carbon fluxes. This study aims at evaluating the forest GPP and NEE over the Qilian Mountains using meteorological, remotely sensed and other ancillary data at large scale. To realize this, the widely used ecological-process-based model, Biome-BGC, and remote-sensing-based model, MODIS GPP algorithm, were selected for the simulation of the forest carbon fluxes. The combination of these two models was based on calibrating the Biome-BGC by the optimized MODIS GPP algorithm. The simulated GPP and NEE values were evaluated against the eddy covariance observed GPPs and NEEs, and the well agreements have been reached, with R2=0.76, 0.67 respectively.

[Parameter sensitivity of simulating net primary productivity of Larix olgensis forest based on BIOME-BGC model].

Science.gov (United States)

He, Li-hong; Wang, Hai-yan; Lei, Xiang-dong

2016-02-01

Model based on vegetation ecophysiological process contains many parameters, and reasonable parameter values will greatly improve simulation ability. Sensitivity analysis, as an important method to screen out the sensitive parameters, can comprehensively analyze how model parameters affect the simulation results. In this paper, we conducted parameter sensitivity analysis of BIOME-BGC model with a case study of simulating net primary productivity (NPP) of Larix olgensis forest in Wangqing, Jilin Province. First, with the contrastive analysis between field measurement data and the simulation results, we tested the BIOME-BGC model' s capability of simulating the NPP of L. olgensis forest. Then, Morris and EFAST sensitivity methods were used to screen the sensitive parameters that had strong influence on NPP. On this basis, we also quantitatively estimated the sensitivity of the screened parameters, and calculated the global, the first-order and the second-order sensitivity indices. The results showed that the BIOME-BGC model could well simulate the NPP of L. olgensis forest in the sample plot. The Morris sensitivity method provided a reliable parameter sensitivity analysis result under the condition of a relatively small sample size. The EFAST sensitivity method could quantitatively measure the impact of simulation result of a single parameter as well as the interaction between the parameters in BIOME-BGC model. The influential sensitive parameters for L. olgensis forest NPP were new stem carbon to new leaf carbon allocation and leaf carbon to nitrogen ratio, the effect of their interaction was significantly greater than the other parameter' teraction effect.

EMSL Quarterly Highlights Report: FY 2008, 3rd Quarter

Energy Technology Data Exchange (ETDEWEB)

Showalter, Mary Ann

2008-09-16

The EMSL Quarterly Highlights Report covers the science, staff and user recognition, and publication activities that occurred during the 1st quarter (October 2007 - December 2007) of Fiscal Year 2008.

EMSL Quarterly Highlights Report: 1st Quarter, FY08

Energy Technology Data Exchange (ETDEWEB)

Showalter, Mary Ann

2008-01-28

The EMSL Quarterly Highlights Report covers the science, staff and user recognition, and publication activities that occurred during the 1st quarter (October 2007 - December 2007) of Fiscal Year 2008.

EMSL Quarterly Highlights Report: 1st Quarter, Fiscal Year 2009

Energy Technology Data Exchange (ETDEWEB)

Showalter, Mary Ann; Kathmann, Loel E.; Manke, Kristin L.

2009-02-02

The EMSL Quarterly Highlights Report covers the science, staff and user recognition, and publication activities that occurred during the 1st quarter (October 2008 - December 2008) of Fiscal Year 2009.

EMSL and Institute for Integrated Catalysis (IIC) Catalysis Workshop

Energy Technology Data Exchange (ETDEWEB)

Campbell, Charles T.; Datye, Abhaya K.; Henkelman, Graeme A.; Lobo, Raul F.; Schneider, William F.; Spicer, Leonard D.; Tysoe, Wilfred T.; Vohs, John M.; Baer, Donald R.; Hoyt, David W.; Thevuthasan, Suntharampillai; Mueller, Karl T.; Wang, Chong M.; Washton, Nancy M.; Lyubinetsky, Igor; Teller, Raymond G.; Andersen, Amity; Govind, Niranjan; Kowalski, Karol; Kabius, Bernd C.; Wang, Hongfei; Campbell, Allison A.; Shelton, William A.; Bylaska, Eric J.; Peden, Charles HF; Wang, Yong; King, David L.; Henderson, Michael A.; Rousseau, Roger J.; Szanyi, Janos; Dohnalek, Zdenek; Mei, Donghai; Garrett, Bruce C.; Ray, Douglas; Futrell, Jean H.; Laskin, Julia; DuBois, Daniel L.; Kuprat, Laura R.; Plata, Charity

2011-05-24

Within the context of significantly accelerating scientific progress in research areas that address important societal problems, a workshop was held in November 2010 at EMSL to identify specific and topically important areas of research and capability needs in catalysis-related science.

The BGC Feedbacks Scientific Focus Area 2016 Annual Progress Report

Energy Technology Data Exchange (ETDEWEB)

Hoffman, Forrest M. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Riley, William J. [Lawrence Berkeley National Lab. (LBNL), Berkeley, CA (United States); Randerson, James T. [Univ. of California, Irvine, CA (United States)

2016-06-01

The BGC Feedbacks Project will identify and quantify the feedbacks between biogeochemical cycles and the climate system, and quantify and reduce the uncertainties in Earth System Models (ESMs) associated with those feedbacks. The BGC Feedbacks Project will contribute to the integration of the experimental and modeling science communities, providing researchers with new tools to compare measurements and models, thereby enabling DOE to contribute more effectively to future climate assessments by the U.S. Global Change Research Program (USGCRP) and the Intergovernmental Panel on Climate Change (IPCC).

Development of the BIOME-BGC model for the simulation of managed Moso bamboo forest ecosystems.

Science.gov (United States)

Mao, Fangjie; Li, Pingheng; Zhou, Guomo; Du, Huaqiang; Xu, Xiaojun; Shi, Yongjun; Mo, Lufeng; Zhou, Yufeng; Tu, Guoqing

2016-05-01

Numerical models are the most appropriate instrument for the analysis of the carbon balance of terrestrial ecosystems and their interactions with changing environmental conditions. The process-based model BIOME-BGC is widely used in simulation of carbon balance within vegetation, litter and soil of unmanaged ecosystems. For Moso bamboo forests, however, simulations with BIOME-BGC are inaccurate in terms of the growing season and the carbon allocation, due to the oversimplified representation of phenology. Our aim was to improve the applicability of BIOME-BGC for managed Moso bamboo forest ecosystem by implementing several new modules, including phenology, carbon allocation, and management. Instead of the simple phenology and carbon allocation representations in the original version, a periodic Moso bamboo phenology and carbon allocation module was implemented, which can handle the processes of Moso bamboo shooting and high growth during "on-year" and "off-year". Four management modules (digging bamboo shoots, selective cutting, obtruncation, fertilization) were integrated in order to quantify the functioning of managed ecosystems. The improved model was calibrated and validated using eddy covariance measurement data collected at a managed Moso bamboo forest site (Anji) during 2011-2013 years. As a result of these developments and calibrations, the performance of the model was substantially improved. Regarding the measured and modeled fluxes (gross primary production, total ecosystem respiration, net ecosystem exchange), relative errors were decreased by 42.23%, 103.02% and 18.67%, respectively. Copyright © 2015 Elsevier Ltd. All rights reserved.

Modeling Carbon and Water Budgets in the Lushi Basin with Biome-BGC

Institute of Scientific and Technical Information of China (English)

Dong Wenjuan; Qi Ye; Li Huimin; Zhou Dajie; Shi Duanhua; Sun Liying

2005-01-01

In this article, annual evapotranspiration (ET) and net primary productivity (NPP) of four types of vegetation were estimated for the Lushi basin,a subbasin of the Yellow River in China. These four vegetation types include: deciduous broadleaf forest,evergreen needle leaf forest, dwarf shrub and grass.Biome-BGC--a biogeochemical process model was used to calculate annual ET and NPP for each vegetation type in the study area from 1954 to 2000.Daily microclimate data of 47 years monitored by Lushi meteorological station was extrapolated to cover the basin using MT-CLIM, a mountain microclimate simulator. The output files of MTCLIM were used to feed Biome-BGC. We used average ecophysiological values of each type of vegetation supplied by Numerical Terradynamic Simulation Group (NTSG) in the University of Montana as input ecophysiological constants file.The estimates of daily NPP in early July and annual ET on these four biome groups were compared respectively with field measurements and other studies.Daily gross primary production (GPP) of evergreen needle leaf forest measurements were very dose to the output of Biome-BGC, but measurements of broadleaf forest and dwarf shrub were much smaller than the simulation result. Simulated annual ET and NPP had a significant correlation with precipitation,indicating precipitation is the major environmental factor affecting ET and NPP in the study area.Precipitation also is the key climatic factor for the interannual ET and NPP variations.

Biome-BGC: Terrestrial Ecosystem Process Model, Version 4.1.1

Data.gov (United States)

National Aeronautics and Space Administration — ABSTRACT: Biome-BGC is a computer program that estimates fluxes and storage of energy, water, carbon, and nitrogen for the vegetation and soil components of...

Biome-BGC: Terrestrial Ecosystem Process Model, Version 4.1.1

Data.gov (United States)

National Aeronautics and Space Administration — Biome-BGC is a computer program that estimates fluxes and storage of energy, water, carbon, and nitrogen for the vegetation and soil components of terrestrial...

[Temporal and spatial heterogeneity analysis of optimal value of sensitive parameters in ecological process model: The BIOME-BGC model as an example.

Science.gov (United States)

Li, Yi Zhe; Zhang, Ting Long; Liu, Qiu Yu; Li, Ying

2018-01-01

The ecological process models are powerful tools for studying terrestrial ecosystem water and carbon cycle at present. However, there are many parameters for these models, and weather the reasonable values of these parameters were taken, have important impact on the models simulation results. In the past, the sensitivity and the optimization of model parameters were analyzed and discussed in many researches. But the temporal and spatial heterogeneity of the optimal parameters is less concerned. In this paper, the BIOME-BGC model was used as an example. In the evergreen broad-leaved forest, deciduous broad-leaved forest and C3 grassland, the sensitive parameters of the model were selected by constructing the sensitivity judgment index with two experimental sites selected under each vegetation type. The objective function was constructed by using the simulated annealing algorithm combined with the flux data to obtain the monthly optimal values of the sensitive parameters at each site. Then we constructed the temporal heterogeneity judgment index, the spatial heterogeneity judgment index and the temporal and spatial heterogeneity judgment index to quantitatively analyze the temporal and spatial heterogeneity of the optimal values of the model sensitive parameters. The results showed that the sensitivity of BIOME-BGC model parameters was different under different vegetation types, but the selected sensitive parameters were mostly consistent. The optimal values of the sensitive parameters of BIOME-BGC model mostly presented time-space heterogeneity to different degrees which varied with vegetation types. The sensitive parameters related to vegetation physiology and ecology had relatively little temporal and spatial heterogeneity while those related to environment and phenology had generally larger temporal and spatial heterogeneity. In addition, the temporal heterogeneity of the optimal values of the model sensitive parameters showed a significant linear correlation

FIFE data analysis: Testing BIOME-BGC predictions for grasslands

Science.gov (United States)

Hunt, E. Raymond, Jr.

1994-01-01

The First International Satellite Land Surface Climatology Project (ISLSCP) Field Experiment (FIFE) was conducted in a 15 km by 15 km research area located 8 km south of Manhattan, Kansas. The site consists primarily of native tallgrass prairie mixed with gallery oak forests and croplands. The objectives of FIFE are to better understand the role of biology in controlling the interactions between the land and the atmosphere, and to determine the value of remotely sensed data for estimating climatological parameters. The goals of FIFE are twofold: the upscale integration of models, and algorithm development for satellite remote sensing. The specific objectives of the field campaigns carried out in 1987 and 1989 were the simultaneous acquisition of satellite, atmospheric, and surface data; and the understanding of the processes controlling surface energy and mass exchange. Collected data were used to study the dynamics of various ecosystem processes (photosynthesis, evaporation and transpiration, autotrophic and heterotrophic respiration, etc.). Modelling terrestrial ecosystems at scales larger than that of a homogeneous plot led to the development of simple, generalized models of biogeochemical cycles that can be accurately applied to different biomes through the use of remotely sensed data. A model was developed called BIOME-BGC (for BioGeochemical Cycles) from a coniferous forest ecosystem model, FOREST-BGC, where a biome is considered a combination of a life forms in a specified climate. A predominately C4-photosynthetic grassland is probably the most different from a coniferous forest possible, hence the FIFE site was an excellent study area for testing BIOME-BGC. The transition from an essentially one-dimensional calculation to three-dimensional, landscape scale simulations requires the introduction of such factors as meteorology, climatology, and geomorphology. By using remotely sensed geographic information data for important model inputs, process

Use of BIOME-BGC to simulate water and carbon fluxes within Mediterranean macchia

OpenAIRE

Chiesi M; Chirici G; Corona P; Duce P; Salvati R; Spano D; Vaccari FP; Maselli F

2012-01-01

The biogeochemical model BIOME-BGC is capable to estimate the main ecophysiological processes characterising all terrestrial ecosystems. To this aim it needs to be properly adapted to reproduce the behaviour of each biome type through a calibration phase. The aim of this paper is to adapt BIOME-BGC to reproduce the evapotranspiration (ET) and photosynthesis (GPP) of Mediterranean macchia spread all over Italy. Ten different sites were selected in the Centre-South of Italy and their gross prim...

SENSITIVITY ANALYSIS OF BIOME-BGC MODEL FOR DRY TROPICAL FORESTS OF VINDHYAN HIGHLANDS, INDIA

OpenAIRE

M. Kumar; A. S. Raghubanshi

2012-01-01

A process-based model BIOME-BGC was run for sensitivity analysis to see the effect of ecophysiological parameters on net primary production (NPP) of dry tropical forest of India. The sensitivity test reveals that the forest NPP was highly sensitive to the following ecophysiological parameters: Canopy light extinction coefficient (k), Canopy average specific leaf area (SLA), New stem C : New leaf C (SC:LC), Maximum stomatal conductance (gs,max), C:N of fine roots (C:Nfr), All-sided to...

Calibration and Application of FOREST-BGC in NorthWestern of Portugal

Science.gov (United States)

Rodrigues, M. A.; Lopes, D. M.; Leite, M. S.; Tabuada, V. M.

2010-05-01

Net primary production (NPP) is one of the most important variables in terms of ecosystems inventory and management, because it quantifies its growth and reflects the impact of biotic and abiotic factors, which could affect it. Interest in NP has increased recently because of the increasing interesting in climate change and the need in understanding its impact on the environment. There are ecophysiologic models, as Forest-BGC that allow for estimating NPP. The types of models offer a possible methodology to test these phenomena, beyond temporal and spatial scales, not available with tradicional inventory methodologies. To analyze the Forest-BGC performance, NPP data obtained with model were compared with collected data in the field, in the same sampling plots. For a parameterization and validation of the FOREST-BGC, this study was carried on based on 500m2 sampling plots from the National Forest Inventory 2006 and are located in several County Halls of the district of Vila Real, Portugal (Montalegre, Chaves, Valpaços, Boticas, Vila Pouca de Aguiar, Murça, Mondim de Basto, Alijó, Sabrosa and Vila Real). In order to quantify Biomass dinamics, we have selected 45 sampling plots: 19 from Pinus pinaster stands, 17 from Quercus pyreneica and 10 from mixed of Quercus with Pinus. Adaptation strategies for climate change impacts can be proposed based on these research results.

Assessing the protection function of Alpine forest ecosystems using BGC modelling theory

Science.gov (United States)

Pötzelsberger, E.; Hasenauer, H.; Petritsch, R.; Pietsch, S. A.

2009-04-01

The purpose of this study was to assess the protection function of forests in Alpine areas by modelling the flux dynamics (water, carbon, nutrients) within a watershed as they may depend on the vegetation pattern and forest management impacts. The application case for this study was the catchment Schmittenbach, located in the province of Salzburg. Data available covered the hydrology (rainfall measurements from 1981 to 1998 and runoff measurements at the river Schmittenbach from 1981 to 2005), vegetation dynamics (currently 69% forest, predominantly Norway Spruce). The method of simulating the forest growth and water outflow was validated. For simulations of the key ecosystem processes (e.g. photosynthesis, carbon and nitrogen allocation in the different plant parts, litter fall, mineralisation, tree water uptake, transpiration, rainfall interception, evaporation, snow accumulation and snow melt, outflow of spare water) the biogeochemical ecosystem model Biome-BGC was applied. Relevant model extensions were the tree species specific parameter sets and the improved thinning regime. The model is sensitive to site characteristics and needs daily weather data and information on the atmospheric composition, which makes it sensitive to higher CO2-levels and climate change. For model validation 53 plots were selected covering the full range of site quality and stand age. Tree volume and soil was measured and compared with the respective model results. The outflow for the watershed was predicted by combining the simulated forest-outflow (derived from plot-outflow) with the outflow from the non-forest area (calculated with a fixed outflow/rainfall coefficient (OC)). The analysis of production and water related model outputs indicated that mechanistic modelling can be used as a tool to assess the performance of Alpine protection forests. The Water Use Efficiency (WUE), the ratio of Net primary production (NPP) and Transpiration, was found the highest for juvenile stands (�

Parameterisation of Biome BGC to assess forest ecosystems in Africa

Science.gov (United States)

Gautam, Sishir; Pietsch, Stephan A.

2010-05-01

African forest ecosystems are an important environmental and economic resource. Several studies show that tropical forests are critical to society as economic, environmental and societal resources. Tropical forests are carbon dense and thus play a key role in climate change mitigation. Unfortunately, the response of tropical forests to environmental change is largely unknown owing to insufficient spatially extensive observations. Developing regions like Africa where records of forest management for long periods are unavailable the process-based ecosystem simulation model - BIOME BGC could be a suitable tool to explain forest ecosystem dynamics. This ecosystem simulation model uses descriptive input parameters to establish the physiology, biochemistry, structure, and allocation patterns within vegetation functional types, or biomes. Undocumented parameters for larger-resolution simulations are currently the major limitations to regional modelling in African forest ecosystems. This study was conducted to document input parameters for BIOME-BGC for major natural tropical forests in the Congo basin. Based on available literature and field measurements updated values for turnover and mortality, allometry, carbon to nitrogen ratios, allocation of plant material to labile, cellulose, and lignin pools, tree morphology and other relevant factors were assigned. Daily climate input data for the model applications were generated using the statistical weather generator MarkSim. The forest was inventoried at various sites and soil samples of corresponding stands across Gabon were collected. Carbon and nitrogen in the collected soil samples were determined from soil analysis. The observed tree volume, soil carbon and soil nitrogen were then compared with the simulated model outputs to evaluate the model performance. Furthermore, the simulation using Congo Basin specific parameters and generalised BIOME BGC parameters for tropical evergreen broadleaved tree species were also

Modeling the Ecosystem Services Provided by Trees in Urban Ecosystems: Using Biome-BGC to Improve i-Tree Eco

Science.gov (United States)

Brown, Molly E.; McGroddy, Megan; Spence, Caitlin; Flake, Leah; Sarfraz, Amna; Nowak, David J.; Milesi, Cristina

2012-01-01

As the world becomes increasingly urban, the need to quantify the effect of trees in urban environments on energy usage, air pollution, local climate and nutrient run-off has increased. By identifying, quantifying and valuing the ecological activity that provides services in urban areas, stronger policies and improved quality of life for urban residents can be obtained. Here we focus on two radically different models that can be used to characterize urban forests. The i-Tree Eco model (formerly UFORE model) quantifies ecosystem services (e.g., air pollution removal, carbon storage) and values derived from urban trees based on field measurements of trees and local ancillary data sets. Biome-BGC (Biome BioGeoChemistry) is used to simulate the fluxes and storage of carbon, water, and nitrogen in natural environments. This paper compares i-Tree Eco's methods to those of Biome-BGC, which estimates the fluxes and storage of energy, carbon, water and nitrogen for vegetation and soil components of the ecosystem. We describe the two models and their differences in the way they calculate similar properties, with a focus on carbon and nitrogen. Finally, we discuss the implications of further integration of these two communities for land managers such as those in Maryland.

Sensitivity Analysis of Biome-Bgc Model for Dry Tropical Forests of Vindhyan Highlands, India

Science.gov (United States)

Kumar, M.; Raghubanshi, A. S.

2011-08-01

A process-based model BIOME-BGC was run for sensitivity analysis to see the effect of ecophysiological parameters on net primary production (NPP) of dry tropical forest of India. The sensitivity test reveals that the forest NPP was highly sensitive to the following ecophysiological parameters: Canopy light extinction coefficient (k), Canopy average specific leaf area (SLA), New stem C : New leaf C (SC:LC), Maximum stomatal conductance (gs,max), C:N of fine roots (C:Nfr), All-sided to projected leaf area ratio and Canopy water interception coefficient (Wint). Therefore, these parameters need more precision and attention during estimation and observation in the field studies.

Simulating carbon and water fluxes at Arctic and boreal ecosystems in Alaska by optimizing the modified BIOME-BGC with eddy covariance data

Science.gov (United States)

Ueyama, M.; Kondo, M.; Ichii, K.; Iwata, H.; Euskirchen, E. S.; Zona, D.; Rocha, A. V.; Harazono, Y.; Nakai, T.; Oechel, W. C.

2013-12-01

To better predict carbon and water cycles in Arctic ecosystems, we modified a process-based ecosystem model, BIOME-BGC, by introducing new processes: change in active layer depth on permafrost and phenology of tundra vegetation. The modified BIOME-BGC was optimized using an optimization method. The model was constrained using gross primary productivity (GPP) and net ecosystem exchange (NEE) at 23 eddy covariance sites in Alaska, and vegetation/soil carbon from a literature survey. The model was used to simulate regional carbon and water fluxes of Alaska from 1900 to 2011. Simulated regional fluxes were validated with upscaled GPP, ecosystem respiration (RE), and NEE based on two methods: (1) a machine learning technique and (2) a top-down model. Our initial simulation suggests that the original BIOME-BGC with default ecophysiological parameters substantially underestimated GPP and RE for tundra and overestimated those fluxes for boreal forests. We will discuss how optimization using the eddy covariance data impacts the historical simulation by comparing the new version of the model with simulated results from the original BIOME-BGC with default ecophysiological parameters. This suggests that the incorporation of the active layer depth and plant phenology processes is important to include when simulating carbon and water fluxes in Arctic ecosystems.

Improved simulation of poorly drained forests using Biome-BGC.

Science.gov (United States)

Bond-Lamberty, Ben; Gower, Stith T; Ahl, Douglas E

2007-05-01

Forested wetlands and peatlands are important in boreal and terrestrial biogeochemical cycling, but most general-purpose forest process models are designed and parameterized for upland systems. We describe changes made to Biome-BGC, an ecophysiological process model, that improve its ability to simulate poorly drained forests. Model changes allowed for: (1) lateral water inflow from a surrounding watershed, and variable surface and subsurface drainage; (2) adverse effects of anoxic soil on decomposition and nutrient mineralization; (3) closure of leaf stomata in flooded soils; and (4) growth of nonvascular plants (i.e., bryophytes). Bryophytes were treated as ectohydric broadleaf evergreen plants with zero stomatal conductance, whose cuticular conductance to CO(2) was dependent on plant water content. Individual model changes were parameterized with published data, and ecosystem-level model performance was assessed by comparing simulated output to field data from the northern BOREAS site in Manitoba, Canada. The simulation of the poorly drained forest model exhibited reduced decomposition and vascular plant growth (-90%) compared with that of the well-drained forest model; the integrated bryophyte photosynthetic response accorded well with published data. Simulated net primary production, biomass and soil carbon accumulation broadly agreed with field measurements, although simulated net primary production was higher than observed data in well-drained stands. Simulated net primary production in the poorly drained forest was most sensitive to oxygen restriction on soil processes, and secondarily to stomatal closure in flooded conditions. The modified Biome-BGC remains unable to simulate true wetlands that are subject to prolonged flooding, because it does not track organic soil formation, water table changes, soil redox potential or anaerobic processes.

Optimizing selective cutting strategies for maximum carbon stocks and yield of Moso bamboo forest using BIOME-BGC model.

Science.gov (United States)

Mao, Fangjie; Zhou, Guomo; Li, Pingheng; Du, Huaqiang; Xu, Xiaojun; Shi, Yongjun; Mo, Lufeng; Zhou, Yufeng; Tu, Guoqing

2017-04-15

The selective cutting method currently used in Moso bamboo forests has resulted in a reduction of stand productivity and carbon sequestration capacity. Given the time and labor expense involved in addressing this problem manually, simulation using an ecosystem model is the most suitable approach. The BIOME-BGC model was improved to suit managed Moso bamboo forests, which was adapted to include age structure, specific ecological processes and management measures of Moso bamboo forest. A field selective cutting experiment was done in nine plots with three cutting intensities (high-intensity, moderate-intensity and low-intensity) during 2010-2013, and biomass of these plots was measured for model validation. Then four selective cutting scenarios were simulated by the improved BIOME-BGC model to optimize the selective cutting timings, intervals, retained ages and intensities. The improved model matched the observed aboveground carbon density and yield of different plots, with a range of relative error from 9.83% to 15.74%. The results of different selective cutting scenarios suggested that the optimal selective cutting measure should be cutting 30% culms of age 6, 80% culms of age 7, and all culms thereafter (above age 8) in winter every other year. The vegetation carbon density and harvested carbon density of this selective cutting method can increase by 74.63% and 21.5%, respectively, compared with the current selective cutting measure. The optimized selective cutting measure developed in this study can significantly promote carbon density, yield, and carbon sink capacity in Moso bamboo forests. Copyright © 2017 Elsevier Ltd. All rights reserved.

A spatial implementation of the BIOME-BGC to model grassland GPP production and water budgets in the Ecuadorian Andean Region

Science.gov (United States)

Minaya, Veronica; Corzo, Gerald; van der Kwast, Johannes; Mynett, Arthur

2016-04-01

Many terrestrial biogeochemistry process models have been applied around the world at different scales and for a large range of ecosystems. Grasslands, and in particular the ones located in the Andean Region are essential ecosystems that sustain important ecological processes; however, just a few efforts have been made to estimate the gross primary production (GPP) and the hydrological budgets for this specific ecosystem along an altitudinal gradient. A previous study, which is one of the few available in the region, considered the heterogeneity of the main properties of the páramo vegetation and showed significant differences in plant functional types, site/soil parameters and daily meteorology. This study extends the work above mentioned and uses spatio-temporal analysis of the BIOME-BGC model results. This was done to simulate the GPP and the water fluxes in space and time, by applying altitudinal analysis. The catchment located at the southwestern slope of the Antisana volcano in Ecuador was selected as a representative area of the Andean páramos and its hydrological importance as one of the main sources of a water supply reservoir in the region. An accurate estimation of temporal changes in GPP in the region is important for carbon budget assessments, evaluation of the impact of climate change and biomass productivity. This complex and yet interesting problem was integrated by the ecosystem process model BIOME-BGC, the results were evaluated and associated to the land cover map where the growth forms of vegetation were identified. The responses of GPP and the water fluxes were not only dependent on the environmental drivers but also on the ecophysiology and the site specific parameters. The model estimated that the GPP at lower elevations doubles the amount estimated at higher elevations, which might have a large implication during extrapolations at larger spatio-temporal scales. The outcomes of the stand hydrological processes demonstrated a wrong

Copula Multivariate analysis of Gross primary production and its hydro-environmental driver; A BIOME-BGC model applied to the Antisana páramos

Science.gov (United States)

Minaya, Veronica; Corzo, Gerald; van der Kwast, Johannes; Galarraga, Remigio; Mynett, Arthur

2014-05-01

Simulations of carbon cycling are prone to uncertainties from different sources, which in general are related to input data, parameters and the model representation capacities itself. The gross carbon uptake in the cycle is represented by the gross primary production (GPP), which deals with the spatio-temporal variability of the precipitation and the soil moisture dynamics. This variability associated with uncertainty of the parameters can be modelled by multivariate probabilistic distributions. Our study presents a novel methodology that uses multivariate Copulas analysis to assess the GPP. Multi-species and elevations variables are included in a first scenario of the analysis. Hydro-meteorological conditions that might generate a change in the next 50 or more years are included in a second scenario of this analysis. The biogeochemical model BIOME-BGC was applied in the Ecuadorian Andean region in elevations greater than 4000 masl with the presence of typical vegetation of páramo. The change of GPP over time is crucial for climate scenarios of the carbon cycling in this type of ecosystem. The results help to improve our understanding of the ecosystem function and clarify the dynamics and the relationship with the change of climate variables. Keywords: multivariate analysis, Copula, BIOME-BGC, NPP, páramos

Reply: “Use of BIOME-BGC to simulate Mediterranean forest carbon stocks”

OpenAIRE

Maselli F; Salvati R; Barbati A; Chirici G; Chiesi M

2011-01-01

The current note responds to the critical contribution of Dr. Eastaugh on Chiesi et al. (Chiesi et al. 2011). That paper did not aim at applying BIOME-BGC to simulate stand growth, which requires a thorough modification of the model functions. In contrast, only a parameter setting was changed in order to adjust the predicted carbon storages during the simulation of quasi-equilibrium conditions. The adjustment was calibrated on volume statistics derived from the Tuscany forest inventory and is...

Testing the applicability of BIOME-BGC to simulate beech gross primary production in Europe using a new continental weather dataset

DEFF Research Database (Denmark)

Chiesi, Marta; Chirici, Gherardo; Marchetti, Marco

2016-01-01

A daily 1-km Pan-European weather dataset can drive the BIOME-BGC model for the estimation of current and future beech gross primary production (GPP). Annual beech GPP is affected primarily by spring temperature and more irregularly by summer water stress.The spread of beech forests in Europe...... forest ecosystems having different climatic conditions where the eddy covariance technique is used to measure water and carbon fluxes. The experiment is in three main steps. First, the accuracy of BIOME-BGC GPP simulations is assessed through comparison with flux observations. Second, the influence...... of two major meteorological drivers (spring minimum temperature and growing season dryness) on observed and simulated inter-annual GPP variations is analysed. Lastly, the impacts of two climate change scenarios on beech GPP are evaluated through statistical analyses of the ground data and model...

Curcumin Induced Human Gastric Cancer BGC-823 Cells Apoptosis by ROS-Mediated ASK1-MKK4-JNK Stress Signaling Pathway

Directory of Open Access Journals (Sweden)

Tao Liang

2014-09-01

Full Text Available The signaling mediated by stress-activated MAP kinases (MAPK, c-Jun N-terminal kinase (JNK has well-established importance in cancer. In the present report, we investigated the effects of curcumin on the signaling pathway in human gastric cancer BGC-823 cells. Curcumin induced reactive oxygen species (ROS production and BGC-823 cells apoptosis. Inhibition of ROS generation by antioxidant (NAC or Trion significantly prevented curcumin-mediated apoptosis. Notably, we observed that curcumin activated ASK1, a MAPKKK that is oxidative stress sensitive and responsible to phosphorylation of JNK via triggering cascades, up-regulated an upstream effector of the JNK, MKK4, and phosphorylated JNK protein expression in BGC-823 cells. However, curcumin induced ASK1-MKK4-JNK signaling was attenuated by NAC. All the findings confirm the possibility that oxidative stress-activated ASK1-MKK4-JNK signaling cascade promotes the apoptotic response in curcumin-treated BGC-823 cells.

Comment on Chiesi et al. (2011): “Use of BIOME-BGC to simulate Mediterranean forest carbon stocks”

OpenAIRE

Eastaugh CS

2011-01-01

The mechanistic forest growth model BIOME-BGC utilizes a “spin-up” procedure to estimate site parameters for forests in a steady-state condition, as they may have been expected to be prior to anthropogenic influence. Forests in this condition have no net growth, as living biomass accumulation is balanced by mortality. To simulate current ecosystems it is necessary to reset the model to reflect a forest of the correct development stage. The alternative approach of simply post-adjus...

Analyzing the carbon dynamics in north western Portugal: calibration and application of Forest-BGC

Science.gov (United States)

Rodrigues, M. A.; Lopes, D. M.; Leite, S. M.; Tabuada, V. M.

2010-04-01

Net primary production (NPP) is an important variable that allows monitoring forestry ecosystems fixation of atmospheric Carbon. The importance of monitoring the sequestred carbon is related to the binding commitments established by the Kyoto Protocol. There are ecophysiologic models, as Forest-BGC that allow for estimating NPP. In a first stage, this study aims to analyze the climate evolution at the Vila Real administrative district during the last decades. The historical information will be observed in order to detect the past tendencies of evolution. Past will help us to predict future. In a next stage these tendencies will be used to infer the impact of these change scenarios on the net primary production of the forest ecosystems from this study area. For a parameterization and validation of the FOREST-BGC, this study was carried on based on 500 m2 sampling plots from the National Forest Inventory 2006 and are located in several County Halls of the district of Vila Real (Montalegre, Chaves, Valpaços, Boticas, Vila Pouca de Aguiar, Murça, Mondim de Basto, Alijó, Sabrosa and Vila Real). In order to quantify Biomass dinamics, we have selected 45 sampling plots: 19 from Pinus pinaster stands, 17 from Quercus pyrenaica and 10 from mixed of Quercus pyrenaica with Pinus pinaster. Adaptation strategies for climate change impacts can be proposed based on these research results.

BOREAS RSS-8 BIOME-BGC SSA Simulation of Annual Water and Carbon Fluxes

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Hall, Forrest G. (Editor); Nickeson, Jaime (Editor); Kimball, John

2000-01-01

The BOREAS RSS-8 team performed research to evaluate the effect of seasonal weather and landcover heterogeneity on boreal forest regional water and carbon fluxes using a process-level ecosystem model, BIOME-BGC, coupled with remote sensing-derived parameter maps of key state variables. This data set contains derived maps of landcover type and crown and stem biomass as model inputs to determine annual evapotranspiration, gross primary production, autotrophic respiration, and net primary productivity within the BOREAS SSA-MSA, at a 30-m spatial resolution. Model runs were conducted over a 3-year period from 1994-1996; images are provided for each of those years. The data are stored in binary image format. The data files are available on a CD-ROM (see document number 20010000884), or from the Oak Ridge National Laboratory (ORNL) Distributed Active Archive Center (DAAC).

Spectroscopic Classification of SN 2018bgc (=ATLAS18nvs) as a Type Ia Supernova

Science.gov (United States)

Lin, Han; Wang, Xiaofeng; Xiang, Danfeng; Rui, Liming; Hu, Lei; Hu, Maokai; Zhang, Xinhan; Li, Xue; Zhang, Tianmeng; Zhang, Jujia

2018-05-01

We obtained an optical spectrum (range 385-855 nm) of SN 2018bgc(=ATLAS18nvs), discovered by ATLAS, on UT May 08.60 2018 with the 2.16-m telescope (+BFOSC) at Xinglong Station of National Astronomical Observatories of China (NAOC).

Testing the applicability of BIOME-BGC to simulate beech gross primary production in Europe using a new continental weather dataset

OpenAIRE

Chiesi , Marta; Chirici , Gherardo; Marchetti , Marco; Hasenauer , Hubert; Moreno , Adam; Knohl , Alexander; Matteucci , Giorgio; Pilegaard , Kim; Granier , André; Longdoz , Bernard; Maselli , Fabio

2016-01-01

Key message A daily 1-km Pan-European weather dataset can drive the BIOME-BGC model for the estimation of current and future beech gross primary production (GPP). Annual beech GPP is affected primarily by spring temperature and more irregularly by summer water stress. [br/] Context The spread of beech forests in Europe enhances the importance of modelling and monitoring their growth in view of ongoing climate changes. [br/] Aims The current paper assesses the capability o...

[Responses of Pinus tabulaeformis forest ecosystem in North China to climate change and elevated CO2: a simulation based on BIOME-BGC model and tree-ring data].

Science.gov (United States)

He, Jun-Jie; Peng, Xing-Yuan; Chen, Zhen-Ju; Cui, Ming-Xing; Zhang, Xian-Liang; Zhou, Chang-Hong

2012-07-01

Based on BIOME-BGC model and tree-ring data, a modeling study was conducted to estimate the dynamic changes of the net primary productivity (NPP) of Pinus tabulaeformis forest ecosystem in North China in 1952-2008, and explore the responses of the radial growth and NPP to regional climate warming as well as the dynamics of the NPP in the future climate change scenarios. The simulation results indicated the annual NPP of the P. tabulaeformis ecosystem in 1952-2008 fluctuated from 244.12 to 645.31 g C x m(-2) x a(-1), with a mean value of 418.6 g C x m(-2) x a(-1) The mean air temperature in May-June and the precipitation from previous August to current July were the main factors limiting the radial growth of P. tabulaeformis and the NPP of P. tabulaeformis ecosystem. In the study period, both the radial growth and the NPP presented a decreasing trend due to the regional warming and drying climate condition. In the future climate scenarios, the NPP would have positive responses to the increase of air temperature, precipitation, and their combination. The elevated CO2 would benefit the increase of the NPP, and the increment would be about 16.1% due to the CO2 fertilization. At both ecosystem and regional scales, the tree-ring data would be an ideal proxy to predict the ecosystem dynamic change, and could be used to validate and calibrate the process-based ecosystem models including BIOME-BGC.

Modeling the grazing effect on dry grassland carbon cycling with modified Biome-BGC grazing model

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Luo, Geping; Han, Qifei; Li, Chaofan; Yang, Liao

2014-05-01

Identifying the factors that determine the carbon source/sink strength of ecosystems is important for reducing uncertainty in the global carbon cycle. Arid grassland ecosystems are a widely distributed biome type in Xinjiang, Northwest China, covering approximately one-fourth the country's land surface. These grasslands are the habitat for many endemic and rare plant and animal species and are also used as pastoral land for livestock. Using the modified Biome-BGC grazing model, we modeled carbon dynamics in Xinjiang for grasslands that varied in grazing intensity. In general, this regional simulation estimated that the grassland ecosystems in Xinjiang acted as a net carbon source, with a value of 0.38 Pg C over the period 1979-2007. There were significant effects of grazing on carbon dynamics. An over-compensatory effect in net primary productivity (NPP) and vegetation carbon (C) stock was observed when grazing intensity was lower than 0.40 head/ha. Grazing resulted in a net carbon source of 23.45 g C m-2 yr-1, which equaled 0.37 Pg in Xinjiang in the last 29 years. In general, grazing decreased vegetation C stock, while an increasing trend was observed with low grazing intensity. The soil C increased significantly (17%) with long-term grazing, while the soil C stock exhibited a steady trend without grazing. These findings have implications for grassland ecosystem management as it relates to carbon sequestration and climate change mitigation, e.g., removal of grazing should be considered in strategies that aim to increase terrestrial carbon sequestrations at local and regional scales. One of the greatest limitations in quantifying the effects of herbivores on carbon cycling is identifying the grazing systems and intensities within a given region. We hope our study emphasizes the need for large-scale assessments of how grazing impacts carbon cycling. Most terrestrial ecosystems in Xinjiang have been affected by disturbances to a greater or lesser extent in the past

Anti-Proliferation and Anti-Invasion Effects of Diosgenin on Gastric Cancer BGC-823 Cells with HIF-1α shRNAs

Directory of Open Access Journals (Sweden)

Yuan-Neng Chou

2012-05-01

Full Text Available Drug resistance is a major factor for the limited efficacy of chemotherapy in gastric cancer treatment. Hypoxia-inducible factor-1α (HIF-1α, a central transcriptional factor in hypoxia, is suggested to participate in the resistance. Here, we identified a hypoxia-mimic (cobalt chloride sensitive gastric cell line BGC-823 to explore whether diosgenin, an aglycone of steroidal saponins, can inhibit cancer cell invasion and survival of solid tumor in a hypoxic mimic microenvironment. We have shown that diosgenin is a potent candidate for decreasing the ability of invasion and survival in cobalt chloride treated BGC-823 cells. In addition, when combined with HIF-1α specific short hairpin RNA (shRNA, diosgenin can inhibit BGC-823 cells more effectively. The anti-invasion role of diosgenin may be related to E-cadherin, integrinα5 and integrinβ6. These results suggest that diosgenin may be a useful compound in controlling gastric cancer cells in hypoxia condition, especially when combined with down-regulated HIF-1α.

Evaluation of forest management practices through application of a biogeochemical model, PnET-BGC

Science.gov (United States)

Valipour, M.; Driscoll, C. T.; Johnson, C. E.; Campbell, J. L.; Fahey, T.; Zeng, T.

2017-12-01

Forest ecosystem response to logging disturbance varies significantly, depending on site conditions, species composition, land use history, and the method and frequency of harvesting. The long-term effects of forest cuttings are less clear due to limited information on land use history and long-term time series observations. The hydrochemical model, PnET-BGC was modified and verified using field data from multiple experimentally harvested northern hardwood watersheds at the Hubbard Brook Experimental Forest (HBEF), New Hampshire, USA, including a commercial whole-tree harvest (Watershed 5), a devegetation experiment (Watershed 2; devegetation and herbicide treatment), a commercial strip-cut (Watershed 4) to simulate the hydrology, biomass accumulation, and soil solution and stream water chemistry responses to clear-cutting. The confirmed model was used to investigate temporal changes in aboveground biomass accumulation and nutrient dynamics under three different harvesting intensities (40%, 60%, 80%) over four varied rotation lengths (20, 40, 60, 80 years) with results compared with a scenario of no forest harvesting. The total ecosystem carbon pool (biomass, soil and litter) was reduced over harvesting events. The greatest decline occurred in litter by 40%-70%, while the pool of carbon stored in aboveground biomass decreased by 30%-60% for 80% cutting levels at 40 and 20 year rotation lengths, respectively. The large pool of soil organic carbon remained relatively stable, with only minor declines over logging regimes. Stream water simulations demonstrated increased loss of major elements over cutting events. Ca+2 and NO3- were the most sensitive elements to leaching over frequent intensive logging. Accumulated leaching of Ca+2 and NO3- varied between 90-520 t Ca/ha and 40-420 t N/ha from conservative (80-year period and 40% cutting) to aggressive (20-year period and 80% cutting) cutting regimes, respectively. Moreover, a reduction in nutrient plant uptake over

Inhibitory effects of CP on the growth of human gastric adenocarcinoma BGC-823 tumours in nude mice.

Science.gov (United States)

Wang, Hai-Jun; Liu, Yu; Zhou, Bao-Jun; Zhang, Zhan-Xue; Li, Ai-Ying; An, Ran; Yue, Bin; Fan, Li-Qiao; Li, Yong

2018-05-01

Objective To investigate the potential antitumour effects of [2-(6-amino-purine-9-yl)-1-hydroxy-phosphine acyl ethyl] phosphonic acid (CP) against gastric adenocarcinoma. Methods Human BGC-823 xenotransplants were established in nude mice. Animals were randomly divided into control and CP groups, which were administered NaHCO 3 vehicle alone or CP dissolved in NaHCO 3 (200 µg/kg body weight) daily, respectively. Tumour volume was measured weekly for 6 weeks. Resected tumours were assayed for proliferative activity with anti-Ki-67 or anti-proliferating cell nuclear antigen (PCNA) antibodies. Cell apoptosis was examined using terminal deoxynucleotidyl transferase-mediated dUTP nick end labelling (TUNEL) assays and with caspase-3 immunostaining. Proteins were measured by Western blotting. Results There was a significant reduction in tumour volume and a reduced percentage of Ki-67-positive or PCNA-positive cells in the CP group compared with the control group. The percentage of TUNEL-positive or caspase 3-positive cells significantly increased following CP treatment compared with the control group. Tumours from the CP group had higher levels of phosphorylated-extracellular signal-regulated kinase (p-ERK) and phosphorylated-AKT (p-AKT) compared with control tumours. Conclusion CP treatment inhibited tumour growth and induced tumour cell apoptosis in a nude mouse model of BGC-823 gastric adenocarcinoma. Activation of the AKT and ERK signalling pathways may mediate this antitumour activity.

Simulation of Forest Carbon Fluxes Using Model Incorporation and Data Assimilation

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Min Yan

2016-07-01

Full Text Available This study improved simulation of forest carbon fluxes in the Changbai Mountains with a process-based model (Biome-BGC using incorporation and data assimilation. Firstly, the original remote sensing-based MODIS MOD_17 GPP (MOD_17 model was optimized using refined input data and biome-specific parameters. The key ecophysiological parameters of the Biome-BGC model were determined through the Extended Fourier Amplitude Sensitivity Test (EFAST sensitivity analysis. Then the optimized MOD_17 model was used to calibrate the Biome-BGC model by adjusting the sensitive ecophysiological parameters. Once the best match was found for the 10 selected forest plots for the 8-day GPP estimates from the optimized MOD_17 and from the Biome-BGC, the values of sensitive ecophysiological parameters were determined. The calibrated Biome-BGC model agreed better with the eddy covariance (EC measurements (R2 = 0.87, RMSE = 1.583 gC·m−2·d−1 than the original model did (R2 = 0.72, RMSE = 2.419 gC·m−2·d−1. To provide a best estimate of the true state of the model, the Ensemble Kalman Filter (EnKF was used to assimilate five years (of eight-day periods between 2003 and 2007 of Global LAnd Surface Satellite (GLASS LAI products into the calibrated Biome-BGC model. The results indicated that LAI simulated through the assimilated Biome-BGC agreed well with GLASS LAI. GPP performances obtained from the assimilated Biome-BGC were further improved and verified by EC measurements at the Changbai Mountains forest flux site (R2 = 0.92, RMSE = 1.261 gC·m−2·d−1.

Theory, Modeling and Simulation Annual Report 2000; FINAL

International Nuclear Information System (INIS)

Dixon, David A; Garrett, Bruce C; Straatsma, TP; Jones, Donald R; Studham, Scott; Harrison, Robert J; Nichols, Jeffrey A

2001-01-01

This annual report describes the 2000 research accomplishments for the Theory, Modeling, and Simulation (TM and S) directorate, one of the six research organizations in the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) at Pacific Northwest National Laboratory (PNNL). EMSL is a U.S. Department of Energy (DOE) national scientific user facility and is the centerpiece of the DOE commitment to providing world-class experimental, theoretical, and computational capabilities for solving the nation's environmental problems

Modeling gross primary production of agro-forestry ecosystems by assimilation of satellite-derived information in a process-based model.

Science.gov (United States)

Migliavacca, Mirco; Meroni, Michele; Busetto, Lorenzo; Colombo, Roberto; Zenone, Terenzio; Matteucci, Giorgio; Manca, Giovanni; Seufert, Guenther

2009-01-01

In this paper we present results obtained in the framework of a regional-scale analysis of the carbon budget of poplar plantations in Northern Italy. We explored the ability of the process-based model BIOME-BGC to estimate the gross primary production (GPP) using an inverse modeling approach exploiting eddy covariance and satellite data. We firstly present a version of BIOME-BGC coupled with the radiative transfer models PROSPECT and SAILH (named PROSAILH-BGC) with the aims of i) improving the BIOME-BGC description of the radiative transfer regime within the canopy and ii) allowing the assimilation of remotely-sensed vegetation index time series, such as MODIS NDVI, into the model. Secondly, we present a two-step model inversion for optimization of model parameters. In the first step, some key ecophysiological parameters were optimized against data collected by an eddy covariance flux tower. In the second step, important information about phenological dates and about standing biomass were optimized against MODIS NDVI. Results obtained showed that the PROSAILH-BGC allowed simulation of MODIS NDVI with good accuracy and that we described better the canopy radiation regime. The inverse modeling approach was demonstrated to be useful for the optimization of ecophysiological model parameters, phenological dates and parameters related to the standing biomass, allowing good accuracy of daily and annual GPP predictions. In summary, this study showed that assimilation of eddy covariance and remote sensing data in a process model may provide important information for modeling gross primary production at regional scale.

Modeling Gross Primary Production of Agro-Forestry Ecosystems by Assimilation of Satellite-Derived Information in a Process-Based Model

Directory of Open Access Journals (Sweden)

Guenther Seufert

2009-02-01

Full Text Available In this paper we present results obtained in the framework of a regional-scale analysis of the carbon budget of poplar plantations in Northern Italy. We explored the ability of the process-based model BIOME-BGC to estimate the gross primary production (GPP using an inverse modeling approach exploiting eddy covariance and satellite data. We firstly present a version of BIOME-BGC coupled with the radiative transfer models PROSPECT and SAILH (named PROSAILH-BGC with the aims of i improving the BIOME-BGC description of the radiative transfer regime within the canopy and ii allowing the assimilation of remotely-sensed vegetation index time series, such as MODIS NDVI, into the model. Secondly, we present a two-step model inversion for optimization of model parameters. In the first step, some key ecophysiological parameters were optimized against data collected by an eddy covariance flux tower. In the second step, important information about phenological dates and about standing biomass were optimized against MODIS NDVI. Results obtained showed that the PROSAILH-BGC allowed simulation of MODIS NDVI with good accuracy and that we described better the canopy radiation regime. The inverse modeling approach was demonstrated to be useful for the optimization of ecophysiological model parameters, phenological dates and parameters related to the standing biomass, allowing good accuracy of daily and annual GPP predictions. In summary, this study showed that assimilation of eddy covariance and remote sensing data in a process model may provide important information for modeling gross primary production at regional scale.

Calibration of a biome-biogeochemical cycles model for modeling the net primary production of teak forests through inverse modeling of remotely sensed data

Science.gov (United States)

Imvitthaya, Chomchid; Honda, Kiyoshi; Lertlum, Surat; Tangtham, Nipon

2011-01-01

In this paper, we present the results of a net primary production (NPP) modeling of teak (Tectona grandis Lin F.), an important species in tropical deciduous forests. The biome-biogeochemical cycles or Biome-BGC model was calibrated to estimate net NPP through the inverse modeling approach. A genetic algorithm (GA) was linked with Biome-BGC to determine the optimal ecophysiological model parameters. The Biome-BGC was calibrated by adjusting the ecophysiological model parameters to fit the simulated LAI to the satellite LAI (SPOT-Vegetation), and the best fitness confirmed the high accuracy of generated ecophysioligical parameter from GA. The modeled NPP, using optimized parameters from GA as input data, was evaluated using daily NPP derived by the MODIS satellite and the annual field data in northern Thailand. The results showed that NPP obtained using the optimized ecophysiological parameters were more accurate than those obtained using default literature parameterization. This improvement occurred mainly because the model's optimized parameters reduced the bias by reducing systematic underestimation in the model. These Biome-BGC results can be effectively applied in teak forests in tropical areas. The study proposes a more effective method of using GA to determine ecophysiological parameters at the site level and represents a first step toward the analysis of the carbon budget of teak plantations at the regional scale.

Effects of climate and lifeform on dry matter yield (epsilon) from simulations using BIOME BGC. [ecosystem process model for vegetation biomass production using daily absorbed photosynthetically active radiation

Science.gov (United States)

Hunt, E. R., Jr.; Running, Steven W.

1992-01-01

An ecosystem process simulation model, BIOME-BGC, is used in a sensitivity analysis to determine the factors that may cause the dry matter yield (epsilon) and annual net primary production to vary for different ecosystems. At continental scales, epsilon is strongly correlated with annual precipitation. At a single location, year-to-year variation in net primary production (NPP) and epsilon is correlated with either annual precipitation or minimum air temperatures. Simulations indicate that forests have lower epsilon than grasslands. The most sensitive parameter affecting forest epsilon is the total amount of living woody biomass, which affects NPP by increasing carbon loss by maintenance respiration. A global map of woody biomass should significantly improve estimates of global NPP using remote sensing.

Estimation and modeling of forest attributes across large spatial scales using BiomeBGC, high-resolution imagery, LiDAR data, and inventory data

Science.gov (United States)

Golinkoff, Jordan Seth

The accurate estimation of forest attributes at many different spatial scales is a critical problem. Forest landowners may be interested in estimating timber volume, forest biomass, and forest structure to determine their forest's condition and value. Counties and states may be interested to learn about their forests to develop sustainable management plans and policies related to forests, wildlife, and climate change. Countries and consortiums of countries need information about their forests to set global and national targets to deal with issues of climate change and deforestation as well as to set national targets and understand the state of their forest at a given point in time. This dissertation approaches these questions from two perspectives. The first perspective uses the process model Biome-BGC paired with inventory and remote sensing data to make inferences about a current forest state given known climate and site variables. Using a model of this type, future climate data can be used to make predictions about future forest states as well. An example of this work applied to a forest in northern California is presented. The second perspective of estimating forest attributes uses high resolution aerial imagery paired with light detection and ranging (LiDAR) remote sensing data to develop statistical estimates of forest structure. Two approaches within this perspective are presented: a pixel based approach and an object based approach. Both approaches can serve as the platform on which models (either empirical growth and yield models or process models) can be run to generate inferences about future forest state and current forest biogeochemical cycling.

Simulating carbon and water cycles of larch forests in East Asia by the BIOME-BGC model with AsiaFlux data

Directory of Open Access Journals (Sweden)

M. Ueyama

2010-03-01

Full Text Available Larch forests are widely distributed across many cool-temperate and boreal regions, and they are expected to play an important role in global carbon and water cycles. Model parameterizations for larch forests still contain large uncertainties owing to a lack of validation. In this study, a process-based terrestrial biosphere model, BIOME-BGC, was tested for larch forests at six AsiaFlux sites and used to identify important environmental factors that affect the carbon and water cycles at both temporal and spatial scales.

The model simulation performed with the default deciduous conifer parameters produced results that had large differences from the observed net ecosystem exchange (NEE, gross primary productivity (GPP, ecosystem respiration (RE, and evapotranspiration (ET. Therefore, we adjusted several model parameters in order to reproduce the observed rates of carbon and water cycle processes. This model calibration, performed using the AsiaFlux data, substantially improved the model performance. The simulated annual GPP, RE, NEE, and ET from the calibrated model were highly consistent with observed values.

The observed and simulated GPP and RE across the six sites were positively correlated with the annual mean air temperature and annual total precipitation. On the other hand, the simulated carbon budget was partly explained by the stand disturbance history in addition to the climate. The sensitivity study indicated that spring warming enhanced the carbon sink, whereas summer warming decreased it across the larch forests. The summer radiation was the most important factor that controlled the carbon fluxes in the temperate site, but the VPD and water conditions were the limiting factors in the boreal sites. One model parameter, the allocation ratio of carbon between belowground and aboveground, was site-specific, and it was negatively correlated with the annual climate of annual mean air temperature and total precipitation

Simulating carbon and water cycles of larch forests in East Asia by the BIOME-BGC model with AsiaFlux data

Science.gov (United States)

Ueyama, M.; Ichii, K.; Hirata, R.; Takagi, K.; Asanuma, J.; Machimura, T.; Nakai, Y.; Ohta, T.; Saigusa, N.; Takahashi, Y.; Hirano, T.

2010-03-01

Larch forests are widely distributed across many cool-temperate and boreal regions, and they are expected to play an important role in global carbon and water cycles. Model parameterizations for larch forests still contain large uncertainties owing to a lack of validation. In this study, a process-based terrestrial biosphere model, BIOME-BGC, was tested for larch forests at six AsiaFlux sites and used to identify important environmental factors that affect the carbon and water cycles at both temporal and spatial scales. The model simulation performed with the default deciduous conifer parameters produced results that had large differences from the observed net ecosystem exchange (NEE), gross primary productivity (GPP), ecosystem respiration (RE), and evapotranspiration (ET). Therefore, we adjusted several model parameters in order to reproduce the observed rates of carbon and water cycle processes. This model calibration, performed using the AsiaFlux data, substantially improved the model performance. The simulated annual GPP, RE, NEE, and ET from the calibrated model were highly consistent with observed values. The observed and simulated GPP and RE across the six sites were positively correlated with the annual mean air temperature and annual total precipitation. On the other hand, the simulated carbon budget was partly explained by the stand disturbance history in addition to the climate. The sensitivity study indicated that spring warming enhanced the carbon sink, whereas summer warming decreased it across the larch forests. The summer radiation was the most important factor that controlled the carbon fluxes in the temperate site, but the VPD and water conditions were the limiting factors in the boreal sites. One model parameter, the allocation ratio of carbon between belowground and aboveground, was site-specific, and it was negatively correlated with the annual climate of annual mean air temperature and total precipitation. Although this study substantially

Inter-annual variability of the atmospheric carbon dioxide concentrations as simulated with global terrestrial biosphere models and an atmospheric transport model

Energy Technology Data Exchange (ETDEWEB)

Fujita, Daisuke; Saeki, Tazu; Nakazawa, Takakiyo [Tohoku Univ., Sendai (Japan). Center for Atmospheric and Oceanic Studies; Ishizawa, Misa; Maksyutov, Shamil [Inst. for Global Change Research, Yokohama (Japan). Frontier Research System for Global Change; Thornton, Peter E. [National Center for Atmospheric Research, Boulder, CO (United States). Climate and Global Dynamics Div.

2003-04-01

Seasonal and inter-annual variations of atmospheric CO{sub 2} for the period from 1961 to 1997 have been simulated using a global tracer transport model driven by a new version of the Biome BioGeochemical Cycle model (Biome-BGC). Biome-BGC was forced by daily temperature and precipitation from the NCEP reanalysis dataset, and the calculated monthly-averaged CO{sub 2} fluxes were used as input to the global transport model. Results from an inter-comparison with the Carnegie-Ames-Stanford Approach model (CASA) and the Simulation model of Carbon CYCLE in Land Ecosystems (Sim-CYCLE) model are also reported. The phase of the seasonal cycle in the Northern Hemisphere was reproduced generally well by Biome-BGC, although the amplitude was smaller compared to the observations and to the other biosphere models. The CO{sub 2} time series simulated by Biome-BGC were compared to the global CO{sub 2} concentration anomalies from the observations at Mauna Loa and the South Pole. The modeled concentration anomalies matched the phase of the inter-annual variations in the atmospheric CO{sub 2} observations; however, the modeled amplitude was lower than the observed value in several cases. The result suggests that a significant part of the inter-annual variability in the global carbon cycle can be accounted for by the terrestrial biosphere models. Simulations performed with another climate-based model, Sim-CYCLE, produced a larger amplitude of inter-annual variability in atmospheric CO{sub 2}, making the amplitude closer to the observed range, but with a more visible phase mismatch in a number of time periods. This may indicate the need to increase the Biome-BGC model sensitivity to seasonal and inter-annual changes in temperature and precipitation.

Inter-annual variability of the atmospheric carbon dioxide concentrations as simulated with global terrestrial biosphere models and an atmospheric transport model

International Nuclear Information System (INIS)

Fujita, Daisuke; Saeki, Tazu; Nakazawa, Takakiyo; Ishizawa, Misa; Maksyutov, Shamil; Thornton, Peter E.

2003-01-01

Seasonal and inter-annual variations of atmospheric CO 2 for the period from 1961 to 1997 have been simulated using a global tracer transport model driven by a new version of the Biome BioGeochemical Cycle model (Biome-BGC). Biome-BGC was forced by daily temperature and precipitation from the NCEP reanalysis dataset, and the calculated monthly-averaged CO 2 fluxes were used as input to the global transport model. Results from an inter-comparison with the Carnegie-Ames-Stanford Approach model (CASA) and the Simulation model of Carbon CYCLE in Land Ecosystems (Sim-CYCLE) model are also reported. The phase of the seasonal cycle in the Northern Hemisphere was reproduced generally well by Biome-BGC, although the amplitude was smaller compared to the observations and to the other biosphere models. The CO 2 time series simulated by Biome-BGC were compared to the global CO 2 concentration anomalies from the observations at Mauna Loa and the South Pole. The modeled concentration anomalies matched the phase of the inter-annual variations in the atmospheric CO 2 observations; however, the modeled amplitude was lower than the observed value in several cases. The result suggests that a significant part of the inter-annual variability in the global carbon cycle can be accounted for by the terrestrial biosphere models. Simulations performed with another climate-based model, Sim-CYCLE, produced a larger amplitude of inter-annual variability in atmospheric CO 2 , making the amplitude closer to the observed range, but with a more visible phase mismatch in a number of time periods. This may indicate the need to increase the Biome-BGC model sensitivity to seasonal and inter-annual changes in temperature and precipitation

CRA(Crosolic Acid) isolated from Actinidia valvata Dunn.Radix induces apoptosis of human gastric cancer cell line BGC823 in vitro via down-regulation of the NF-κB pathway.

Science.gov (United States)

Cheng, Qi-Lai; Li, Hong-Liang; Li, Ying-Chen; Liu, Zhao-Wen; Guo, Xiao-Hua; Cheng, Yi-Jian

2017-07-01

A natural ursolic compound, 2α,3β-dihydroxy-urs-12-en-28-oic acid (corosolic acid, CRA) was isolated from the root of Actinidia valvata Dunn. (A. valvata Radix). Since a large number of triterpenoid compound has marked anticancer effects toward various types of cancer cell lines in vitro, this study was carried out to investigate the anticancer effect of CRA in human gastric cancer cell line BGC823 cells and the underlying apoptotic mechanism of CRA was examined in BGC823 cell lines. The results showed that CRA significantly suppressed the viability of BGC823 cells in a concentration- and time-dependent manner. CRA also significantly increased the sub G1 population by cell cycle analysis in a concentration dependent manner. Exposure to CRA decreased p65, bcl-2, Fas, smac mRNA and protein expression, and increased IκBα, bax, survivin mRNA and protein expression. Results of immunofluorescence staining and EMSA further indicated CRA induced apoptosis by inhibiting nuclear translocation of nuclear factor NF-κB subunit p65. Consistently overall, our findings suggest that CRA induces apoptosis via inhibition of NF-κB (p65) expression level and activation of IκBα in BGC cells as a potent anticancer candidate for gastric cancer treatment. Copyright © 2017 Elsevier Ltd. All rights reserved.

Simulation of Forest Carbon Fluxes Using Model Incorporation and Data Assimilation

OpenAIRE

Min Yan; Xin Tian; Zengyuan Li; Erxue Chen; Xufeng Wang; Zongtao Han; Hong Sun

2016-01-01

This study improved simulation of forest carbon fluxes in the Changbai Mountains with a process-based model (Biome-BGC) using incorporation and data assimilation. Firstly, the original remote sensing-based MODIS MOD_17 GPP (MOD_17) model was optimized using refined input data and biome-specific parameters. The key ecophysiological parameters of the Biome-BGC model were determined through the Extended Fourier Amplitude Sensitivity Test (EFAST) sensitivity analysis. Then the optimized MOD_17 mo...

Sulfamic and succinic acid derivatives of 25-OH-PPD and their activities to MCF-7, A-549, HCT-116, and BGC-823 cell lines.

Science.gov (United States)

Zhou, Wu-Xi; Cao, Jia-Qing; Wang, Xu-De; Guo, Jun-Hui; Zhao, Yu-Qing

2017-02-15

In the search for new anti-tumor agents with higher potency than our previously identified compound 1 (25-OH-PPD, 25-hydroxyprotopanaxadiol), 12 novel sulfamic and succinic acid derivatives that could improve water solubility and contribute to good drug potency and pharmacokinetic profiles were designed and synthesized. Their in vitro anti-tumor activities in MCF-7, A-549, HCT-116, and BGC-823 cell lines and one normal cell line were tested by standard MTT assay. Results showed that compared with compound 1, compounds 2, 3, and 7 exhibited higher cytotoxic activity on A-549 and BGC-823 cell lines, together with lower toxicity in the normal cell. In particular, compound 2 exhibited the best anti-tumor activity in the in vitro assays, which may provide valuable data for the research and development of new anti-tumor agents. Copyright © 2016 Elsevier Ltd. All rights reserved.

Terrestrial ecosystem process model Biome-BGCMuSo v4.0: summary of improvements and new modeling possibilities

Science.gov (United States)

Hidy, Dóra; Barcza, Zoltán; Marjanović, Hrvoje; Zorana Ostrogović Sever, Maša; Dobor, Laura; Gelybó, Györgyi; Fodor, Nándor; Pintér, Krisztina; Churkina, Galina; Running, Steven; Thornton, Peter; Bellocchi, Gianni; Haszpra, László; Horváth, Ferenc; Suyker, Andrew; Nagy, Zoltán

2016-12-01

The process-based biogeochemical model Biome-BGC was enhanced to improve its ability to simulate carbon, nitrogen, and water cycles of various terrestrial ecosystems under contrasting management activities. Biome-BGC version 4.1.1 was used as a base model. Improvements included addition of new modules such as the multilayer soil module, implementation of processes related to soil moisture and nitrogen balance, soil-moisture-related plant senescence, and phenological development. Vegetation management modules with annually varying options were also implemented to simulate management practices of grasslands (mowing, grazing), croplands (ploughing, fertilizer application, planting, harvesting), and forests (thinning). New carbon and nitrogen pools have been defined to simulate yield and soft stem development of herbaceous ecosystems. The model version containing all developments is referred to as Biome-BGCMuSo (Biome-BGC with multilayer soil module; in this paper, Biome-BGCMuSo v4.0 is documented). Case studies on a managed forest, cropland, and grassland are presented to demonstrate the effect of model developments on the simulation of plant growth as well as on carbon and water balance.

Sensitivity of terrestrial ecosystems to elevated atmospheric CO{sub 2}: Comparisons of model simulation studies to CO{sub 2} effect

Energy Technology Data Exchange (ETDEWEB)

Pan, Y. [Marine Biological Lab., Woods Hole, MA (United States)

1995-06-01

In the context of a project to compare terrestrial ecosystem models, the Vegetation/Ecosystem Modeling and Analysis Project (VEMAP), we have analyzed how three biogeochemistry models link plant growth to doubled atmospheric CO{sub 2}. A common set of input data was used to drive three biogeochemistry models, BIOME-BGC, CENTURY and TEM. For the continental United States the simulation results show that with doubled CO{sub 2}, NPP increased by 8.7%, 5.0% and 10.8% for TEM, CENTURY and BIOME-BGC, respectively. At the biome level the range of NPP estimates varied considerably among models. TEM-simulated enhancement of NPP ranged from 2% to 28%; CENTURY, from 2% to 9%; and BIOME-BGC, from 4% to 27%. A transect analysis across several biomes along a latitude at 41.5 N shows that the TEM-simulated CO{sub 2} enhancement of NPP ranged from 0% to 22%; CENTURY, from 1% to 10% and BIOME-BGC, from 1% to 63%. In this study, we have investigated the underlying mechanisms of the three models to reveal how increased CO{sub 2} affects photosynthesis rate, water using efficiency and nutrient cycles. The relative importance of these mechanisms in each of the three biogeochemistry models will be discussed.

Plankton Assemblage Estimated with BGC-Argo Floats in the Southern Ocean: Implications for Seasonal Successions and Particle Export

Science.gov (United States)

Rembauville, Mathieu; Briggs, Nathan; Ardyna, Mathieu; Uitz, Julia; Catala, Philippe; Penkerc'h, Cristophe; Poteau, Antoine; Claustre, Hervé; Blain, Stéphane

2017-10-01

The Southern Ocean (SO) hosts plankton communities that impact the biogeochemical cycles of the global ocean. However, weather conditions in the SO restrict mainly in situ observations of plankton communities to spring and summer, preventing the description of biological successions at an annual scale. Here, we use shipboard observations collected in the Indian sector of the SO to develop a multivariate relationship between physical and bio-optical data, and, the composition and carbon content of the plankton community. Then we apply this multivariate relationship to five biogeochemical Argo (BGC-Argo) floats deployed within the same bio-geographical zone as the ship-board observations to describe spatial and seasonal changes in plankton assemblage. The floats reveal a high contribution of bacteria below the mixed layer, an overall low abundance of picoplankton and a seasonal succession from nano- to microplankton during the spring bloom. Both naturally iron-fertilized waters downstream of the Crozet and Kerguelen Plateaus show elevated phytoplankton biomass in spring and summer but they differ by a nano- or microplankton dominance at Crozet and Kerguelen, respectively. The estimated plankton group successions appear consistent with independent estimations of particle diameter based on the optical signals. Furthermore, the comparison of the plankton community composition in the surface layer with the presence of large mesopelagic particles diagnosed by spikes of optical signals provides insight into the nature and temporal changes of ecological vectors that drive particle export. This study emphasizes the power of BGC-Argo floats for investigating important biogeochemical processes at high temporal and spatial resolution.

Implementation ambiguity: The fifth element long lost in uncertainty budgets for land biogeochemical modeling

Science.gov (United States)

Tang, J.; Riley, W. J.

2015-12-01

Previous studies have identified four major sources of predictive uncertainty in modeling land biogeochemical (BGC) processes: (1) imperfect initial conditions (e.g., assumption of preindustrial equilibrium); (2) imperfect boundary conditions (e.g., climate forcing data); (3) parameterization (type I equifinality); and (4) model structure (type II equifinality). As if that were not enough to cause substantial sleep loss in modelers, we propose here a fifth element of uncertainty that results from implementation ambiguity that occurs when the model's mathematical description is translated into computational code. We demonstrate the implementation ambiguity using the example of nitrogen down regulation, a necessary process in modeling carbon-climate feedbacks. We show that, depending on common land BGC model interpretations of the governing equations for mineral nitrogen, there are three different implementations of nitrogen down regulation. We coded these three implementations in the ACME land model (ALM), and explored how they lead to different preindustrial and contemporary land biogeochemical states and fluxes. We also show how this implementation ambiguity can lead to different carbon-climate feedback estimates across the RCP scenarios. We conclude by suggesting how to avoid such implementation ambiguity in ESM BGC models.

Comparing Productivity Simulated with Inventory Data Using Different Modelling Technologies

Science.gov (United States)

Klopf, M.; Pietsch, S. A.; Hasenauer, H.

2009-04-01

The Lime Stone National Park in Austria was established in 1997 to protect sensible lime stone soils from degradation due to heavy forest management. Since 1997 the management activities were successively reduced and standing volume and coarse woody debris (CWD) increased and degraded soils began to recover. One option to study the rehabilitation process towards natural virgin forest state is the use of modelling technology. In this study we will test two different modelling approaches for their applicability to Lime Stone National Park. We will compare standing tree volume simulated resulting from (i) the individual tree growth model MOSES, and (ii) the species and management sensitive adaptation of the biogeochemical-mechanistic model Biome-BGC. The results from the two models are compared with filed observations form repeated permanent forest inventory plots of the Lime Stone National Park in Austria. The simulated CWD predictions of the BGC-model were compared with dead wood measurements (standing and lying dead wood) recorded at the permanent inventory plots. The inventory was established between 1994 and 1996 and remeasured from 2004 to 2005. For this analysis 40 plots of this inventory were selected which comprise the required dead wood components and are dominated by a single tree species. First we used the distance dependant individual tree growth model MOSES to derive the standing timber and the amount of mortality per hectare. MOSES is initialized with the inventory data at plot establishment and each sampling plot is treated as forest stand. The Biome-BGC is a process based biogeochemical model with extensions for Austrian tree species, a self initialization and a forest management tool. The initialization for the actual simulations with the BGC model was done as follows: We first used spin up runs to derive a balanced forest vegetation, similar to an undisturbed forest. Next we considered the management history of the past centuries (heavy clear cuts

Using a spatially-distributed hydrologic biogeochemistry model with nitrogen transport to study the spatial variation of carbon stocks and fluxes in a Critical Zone Observatory

Science.gov (United States)

Shi, Y.; Eissenstat, D. M.; He, Y.; Davis, K. J.

2017-12-01

Most current biogeochemical models are 1-D and represent one point in space. Therefore, they cannot resolve topographically driven land surface heterogeneity (e.g., lateral water flow, soil moisture, soil temperature, solar radiation) or the spatial pattern of nutrient availability. A spatially distributed forest biogeochemical model with nitrogen transport, Flux-PIHM-BGC, has been developed by coupling a 1-D mechanistic biogeochemical model Biome-BGC (BBGC) with a spatially distributed land surface hydrologic model, Flux-PIHM, and adding an advection dominated nitrogen transport module. Flux-PIHM is a coupled physically based model, which incorporates a land-surface scheme into the Penn State Integrated Hydrologic Model (PIHM). The land surface scheme is adapted from the Noah land surface model, and is augmented by adding a topographic solar radiation module. Flux-PIHM is able to represent the link between groundwater and the surface energy balance, as well as land surface heterogeneities caused by topography. In the coupled Flux-PIHM-BGC model, each Flux-PIHM model grid couples a 1-D BBGC model, while nitrogen is transported among model grids via surface and subsurface water flow. In each grid, Flux-PIHM provides BBGC with soil moisture, soil temperature, and solar radiation, while BBGC provides Flux-PIHM with spatially-distributed leaf area index. The coupled Flux-PIHM-BGC model has been implemented at the Susquehanna/Shale Hills Critical Zone Observatory. The model-predicted aboveground vegetation carbon and soil carbon distributions generally agree with the macro patterns observed within the watershed. The importance of abiotic variables (including soil moisture, soil temperature, solar radiation, and soil mineral nitrogen) in predicting aboveground carbon distribution is calculated using a random forest. The result suggests that the spatial pattern of aboveground carbon is controlled by the distribution of soil mineral nitrogen. A Flux-PIHM-BGC simulation

Environmental and Molecular Science Laboratory Arrow

Energy Technology Data Exchange (ETDEWEB)

2016-06-24

Arrows is a software package that combines NWChem, SQL and NOSQL databases, email, and social networks (e.g. Twitter, Tumblr) that simplifies molecular and materials modeling and makes these modeling capabilities accessible to all scientists and engineers. EMSL Arrows is very simple to use. The user just emails chemical reactions to arrows@emsl.pnnl.gov and then an email is sent back with thermodynamic, reaction pathway (kinetic), spectroscopy, and other results. EMSL Arrows parses the email and then searches the database for the compounds in the reactions. If a compound isn't there, an NWChem calculation is setup and submitted to calculate it. Once the calculation is finished the results are entered into the database and then results are emailed back.

改进Biome-BGC模型模拟哈佛森林地区水、碳通量%Simulation of water and carbon fluxes in Harvard forest area by using improved BiomeBGC model.

Institute of Scientific and Technical Information of China (English)

张廷龙; 孙睿; 胡波; 冯丽超; 张荣华

2011-01-01

Biome-BGC模型通过耦合植被、土壤与大气间的水分与CO2交换过程,实现植被生产力的模拟,但土壤水平衡模块的不够完善,导致在长时间无降水情况下植被生产力模拟存在较大误差.针对这一问题,本文对Biome-BGC模型中土壤水分胁迫气孔导度方程、蒸散计算公式及土壤水分流失过程等3方面进行了改进和调整,利用改进的Biome-BGC模型模拟美国哈佛森林地区蒸散、植被生产力,并与地面通量观测值进行了比较.结果表明,改进后模拟精度有明显的提高,蒸散、植被生态系统生产力(NEE)与观测值间的决定系数分别由0.483和0.658提高到0.617和O.813,蒸散逐年均方根误差平均下降了48.7％,NEE逐年误差平方和平均下降了39.8％.改进后的模型模拟结果更接近观测值.%Using Biome-BGC model can simulate vegetation productivity through the coupling of water and CO2 exchange processes between vegetation, soil and atmosphere, but the soil water balance module is not perfect enough, leading to a large deviation between simulated and observed values under condition of a long time no precipitation. Aiming at this problem, this paper improved and adjusted the equation of stomatal conductance stressed by soil water, the calculation formula of evapotranspiration, and the process of soil water loss in Biome-BGC model. Using this improved model, the evapotranspiration and vegetation productivity in Harvard Forest area were simulated, and compared with field observations. The accuracy of simulated results by the improved model enhanced obviously, with the evapotranspiration R between simulated and observed values increased from 0. 483 to 0. 617, NEE R2 increased from 0. 658 to 0. 813, root mean square error (RMSE) of annual evapotranspiration decreased averagely by 48. 7% , and annual sum squared error ( ASSE) of NEE decreased averagely by 39. 8% , which suggested that the simulated results by using the improved model

Using a spatially-distributed hydrologic biogeochemistry model to study the spatial variation of carbon processes in a Critical Zone Observatory

Science.gov (United States)

Shi, Y.; Eissenstat, D. M.; Davis, K. J.; He, Y.

2016-12-01

Forest carbon processes are affected by, among other factors, soil moisture, soil temperature, soil nutrients and solar radiation. Most of the current biogeochemical models are 1-D and represent one point in space. Therefore, they cannot resolve the topographically driven hill-slope land surface heterogeneity or the spatial pattern of nutrient availability. A spatially distributed forest ecosystem model, Flux-PIHM-BGC, has been developed by coupling a 1-D mechanistic biogeochemical model Biome-BGC (BBGC) with a spatially distributed land surface hydrologic model, Flux-PIHM. Flux-PIHM is a coupled physically based model, which incorporates a land-surface scheme into the Penn State Integrated Hydrologic Model (PIHM). The land surface scheme is adapted from the Noah land surface model. Flux-PIHM is able to represent the link between groundwater and the surface energy balance, as well as the land surface heterogeneities caused by topography. In the coupled Flux-PIHM-BGC model, each Flux-PIHM model grid couples a 1-D BBGC model, while soil nitrogen is transported among model grids via subsurface water flow. In each grid, Flux-PIHM provides BBGC with soil moisture, soil temperature, and solar radiation information, while BBGC provides Flux-PIHM with leaf area index. The coupled Flux-PIHM-BGC model has been implemented at the Susquehanna/Shale Hills critical zone observatory (SSHCZO). Model results suggest that the vegetation and soil carbon distribution is primarily constrained by nitorgen availability (affected by nitorgen transport via topographically driven subsurface flow), and also constrained by solar radiation and root zone soil moisture. The predicted vegetation and soil carbon distribution generally agrees with the macro pattern observed within the watershed. The coupled ecosystem-hydrologic model provides an important tool to study the impact of topography on watershed carbon processes, as well as the impact of climate change on water resources.

A review on vegetation models and applicability to climate simulations at regional scale

Science.gov (United States)

Myoung, Boksoon; Choi, Yong-Sang; Park, Seon Ki

2011-11-01

The lack of accurate representations of biospheric components and their biophysical and biogeochemical processes is a great source of uncertainty in current climate models. The interactions between terrestrial ecosystems and the climate include exchanges not only of energy, water and momentum, but also of carbon and nitrogen. Reliable simulations of these interactions are crucial for predicting the potential impacts of future climate change and anthropogenic intervention on terrestrial ecosystems. In this paper, two biogeographical (Neilson's rule-based model and BIOME), two biogeochemical (BIOME-BGC and PnET-BGC), and three dynamic global vegetation models (Hybrid, LPJ, and MC1) were reviewed and compared in terms of their biophysical and physiological processes. The advantages and limitations of the models were also addressed. Lastly, the applications of the dynamic global vegetation models to regional climate simulations have been discussed.

Multiple-Input Subject-Specific Modeling of Plasma Glucose Concentration for Feedforward Control.

Science.gov (United States)

Kotz, Kaylee; Cinar, Ali; Mei, Yong; Roggendorf, Amy; Littlejohn, Elizabeth; Quinn, Laurie; Rollins, Derrick K

2014-11-26

The ability to accurately develop subject-specific, input causation models, for blood glucose concentration (BGC) for large input sets can have a significant impact on tightening control for insulin dependent diabetes. More specifically, for Type 1 diabetics (T1Ds), it can lead to an effective artificial pancreas (i.e., an automatic control system that delivers exogenous insulin) under extreme changes in critical disturbances. These disturbances include food consumption, activity variations, and physiological stress changes. Thus, this paper presents a free-living, outpatient, multiple-input, modeling method for BGC with strong causation attributes that is stable and guards against overfitting to provide an effective modeling approach for feedforward control (FFC). This approach is a Wiener block-oriented methodology, which has unique attributes for meeting critical requirements for effective, long-term, FFC.

Biogeochemical protocols and diagnostics for the CMIP6 Ocean Model Intercomparison Project (OMIP

Directory of Open Access Journals (Sweden)

J. C. Orr

2017-06-01

Full Text Available The Ocean Model Intercomparison Project (OMIP focuses on the physics and biogeochemistry of the ocean component of Earth system models participating in the sixth phase of the Coupled Model Intercomparison Project (CMIP6. OMIP aims to provide standard protocols and diagnostics for ocean models, while offering a forum to promote their common assessment and improvement. It also offers to compare solutions of the same ocean models when forced with reanalysis data (OMIP simulations vs. when integrated within fully coupled Earth system models (CMIP6. Here we detail simulation protocols and diagnostics for OMIP's biogeochemical and inert chemical tracers. These passive-tracer simulations will be coupled to ocean circulation models, initialized with observational data or output from a model spin-up, and forced by repeating the 1948–2009 surface fluxes of heat, fresh water, and momentum. These so-called OMIP-BGC simulations include three inert chemical tracers (CFC-11, CFC-12, SF6 and biogeochemical tracers (e.g., dissolved inorganic carbon, carbon isotopes, alkalinity, nutrients, and oxygen. Modelers will use their preferred prognostic BGC model but should follow common guidelines for gas exchange and carbonate chemistry. Simulations include both natural and total carbon tracers. The required forced simulation (omip1 will be initialized with gridded observational climatologies. An optional forced simulation (omip1-spunup will be initialized instead with BGC fields from a long model spin-up, preferably for 2000 years or more, and forced by repeating the same 62-year meteorological forcing. That optional run will also include abiotic tracers of total dissolved inorganic carbon and radiocarbon, CTabio and 14CTabio, to assess deep-ocean ventilation and distinguish the role of physics vs. biology. These simulations will be forced by observed atmospheric histories of the three inert gases and CO2 as well as carbon isotope ratios of CO2. OMIP-BGC simulation

Biogeochemical Protocols and Diagnostics for the CMIP6 Ocean Model Intercomparison Project (OMIP)

Science.gov (United States)

Orr, James C.; Najjar, Raymond G.; Aumont, Olivier; Bopp, Laurent; Bullister, John L.; Danabasoglu, Gokhan; Doney, Scott C.; Dunne, John P.; Dutay, Jean-Claude; Graven, Heather;

Biogeochemical protocols and diagnostics for the CMIP6 Ocean Model Intercomparison Project (OMIP)

Science.gov (United States)

Orr, James C.; Najjar, Raymond G.; Aumont, Olivier; Bopp, Laurent; Bullister, John L.; Danabasoglu, Gokhan; Doney, Scott C.; Dunne, John P.; Dutay, Jean-Claude; Graven, Heather; Griffies, Stephen M.; John, Jasmin G.; Joos, Fortunat; Levin, Ingeborg; Lindsay, Keith; Matear, Richard J.; McKinley, Galen A.; Mouchet, Anne; Oschlies, Andreas; Romanou, Anastasia; Schlitzer, Reiner; Tagliabue, Alessandro; Tanhua, Toste; Yool, Andrew

2017-06-01

The Ocean Model Intercomparison Project (OMIP) focuses on the physics and biogeochemistry of the ocean component of Earth system models participating in the sixth phase of the Coupled Model Intercomparison Project (CMIP6). OMIP aims to provide standard protocols and diagnostics for ocean models, while offering a forum to promote their common assessment and improvement. It also offers to compare solutions of the same ocean models when forced with reanalysis data (OMIP simulations) vs. when integrated within fully coupled Earth system models (CMIP6). Here we detail simulation protocols and diagnostics for OMIP's biogeochemical and inert chemical tracers. These passive-tracer simulations will be coupled to ocean circulation models, initialized with observational data or output from a model spin-up, and forced by repeating the 1948-2009 surface fluxes of heat, fresh water, and momentum. These so-called OMIP-BGC simulations include three inert chemical tracers (CFC-11, CFC-12, SF6) and biogeochemical tracers (e.g., dissolved inorganic carbon, carbon isotopes, alkalinity, nutrients, and oxygen). Modelers will use their preferred prognostic BGC model but should follow common guidelines for gas exchange and carbonate chemistry. Simulations include both natural and total carbon tracers. The required forced simulation (omip1) will be initialized with gridded observational climatologies. An optional forced simulation (omip1-spunup) will be initialized instead with BGC fields from a long model spin-up, preferably for 2000 years or more, and forced by repeating the same 62-year meteorological forcing. That optional run will also include abiotic tracers of total dissolved inorganic carbon and radiocarbon, CTabio and 14CTabio, to assess deep-ocean ventilation and distinguish the role of physics vs. biology. These simulations will be forced by observed atmospheric histories of the three inert gases and CO2 as well as carbon isotope ratios of CO2. OMIP-BGC simulation protocols are

Using simulated annealing algorithm to optimize the parameters of Biome-BGC model%利用模拟退火算法优化Biome-BGC模型参数

Institute of Scientific and Technical Information of China (English)

张廷龙; 孙睿; 胡波; 冯丽超

2011-01-01

生态过程模型建立在明确的机理之上,能够较好地模拟陆地生态系统的行为和特征,但模型众多的参数,成为模型具体应用的瓶颈.本文以Biome-BGC模型为例,采用模拟退火算法,对其生理、生态参数进行优化.在优化过程中,先对待优化参数进行了选择,然后采取逐步优化的方法进行优化.结果表明,使用优化后的参数,模型模拟结果与实际观测更为接近,参数优化能有效地降低模型模拟的不确定性.文中参数优化的过程和方法,可为生态模型的参数识别和优化提供一种实例和思路,有助于生态模型应用区域的扩展.%Ecological process model based on defined mechanism can well simulate the dynamic behaviors and features of terrestrial ecosystem, but could become a bottleneck in application because of numerous parameters needed to be confirmed. In this paper, simulated annealing algorithm was used to optimize the physiological and ecological parameters of Biome-BGC model. The first step was to choose some of these parameters to optimize, and then, gradually optimized these parameters. By using the optimized parameters, the model simulation results were much more close to the observed data, and the parameter optimization could effectively reduce the uncertainty of model simulation. The parameter optimization method used in this paper could provide a case and an idea for the parameter identification and optimization of ecological process models,and also, help to expand the application area of the models.

Theory, modeling and simulation: Annual report 1993

Energy Technology Data Exchange (ETDEWEB)

Dunning, T.H. Jr.; Garrett, B.C.

1994-07-01

Developing the knowledge base needed to address the environmental restoration issues of the US Department of Energy requires a fundamental understanding of molecules and their interactions in insolation and in liquids, on surfaces, and at interfaces. To meet these needs, the PNL has established the Environmental and Molecular Sciences Laboratory (EMSL) and will soon begin construction of a new, collaborative research facility devoted to advancing the understanding of environmental molecular science. Research in the Theory, Modeling, and Simulation program (TMS), which is one of seven research directorates in the EMSL, will play a critical role in understanding molecular processes important in restoring DOE`s research, development and production sites, including understanding the migration and reactions of contaminants in soils and groundwater, the development of separation process for isolation of pollutants, the development of improved materials for waste storage, understanding the enzymatic reactions involved in the biodegradation of contaminants, and understanding the interaction of hazardous chemicals with living organisms. The research objectives of the TMS program are to apply available techniques to study fundamental molecular processes involved in natural and contaminated systems; to extend current techniques to treat molecular systems of future importance and to develop techniques for addressing problems that are computationally intractable at present; to apply molecular modeling techniques to simulate molecular processes occurring in the multispecies, multiphase systems characteristic of natural and polluted environments; and to extend current molecular modeling techniques to treat complex molecular systems and to improve the reliability and accuracy of such simulations. The program contains three research activities: Molecular Theory/Modeling, Solid State Theory, and Biomolecular Modeling/Simulation. Extended abstracts are presented for 89 studies.

Theory, modeling and simulation: Annual report 1993

International Nuclear Information System (INIS)

Dunning, T.H. Jr.; Garrett, B.C.

1994-07-01

Developing the knowledge base needed to address the environmental restoration issues of the US Department of Energy requires a fundamental understanding of molecules and their interactions in insolation and in liquids, on surfaces, and at interfaces. To meet these needs, the PNL has established the Environmental and Molecular Sciences Laboratory (EMSL) and will soon begin construction of a new, collaborative research facility devoted to advancing the understanding of environmental molecular science. Research in the Theory, Modeling, and Simulation program (TMS), which is one of seven research directorates in the EMSL, will play a critical role in understanding molecular processes important in restoring DOE's research, development and production sites, including understanding the migration and reactions of contaminants in soils and groundwater, the development of separation process for isolation of pollutants, the development of improved materials for waste storage, understanding the enzymatic reactions involved in the biodegradation of contaminants, and understanding the interaction of hazardous chemicals with living organisms. The research objectives of the TMS program are to apply available techniques to study fundamental molecular processes involved in natural and contaminated systems; to extend current techniques to treat molecular systems of future importance and to develop techniques for addressing problems that are computationally intractable at present; to apply molecular modeling techniques to simulate molecular processes occurring in the multispecies, multiphase systems characteristic of natural and polluted environments; and to extend current molecular modeling techniques to treat complex molecular systems and to improve the reliability and accuracy of such simulations. The program contains three research activities: Molecular Theory/Modeling, Solid State Theory, and Biomolecular Modeling/Simulation. Extended abstracts are presented for 89 studies

Theory, Modeling and Simulation: Research progress report 1994--1995

Energy Technology Data Exchange (ETDEWEB)

Garrett, B.C.; Dixon, D.A.; Dunning, T.H.

1997-01-01

The Pacific Northwest National Laboratory (PNNL) has established the Environmental Molecular Sciences Laboratory (EMSL). In April 1994, construction began on the new EMSL, a collaborative research facility devoted to advancing the understanding of environmental molecular science. Research in the Theory, Modeling, and Simulation (TM and S) program will play a critical role in understanding molecular processes important in restoring DOE`s research, development, and production sites, including understanding the migration and reactions of contaminants in soils and ground water, developing processes for isolation and processing of pollutants, developing improved materials for waste storage, understanding the enzymatic reactions involved in the biodegradation of contaminants, and understanding the interaction of hazardous chemicals with living organisms. The research objectives of the TM and S program are fivefold: to apply available electronic structure and dynamics techniques to study fundamental molecular processes involved in the chemistry of natural and contaminated systems; to extend current electronic structure and dynamics techniques to treat molecular systems of future importance and to develop new techniques for addressing problems that are computationally intractable at present; to apply available molecular modeling techniques to simulate molecular processes occurring in the multi-species, multi-phase systems characteristic of natural and polluted environments; to extend current molecular modeling techniques to treat ever more complex molecular systems and to improve the reliability and accuracy of such simulations; and to develop technologies for advanced parallel architectural computer systems. Research highlights of 82 projects are given.

Moderate forest disturbance as a stringent test for gap and big-leaf models

Science.gov (United States)

Bond-Lamberty, B.; Fisk, J. P.; Holm, J. A.; Bailey, V.; Bohrer, G.; Gough, C. M.

2015-01-01

Disturbance-induced tree mortality is a key factor regulating the carbon balance of a forest, but tree mortality and its subsequent effects are poorly represented processes in terrestrial ecosystem models. It is thus unclear whether models can robustly simulate moderate (non-catastrophic) disturbances, which tend to increase biological and structural complexity and are increasingly common in aging US forests. We tested whether three forest ecosystem models - Biome-BGC (BioGeochemical Cycles), a classic big-leaf model, and the ZELIG and ED (Ecosystem Demography) gap-oriented models - could reproduce the resilience to moderate disturbance observed in an experimentally manipulated forest (the Forest Accelerated Succession Experiment in northern Michigan, USA, in which 38% of canopy dominants were stem girdled and compared to control plots). Each model was parameterized, spun up, and disturbed following similar protocols and run for 5 years post-disturbance. The models replicated observed declines in aboveground biomass well. Biome-BGC captured the timing and rebound of observed leaf area index (LAI), while ZELIG and ED correctly estimated the magnitude of LAI decline. None of the models fully captured the observed post-disturbance C fluxes, in particular gross primary production or net primary production (NPP). Biome-BGC NPP was correctly resilient but for the wrong reasons, and could not match the absolute observational values. ZELIG and ED, in contrast, exhibited large, unobserved drops in NPP and net ecosystem production. The biological mechanisms proposed to explain the observed rapid resilience of the C cycle are typically not incorporated by these or other models. It is thus an open question whether most ecosystem models will simulate correctly the gradual and less extensive tree mortality characteristic of moderate disturbances.

Enhancement of Radiation Effects by Ursolic Acid in BGC-823 Human Adenocarcinoma Gastric Cancer Cell Line.

Directory of Open Access Journals (Sweden)

Yang Yang

Full Text Available Recent research has suggested that certain plant-derived polyphenols, i.e., ursolic acid (UA, which are reported to have antitumor activities, might be used to sensitize tumor cells to radiation therapy by inhibiting pathways leading to radiation therapy resistance. This experiment was designed to investigate the effects and possible mechanism of radiosensitization by UA in BGC-823 cell line from human adenocarcinoma gastric cancer in vitro. UA caused cytotoxicity in a dose-dependent manner, and we used a sub-cytotoxicity concentration of UA to test radioenhancement efficacy with UA in gastric cancer. Radiosensitivity was determined by clonogenic survival assay. Surviving fraction of the combined group with irradiation and sub-cytotoxicity UA significantly decreased compared with the irradiation group. The improved radiosensitization efficacy was associated with enhanced G2/M arrest, increased reactive oxygen species (ROS, down-regulated Ki-67 level and improved apoptosis. In conclusion, as UA demonstrated potent antiproliferation effect and synergistic effect, it could be used as a potential drug sensitizer for the application of radiotherapy.

Molecular Science Research Center, 1991 annual report

Energy Technology Data Exchange (ETDEWEB)

Knotek, M.L.

1992-03-01

During 1991, the Molecular Science Research Center (MSRC) experienced solid growth and accomplishment and the Environmental, and Molecular Sciences Laboratory (EMSL) construction project moved forward. We began with strong programs in chemical structure and dynamics and theory, modeling, and simulation, and both these programs continued to thrive. We also made significant advances in the development of programs in materials and interfaces and macromolecular structure and dynamics, largely as a result of the key staff recruited to lead these efforts. If there was one pervasive activity for the past year, however, it was to strengthen the role of the EMSL in the overall environmental restoration and waste management (ER/WM) mission at Hanford. These extended activities involved not only MSRC and EMSL staff but all PNL scientific and technical staff engaged in ER/WM programs.

Modeled responses of terrestrial ecosystems to elevated atmospheric CO2: a comparison of simulations by the biogeochemistry models of the Vegetation/Ecosystem Modeling and Analysis Project (VEMAP).

Science.gov (United States)

Pan, Yude; Melillo, Jerry M; McGuire, A David; Kicklighter, David W; Pitelka, Louis F; Hibbard, Kathy; Pierce, Lars L; Running, Steven W; Ojima, Dennis S; Parton, William J; Schimel, David S

1998-04-01

Although there is a great deal of information concerning responses to increases in atmospheric CO 2 at the tissue and plant levels, there are substantially fewer studies that have investigated ecosystem-level responses in the context of integrated carbon, water, and nutrient cycles. Because our understanding of ecosystem responses to elevated CO 2 is incomplete, modeling is a tool that can be used to investigate the role of plant and soil interactions in the response of terrestrial ecosystems to elevated CO 2 . In this study, we analyze the responses of net primary production (NPP) to doubled CO 2 from 355 to 710 ppmv among three biogeochemistry models in the Vegetation/Ecosystem Modeling and Analysis Project (VEMAP): BIOME-BGC (BioGeochemical Cycles), Century, and the Terrestrial Ecosystem Model (TEM). For the conterminous United States, doubled atmospheric CO 2 causes NPP to increase by 5% in Century, 8% in TEM, and 11% in BIOME-BGC. Multiple regression analyses between the NPP response to doubled CO 2 and the mean annual temperature and annual precipitation of biomes or grid cells indicate that there are negative relationships between precipitation and the response of NPP to doubled CO 2 for all three models. In contrast, there are different relationships between temperature and the response of NPP to doubled CO 2 for the three models: there is a negative relationship in the responses of BIOME-BGC, no relationship in the responses of Century, and a positive relationship in the responses of TEM. In BIOME-BGC, the NPP response to doubled CO 2 is controlled by the change in transpiration associated with reduced leaf conductance to water vapor. This change affects soil water, then leaf area development and, finally, NPP. In Century, the response of NPP to doubled CO 2 is controlled by changes in decomposition rates associated with increased soil moisture that results from reduced evapotranspiration. This change affects nitrogen availability for plants, which

Temporal and spatial heterogeneity analysis of optimal value of sensitive parameters in ecological process model: The BIOME-BGC model as an example%生态过程模型敏感参数最优取值的时空异质性分析——以BIOME-BGC模型为例

Institute of Scientific and Technical Information of China (English)

李一哲; 张廷龙; 刘秋雨; 李英

2018-01-01

The ecological process models are powerful tools for studying terrestrial ecosystem water and carbon cycle at present.However,there are many parameters for these models,and weather the reasonable values of these parameters were taken,have important impact on the models simulation results.In the past,the sensitivity and the optimization of model parameters were analyzed and discussed in many researches.But the temporal and spatial heterogeneity of the optimal parameters is less concerned.In this paper,the BIOME-BGC model was used as an example.In the evergreen broad-leaved forest,deciduous broad-leaved forest and C3 grassland,the sensitive parameters of the model were selected by constructing the sensitivity judgment index with two experimental sites selected under each vegetation type.The objective function was constructed by using the simulated annealing algorithm combined with the flux data to obtain the monthly optimal values of the sensitive parameters at each site.Then we constructed the temporal heterogeneity judgment index,the spatial heterogeneity judgment index and the temporal and spatial heterogeneity judgment index to quantitatively analyze the temporal and spatial heterogeneity of the optimal values of the model sensitive parameters.The results showed that the sensitivity of BIOME-BGC model parameters was different under different vegetation types,but the selected sensitive parameters were mostly consistent.The optimal values of the sensitive parameters of BIOME-BGC model mostly presented time-space heterogeneity to different degrees which varied with vegetation types.The sensitive parameters related to vegetation physiology and ecology had relatively little temporal and spatial heterogeneity while those related to environment and phenology had generally larger temporal and spatial heterogeneity.In addition,the temporal heterogeneity of the optimal values of the model sensitive parameters showed a significant linear correlation with the spatial

Environmental assessment for the resiting, construction, and operation of the Environmental and Molecular Sciences Laboratory at the Hanford Site, Richland, Washington

Energy Technology Data Exchange (ETDEWEB)

1994-07-01

This environmental assessment (EA) presents estimated environmental impacts from the resiting, construction, and operation of the US Department of Energy`s (DOE`s) Environmental and Molecular Sciences Laboratory (EMSL), which is proposed to be constructed and operated on land near the south boundary of the Hanford Site near Richland, Washington. The EMSL, if constructed, would be a modern research facility in which experimental, theoretical, and computational techniques can be focused on environmental restoration problems, such as the chemical and transport behavior of complex mixtures of contaminants in the environment. The EMSL design includes approximately 18,500 square meters (200,000 square feet) of floor space on a 12-hectare (30-acre) site. The proposed new site is located within the city limits of Richland in north Richland, at the south end of DOE`s 300 Area, on land to be deeded to the US by the Battelle Memorial Institute. Approximately 200 persons are expected to be employed in the EMSL and approximately 60 visiting scientists may be working in the EMSL at any given time. State-of-the-art equipment is expected to be installed and used in the EMSL. Small amounts of hazardous substances (chemicals and radionuclides) are expected to be used in experimental work in the EMSL.

Status Report on the Development of Research Campaigns

Energy Technology Data Exchange (ETDEWEB)

Baer, Donald R.; Baker, Scott E.; Washton, Nancy M.; Linggi, Bryan E.

2013-06-30

Research campaigns were conceived as a means to focus EMSL research on specific scientific questions. Campaign will help fulfill the Environmental Molecular Sciences Laboratory (EMSL) strategic vision to develop and integrate, for use by the scientific community, world leading capabilities that transform understanding in the environmental molecular sciences and accelerate discoveries relevant to the Department of Energy’s (DOE’s) missions. Campaigns are multi-institutional multi-disciplinary projects with scope beyond those of normal EMSL user projects. The goal of research campaigns is to have EMSL scientists and users team on the projects in the effort to accelerate progress and increase impact in specific scientific areas by focusing user research, EMSL resources, and expertise in those areas. This report will give a history and update on the progress of those campaigns.

Molecular mechanisms of celery seed extract induced apoptosis via s phase cell cycle arrest in the BGC-823 human stomach cancer cell line.

Science.gov (United States)

Gao, Lin-Lin; Feng, Lei; Yao, Shu-Tong; Jiao, Peng; Qin, Shu-Cun; Zhang, Wei; Zhang, Ya-Bin; Li, Fu-Rong

2011-01-01

Mechanisms of apoptosis in tumor cells is an important field of tumor therapy and cancer molecular biology. Loss of cell cycle control, leading to uncontrolled proliferation, is common in cancer. Therefore, the identification of potent and selective cyclin dependent kinase inhibitors is a priority for anti-cancer drug discovery. There are at least two major apoptotic pathways, initiated by caspase-8 and caspase-9, respectively, which can activate caspase cascades. Apoptosis triggered by activation of the mitochondrial-dependent caspase pathway represents the main programmed cell death mechanism. This is activated by various intracellular stresses that induce permeabilization of the mitochondrial membrane. Anti-tumor effects of celery seed extract (CSE) and related mechanisms regarding apoptosis were here investigated in human gastric cancer BGC-823 cells. CSE was produced by supercritical fluid extraction. Cell viability was analyzed by 3-(4,5-dimethylthiazol-2-yl)- 2,5-diphenyl-tetrazolium bromide (MTT) assay and apoptosis by flow cytometry using Annexin/PI staining and DAPI staining and a laser scanning confocal microscope (LSCM). Cell cycling was evaluated using PI staining with flow cytometry and expression of cell cycle and apoptosis-related proteins cyclin A, CDK2, bcl-2 and bax was assessed by immunohistochemical staining. CSE had an anti-proliferation effect on human gastric cancer BGC-823 cells in a dose- and time-dependent manner. After treatment, the apoptotic rate significantly increased, with morphological changes typical of apoptosis observed with LSCM by DAPI staining. Cell cycle and apoptosis related proteins, such as cyclin A, CDK2 and bcl-2 were all down-regulated, whereas bax was up-regulated. The molecular determinants of inhibition of cell proliferation as well as apoptosis of CSE may be associated with cycle arrest in the S phase.

Estimation of the Net Ecosystem Productivity in Huang-Huai Hai Region Combining with Biome-BGC Model and Remote Sensing Data%遥感数据结合Biome-BGC模型估算黄淮海地区生态系统生产力

Institute of Scientific and Technical Information of China (English)

胡波; 孙睿; 陈永俊; 冯丽超; 孙亮

2011-01-01

植被净生态系统生产力（NEP）和净第一性生产力（NPP）作为表征植被活动的关键变量,在全球变化研究及区域生态环境评价中起着很重要的作用。Biome-BGC是一个模拟生态系统植被和土壤中的能量、水、碳、氮的流动和存储的生物地球化学循环模型。论文利用2004年时间序列MODIS LAI遥感产品和气象数据,对黄淮海地区的NEP和NPP进行了模拟估算,由于Biome-BGC模型没有农作物生理生态参数,农作物模拟通过修改草地生理生态参数,并在增加施肥、灌溉和收割代码基础上实现。结果表明,2004年黄淮海地区NEP、NPP呈现南部大于北部的空间分布特征;不同植被类型平均NEP和NPP大小顺序分别为：混交林〉落叶阔叶林〉常绿针叶林〉农作物〉灌木〉草地、混交林〉农作物〉落叶阔叶林〉常绿针叶林〉灌木〉草地;与观测数据、MODIS NPP产品和统计数据进行对比,表明Biome-BGC模型可较好用于区域植被生产力的模拟,农作物模拟结果与统计数据的决定系数达到0.612 3,且模拟得到的黄淮海地区农作物NPP比MODIS NPP产品更接近统计值。%As two key variables to represent vegetation activities,the Net Ecosystem Production（NEP） and the Net Primary Productivity（NPP）played important roles in the study of global change and regional ecological environment evaluation.Biome-BGC was a biogeochemical cycles model,which could simulate the storage and fluxes of water,carbon and nitrogen within the vegetation and soil components of a terrestrial ecosystem.In this paper,in use of the series of MODIS LAI product and the meteorological data in 2004,we simulated the NEP and NPP in the Huang-Huai-Hai Region.Since there was no crop eco-physiological parameters in the Biome-BGC model,we simulated the crop by modifying the grass eco-physiological parameters,and adding the code of fertilizers,irrigation and harvest.The simulated results showed

The impact of climate and CO{sub 2} changes on ecosystem dynamics of the continental United States

Energy Technology Data Exchange (ETDEWEB)

Ojima, D.S. [Colorado State Univ., Ft. Collins, CO (United States)

1995-06-01

The VEMAP study used three biogeochemical (BGC) models to investigate the impact of changes in climate and CO{sub 2} concentrations over the continental US. These models were Biome-BGC, CENTURY, and TEM. Differences among the BGC models and the climate scenarios (three different GCM-derived 2xCO{sub 2} climates were used) contributed equally to the variation in estimates of C dynamics under changing climate and CO,. The response of the individual biogeochemical models to increases in temperature and tp water stress are largely responsible for their behavior under climate change. All three models generally predict increases in C uptake when increases in temperature are not vastly greater than increases in precipitation, such as seen in the GFDL scenario. Differences in the biotic response to elevated CO{sub 2} determined the overall response of NPP and total system C storage due to differences on the manner in which plant C/N, transpiration, and photosynthesis are modified by the three different BGC models.

Hydrography and biogeochemistry dedicated to the Mediterranean BGC-Argo network during a cruise with RV Tethys 2 in May 2015

Science.gov (United States)

Taillandier, Vincent; Wagener, Thibaut; D'Ortenzio, Fabrizio; Mayot, Nicolas; Legoff, Hervé; Ras, Joséphine; Coppola, Laurent; Pasqueron de Fommervault, Orens; Schmechtig, Catherine; Diamond, Emilie; Bittig, Henry; Lefevre, Dominique; Leymarie, Edouard; Poteau, Antoine; Prieur, Louis

2018-03-01

We report on data from an oceanographic cruise, covering western, central and eastern parts of the Mediterranean Sea, on the French research vessel Tethys 2 in May 2015. This cruise was fully dedicated to the maintenance and the metrological verification of a biogeochemical observing system based on a fleet of BGC-Argo floats. During the cruise, a comprehensive data set of parameters sensed by the autonomous network was collected. The measurements include ocean currents, seawater salinity and temperature, and concentrations of inorganic nutrients, dissolved oxygen and chlorophyll pigments. The analytical protocols and data processing methods are detailed, together with a first assessment of the calibration state for all the sensors deployed during the cruise. Data collected at stations are available at https://doi.org/10.17882/51678" target="_blank">https://doi.org/10.17882/51678 and data collected along the ship track are available at https://doi.org/10.17882/51691" target="_blank">https://doi.org/10.17882/51691.

Molecular Science Computing: 2010 Greenbook

Energy Technology Data Exchange (ETDEWEB)

De Jong, Wibe A.; Cowley, David E.; Dunning, Thom H.; Vorpagel, Erich R.

2010-04-02

This 2010 Greenbook outlines the science drivers for performing integrated computational environmental molecular research at EMSL and defines the next-generation HPC capabilities that must be developed at the MSC to address this critical research. The EMSL MSC Science Panel used EMSL’s vision and science focus and white papers from current and potential future EMSL scientific user communities to define the scientific direction and resulting HPC resource requirements presented in this 2010 Greenbook.

Analyzing the ecosystem carbon dynamics of four European coniferous forests using a biogeochemistry model

NARCIS (Netherlands)

Churkina, G.; Tenhunen, J.; Thornton, P.; Falge, E.; Elbers, J.A.; Erhard, M.; Grünwald, T.; Kowalski, A.; Rannik, Ü.; Sprinz, D.

2003-01-01

This paper provides the first steps toward a regional-scale analysis of carbon (C) budgets. We explore the ability of the ecosystem model BIOME-BGC to estimate the daily and annual C dynamics of four European coniferous forests and shifts in these dynamics in response to changing environmental

Convergence and Divergence in a Multi-Model Ensemble of Terrestrial Ecosystem Models in North America

Science.gov (United States)

Dungan, J. L.; Wang, W.; Hashimoto, H.; Michaelis, A.; Milesi, C.; Ichii, K.; Nemani, R. R.

2009-12-01

In support of NACP, we are conducting an ensemble modeling exercise using the Terrestrial Observation and Prediction System (TOPS) to evaluate uncertainties among ecosystem models, satellite datasets, and in-situ measurements. The models used in the experiment include public-domain versions of Biome-BGC, LPJ, TOPS-BGC, and CASA, driven by a consistent set of climate fields for North America at 8km resolution and daily/monthly time steps over the period of 1982-2006. The reference datasets include MODIS Gross Primary Production (GPP) and Net Primary Production (NPP) products, Fluxnet measurements, and other observational data. The simulation results and the reference datasets are consistently processed and systematically compared in the climate (temperature-precipitation) space; in particular, an alternative to the Taylor diagram is developed to facilitate model-data intercomparisons in multi-dimensional space. The key findings of this study indicate that: the simulated GPP/NPP fluxes are in general agreement with observations over forests, but are biased low (underestimated) over non-forest types; large uncertainties of biomass and soil carbon stocks are found among the models (and reference datasets), often induced by seemingly “small” differences in model parameters and implementation details; the simulated Net Ecosystem Production (NEP) mainly responds to non-respiratory disturbances (e.g. fire) in the models and therefore is difficult to compare with flux data; and the seasonality and interannual variability of NEP varies significantly among models and reference datasets. These findings highlight the problem inherent in relying on only one modeling approach to map surface carbon fluxes and emphasize the pressing necessity of expanded and enhanced monitoring systems to narrow critical structural and parametrical uncertainties among ecosystem models.

Selecting and optimizing eco-physiological parameters of Biome-BGC to reproduce observed woody and leaf biomass growth of Eucommia ulmoides plantation in China using Dakota optimizer

Science.gov (United States)

Miyauchi, T.; Machimura, T.

2013-12-01

In the simulation using an ecosystem process model, the adjustment of parameters is indispensable for improving the accuracy of prediction. This procedure, however, requires much time and effort for approaching the simulation results to the measurements on models consisting of various ecosystem processes. In this study, we tried to apply a general purpose optimization tool in the parameter optimization of an ecosystem model, and examined its validity by comparing the simulated and measured biomass growth of a woody plantation. A biometric survey of tree biomass growth was performed in 2009 in an 11-year old Eucommia ulmoides plantation in Henan Province, China. Climate of the site was dry temperate. Leaf, above- and below-ground woody biomass were measured from three cut trees and converted into carbon mass per area by measured carbon contents and stem density. Yearly woody biomass growth of the plantation was calculated according to allometric relationships determined by tree ring analysis of seven cut trees. We used Biome-BGC (Thornton, 2002) to reproduce biomass growth of the plantation. Air temperature and humidity from 1981 to 2010 was used as input climate condition. The plant functional type was deciduous broadleaf, and non-optimizing parameters were left default. 11-year long normal simulations were performed following a spin-up run. In order to select optimizing parameters, we analyzed the sensitivity of leaf, above- and below-ground woody biomass to eco-physiological parameters. Following the selection, optimization of parameters was performed by using the Dakota optimizer. Dakota is an optimizer developed by Sandia National Laboratories for providing a systematic and rapid means to obtain optimal designs using simulation based models. As the object function, we calculated the sum of relative errors between simulated and measured leaf, above- and below-ground woody carbon at each of eleven years. In an alternative run, errors at the last year (at the

Assessment of Anthropogenic and Climatic Impacts on the Global Carbon Cycle Using a 3-D Model Constrained by Isotopic Carbon Measurements and Remote Sensing of Vegetation

Science.gov (United States)

Keeling, Charles D.; Piper, S. C.

1998-01-01

Our original proposal called for improved modeling of the terrestrial biospheric carbon cycle, specifically using biome-specific process models to account for both the energy and water budgets of plant growth, to facilitate investigations into recent changes in global atmospheric CO2 abundance and regional distribution. The carbon fluxes predicted by these models were to be incorporated into a global model of CO2 transport to establish large-scale regional fluxes of CO2 to and from the terrestrial biosphere subject to constraints imposed by direct measurements of atmospheric CO2 and its 13C/12C isotopic ratio. Our work was coordinated with a NASA project (NASA NAGW-3151) at the University of Montana under the direction of Steven Running, and was partially funded by the Electric Power Research Institute. The primary objective of this project was to develop and test the Biome-BGC model, a global biological process model with a daily time step which simulates the water, energy and carbon budgets of plant growth. The primary product, the unique global gridded daily land temperature, and the precipitation data set which was used to drive the process model is described. The Biome-BGC model was tested by comparison with a simpler biological model driven by satellite-derived (NDVI) Normalized Difference Vegetation Index and (PAR) Photosynthetically Active Radiation data and by comparison with atmospheric CO2 observations. The simple NDVI model is also described. To facilitate the comparison with atmospheric CO2 observations, a three-dimensional atmospheric transport model was used to produce predictions of atmospheric CO2 variations given CO2 fluxes owing to (NPP) Net Primary Productivity and heterotrophic respiration that were produced by the Biome-BGC model and by the NDVI model. The transport model that we used in this project, and errors associated with transport simulations, were characterized by a comparison of 12 transport models.

Comparison of modeling approaches for carbon partitioning: Impact on estimates of global net primary production and equilibrium biomass of woody vegetation from MODIS GPP

Science.gov (United States)

Ise, Takeshi; Litton, Creighton M.; Giardina, Christian P.; Ito, Akihiko

2010-12-01

Partitioning of gross primary production (GPP) to aboveground versus belowground, to growth versus respiration, and to short versus long-lived tissues exerts a strong influence on ecosystem structure and function, with potentially large implications for the global carbon budget. A recent meta-analysis of forest ecosystems suggests that carbon partitioning to leaves, stems, and roots varies consistently with GPP and that the ratio of net primary production (NPP) to GPP is conservative across environmental gradients. To examine influences of carbon partitioning schemes employed by global ecosystem models, we used this meta-analysis-based model and a satellite-based (MODIS) terrestrial GPP data set to estimate global woody NPP and equilibrium biomass, and then compared it to two process-based ecosystem models (Biome-BGC and VISIT) using the same GPP data set. We hypothesized that different carbon partitioning schemes would result in large differences in global estimates of woody NPP and equilibrium biomass. Woody NPP estimated by Biome-BGC and VISIT was 25% and 29% higher than the meta-analysis-based model for boreal forests, with smaller differences in temperate and tropics. Global equilibrium woody biomass, calculated from model-specific NPP estimates and a single set of tissue turnover rates, was 48 and 226 Pg C higher for Biome-BGC and VISIT compared to the meta-analysis-based model, reflecting differences in carbon partitioning to structural versus metabolically active tissues. In summary, we found that different carbon partitioning schemes resulted in large variations in estimates of global woody carbon flux and storage, indicating that stand-level controls on carbon partitioning are not yet accurately represented in ecosystem models.

Developing a Data Driven Process-Based Model for Remote Sensing of Ecosystem Production

Science.gov (United States)

Elmasri, B.; Rahman, A. F.

2010-12-01

Estimating ecosystem carbon fluxes at various spatial and temporal scales is essential for quantifying the global carbon cycle. Numerous models have been developed for this purpose using several environmental variables as well as vegetation indices derived from remotely sensed data. Here we present a data driven modeling approach for gross primary production (GPP) that is based on a process based model BIOME-BGC. The proposed model was run using available remote sensing data and it does not depend on look-up tables. Furthermore, this approach combines the merits of both empirical and process models, and empirical models were used to estimate certain input variables such as light use efficiency (LUE). This was achieved by using remotely sensed data to the mathematical equations that represent biophysical photosynthesis processes in the BIOME-BGC model. Moreover, a new spectral index for estimating maximum photosynthetic activity, maximum photosynthetic rate index (MPRI), is also developed and presented here. This new index is based on the ratio between the near infrared and the green bands (ρ858.5/ρ555). The model was tested and validated against MODIS GPP product and flux measurements from two eddy covariance flux towers located at Morgan Monroe State Forest (MMSF) in Indiana and Harvard Forest in Massachusetts. Satellite data acquired by the Advanced Microwave Scanning Radiometer (AMSR-E) and MODIS were used. The data driven model showed a strong correlation between the predicted and measured GPP at the two eddy covariance flux towers sites. This methodology produced better predictions of GPP than did the MODIS GPP product. Moreover, the proportion of error in the predicted GPP for MMSF and Harvard forest was dominated by unsystematic errors suggesting that the results are unbiased. The analysis indicated that maintenance respiration is one of the main factors that dominate the overall model outcome errors and improvement in maintenance respiration estimation

Classification and multivariate analysis of differences in gross primary production at different elevations using biome-bgc in the páramos, ecuadorian andean region

Directory of Open Access Journals (Sweden)

Veronica Minaya

2015-08-01

Full Text Available Gross primary production (GPP in climate change studies with multi- species and elevation variables are difficult to measure and simulate. Models tend to provide a representation of dynamic process through long-term analysis by using generalized parameterizations. Even, current approaches of modelling do not contemplate easily the variation of GPP at different elevations for different vegetation types in regions like páramos, mainly due to data unavailability. In these models information from cells is commonly averaged, and therefore average elevation, ecophysiology of vegetation, as well as other parameters is generalized. The vegetation model BIOME- BGC was applied to the Ecuadorian Andean region for elevations greater than 4000 masl with the presence of typical vegetation of páramo for 10 years of simulation (period 2000-2009. An estimation of the difference of GPP obtained using a generalized altitude and predominant type of vegetation could lead to a better estimation of the uncertainty in the magnitude of the errors in global climate models. This research explores GPP from 3 different altitudes and 3 vegetation types against 2 main climate drivers (Short Wave Radiation and Vapor Pressure Deficit. Since it is important to measure the possible errors or difference in the use of averaged meteorological and ecophysiological data, here we present a multivariate analysis of the dynamic difference of GPP in time, relative to an altitude and type of vegetation. A copula multivariable model allows us to identify and classify the changes in GPP per type of vegetation and altitude. The Frank copula model of joint distributions was our best fit between GPP and climate drivers and it allowed us to understand better the dependency of the variables. These results can explore extreme situations where averaged simplified approaches could mislead. The change of GPP over time is essential for future climate scenarios of the ecosystem storage and release

Modeling of Carbon Sequestration on Eucalyptus Plantation in Brazililian Cerrado Region for Better Characterization of Net Primary Productivity

Science.gov (United States)

Echeverri, J. D.; Siqueira, M. B.

2013-05-01

Managed Forests have important roles in climate change due to their contribution to CO2 sequestration stored in their biomass, soils and products therefrom. Terrestrial net primary production (NPP, kgC/m2), equal to gross primary production minus autotrophic respiration, represents the carbon available for plant allocation to leaves, stems, roots, defensive compounds, and reproduction and is the basic measure of biological productivity. Tree growth, food production, fossil fuel production, and atmospheric CO2 levels are all strongly controlled by NPP. Accurate quantification of NPP at local to global scales is therefore central topic for carbon cycle researchers, foresters, land and resource managers, and politicians. For recent or current NPP estimates, satellite remote sensing can be used but for future climate scenarios, simulation models are required. There is an increasing trend to displace natural Brazilian Cerrado to Eucalyptus for paper mills and energy conversion from biomass. The objective of this research exercise is to characterize NPP from managed Eucalyptus plantation in the Brazilian Cerrado. The models selected for this study were the 3-PG and Biome-BGC. The selection of these models aims to cover a range of complexity that allow the evaluation of the processes modeled as to its relevance to a best estimate of productivity in eucalyptus forests. 3-PG model is the simplest of the models chosen for this exercise. Its main purpose is to estimate productivity of forests in timber production. The model uses the relationship of quantum efficiency in the transformation of light energy into biomass for vegetative growth calculations in steps in time of one month. Adverse weather conditions are treated with reduction factors applied in the top efficiency. The second model is the Biome-BGC that uses biology and geochemistry principles to estimate leaf-level photosynthesis based on limiting factors such as availability of light and nutrient constraints. The

Transforming Ocean Observations of the Carbon Budget, Acidification, Hypoxia, Nutrients, and Biological Productivity: a Global Array of Biogeochemical Argo Floats

Science.gov (United States)

Talley, L. D.; Johnson, K. S.; Claustre, H.; Boss, E.; Emerson, S. R.; Westberry, T. K.; Sarmiento, J. L.; Mazloff, M. R.; Riser, S.; Russell, J. L.

2017-12-01

Our ability to detect changes in biogeochemical (BGC) processes in the ocean that may be driven by increasing atmospheric CO2, as well as by natural climate variability, is greatly hindered by undersampling in vast areas of the open ocean. Argo is a major international program that measures ocean heat content and salinity with about 4000 floats distributed throughout the ocean, profiling to 2000 m every 10 days. Extending this approach to a global BGC-Argo float array, using recent, proven sensor technology, and in close synergy with satellite systems, will drive a transformative shift in observing and predicting the effects of climate change on ocean metabolism, carbon uptake, acidification, deoxygenation, and living marine resource management. BGC-Argo will add sensors for pH, oxygen, nitrate, chlorophyll, suspended particles, and downwelling irradiance, with sufficient accuracy for climate studies. Observing System Simulation Experiments (OSSEs) using BGC models indicate that 1000 BGC floats would provide sufficient coverage, hence equipping 1/4 of the Argo array. BGC-Argo (http://biogeochemical-argo.org) will enhance current sustained observational programs such as Argo, GO-SHIP, and long-term ocean time series. BGC-Argo will benefit from deployments on GO-SHIP vessels, which provide sensor verification. Empirically derived algorithms that relate the observed BGC float parameters to the carbon system parameters will provide global information on seasonal ocean-atmosphere carbon exchange. BGC Argo measurements could be paired with other emerging technology, such as pCO2 measurements from ships of opportunity and wave gliders, to extend and validate exchange estimates. BGC-Argo prototype programs already show the potential of a global observing system that can measure seasonal to decadal variability. Various countries have developed regional BGC arrays: Southern Ocean (SOCCOM), North Atlantic Subpolar Gyre (remOcean), Mediterranean (NAOS), the Kuroshio (INBOX

Assessing the impacts of climate change and nitrogen deposition on Norway spruce (Picea abies L. Karst) growth in Austria with BIOME-BGC.

Science.gov (United States)

Eastaugh, Chris S; Pötzelsberger, Elisabeth; Hasenauer, Hubert

2011-03-01

The aim of this paper is to determine whether a detectable impact of climate change is apparent in Austrian forests. In regions of complex terrain such as most of Austria, climatic trends over the past 50 years show marked geographic variability. As climate is one of the key drivers of forest growth, a comparison of growth characteristics between regions with different trends in temperature and precipitation can give insights into the impact of climatic change on forests. This study uses data from several hundred climate recording stations, interpolated to measurement sites of the Austrian National Forest Inventory (NFI). Austria as a whole shows a warming trend over the past 50 years and little overall change in precipitation. The warming trends, however, vary considerably across certain regions and regional precipitation trends vary widely in both directions, which cancel out on the national scale These differences allow the delineation of 'climatic change zones' with internally consistent climatic trends that differ from other zones. This study applies the species-specific adaptation of the biogeochemical model BIOME-BGC to Norway spruce (Picea abies (L.) Karst) across a range of Austrian climatic change zones, using input data from a number of national databases. The relative influence of extant climate change on forest growth is quantified, and compared with the far greater impact of non-climatic factors. At the national scale, climate change is found to have negligible effect on Norway spruce productivity, due in part to opposing effects at the regional level. The magnitudes of the modeled non-climatic influences on aboveground woody biomass increment increases are consistent with previously reported values of 20-40 kg of added stem carbon sequestration per kilogram of additional nitrogen deposition, while climate responses are of a magnitude difficult to detect in NFI data.

Assessing the ability of three land ecosystem models to simulate gross carbon uptake of forests from boreal to Mediterranean climate in Europe

NARCIS (Netherlands)

Jung, M.; Le Maire, Guerric; Zaehle, S.; Luyssaert, S.; Vetter, M.; Churkina, G.; Ciais, P.; Viovy, N.; Reichstein, M.

2007-01-01

Three terrestrial biosphere models (LPJ, Orchidee, Biome-BGC) were evaluated with respect to their ability to simulate large-scale climate related trends in gross primary production (GPP) across European forests. Simulated GPP and leaf area index (LAI) were compared with GPP estimates based on flux

Earth System Modeling and Field Experiments in the Arctic-Boreal Zone - Report from a NASA Workshop

Science.gov (United States)

Sellers, Piers; Rienecker Michele; Randall, David; Frolking, Steve

2012-01-01

Early climate modeling studies predicted that the Arctic Ocean and surrounding circumpolar land masses would heat up earlier and faster than other parts of the planet as a result of greenhouse gas-induced climate change, augmented by the sea-ice albedo feedback effect. These predictions have been largely borne out by observations over the last thirty years. However, despite constant improvement, global climate models have greater difficulty in reproducing the current climate in the Arctic than elsewhere and the scatter between projections from different climate models is much larger in the Arctic than for other regions. Biogeochemical cycle (BGC) models indicate that the warming in the Arctic-Boreal Zone (ABZ) could lead to widespread thawing of the permafrost, along with massive releases of CO2 and CH4, and large-scale changes in the vegetation cover in the ABZ. However, the uncertainties associated with these BGC model predictions are even larger than those associated with the physical climate system models used to describe climate change. These deficiencies in climate and BGC models reflect, at least in part, an incomplete understanding of the Arctic climate system and can be related to inadequate observational data or analyses of existing data. A workshop was held at NASA/GSFC, May 22-24 2012, to assess the predictive capability of the models, prioritize the critical science questions; and make recommendations regarding new field experiments needed to improve model subcomponents. This presentation will summarize the findings and recommendations of the workshop, including the need for aircraft and flux tower measurements and extension of existing in-situ measurements to improve process modeling of both the physical climate and biogeochemical cycle systems. Studies should be directly linked to remote sensing investigations with a view to scaling up the improved process models to the Earth System Model scale. Data assimilation and observing system simulation

Multiscale Computation. Needs and Opportunities for BER Science

Energy Technology Data Exchange (ETDEWEB)

Scheibe, Timothy D. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Smith, Jeremy C. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States)

2015-01-01

The Environmental Molecular Sciences Laboratory (EMSL), a scientific user facility managed by Pacific Northwest National Laboratory for the U.S. Department of Energy, Office of Biological and Environmental Research (BER), conducted a one-day workshop on August 26, 2014 on the topic of “Multiscale Computation: Needs and Opportunities for BER Science.” Twenty invited participants, from various computational disciplines within the BER program research areas, were charged with the following objectives; Identify BER-relevant models and their potential cross-scale linkages that could be exploited to better connect molecular-scale research to BER research at larger scales and; Identify critical science directions that will motivate EMSL decisions regarding future computational (hardware and software) architectures.

Observation and modeling of NPP for Pinus elliottii plantation in subtropical China

Institute of Scientific and Technical Information of China (English)

MA ZeQing; LIU QiJing; WANG HuiMin; LI XuanRan; ZENG HuiQing; XU WenJia

2008-01-01

Based on the stem analysis of 59 individuals of Pinus elliottii in combination with tree biomass models,we calculated annual biomass increment of forest plots at Qianyanzhou Ecological Station,Chinese Academy of Sciences in subtropical China. In addition,canopy layer and community NPP were calculated based on 12 years' litter fall data. NPP of the 21-year-old forest was estimated by using the BIOME BGC model; and both measured NPP and estimated NPP were compared with flux data. Community lation between annual litter fall and annual biomass increment; and the litter fall was 1.19 times the biomass increment of living trees. From 1985 to 2005,average NPP and GPP values based on BGC simulated tree layer NPP values. NPP accounted for 30.2% (25.6%-32.9%) of GPP,while NEP accounted for 57.5% (48.1%-66.5%) of tree-layer NPP and 41.74% (37%-52%) of stand NPP. Soil respiration accounted for 77.0% of measured tree NPP and 55.9% of the measured stand NPP. NEE based on eddy covariance method was 12.97% higher than the observed NEP.

Hydrological model uncertainty due to spatial evapotranspiration estimation methods

Science.gov (United States)

Yu, Xuan; Lamačová, Anna; Duffy, Christopher; Krám, Pavel; Hruška, Jakub

2016-05-01

Evapotranspiration (ET) continues to be a difficult process to estimate in seasonal and long-term water balances in catchment models. Approaches to estimate ET typically use vegetation parameters (e.g., leaf area index [LAI], interception capacity) obtained from field observation, remote sensing data, national or global land cover products, and/or simulated by ecosystem models. In this study we attempt to quantify the uncertainty that spatial evapotranspiration estimation introduces into hydrological simulations when the age of the forest is not precisely known. The Penn State Integrated Hydrologic Model (PIHM) was implemented for the Lysina headwater catchment, located 50°03‧N, 12°40‧E in the western part of the Czech Republic. The spatial forest patterns were digitized from forest age maps made available by the Czech Forest Administration. Two ET methods were implemented in the catchment model: the Biome-BGC forest growth sub-model (1-way coupled to PIHM) and with the fixed-seasonal LAI method. From these two approaches simulation scenarios were developed. We combined the estimated spatial forest age maps and two ET estimation methods to drive PIHM. A set of spatial hydrologic regime and streamflow regime indices were calculated from the modeling results for each method. Intercomparison of the hydrological responses to the spatial vegetation patterns suggested considerable variation in soil moisture and recharge and a small uncertainty in the groundwater table elevation and streamflow. The hydrologic modeling with ET estimated by Biome-BGC generated less uncertainty due to the plant physiology-based method. The implication of this research is that overall hydrologic variability induced by uncertain management practices was reduced by implementing vegetation models in the catchment models.

Diagnosing and Assessing Uncertainties of the Carbon Cycle in Terrestrial Ecosystem Models from a Multi-Model Ensemble Experiment

Science.gov (United States)

Wang, W.; Dungan, J. L.; Hashimoto, H.; Michaelis, A.; Milesi, C.; Ichii, K.; Nemani, R. R.

2009-12-01

We are conducting an ensemble modeling exercise using the Terrestrial Observation and Prediction System (TOPS) to characterize structural uncertainty in carbon fluxes and stocks estimates from different ecosystem models. The experiment uses public-domain versions of Biome-BGC, LPJ, TOPS-BGC, and CASA, driven by a consistent set of climate fields for North America at 8km resolution and daily/monthly time steps over the period of 1982-2006. A set of diagnostics is developed to characterize the behavior of the models in the climate (temperature-precipitation) space, and to evaluate the simulated carbon cycle in an integrated way. The key findings of this study include that: (relative) optimal primary production is generally found in climate regions where the relationship between annual temperature (T, oC) and precipitation (P, mm) is defined by P = 50*T+500; the ratios between NPP and GPP are close to 50% on average, yet can vary between models and in different climate regions; the allocation of carbon to leaf growth represents a positive feedback to the primary production, and different approaches to constrain this process have significant impacts on the simulated carbon cycle; substantial differences in biomass stocks may be induced by small differences in the tissue turnover rate and the plant mortality; the mean residence time of soil carbon pools is strongly influenced by schemes of temperature regulations; non-respiratory disturbances (e.g., fires) are the main driver for NEP, yet its magnitudes vary between models. Overall, these findings indicate that although the structures of the models are similar, the uncertainties among them can be large, highlighting the problem inherent in relying on only one modeling approach to map surface carbon fluxes or to assess vegetation-climate interactions.

Dextran hydrogels incorporated with bioactive glass-ceramic: Nanocomposite scaffolds for bone tissue engineering.

Science.gov (United States)

Nikpour, Parisa; Salimi-Kenari, Hamed; Fahimipour, Farahnaz; Rabiee, Sayed Mahmood; Imani, Mohammad; Dashtimoghadam, Erfan; Tayebi, Lobat

2018-06-15

A series of nanocomposite scaffolds comprised of dextran (Dex) and sol-gel derived bioactive glass ceramic nanoparticles (nBGC: 0-16 (wt%)) were fabricated as bioactive scaffolds for bone tissue engineering. Scanning electron microscopy showed Dex/nBGC scaffolds were consisting of a porous 3D microstructure with an average pore size of 240 μm. Energy-dispersive x-ray spectroscopy illustrated nBGC nanoparticles were homogenously distributed within the Dex matrix at low nBGC content (2 wt%), while agglomeration was observed at higher nBGC contents. It was found that the osmotic pressure and nBGC agglomeration at higher nBGC contents leads to increased water uptake, then reduction of the compressive modulus. Bioactivity of Dex/nBGC scaffolds was validated through apatite formation after submersion in the simulated body fluid. Dex/nBGC composite scaffolds were found to show improved human osteoblasts (HOBs) proliferation and alkaline phosphatase (ALP) activity with increasing nBGC content up to 16 (wt%) over two weeks. Owing to favorable physicochemical and bioactivity properties, the Dex/nBGC composite hydrogels can be offered as promising bioactive scaffolds for bone tissue engineering applications. Copyright © 2018 Elsevier Ltd. All rights reserved.

Environmental Molecular Sciences Laboratory Operations System: Version 4.0 - system requirements specification

Energy Technology Data Exchange (ETDEWEB)

Kashporenko, D.

1996-07-01

This document is intended to provide an operations standard for the Environmental Molecular Sciences Laboratory OPerations System (EMSL OPS). It is directed toward three primary audiences: (1) Environmental Molecular Sciences Laboratory (EMSL) facility and operations personnel; (2) laboratory line managers and staff; and (3) researchers, equipment operators, and laboratory users. It is also a statement of system requirements for software developers of EMSL OPS. The need for a finely tuned, superior research environment as provided by the US Department of Energy`s (DOE) Environmental Molecular Sciences Laboratory has never been greater. The abrupt end of the Cold War and the realignment of national priorities caused major US and competing overseas laboratories to reposition themselves in a highly competitive research marketplace. For a new laboratory such as the EMSL, this means coming into existence in a rapidly changing external environment. For any major laboratory, these changes create funding uncertainties and increasing global competition along with concomitant demands for higher standards of research product quality and innovation. While more laboratories are chasing fewer funding dollars, research ideas and proposals, especially for molecular-level research in the materials and biological sciences, are burgeoning. In such an economically constrained atmosphere, reduced costs, improved productivity, and strategic research project portfolio building become essential to establish and maintain any distinct competitive advantage. For EMSL, this environment and these demands require clear operational objectives, specific goals, and a well-crafted strategy. Specific goals will evolve and change with the evolution of the nature and definition of DOE`s environmental research needs. Hence, EMSL OPS is designed to facilitate migration of these changes with ease into every pertinent job function, creating a facile {open_quotes}learning organization.{close_quotes}

User's guide for survey-meter- and film-badge-dosimetry data bases

International Nuclear Information System (INIS)

Phillips, W.G.; Sherman, S.; Young, R.

1981-05-01

This manual describes the data storage and retrieval system designed by Environmental Monitoring Systems Laboratory Las Vegas (EMSL-LV) for radiation exposure data recorded in offsite areas during and after nuclear weapons tests conducted at the Nevada Test Site in the 1950's and early 1960's. Referred to hereinafter as the EMSL-LV system, this system contains two distinct subsets of offsite radiological measurements collected during early nuclear atmospheric tests at the Nevada Test Site. The purpose of the manual is to present the methods for using the EMSL-LV system to examine all or any portion of either data subset. The two distinct subsets which comprise the EMSL-LV system are survey meter data and film badge dosimetry data. The survey meter data consist of readings obtained from portable radiation monitoring instruments used around the Nevada Test Site during the 1950's and early 1960's to measure radiation exposure rates resulting from the nuclear testing program. The dosimetry data consist of measurements of integrated radiation exposure made with film badge type dosimeters in areas surrounding the Nevada Test Site

Molecular Science Computing Facility Scientific Challenges: Linking Across Scales

Energy Technology Data Exchange (ETDEWEB)

De Jong, Wibe A.; Windus, Theresa L.

2005-07-01

The purpose of this document is to define the evolving science drivers for performing environmental molecular research at the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) and to provide guidance associated with the next-generation high-performance computing center that must be developed at EMSL's Molecular Science Computing Facility (MSCF) in order to address this critical research. The MSCF is the pre-eminent computing facility?supported by the U.S. Department of Energy's (DOE's) Office of Biological and Environmental Research (BER)?tailored to provide the fastest time-to-solution for current computational challenges in chemistry and biology, as well as providing the means for broad research in the molecular and environmental sciences. The MSCF provides integral resources and expertise to emerging EMSL Scientific Grand Challenges and Collaborative Access Teams that are designed to leverage the multiple integrated research capabilities of EMSL, thereby creating a synergy between computation and experiment to address environmental molecular science challenges critical to DOE and the nation.

Sensibility and time heterogeneity of Biome-BGC model parameters%Biome-BGC模型参数的敏感性和时间异质性

Institute of Scientific and Technical Information of China (English)

刘秋雨; 张廷龙; 孙睿; 王博闻; 叶欣欣; 李一哲

2017-01-01

water and carbon flux in Harvard Forest area.Firstly,the sensitivity of parameters was analyzed.Additionally,in order to acquire monthly optimal values of parameters,the values of parameters were changed repeatedly in reasonable range,simulated annealing algorithm was used and objective function was built.Also,the time heterogeneity of sensitive parameter was analyzed through coefficient of variation.The results showed that the ecological model parameters were not constants,and the property of parameters changed with time.In addition,the heterogeneity of parameters was different.In this paper,the sensitive parameters in the Biome-BGC model were divided into corresponding levels based on their time heterogeneity.The results of this study could promote in-depth understanding of ecological model parameters and provide an idea for identification and optimization of these parameters,which is helpful to improve the accuracy and effectiveness of model and data assimilation.

Calibration of two complex ecosystem models with different likelihood functions

Science.gov (United States)

Hidy, Dóra; Haszpra, László; Pintér, Krisztina; Nagy, Zoltán; Barcza, Zoltán

2014-05-01

The biosphere is a sensitive carbon reservoir. Terrestrial ecosystems were approximately carbon neutral during the past centuries, but they became net carbon sinks due to climate change induced environmental change and associated CO2 fertilization effect of the atmosphere. Model studies and measurements indicate that the biospheric carbon sink can saturate in the future due to ongoing climate change which can act as a positive feedback. Robustness of carbon cycle models is a key issue when trying to choose the appropriate model for decision support. The input parameters of the process-based models are decisive regarding the model output. At the same time there are several input parameters for which accurate values are hard to obtain directly from experiments or no local measurements are available. Due to the uncertainty associated with the unknown model parameters significant bias can be experienced if the model is used to simulate the carbon and nitrogen cycle components of different ecosystems. In order to improve model performance the unknown model parameters has to be estimated. We developed a multi-objective, two-step calibration method based on Bayesian approach in order to estimate the unknown parameters of PaSim and Biome-BGC models. Biome-BGC and PaSim are a widely used biogeochemical models that simulate the storage and flux of water, carbon, and nitrogen between the ecosystem and the atmosphere, and within the components of the terrestrial ecosystems (in this research the developed version of Biome-BGC is used which is referred as BBGC MuSo). Both models were calibrated regardless the simulated processes and type of model parameters. The calibration procedure is based on the comparison of measured data with simulated results via calculating a likelihood function (degree of goodness-of-fit between simulated and measured data). In our research different likelihood function formulations were used in order to examine the effect of the different model

Effects of silica and calcium levels in nanobioglass ceramic particles on osteoblast proliferation

International Nuclear Information System (INIS)

Moorthi, A.; Parihar, P.R.; Saravanan, S.; Vairamani, M.; Selvamurugan, N.

2014-01-01

At nanoscale, bioglass ceramic (nBGC) particles containing calcium oxide (lime), silica and phosphorus pentoxide promote osteoblast proliferation. However, the role of varied amounts of calcium and silica present in nBGC particles on osteoblast proliferation is not yet completely known. Hence, the current work was aimed at synthesizing two different nBGC particles with varied amounts of calcium oxide and silica, nBGC-1: SiO 2 :CaO:P 2 O 5 ; mol% ∼ 70:25:5 and nBGC-2: SiO 2 :CaO:P 2 O 5 ; mol% ∼ 64:31:5, and investigating their role on osteoblast proliferation. The synthesized nBGC particles were characterized by transmission electron microscopy (TEM), energy dispersive X-ray spectroscopy (EDS), Fourier transform infrared (FTIR) spectroscopy and X-ray diffraction (XRD) studies. They exhibited their size at nanoscale and were non-toxic to human osteoblastic cells (MG-63). The nBGC-2 particles were found to have more effect on stimulation of osteoblast proliferation and promoted entering of more cells into G2/M cell cycle phase compared to nBGC-1 particles. There was a differential expression of cyclin proteins in MG-63 cells by nBGC-1 and nBGC-2 treatments, and the expression of cyclin B1 and E proteins was found to be more by nBGC-2 treatment. Thus, these results provide us a new insight in understanding the design of various nBGC particles by altering their ionic constituents with desirable biological properties thereby supporting bone augmentation. - Highlights: • nBGC particles with varied amounts of calcium and silica were synthesized. • They were non-toxic to human osteoblastic cells. • nBGC-2 particles had more effect on stimulation of osteoblast proliferation. • nBGC-2 particles promoted entering of osteoblasts into G2/M cell cycle phase. • Expression of cyclin B1 and E proteins was found to be more by nBGC-2 treatment

Effects of silica and calcium levels in nanobioglass ceramic particles on osteoblast proliferation

Energy Technology Data Exchange (ETDEWEB)

Moorthi, A.; Parihar, P.R.; Saravanan, S.; Vairamani, M.; Selvamurugan, N., E-mail: selvamurugan.n@ktr.srmuniv.ac.in

2014-10-01

At nanoscale, bioglass ceramic (nBGC) particles containing calcium oxide (lime), silica and phosphorus pentoxide promote osteoblast proliferation. However, the role of varied amounts of calcium and silica present in nBGC particles on osteoblast proliferation is not yet completely known. Hence, the current work was aimed at synthesizing two different nBGC particles with varied amounts of calcium oxide and silica, nBGC-1: SiO{sub 2}:CaO:P{sub 2}O{sub 5}; mol% ∼ 70:25:5 and nBGC-2: SiO{sub 2}:CaO:P{sub 2}O{sub 5}; mol% ∼ 64:31:5, and investigating their role on osteoblast proliferation. The synthesized nBGC particles were characterized by transmission electron microscopy (TEM), energy dispersive X-ray spectroscopy (EDS), Fourier transform infrared (FTIR) spectroscopy and X-ray diffraction (XRD) studies. They exhibited their size at nanoscale and were non-toxic to human osteoblastic cells (MG-63). The nBGC-2 particles were found to have more effect on stimulation of osteoblast proliferation and promoted entering of more cells into G2/M cell cycle phase compared to nBGC-1 particles. There was a differential expression of cyclin proteins in MG-63 cells by nBGC-1 and nBGC-2 treatments, and the expression of cyclin B1 and E proteins was found to be more by nBGC-2 treatment. Thus, these results provide us a new insight in understanding the design of various nBGC particles by altering their ionic constituents with desirable biological properties thereby supporting bone augmentation. - Highlights: • nBGC particles with varied amounts of calcium and silica were synthesized. • They were non-toxic to human osteoblastic cells. • nBGC-2 particles had more effect on stimulation of osteoblast proliferation. • nBGC-2 particles promoted entering of osteoblasts into G2/M cell cycle phase. • Expression of cyclin B1 and E proteins was found to be more by nBGC-2 treatment.

Examination of a climate stabilization pathway via zero-emissions using Earth system models

International Nuclear Information System (INIS)

Nohara, Daisuke; Tsutsui, J; Watanabe, S; Tachiiri, K; Hajima, T; Okajima, H; Matsuno, T

2015-01-01

Long-term climate experiments up to the year 2300 have been conducted using two full-scale complex Earth system models (ESMs), CESM1(BGC) and MIROC-ESM, for a CO 2 emissions reduction pathway, termed Z650, where annual CO 2 emissions peak at 11 PgC in 2020, decline by 50% every 30 years, and reach zero in 2160. The results have been examined by focusing on the approximate linear relationship between the temperature increase and cumulative CO 2 emissions. Although the temperature increase is nearly proportional to the cumulative CO 2 emissions in both models, this relationship does not necessarily provide a robust basis for the restriction of CO 2 emissions because it is substantially modulated by non-CO 2 forcing. CO 2 -induced warming, estimated from the atmospheric CO 2 concentrations in the models, indicates an approximate compensation of nonlinear changes between fast-mode responses to concentration changes at less than 10 years and slow-mode response at more than 100 years due to the thermal inertia of the ocean. In this estimate, CESM1(BGC) closely approximates a linear trend of 1.7 °C per 1000 PgC, whereas MIROC-ESM shows a deviation toward higher temperatures after the emissions peak, from 1.8 °C to 2.4 °C per 1000 PgC over the range of 400–850 PgC cumulative emissions corresponding to years 2000–2050. The evolution of temperature under zero emissions, 2160–2300, shows a slight decrease of about 0.1 °C per century in CESM1(BGC), but remains almost constant in MIROC-ESM. The fast-mode response toward the equilibrium state decreases with a decrease in the airborne fraction owing to continued CO 2 uptake (carbon cycle inertia), whereas the slow-mode response results in more warming owing to continued heat uptake (thermal inertia). Several specific differences are noted between the two models regarding the degree of this compensation and in some key regional aspects associated with sustained warming and long-term climate risks. Overall, elevated

The responses of net primary production (NPP) and total carbon storage for the continental United States to changes in atmospheric CO{sub 2}, climate, and vegetation

Energy Technology Data Exchange (ETDEWEB)

McGuire, D.A. [Marine Biological Lab., Woods Hole, MA (United States)

1995-06-01

We extrapolated 3 biogeochemistry models (BIOME-BGC, CENTURY, and TEM) across the continental US with the vegetation distributions of 3 biogeography models (BIOME2, DOLY, and MAPSS) for contemporary climate at 355 ppmv CO{sub 2} and each of 3 GCM climate scenarios at 710 ppmv. For contemporary conditions, continental NPP ranges from 3132 to 3854 TgC/yr and total carbon storage ranges from 109 to 125 PgC. The responses of NPP range from no response (BIOME-BGC with DOLY or MAPSS vegetations for UKMO climate) to increases of 53% and 56% (TEM with BIOME2 vegetations for GFDL and OSU climates). The responses of total carbon storage vary from a decrease of 39% (BIOME-BGC with MAPSS vegetation for UKMO climate) to increases of 52% and 56% (TEM with BIOME2 vegetations for OSU and GFDL climates). The UKMO responses of BIOME-BGC with MAPSS vegetation are caused by both decreased forest area (from 44% to 38%) and photosynthetic water stress. The OSU and GFDL responses of TEM with BIOME2 vegetations are caused by forest expansion (from 46% to 67% for OSU and to 75% for GFDL) and increased nitrogen cycling.

Testing the sensitivity of terrestrial carbon models using remotely sensed biomass estimates

Science.gov (United States)

Hashimoto, H.; Saatchi, S. S.; Meyer, V.; Milesi, C.; Wang, W.; Ganguly, S.; Zhang, G.; Nemani, R. R.

2010-12-01

There is a large uncertainty in carbon allocation and biomass accumulation in forest ecosystems. With the recent availability of remotely sensed biomass estimates, we now can test some of the hypotheses commonly implemented in various ecosystem models. We used biomass estimates derived by integrating MODIS, GLAS and PALSAR data to verify above-ground biomass estimates simulated by a number of ecosystem models (CASA, BIOME-BGC, BEAMS, LPJ). This study extends the hierarchical framework (Wang et al., 2010) for diagnosing ecosystem models by incorporating independent estimates of biomass for testing and calibrating respiration, carbon allocation, turn-over algorithms or parameters.

Annual Report 1999 Environmental Dynamics and Simulation

Energy Technology Data Exchange (ETDEWEB)

NS Foster-Mills

2000-06-28

This annual report describes selected 1999 research accomplishments for the Environmental Dynamics and Simulation (ED and S) directorate, one of six research organizations in the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL). These accomplishments are representative of the different lines of research underway in the ED and S directorate. EMSL is one of US Department of Energy's (DOE) national scientific user facilities and is the centerpiece of DOE's commitment to providing world-class experimental, theoretical, and computational capabilities for solving the nation's environmental problems. Capabilities in the EMSL include over 100 major instrument systems for use by the resident research staff, their collaborators, and users of the EMSL. These capabilities are used to address the fundamental science that will be the basis for finding solutions to national environmental issues such as cleaning up contamianted areas at DOE sites across the country and developing green technologies that will reduce or eliminate future pollution production. The capabilities are also used to further the understanding of global climate change and environmental issues relevant to energy production and use and health effects resulting from exposure to contaminated environments.

Development of an advanced eco-hydrologic and biogeochemical coupling model aimed at clarifying the missing role of inland water in the global biogeochemical cycle

Science.gov (United States)

Nakayama, Tadanobu

2017-04-01

Recent research showed that inland water including rivers, lakes, and groundwater may play some role in carbon cycling, although its contribution has remained uncertain due to limited amount of reliable data available. In this study, the author developed an advanced model coupling eco-hydrology and biogeochemical cycle (National Integrated Catchment-based Eco-hydrology (NICE)-BGC). This new model incorporates complex coupling of hydrologic-carbon cycle in terrestrial-aquatic linkages and interplay between inorganic and organic carbon during the whole process of carbon cycling. The model could simulate both horizontal transports (export from land to inland water 2.01 ± 1.98 Pg C/yr and transported to ocean 1.13 ± 0.50 Pg C/yr) and vertical fluxes (degassing 0.79 ± 0.38 Pg C/yr, and sediment storage 0.20 ± 0.09 Pg C/yr) in major rivers in good agreement with previous researches, which was an improved estimate of carbon flux from previous studies. The model results also showed global net land flux simulated by NICE-BGC (-1.05 ± 0.62 Pg C/yr) decreased carbon sink a little in comparison with revised Lund-Potsdam-Jena Wetland Hydrology and Methane (-1.79 ± 0.64 Pg C/yr) and previous materials (-2.8 to -1.4 Pg C/yr). This is attributable to CO2 evasion and lateral carbon transport explicitly included in the model, and the result suggests that most previous researches have generally overestimated the accumulation of terrestrial carbon and underestimated the potential for lateral transport. The results further implied difference between inverse techniques and budget estimates suggested can be explained to some extent by a net source from inland water. NICE-BGC would play an important role in reevaluation of greenhouse gas budget of the biosphere, quantification of hot spots, and bridging the gap between top-down and bottom-up approaches to global carbon budget.

Comparison of phenology models for predicting the onset of growing season over the Northern Hemisphere.

Directory of Open Access Journals (Sweden)

Yang Fu

Full Text Available Vegetation phenology models are important for examining the impact of climate change on the length of the growing season and carbon cycles in terrestrial ecosystems. However, large uncertainties in present phenology models make accurate assessment of the beginning of the growing season (BGS a challenge. In this study, based on the satellite-based phenology product (i.e. the V005 MODIS Land Cover Dynamics (MCD12Q2 product, we calibrated four phenology models, compared their relative strength to predict vegetation phenology; and assessed the spatial pattern and interannual variability of BGS in the Northern Hemisphere. The results indicated that parameter calibration significantly influences the models' accuracy. All models showed good performance in cool regions but poor performance in warm regions. On average, they explained about 67% (the Growing Degree Day model, 79% (the Biome-BGC phenology model, 73% (the Number of Growing Days model and 68% (the Number of Chilling Days-Growing Degree Day model of the BGS variations over the Northern Hemisphere. There were substantial differences in BGS simulations among the four phenology models. Overall, the Biome-BGC phenology model performed best in predicting the BGS, and showed low biases in most boreal and cool regions. Compared with the other three models, the two-phase phenology model (NCD-GDD showed the lowest correlation and largest biases with the MODIS phenology product, although it could catch the interannual variations well for some vegetation types. Our study highlights the need for further improvements by integrating the effects of water availability, especially for plants growing in low latitudes, and the physiological adaptation of plants into phenology models.

Comparison of phenology models for predicting the onset of growing season over the Northern Hemisphere.

Science.gov (United States)

Fu, Yang; Zhang, Haicheng; Dong, Wenjie; Yuan, Wenping

2014-01-01

Vegetation phenology models are important for examining the impact of climate change on the length of the growing season and carbon cycles in terrestrial ecosystems. However, large uncertainties in present phenology models make accurate assessment of the beginning of the growing season (BGS) a challenge. In this study, based on the satellite-based phenology product (i.e. the V005 MODIS Land Cover Dynamics (MCD12Q2) product), we calibrated four phenology models, compared their relative strength to predict vegetation phenology; and assessed the spatial pattern and interannual variability of BGS in the Northern Hemisphere. The results indicated that parameter calibration significantly influences the models' accuracy. All models showed good performance in cool regions but poor performance in warm regions. On average, they explained about 67% (the Growing Degree Day model), 79% (the Biome-BGC phenology model), 73% (the Number of Growing Days model) and 68% (the Number of Chilling Days-Growing Degree Day model) of the BGS variations over the Northern Hemisphere. There were substantial differences in BGS simulations among the four phenology models. Overall, the Biome-BGC phenology model performed best in predicting the BGS, and showed low biases in most boreal and cool regions. Compared with the other three models, the two-phase phenology model (NCD-GDD) showed the lowest correlation and largest biases with the MODIS phenology product, although it could catch the interannual variations well for some vegetation types. Our study highlights the need for further improvements by integrating the effects of water availability, especially for plants growing in low latitudes, and the physiological adaptation of plants into phenology models.

Characterizing uncertainties in recent trends of global terrestrial net primary production through ensemble modeling

Science.gov (United States)

Wang, W.; Hashimoto, H.; Ganguly, S.; Votava, P.; Nemani, R. R.; Myneni, R. B.

2010-12-01

Large uncertainties exist in our understanding of the trends and variability in global net primary production (NPP) and its controls. This study attempts to address this question through a multi-model ensemble experiment. In particular, we drive ecosystem models including CASA, LPJ, Biome-BGC, TOPS-BGC, and BEAMS with a long-term climate dataset (i.e., CRU-NCEP) to estimate global NPP from 1901 to 2009 at a spatial resolution of 0.5 x 0.5 degree. We calculate the trends of simulated NPP during different time periods and test their sensitivities to climate variables of solar radiation, air temperature, precipitation, vapor pressure deficit (VPD), and atmospheric CO2 levels. The results indicate a large diversity among the simulated NPP trends over the past 50 years, ranging from nearly no trend to an increasing trend of ~0.1 PgC/yr. Spatial patterns of the NPP generally show positive trends in boreal forests, induced mainly by increasing temperatures in these regions; they also show negative trends in the tropics, although the spatial patterns are more diverse. These diverse trends result from different climatic sensitivities of NPP among the tested models. Depending the ecological processes (e.g., photosynthesis or respiration) a model emphasizes, it can be more or less responsive to changes in solar radiation, temperatures, water, or atmospheric CO2 levels. Overall, these results highlight the limit of current ecosystem models in simulating NPP, which cannot be easily observed. They suggest that the traditional single-model approach is not ideal for characterizing trends and variability in global carbon cycling.

Exploring the Influence of Topography on Belowground C Processes Using a Coupled Hydrologic-Biogeochemical Model

Science.gov (United States)

Shi, Y.; Davis, K. J.; Eissenstat, D. M.; Kaye, J. P.; Duffy, C.; Yu, X.; He, Y.

2014-12-01

Belowground carbon processes are affected by soil moisture and soil temperature, but current biogeochemical models are 1-D and cannot resolve topographically driven hill-slope soil moisture patterns, and cannot simulate the nonlinear effects of soil moisture on carbon processes. Coupling spatially-distributed physically-based hydrologic models with biogeochemical models may yield significant improvements in the representation of topographic influence on belowground C processes. We will couple the Flux-PIHM model to the Biome-BGC (BBGC) model. Flux-PIHM is a coupled physically-based land surface hydrologic model, which incorporates a land-surface scheme into the Penn State Integrated Hydrologic Model (PIHM). The land surface scheme is adapted from the Noah land surface model. Because PIHM is capable of simulating lateral water flow and deep groundwater, Flux-PIHM is able to represent the link between groundwater and the surface energy balance, as well as the land surface heterogeneities caused by topography. The coupled Flux-PIHM-BBGC model will be tested at the Susquehanna/Shale Hills critical zone observatory (SSHCZO). The abundant observations, including eddy covariance fluxes, soil moisture, groundwater level, sap flux, stream discharge, litterfall, leaf area index, above ground carbon stock, and soil carbon efflux, make SSHCZO an ideal test bed for the coupled model. In the coupled model, each Flux-PIHM model grid will couple a BBGC cell. Flux-PIHM will provide BBGC with soil moisture and soil temperature information, while BBGC provides Flux-PIHM with leaf area index. Preliminary results show that when Biome- BGC is driven by PIHM simulated soil moisture pattern, the simulated soil carbon is clearly impacted by topography.

Application of time-resolved glucose concentration photoacoustic signals based on an improved wavelet denoising

Science.gov (United States)

Ren, Zhong; Liu, Guodong; Huang, Zhen

2014-10-01

Real-time monitoring of blood glucose concentration (BGC) is a great important procedure in controlling diabetes mellitus and preventing the complication for diabetic patients. Noninvasive measurement of BGC has already become a research hotspot because it can overcome the physical and psychological harm. Photoacoustic spectroscopy is a well-established, hybrid and alternative technique used to determine the BGC. According to the theory of photoacoustic technique, the blood is irradiated by plused laser with nano-second repeation time and micro-joule power, the photoacoustic singals contained the information of BGC are generated due to the thermal-elastic mechanism, then the BGC level can be interpreted from photoacoustic signal via the data analysis. But in practice, the time-resolved photoacoustic signals of BGC are polluted by the varities of noises, e.g., the interference of background sounds and multi-component of blood. The quality of photoacoustic signal of BGC directly impacts the precision of BGC measurement. So, an improved wavelet denoising method was proposed to eliminate the noises contained in BGC photoacoustic signals. To overcome the shortcoming of traditional wavelet threshold denoising, an improved dual-threshold wavelet function was proposed in this paper. Simulation experimental results illustrated that the denoising result of this improved wavelet method was better than that of traditional soft and hard threshold function. To varify the feasibility of this improved function, the actual photoacoustic BGC signals were test, the test reslut demonstrated that the signal-to-noises ratio(SNR) of the improved function increases about 40-80%, and its root-mean-square error (RMSE) decreases about 38.7-52.8%.

Scientific data management in the environmental molecular sciences laboratory

Energy Technology Data Exchange (ETDEWEB)

Bernard, P.R.; Keller, T.L.

1995-09-01

The Environmental Molecular Sciences Laboratory (EMSL) is currently under construction at Pacific Northwest Laboratory (PNL) for the U.S. Department of Energy (DOE). This laboratory will be used for molecular and environmental sciences research to identify comprehensive solutions to DOE`s environmental problems. Major facilities within the EMSL include the Molecular Sciences Computing Facility (MSCF), a laser-surface dynamics laboratory, a high-field nuclear magnetic resonance (NMR) laboratory, and a mass spectrometry laboratory. The EMSL is scheduled to open early in 1997 and will house about 260 resident and visiting scientists. It is anticipated that at least six (6) terabytes of data will be archived in the first year of operation. An object-oriented database management system (OODBMS) and a mass storage system will be integrated to provide an intelligent, automated mechanism to manage data. The resulting system, called the DataBase Computer System (DBCS), will provide total scientific data management capabilities to EMSL users. A prototype mass storage system based on the National Storage Laboratory`s (NSL) UniTree has been procured and is in limited use. This system consists of two independent hierarchies of storage devices. One hierarchy of lower capacity, slower speed devices provides support for smaller files transferred over the Fiber Distributed Data Interface (FDDI) network. Also part of the system is a second hierarchy of higher capacity, higher speed devices that will be used to support high performance clients (e.g., a large scale parallel processor). The ObjectStore OODBMS will be used to manage metadata for archived datasets, maintain relationships between archived datasets, and -hold small, duplicate subsets of archived datasets (i.e., derivative data). The interim system is called DBCS, Phase 0 (DBCS-0). The production system for the EMSL, DBCS Phase 1 (DBCS-1), will be procured and installed in the summer of 1996.

Measuring and Modeling the Effects of Alternate Post-Fire Successional Trajectories on Boreal Forest Carbon Dynamics

Science.gov (United States)

Loranty, M. M.; Goetz, S. J.; Mack, M. C.; Alexander, H. D.; Beck, P. S.

2011-12-01

High latitude ecosystems are experiencing amplified climate warming, and recent evidence suggests concurrent intensification of fire disturbance regimes. In central Alaskan boreal forests, severe burns consume more of the soil organic layer, resulting in increased establishment of deciduous seedlings and altered post-fire stand composition with increased deciduous dominance. Quantifying differences in ecosystem carbon (C) dynamics between forest successional trajectories in response to burn severity is essential for understanding potential changes in regional or global feedbacks between boreal forests and climate. We used the Biome BioGeochemical Cycling model (Biome-BGC) to quantify differences in C stocks and fluxes associated with alternate post-fire successional trajectories related to fire severity. A version of Biome-BGC that allows alternate competing vegetation types was calibrated against a series of aboveground biomass observations from chronosequences of stands with differing post-fire successional trajectories characterized by the proportion of deciduous biomass. The model was able to reproduce observed patterns of biomass accumulation after fire, with stands dominated by deciduous species sequestering more C at a faster rate than stands dominated by conifers. Modeled C fluxes suggest that stands dominated by deciduous species are a stronger sink of atmospheric C soon after disturbance than coniferous stands. These results agree with the few available C flux observations. We use a historic database in conjunction with a map of deciduous canopy cover to explore the consequences of ongoing and potential future changes in the fire regime on central Alaskan C balance.

Sequential optimization of a terrestrial biosphere model constrained by multiple satellite based products

Science.gov (United States)

Ichii, K.; Kondo, M.; Wang, W.; Hashimoto, H.; Nemani, R. R.

2012-12-01

Various satellite-based spatial products such as evapotranspiration (ET) and gross primary productivity (GPP) are now produced by integration of ground and satellite observations. Effective use of these multiple satellite-based products in terrestrial biosphere models is an important step toward better understanding of terrestrial carbon and water cycles. However, due to the complexity of terrestrial biosphere models with large number of model parameters, the application of these spatial data sets in terrestrial biosphere models is difficult. In this study, we established an effective but simple framework to refine a terrestrial biosphere model, Biome-BGC, using multiple satellite-based products as constraints. We tested the framework in the monsoon Asia region covered by AsiaFlux observations. The framework is based on the hierarchical analysis (Wang et al. 2009) with model parameter optimization constrained by satellite-based spatial data. The Biome-BGC model is separated into several tiers to minimize the freedom of model parameter selections and maximize the independency from the whole model. For example, the snow sub-model is first optimized using MODIS snow cover product, followed by soil water sub-model optimized by satellite-based ET (estimated by an empirical upscaling method; Support Vector Regression (SVR) method; Yang et al. 2007), photosynthesis model optimized by satellite-based GPP (based on SVR method), and respiration and residual carbon cycle models optimized by biomass data. As a result of initial assessment, we found that most of default sub-models (e.g. snow, water cycle and carbon cycle) showed large deviations from remote sensing observations. However, these biases were removed by applying the proposed framework. For example, gross primary productivities were initially underestimated in boreal and temperate forest and overestimated in tropical forests. However, the parameter optimization scheme successfully reduced these biases. Our analysis

Role and organization of industrial and commercial departments - a region's view

Energy Technology Data Exchange (ETDEWEB)

Blankley, W E; Parsons, B D

1981-01-01

BGC's West Midlands Region possesses substantial industrial and commercial markets that offer sales opportunities in the tariff and contract areas. Growth in these markets is spurring an increase in BGC's nonresidential gas sales. Specific departments within BGC cater to the commercial and industrial sectors and provide engineering support services, thus bolstering the upward sales trend. Recent market changes have led BGC to combine its industrial and commercial departments to streamline the overall marketing and service activities.

Reproducibility of Carbon and Water Cycle by an Ecosystem Process Based Model Using a Weather Generator and Effect of Temporal Concentration of Precipitation on Model Outputs

Science.gov (United States)

Miyauchi, T.; Machimura, T.

2014-12-01

GCM is generally used to produce input weather data for the simulation of carbon and water cycle by ecosystem process based models under climate change however its temporal resolution is sometimes incompatible to requirement. A weather generator (WG) is used for temporal downscaling of input weather data for models, where the effect of WG algorithms on reproducibility of ecosystem model outputs must be assessed. In this study simulated carbon and water cycle by Biome-BGC model using weather data measured and generated by CLIMGEN weather generator were compared. The measured weather data (daily precipitation, maximum, minimum air temperature) at a few sites for 30 years was collected from NNDC Online weather data. The generated weather data was produced by CLIMGEN parameterized using the measured weather data. NPP, heterotrophic respiration (HR), NEE and water outflow were simulated by Biome-BGC using measured and generated weather data. In the case of deciduous broad leaf forest in Lushi, Henan Province, China, 30 years average monthly NPP by WG was 10% larger than that by measured weather in the growing season. HR by WG was larger than that by measured weather in all months by 15% in average. NEE by WG was more negative in winter and was close to that by measured weather in summer. These differences in carbon cycle were because the soil water content by WG was larger than that by measured weather. The difference between monthly water outflow by WG and by measured weather was large and variable, and annual outflow by WG was 50% of that by measured weather. The inconsistency in carbon and water cycle by WG and measured weather was suggested be affected by the difference in temporal concentration of precipitation, which was assessed.

Effect of a novel bioactive glass-ceramic on dentinal tubule occlusion: an in vitro study.

Science.gov (United States)

Zhong, Y; Liu, J; Li, X; Yin, W; He, T; Hu, D; Liao, Y; Yao, X; Wang, Y

2015-03-01

This in vitro study aimed to assess the ability and efficacy of HX-BGC, a novel bioactive glass-ceramic (SiO2-P2 O5-CaO-Na2 O-SrO), to reduce dentine tubule permeability. Dentine discs from human third molars were etched and randomly allocated into five groups: Group 1--distilled water; Group 2--Sensodyne Repair toothpaste (containing NovaMin®); Group 3--HX-BGC toothpaste (containing 7.5% HX-BGC); Group 4--control toothpaste (without HX-BGC); and Group 5--HX-BGC powder. Specimens were treated daily by brushing with an electric toothbrush for 20 seconds. Between daily treatments (7 days total), specimens were immersed in artificial saliva for 24 hours. Dentine permeability was measured at baseline, after the first treatment, after the first 24-hour immersion in artificial saliva and at the end of day 7. Dentine morphology and surface deposits were observed by scanning electron microscopy after one day and 7 days of treatment, respectively. Sensodyne Repair and bioactive glass-ceramic toothpaste significantly and immediately lowered dentine permeability. The HX-BGC powder group showed the highest reduction in dentine permeability after 7 days of treatment. The novel bioactive glass-ceramic material HX-BGC is effective in reducing dentine permeability by occluding open dentine tubules, indicating that HX-BGC may be a potential treatment for dentine hypersensitivity. © 2015 Australian Dental Association.

A Virtual Inertia Control Strategy for DC Microgrids Analogized with Virtual Synchronous Machines

DEFF Research Database (Denmark)

Wu, Wenhua; Chen, Yandong; Luo, An

2017-01-01

In a DC microgrid (DC-MG), the dc bus voltage is vulnerable to power fluctuation derived from the intermittent distributed energy or local loads variation. In this paper, a virtual inertia control strategy for DC-MG through bidirectional grid-connected converters (BGCs) analogized with virtual...... synchronous machine (VSM) is proposed to enhance the inertia of the DC-MG, and to restrain the dc bus voltage fluctuation. The small-signal model of the BGC system is established, and the small-signal transfer function between the dc bus voltage and the dc output current of the BGC is deduced. The dynamic...... for the BGC is introduced to smooth the dynamic response of the dc bus voltage. By analyzing the control system stability, the appropriate virtual inertia control parameters are selected. Finally, simulations and experiments verified the validity of the proposed control strategy....

Carbon Impacts of Fire- and Bark Beetle-Caused Tree Mortality across the Western US using the Community Land Model (Invited)

Science.gov (United States)

Meddens, A. J.; Hicke, J. A.; Edburg, S. L.; Lawrence, D. M.

2013-12-01

Wildfires and bark beetle outbreaks cause major forest disturbances in the western US, affecting ecosystem productivity and thereby impacting forest carbon cycling and future climate. Despite the large spatial extent of tree mortality, quantifying carbon flux dynamics following fires and bark beetles over larger areas is challenging because of forest heterogeneity, varying disturbance severities, and field observation limitations. The objective of our study is to estimate these dynamics across the western US using the Community Land Model (version CLM4.5-BGC). CLM4.5-BGC is a land ecosystem model that mechanistically represents the exchanges of energy, water, carbon, and nitrogen with the atmosphere. The most recent iteration of the model has been expanded to include vertically resolved soil biogeochemistry and includes improved nitrogen cycle representations including nitrification and denitrification and biological fixation as well as improved canopy processes including photosynthesis. Prior to conducting simulations, we modified CLM4.5-BGC to include the effects of bark beetle-caused tree mortality on carbon and nitrogen stocks and fluxes. Once modified, we conducted paired simulations (with and without) fire- and bark beetle-caused tree mortality by using regional data sets of observed mortality as inputs. Bark beetle-caused tree mortality was prescribed from a data set derived from US Forest Service aerial surveys from 1997 to 2010. Annual tree mortality area was produced from observed tree mortality caused by bark beetles and was adjusted for underestimation. Fires were prescribed using the Monitoring Trends in Burn Severity (MTBS) database from 1984 to 2010. Annual tree mortality area was produced from forest cover maps and inclusion of moderate- and high-severity burned areas. Simulations show that maximum yearly reduction of net ecosystem productivity (NEP) caused by bark beetles is approximately 20 Tg C for the western US. Fires cause similar reductions

Institutional Plan FY 1999-2003

Energy Technology Data Exchange (ETDEWEB)

Hughes, P.J.

1999-02-08

Computational science is becoming an increasingly important component of Pacific Northwest's support to DOE's major missions. The advanced parallel computing systems in the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL), coupled with new modeling and simulation software, data management tools, and user interfaces, are providing solutions to previously intractable problems. Research focuses on developing software and other tools to address computational challenges in molecular science, environmental management, global climate change, advanced materials and manufacturing processes, molecular biology, and information management. The Graphics and Visualization Laboratory is part of EMSL'S Molecular Science Computing Facility (MSCF). The MSCF contains a 512-processor IBM RISC System/6000 scalable power parallel computer system that provides the advanced computing capability needed to address ''Grand Challenge'' environmental research problems. The MSCF provides an integrated computing environment with links to facilities in the DOE complex, universities, and industry. The image inserts are graphical representations of simulations performed with software developed at the Laboratory.

Pre-Launch Tasks Proposed in our Contract of December 1991

Science.gov (United States)

1998-01-01

We propose, during the pre-EOS phase to: (1) develop, with other MODIS Team Members, a means of discriminating different major biome types with NDVI and other AVHRR-based data; (2) develop a simple ecosystem process model for each of these biomes, BIOME-BGC; (3) relate the seasonal trend of weekly composite NDVI to vegetation phenology and temperature limits to develop a satellite defined growing season for vegetation; and (4) define physiologically based energy to mass conversion factors for carbon and water for each biome. Our final core at-launch product will be simplified, completely satellite driven biome specific models for net primary production. We will build these biome specific satellite driven algorithms using a family of simple ecosystem process models as calibration models, collectively called BIOME-BGC, and establish coordination with an existing network of ecological study sites in order to test and validate these products. Field datasets will then be available for both BIOME-BGC development and testing, use for algorithm developments of other MODIS Team Members, and ultimately be our first test point for MODIS land vegetation products upon launch. We will use field sites from the National Science Foundation Long-Term Ecological Research network, and develop Glacier National Park as a major site for intensive validation.

Basal ganglia calcification on CT in adult patients with Down's syndrome

International Nuclear Information System (INIS)

Ono, Yoshiro; Yoshida, Hironobu; Yoshimasu, Fumio; Higashi, Yuji.

1987-01-01

Fourteen adult cases with Down's syndrome were examined on cranial CT scan, and 5 of them (35.7 %) showed basal ganglia calcification (BGC). The incidence of BGC in the present cases was very high in comparison with the one in general population (0.3 ∼ 1.5 %). Abnormalities of calcium metabolism or dysfunctions of the basal ganglia were absent in each case with BGC. Calcifications were exclusively located in globus pallidus. It is considered that BGC found in the present cases may be due to the premature aging process in Down's syndrome. (author)

Environmental Molecular Sciences Laboratory 2004 Annual Report

Energy Technology Data Exchange (ETDEWEB)

White, Julia C.

2005-04-17

This 2004 Annual Report describes the research and accomplishments of staff and users of the W.R. Wiley Environmental Molecular Sciences Laboratory (EMSL), located in Richland, Washington. EMSL is a multidisciplinary, national scientific user facility and research organization, operated by Pacific Northwest National Laboratory (PNNL) for the U.S. Department of Energy's Office of Biological and Environmental Research. The resources and opportunities within the facility are an outgrowth of the U.S. Department of Energy's (DOE) commitment to fundamental research for understanding and resolving environmental and other critical scientific issues.

Hydrological model uncertainty due to spatial evapotranspiration estimation methods

Czech Academy of Sciences Publication Activity Database

Yu, X.; Lamačová, Anna; Duffy, Ch.; Krám, P.; Hruška, Jakub

2016-01-01

Roč. 90, part B (2016), s. 90-101 ISSN 0098-3004 R&D Projects: GA MŠk(CZ) LO1415 Institutional support: RVO:67179843 Keywords : Uncertainty * Evapotranspiration * Forest management * PIHM * Biome-BGC Subject RIV: DA - Hydrology ; Limnology OBOR OECD: Hydrology Impact factor: 2.533, year: 2016

Grassland production under global change scenarios for New Zealand pastoral agriculture

Science.gov (United States)

Keller, E. D.; Baisden, W. T.; Timar, L.; Mullan, B.; Clark, A.

2014-10-01

We adapt and integrate the Biome-BGC and Land Use in Rural New Zealand models to simulate pastoral agriculture and to make land-use change, intensification of agricultural activity and climate change scenario projections of New Zealand's pasture production at time slices centred on 2020, 2050 and 2100, with comparison to a present-day baseline. Biome-BGC model parameters are optimised for pasture production in both dairy and sheep/beef farm systems, representing a new application of the Biome-BGC model. Results show up to a 10% increase in New Zealand's national pasture production in 2020 under intensification and a 1-2% increase by 2050 from economic factors driving land-use change. Climate change scenarios using statistically downscaled global climate models (GCMs) from the IPCC Fourth Assessment Report also show national increases of 1-2% in 2050, with significant regional variations. Projected out to 2100, however, these scenarios are more sensitive to the type of pasture system and the severity of warming: dairy systems show an increase in production of 4% under mild change but a decline of 1% under a more extreme case, whereas sheep/beef production declines in both cases by 3 and 13%, respectively. Our results suggest that high-fertility systems such as dairying could be more resilient under future change, with dairy production increasing or only slightly declining in all of our scenarios. These are the first national-scale estimates using a model to evaluate the joint effects of climate change, CO2 fertilisation and N-cycle feedbacks on New Zealand's unique pastoral production systems that dominate the nation's agriculture and economy. Model results emphasise that CO2 fertilisation and N-cycle feedback effects are responsible for meaningful differences in agricultural systems. More broadly, we demonstrate that our model output enables analysis of decoupled land-use change scenarios: the Biome-BGC data products at a national or regional level can be re

A long-term simulation of forest carbon fluxes over the Qilian Mountains

Science.gov (United States)

Yan, Min; Tian, Xin; Li, Zengyuan; Chen, Erxue; Li, Chunmei; Fan, Wenwu

2016-10-01

In this work, we integrated a remote-sensing-based (the MODIS MOD_17 Gross Primary Productivity (GPP) model (MOD_17)) and a process-based (the Biome-BioGeochemical Cycles (Biome-BGC) model) ecological model in order to estimate long-term (from 2000 to 2012) forest carbon fluxes over the Qilian Mountains in northwest China, a cold and arid forest ecosystem. Our goal was to obtain an accurate and quantitative simulation of spatial GPP patterns using the MOD_17 model and a temporal description of forest processes using the Biome-BGC model. The original MOD_17 model was first optimized using a biome-specific parameter, observed meteorological data, and reproduced fPAR at the eddy covariance site. The optimized MOD_17 model performed much better (R2 = 0.91, RMSE = 5.19 gC/m2/8d) than the original model (R2 = 0.47, RMSE = 20.27 gC/m2/8d). The Biome-BGC model was then calibrated using GPP for 30 representative forest plots selected from the optimized MOD_17 model. The calibrated Biome-BGC model was then driven in order to estimate forest GPP, net primary productivity (NPP), and net ecosystem exchange (NEE). GPP and NEE were validated against two-year (2010 and 2011) EC measurements (R2 = 0.79, RMSE = 1.15 gC/m2/d for GPP; and R2 = 0.69, RMSE = 1.087 gC/m2/d for NEE). NPP estimates from 2000 to 2012 were then compared to dendrochronological measurements (R2 = 0.73, RMSE = 24.46 gC/m2/yr). Our results indicated that integration of the two models can be used for estimating carbon fluxes with good accuracy and a high temporal and spatial resolution. Overall, NPP displayed a downward trend, with an average rate of 0.39 gC/m2/yr, from 2000 and 2012 over the Qilian Mountains. Simulated average annual NPP yielded higher values for the southeast as compared to the northwest. The most positive correlative climatic factor to average annual NPP was downward shortwave radiation. The vapor pressure deficit, and mean temperature and precipitation yielded negative correlations to average

NWChem Meeting on Science Driven Petascale Computing and Capability Development at EMSL

Energy Technology Data Exchange (ETDEWEB)

De Jong, Wibe A.

2007-02-19

On January 25, and 26, 2007, an NWChem meeting was held that was attended by 65 scientists from 29 institutions including 22 universities and 5 national laboratories. The goals of the meeting were to look at major scientific challenges that could be addressed by computational modeling in environmental molecular sciences, and to identify the associated capability development needs. In addition, insights were sought into petascale computing developments in computational chemistry. During the meeting common themes were identified that will drive the need for the development of new or improved capabilities in NWChem. Crucial areas of development that the developer's team will be focusing on are (1) modeling of dynamics and kinetics in chemical transformations, (2) modeling of chemistry at interfaces and in the condensed phase, and (3) spanning longer time scales in biological processes modeled with molecular dynamics. Various computational chemistry methodologies were discussed during the meeting, which will provide the basis for the capability developments in the near or long term future of NWChem.

Effect of basal ganglia calcification on its glucose metabolism and dopaminergic function in idiopathic hypoparathyroidism.

Science.gov (United States)

Modi, Sagar; Arora, Geetanjali; Bal, Chandra Shekhar; Sreenivas, Vishnubhatla; Kailash, Suparna; Sagar, Rajesh; Goswami, Ravinder

2015-10-01

The functional significance of basal ganglia calcification (BGC) in idiopathic hypoparathyroidism (IH) is not clear. To assess the effect of BGC on glucose metabolism and dopaminergic function in IH. (18) F-FDG and (99m) Tc-TRODAT-1 nuclear imaging were performed in 35 IH patients with (n = 26) and without (n = 9) BGC. Controls were subjects without hypoparathyroidism or BGC (nine for (18) F-FDG and 12 for (99m) Tc-TRODAT-1). Relationship of the glucose metabolism and dopaminergic function was assessed with the neuropsychological and biochemical abnormalities. (18) F-FDG uptake in IH patients with calcification at caudate and striatum was less than that of IH patients without calcification (1·06 ± 0·13 vs 1·24 ± 0·09, P = <0·0001 and 1·06 ± 0·09 vs 1·14 ± 0·08, P = 0·03, respectively). (18) F-FDG uptake did not correlate with neuropsychological dysfunctions. (18) F-FDG uptake in IH without BGC was significantly lower than that of controls. The mean (99m) Tc-TRODAT-1 uptake at basal ganglia was comparable between IH with and without BGC and between IH without BGC and controls. Serum calcium-phosphorus ratio maintained by the patients correlated with (18) F-FDG uptake at striatum (r = 0·57, P = 0·001). For every 0·1 unit reduction in calcium-phosphorus ratio, (18) F-FDG uptake decreased by 2·5 ± 0·68% (P = 0·001). BGC was associated with modest reduction (15%) in (18) F-FDG uptake at basal ganglia in IH but did not affect dopaminergic function. (18) F-FDG uptake did not correlate with neuropsychological dysfunctions. Interestingly, chronic hypocalcaemia-hyperphosphataemia also contributed to reduction in (18) F-FDG uptake which was independent of BGC. © 2014 John Wiley & Sons Ltd.

Terrestrial biogeochemical feedbacks in the climate system: from past to future

Energy Technology Data Exchange (ETDEWEB)

Arneth, A.; Harrison, S. P.; Zaehle, S.; Tsigaridis, K; Menon, S; Bartlein, P.J.; Feichter, J; Korhola, A; Kulmala, M; O' Donnell, D; Schurgers, G; Sorvari, S; Vesala, T

2010-01-05

The terrestrial biosphere plays a major role in the regulation of atmospheric composition, and hence climate, through multiple interlinked biogeochemical cycles (BGC). Ice-core and other palaeoenvironmental records show a fast response of vegetation cover and exchanges with the atmosphere to past climate change, although the phasing of these responses reflects spatial patterning and complex interactions between individual biospheric feedbacks. Modern observations show a similar responsiveness of terrestrial biogeochemical cycles to anthropogenically-forced climate changes and air pollution, with equally complex feedbacks. For future conditions, although carbon cycle-climate interactions have been a major focus, other BGC feedbacks could be as important in modulating climate changes. The additional radiative forcing from terrestrial BGC feedbacks other than those conventionally attributed to the carbon cycle is in the range of 0.6 to 1.6 Wm{sup -2}; all taken together we estimate a possible maximum of around 3 Wm{sup -2} towards the end of the 21st century. There are large uncertainties associated with these estimates but, given that the majority of BGC feedbacks result in a positive forcing because of the fundamental link between metabolic stimulation and increasing temperature, improved quantification of these feedbacks and their incorporation in earth system models is necessary in order to develop coherent plans to manage ecosystems for climate mitigation.

Biogeochemical-Argo: achievements, challenges for the future and potential synergies with other components of ocean observation systems

Science.gov (United States)

Claustre, Hervé; Johnson, Ken

2017-04-01

The recently launched Biogeochemical-Argo (BGC-Argo) program aims at developing a global network of biogeochemical sensors on Argo profiling floats for acquiring long-term high-quality time-series of oceanic properties. BGC-Argo is in particular poised to address a number of challenges in ocean science (e.g. hypoxia, carbon uptake, ocean acidification, biological-carbon pump and phytoplankton communities), topics that are difficult, if not impossible, to address with our present observing assets. Presently six variables are considered as core BGC-Argo variables (O2, NO3, pH, Chla, suspended particles and downwelling irradiance). Historically, BGC-Argo has been initiated through small-scale "showcase" projects progressively scaling up into regional case studies essentially addressing key biological pump-related questions in specific regions (e.g. sub-tropical gyres, North Atlantic, Southern Ocean). Now BGC-Argo is transitioning towards a global and sustained observation system thanks to progressive international coordination of national contributions and to increasingly mature and efficient data management and distribution systems. In this presentation, we will highlight a variety of results derived from BGC-Argo observations and encompassing a wide range of topics related to ocean biogeochemistry. Challenges for the future and long-term sustainability of the system will be addressed in particular with respect to maintaining a high-quality and interoperable dataset over long-term. Part of this can be achieved through a tight interaction with programs (e.g. GOSHIP) and their historical databases, which should constitute a corner stone to assess data quality. Example on the interplay between BGC-Argo and GlodapV2 databases will be particularly exemplified in this context. Furthermore, we will illustrate the potential synergies between synoptically measured surface satellite-quantities and their vertically resolved (BGC-Argo) counterparts into the development of 3D

放牧对新疆草地生态系统碳源/汇的影响模拟研究%Modeling the grazing effect of grassland on the carbon source/sink in Xinjiang

Institute of Scientific and Technical Information of China (English)

韩其飞; 罗格平; 李超凡; 黄晓东

2017-01-01

Identifying the carbon source/sink strength of grassland ecosystems in Xinjiang is of great importance for the regional carbon cycle.Using the modified Biome-BGC grazing model,we modeled carbon dynamics in grasslands in Xinjiang,northwest China with varying grazing intensities.In general,the regional simulation estimated that the grassland ecosystems in Xinjiang acted as a net carbon source,with a value of 0.38 Pg during the period 1979-2007,of which 0.37 Pg was caused by grazing.In general,the strength of carbon sequestration improved when grazing intensity was less than 0.24 head/hm2.However,the over-compensation effect may also be the result of the growth of poisonous grass.Therefore,in the future,by adding the "vegetation succession" module,we should improve the Biome-BGC grazing model to study the compensation effect more intensively.Our findings have implications for grassland ecosystem management as they relate to carbon sequestration and climate change mitigation,e.g.,removal of grazing should be considered in strategies that aim to increase terrestrial carbon sequestrations at local and regional scales.We anticipate that our study will emphasize the need for large-scale assessments of how grazing affects carbon cycling.%正确评估新疆草地生态系统碳源/汇效应,对区域尺度碳循环研究具有重要意义.放牧是新疆草地生态系统中主要的人类活动,但放牧对草地碳平衡与碳动态的影响还具有很大的不确定性.利用生态系统放牧模型Biome-BGC grazing,通过情景模拟综合评价新疆草地生态系统碳源/汇的动态.结果表明:1)1979-2007年新疆草地生态系统的碳源总量为0.38PgC,其中由放牧导致的碳释放为0.37PgC;2)当平均放牧率小于0.24头标准羊/hm2时,放牧能够促进草地碳固定.研究实现了Biome-BGC grazing模型在区域尺度的应用,研究结果将有助于理解气候变化及放牧对干旱区草地生态系统碳动态变化的驱动机理,对探明干旱区草原生态系统的源/汇特征具有重要意义.

Population distribution around the Nevada Test Site, 1984

International Nuclear Information System (INIS)

Smith, D.D.; Coogan, J.S.

1984-08-01

The Environmental Monitoring Systems Laboratory (EMSL-LV) conducts an offsite radiological safety program outside the boundaries of the Nevada Test Site. As part of this program, the EMSL-LV maintains a comprehensive and current listing of all rural offsite residents and dairy animals within the controllable sectors (areas where the EMSL-LV could implement protective or remedial actions that would assure public safety). This report was produced to give a brief overview of the population distribution and information on the activities within the controllable sectors. Obviously the numbers of people in a sector change dependent upon the season of the year, and such diverse information as the price of minerals which relates to the opening and closing of mining operations. Currently, the controllable sectors out to 200 kilometers from the Control Point on the NTS are considered to be the entire northeast, north-northeast, north, north-northwest, west-northwest sectors and portions of the east and east-northeast sectors. The west-southwest and south-southwest sections are considered controllable out to 40 to 80 kilometers. No major population centers or dairy farms lie within these sectors. 7 references, 5 figures, 2 tables

Off-site environmental monitoring report. Radiation monitoring around United States nuclear test areas, calendar year 1985

International Nuclear Information System (INIS)

Grossman, R.F.; Black, S.C.; Dye, R.E.; Smith, D.D.; Thome, D.J.; Mullen, A.A.

1986-04-01

The EMSL-LV operates an Off-Site Radiological Safety Program around the NTS and other sites as requested by the Department of Energy (DOE) under an Interagency Agreement between DOE and EPA. This report, prepared in accordance with DOE guidelines (DOE85a), covers the program activities for calendar year 1985. It contains descriptions of pertinent features of the NTS and its environs, summaries of the EMSL-LV dosimetry and sampling methods, analytical procedures, quality assurance, and the analytical results from environmental measurements. Where applicable, dosimetry and sampling data are compared to appropriate guides for external and internal exposures of humans to ionizing radiation

Modeling the effects of anadromous fish nitrogen on the carbon balance of riparian forests in central Idaho

Science.gov (United States)

Noble Stuen, A. J.; Kavanagh, K.; Wheeler, T.

2010-12-01

Wild anadromous fish such as Pacific Chinook salmon (Oncorynchus tshawytscha) and steelhead (Oncorhyncus mykiss) were once abundant in Idaho, where they deposited their carcasses, rich in marine-derived nutrients (MDN), in the tributaries of the Columbia River. Anadromous fish are believed to have been a historically important nutrient source to the relatively nutrient-poor inland ecosystems of central Idaho, but no longer reach many inland watersheds due to presence of dams. This study investigates the multi-decadal cumulative effect of presence versus absence of anadromous fish nitrogen on net ecosystem exchange (NEE), or net carbon uptake, of riparian forests along historically salmon-bearing streams in the North Fork Boise River watershed, Idaho, in the context of a changing climate. The ecosystem process model BIOME-BGC is used to develop a representative forest ecosystem and predict the impact of decades of addition and continuing absence of MDN on NEE and net primary production (NPP). The study has 2 objectives: 1) to determine whether BIOME-BGC can reasonably simulate the riparian forests of central Idaho. A potentially confounding factor is the complex terrain of the region, particularly regarding soil water: water accumulation in valley bottoms and their riparian zones may lead to discrepancies in soil moisture and productivity of the riparian forest and of the simulations. The model is parameterized using local ecophysiology and site data and validated using field measurements of leaf area and soil moisture. Objective 2): to determine the effects on forest carbon balance and productivity of the presence or ongoing absence of anadromous-fish derived nitrogen. The forest simulation developed in objective 1 is run under two scenarios into the mid-20th century; one continuing without any supplemental nitrogen and one with nitrogen added in levels consistent with estimates of historical deposition by anadromous fish. Both scenarios incorporate warming due to

Understanding the interaction between wild fire and vegetation distribution within the NCAR CESM framework

Science.gov (United States)

Seo, H.; Kim, Y.; Kim, H. J.

2017-12-01

Every year wild fire brings about 400Mha of land burned therefore 2Pg of carbon emissions from the surface occur. In this way fire not only affects the carbon circulation but also has an effect on the terrestrial ecosystems. This study aims to understand role of fire on the geographic vegetation distribution and the terrestrial carbon balances within the NCAR CESM framework, specifically with the CLM-BGC and CLM-BGC-DV. Global climate data from Climate Research Unit (CRU)-National Centers for Environmental Prediction (NCEP) data ranging from 1901 to 2010 are used to drive the land models. First, by comparing fire-on and fire-off simulations with the CLM-BGC-DV, the fire impacts in dynamic vegetation are quantified by the fractional land areas of the different plant functional types. In addition, we examine how changes in vegetation distribution affect the total sum of the burned areas and the carbon balances. This study would provide the limits of and suggestions for the fire and dynamic vegetation modules of the CLM-BGC. AcknowledgementsThis work was supported by Basic Science Research Program through the National Research Foundation of Korea (NRF) funded by the Ministry of Science, ICT & Future Planning (2015R1C1A2A01054800) and by the Korea Meteorological Administration R&D Program under Grant KMIPA 2015-6180. This work was also supported by the Yonsei University Future-leading Research Initiative of 2015(2016-22-0061).

Simulation of water and carbon fluxes in a broad-leaved Korean pine forest in Changbai Mountains based on Biome-BGC model and Ensemble Kalman Filter method%基于Biome-BGC模型和集合卡尔曼滤波方法的阔叶红松林生态系统水碳通量模拟

Institute of Scientific and Technical Information of China (English)

郑磊; 宋世凯; 袁秀亮; 董嘉琪; 李龙辉

2017-01-01

数据同化为模型与遥感观测结合提供了一条有效的途径,通过在模型运行过程中融入遥感观测数据,调整模型运行轨迹从而降低模型误差,提高模拟精度.本文利用集合卡尔曼滤波(EnKF)算法同化生长季中分辨率成像光谱仪(MODIS)叶面积指数(LAI)与Biome-BGC模型模拟的LAI模拟长白山阔叶红松林的水碳通量.同时,通过改进模拟的雪面升华与土壤温度计算方法的参数,旨在降低冬季生态呼吸的模拟误差.结果表明,相对于原始模型,数据同化与模型改进后使得生态系统总初级生产力(GPP)的模拟值与观测值之间的相关系数提高0.06,中心化均方根误差(RMSE)降低0.48 g C·m-2·d-1;生态系统呼吸(RE)的相关系数提高0.02,中心化均方根误差降低0.20 g C·m-2·d-1;净生态系统碳交换量(NEE)相关系数提高0.35,中心化均方根误差降低0.50gC·m-2·d-1.同时,数据同化对蒸散发(ET)的模拟精度没有显著影响,改进的模型提高了其相关系数.基于EnKF算法的数据同化提高了长白山阔叶红松林碳通量模拟精度,对于精确估算区域碳通量有着重要的意义.%Data assimilation provides an effective way to integrate the model simulation and remote sensing observation,through the integration of remote sensing data in the run of the model,adjusting the model trajectory to reduce model error and improve simulation accuracy.This paper uses the ensemble Kalman filter (EnKF) assimilated MODIS LAI into the Biome-BGC model in growing season to simulate the water and carbon fluxes in a broad-leaved Korean pine forest in Changbai Mountains.At the same time,the simulated snow sublimation and the parameters of the calculation method of soil temperature are improved,which can effectively reduce the error of the ecological respiration in winter.The result shows that as compared with the original model simulated without data assimilation,the improved Biome-BGC model with the

Observation and modeling of NPP for Pinus elliottii plantation in subtropical China

Institute of Scientific and Technical Information of China (English)

2008-01-01

Based on the stem analysis of 59 individuals of Pinus elliottii in combination with tree biomass models, we calculated annual biomass increment of forest plots at Qianyanzhou Ecological Station, Chinese Academy of Sciences in subtropical China. In addition, canopy layer and community NPP were calcu- lated based on 12 years’ litter fall data. NPP of the 21-year-old forest was estimated by using the BIOME BGC model; and both measured NPP and estimated NPP were compared with flux data. Community biomass was 10574 g·m-2; its distribution patterns in tree layer, shrub layer, herbaceous layer, tree root, herbaceous and shrub roots and fine roots were 7542, 480, 239, 1810, 230, 274 and 239 g·m-2, respectively. From 1999 to 2004, the average annual growth rate and litter fall were 741 g·m-2·a-1 (381.31 gC·m-2·a-1) and 849 g·m?2·a?1 (463 gC·m-2·a-1), respectively. There was a significant corre- lation between annual litter fall and annual biomass increment; and the litter fall was 1.19 times the biomass increment of living trees. From 1985 to 2005, average NPP and GPP values based on BGC modeling were 630.88 (343.31 - 906.42 gC·m-2·a-1) and 1 800 gC·m-2·a-1 (1351.62 - 2318.26 gC·m-2·a-1). Regression analysis showed a linear relationship (R2=0.48) between the measured and simulated tree layer NPP values. NPP accounted for 30.2% (25.6%-32.9%) of GPP, while NEP ac- counted for 57.5% (48.1%-66.5%) of tree-layer NPP and 41.74% (37%-52%) of stand NPP. Soil respi- ration accounted for 77.0% of measured tree NPP and 55.9% of the measured stand NPP. NEE based on eddy covariance method was 12.97% higher than the observed NEP.

1000 human genomes carry widespread signatures of GC biased gene conversion.

Science.gov (United States)

Dutta, Rajib; Saha-Mandal, Arnab; Cheng, Xi; Qiu, Shuhao; Serpen, Jasmine; Fedorova, Larisa; Fedorov, Alexei

2018-04-16

GC-Biased Gene Conversion (gBGC) is one of the important theories put forward to explain profound long-range non-randomness in nucleotide compositions along mammalian chromosomes. Nucleotide changes due to gBGC are hard to distinguish from regular mutations. Here, we present an algorithm for analysis of millions of known SNPs that detects a subset of so-called "SNP flip-over" events representing recent gBGC nucleotide changes, which occurred in previous generations via non-crossover meiotic recombination. This algorithm has been applied in a large-scale analysis of 1092 sequenced human genomes. Altogether, 56,328 regions on all autosomes have been examined, which revealed 223,955 putative gBGC cases leading to SNP flip-overs. We detected a strong bias (11.7% ± 0.2% excess) in AT- > GC over GC- > AT base pair changes within the entire set of putative gBGC cases. On average, a human gamete acquires 7 SNP flip-over events, in which one allele is replaced by its complementary allele during the process of meiotic non-crossover recombination. In each meiosis event, on average, gBGC results in replacement of 7 AT base pairs by GC base pairs, while only 6 GC pairs are replaced by AT pairs. Therefore, every human gamete is enriched by one GC pair. Happening over millions of years of evolution, this bias may be a noticeable force in changing the nucleotide composition landscape along chromosomes.

Simulation and sensitivity analysis of carbon storage and fluxes in the New Jersey Pinelands

Science.gov (United States)

Zewei Miao; Richard G. Lathrop; Ming Xu; Inga P. La Puma; Kenneth L. Clark; John Hom; Nicholas Skowronski; Steve. Van Tuyl

2011-01-01

A major challenge in modeling the carbon dynamics of vegetation communities is the proper parameterization and calibration of eco-physiological variables that are critical determinants of the ecosystem process-based model behavior. In this study, we improved and calibrated a biochemical process-based WxBGC model by using in situ AmeriFlux eddy covariance tower...

Whole-system carbon balance for a regional temperate forest in Northern Wisconsin, USA

Science.gov (United States)

Peckham, S. D.; Gower, S. T.

2010-12-01

The whole-system (biological + industrial) carbon (C) balance was estimated for the Chequamegon-Nicolet National Forest (CNNF), a temperate forest covering 600,000 ha in Northern Wisconsin, USA. The biological system was modeled using a spatially-explicit version of the ecosystem process model Biome-BGC. The industrial system was modeled using life cycle inventory (LCI) models for wood and paper products. Biome-BGC was used to estimate net primary production, net ecosystem production (NEP), and timber harvest (H) over the entire CNNF. The industrial carbon budget (Ci) was estimated by applying LCI models of CO2 emissions resulting from timber harvest and production of specific wood and paper products in the CNNF region. In 2009, simulated NEP of the CNNF averaged 3.0 tC/ha and H averaged 0.1 tC/ha. Despite model uncertainty, the CNNF region is likely a carbon sink (NEP - Ci > 0), even when CO2 emissions from timber harvest and production of wood and paper products are included in the calculation of the entire forest system C budget.

Deriving forest fire ignition risk with biogeochemical process modelling.

Science.gov (United States)

Eastaugh, C S; Hasenauer, H

2014-05-01

Climate impacts the growth of trees and also affects disturbance regimes such as wildfire frequency. The European Alps have warmed considerably over the past half-century, but incomplete records make it difficult to definitively link alpine wildfire to climate change. Complicating this is the influence of forest composition and fuel loading on fire ignition risk, which is not considered by purely meteorological risk indices. Biogeochemical forest growth models track several variables that may be used as proxies for fire ignition risk. This study assesses the usefulness of the ecophysiological model BIOME-BGC's 'soil water' and 'labile litter carbon' variables in predicting fire ignition. A brief application case examines historic fire occurrence trends over pre-defined regions of Austria from 1960 to 2008. Results show that summer fire ignition risk is largely a function of low soil moisture, while winter fire ignitions are linked to the mass of volatile litter and atmospheric dryness.

Multi-model analysis of terrestrial carbon cycles in Japan: reducing uncertainties in model outputs among different terrestrial biosphere models using flux observations

Science.gov (United States)

Ichii, K.; Suzuki, T.; Kato, T.; Ito, A.; Hajima, T.; Ueyama, M.; Sasai, T.; Hirata, R.; Saigusa, N.; Ohtani, Y.; Takagi, K.

2009-08-01

Terrestrial biosphere models show large uncertainties when simulating carbon and water cycles, and reducing these uncertainties is a priority for developing more accurate estimates of both terrestrial ecosystem statuses and future climate changes. To reduce uncertainties and improve the understanding of these carbon budgets, we investigated the ability of flux datasets to improve model simulations and reduce variabilities among multi-model outputs of terrestrial biosphere models in Japan. Using 9 terrestrial biosphere models (Support Vector Machine-based regressions, TOPS, CASA, VISIT, Biome-BGC, DAYCENT, SEIB, LPJ, and TRIFFID), we conducted two simulations: (1) point simulations at four flux sites in Japan and (2) spatial simulations for Japan with a default model (based on original settings) and an improved model (based on calibration using flux observations). Generally, models using default model settings showed large deviations in model outputs from observation with large model-by-model variability. However, after we calibrated the model parameters using flux observations (GPP, RE and NEP), most models successfully simulated seasonal variations in the carbon cycle, with less variability among models. We also found that interannual variations in the carbon cycle are mostly consistent among models and observations. Spatial analysis also showed a large reduction in the variability among model outputs, and model calibration using flux observations significantly improved the model outputs. These results show that to reduce uncertainties among terrestrial biosphere models, we need to conduct careful validation and calibration with available flux observations. Flux observation data significantly improved terrestrial biosphere models, not only on a point scale but also on spatial scales.

[Simulation of water and carbon fluxes in harvard forest area based on data assimilation method].

Science.gov (United States)

Zhang, Ting-Long; Sun, Rui; Zhang, Rong-Hua; Zhang, Lei

2013-10-01

Model simulation and in situ observation are the two most important means in studying the water and carbon cycles of terrestrial ecosystems, but have their own advantages and shortcomings. To combine these two means would help to reflect the dynamic changes of ecosystem water and carbon fluxes more accurately. Data assimilation provides an effective way to integrate the model simulation and in situ observation. Based on the observation data from the Harvard Forest Environmental Monitoring Site (EMS), and by using ensemble Kalman Filter algorithm, this paper assimilated the field measured LAI and remote sensing LAI into the Biome-BGC model to simulate the water and carbon fluxes in Harvard forest area. As compared with the original model simulated without data assimilation, the improved Biome-BGC model with the assimilation of the field measured LAI in 1998, 1999, and 2006 increased the coefficient of determination R2 between model simulation and flux observation for the net ecosystem exchange (NEE) and evapotranspiration by 8.4% and 10.6%, decreased the sum of absolute error (SAE) and root mean square error (RMSE) of NEE by 17.7% and 21.2%, and decreased the SAE and RMSE of the evapotranspiration by 26. 8% and 28.3%, respectively. After assimilated the MODIS LAI products of 2000-2004 into the improved Biome-BGC model, the R2 between simulated and observed results of NEE and evapotranspiration was increased by 7.8% and 4.7%, the SAE and RMSE of NEE were decreased by 21.9% and 26.3%, and the SAE and RMSE of evapotranspiration were decreased by 24.5% and 25.5%, respectively. It was suggested that the simulation accuracy of ecosystem water and carbon fluxes could be effectively improved if the field measured LAI or remote sensing LAI was integrated into the model.

[Knock-down of ZEB1 inhibits the proliferation, invasion and migration of gastric cancer cells].

Science.gov (United States)

Chen, Dengyu; Chu, Yifan; Zheng, Qingwei; Xu, Zhiben; Zhou, Ping; Li, Sheng

2017-08-01

Objective To down-regulate the expression of zinc-finger E-box binding homeobox 1 (ZEB1) gene by shRNA, and investigate its effect on invasion, migration and proliferation, as well as the related gene expressions of lncRNA HOTAIR and E-cadherin in human gastric cancer BGC823 cells. Methods RNA interfering (RNAi) was used to knock down ZEB1 in gastric cancer BGC823 cells. The recombinant plasmid shZEB1 was constructed and transfected into the gastric cancer BGC823 cells by Lipofectamine TM 2000, and the stably transfected cells were isolated by G418 selection and limited dilution. The expression of ZEB1 mRNA and protein was detected by real-time quantitative PCR and Western blot analysis. Cell proliferation was determined by MTT assay, and the invasion and migration abilities of BGC823 cells were monitored by Transwell TM invasion assay and wound healing assay, respectively. The expressions of lncRNA HOTAIR and E-cadherin mRNA were detected by real-time quantitative PCR. Results After ZEB1 expression was successfully down-regulated in BGC823 cells by siRNA, the proliferation, invasion and migration rates in shZEB1 transfection group were significantly lower than those in control group; meanwhile, the expression of lncRNA HOTAIR was reduced and E-cadherin expression was enhanced. Conclusion Knock-down of ZEB1 expression by RNA interference can decease lncRNA HOTAIR expression and restrain cell proliferation, invasion and migration in gastric cancer BGC823 cells.

Regional carbon cycle responses to 25 years of variation in climate and disturbance in the US Pacific Northwest

Science.gov (United States)

David P. Turner; William D. Ritts; Robert E. Kennedy; Andrew N. Gray; Zhiqiang Yang

2016-01-01

Variation in climate, disturbance regime, and forest management strongly influence terrestrial carbon sources and sinks. Spatially distributed, process-based, carbon cycle simulation models provide a means to integrate information on these various influences to estimate carbon pools and flux over large domains. Here we apply the Biome-BGC model over the four-state...

Integrating Remote Sensing, Field Observations, and Models to Understand Disturbance and Climate Effects on the Carbon Balance of the West Coast U.S.

Energy Technology Data Exchange (ETDEWEB)

B.E. Law; D. Turner; M. Goeckede

2010-06-01

GOAL: To develop and apply an approach to quantify and understand the regional carbon balance of the west coast states for the North American Carbon Program. OBJECTIVE: As an element of NACP research, the proposed investigation is a two pronged approach that derives and evaluates a regional carbon (C) budget for Oregon, Washington, and California. Objectives are (1) Use multiple data sources, including AmeriFlux data, inventories, and multispectral remote sensing data to investigate trends in carbon storage and exchanges of CO2 and water with variation in climate and disturbance history; (2) Develop and apply regional modeling that relies on these multiple data sources to reduce uncertainty in spatial estimates of carbon storage and NEP, and relative contributions of terrestrial ecosystems and anthropogenic emissions to atmospheric CO2 in the region; (3) Model terrestrial carbon processes across the region, using the Biome-BGC terrestrial ecosystem model, and an atmospheric inverse modeling approach to estimate variation in rate and timing of terrestrial uptake and feedbacks to the atmosphere in response to climate and disturbance. APPROACH: In performing the regional analysis, the research plan for the bottom-up approach uses a nested hierarchy of observations that include AmeriFlux data (i.e., net ecosystem exchange (NEE) from eddy covariance and associated biometric data), intermediate intensity inventories from an extended plot array partially developed from the PI's previous research, Forest Service FIA and CVS inventory data, time since disturbance, disturbance type, and cover type from Landsat developed in this study, and productivity estimates from MODIS algorithms. The BIOME-BGC model is used to integrate information from these sources and quantify C balance across the region. The inverse modeling approach assimilates flux data from AmeriFlux sites, high precision CO2 concentration data from AmeriFlux towers and four new calibrated CO2 sites

Investigating and Modeling Ecosystem Response to an Experimental and a Natural Ice Storm

Science.gov (United States)

Fakhraei, H.; Driscoll, C. T.; Rustad, L.; Campbell, J. L.; Groffman, P.; Fahey, T.; Likens, G.; Swaminathan, R.

2017-12-01

the biogeochemical model, PnET-BGC. The model was calibrated to the study watersheds using observations from the natural and experimental ice storms. Future projections for ice storm events were estimated from an advanced climate model and applied to the calibrated PnET-BGC model to simulate future impacts of ice storms on the northern hardwood forests.

EMSL Science Theme Advisory Panel Workshop - Atmospheric Aerosol Chemistry, Climate Change, and Air Quality

Energy Technology Data Exchange (ETDEWEB)

Baer, Donald R.; Finlayson-Pitts, Barbara J.; Allen, Heather C.; Bertram, Allan K.; Grassian, Vicki H.; Martin, Scot T.; Penner, Joyce E.; Prather, Kimberly; Rasch, Philip J.; Signorell, Ruth; Smith, James N.; Wyslouzil, Barbara; Ziemann, Paul; Dabdub, Donald; Furche, Filipp; Nizkorodov, Sergey; Tobias, Douglas J.; Laskin, Julia; Laskin, Alexander

2013-07-01

This report contains the workshop scope and recommendations from the workshop attendees in identifying scientific gaps in new particle formation, growth and properties of particles and reactions in and on particles as well as the laboratory-focused capabilities, field-deployable capabilities and modeling/theory tools along with linking of models to fundamental data.

Environmental materials and interfaces

International Nuclear Information System (INIS)

1991-11-01

A workshop that explored materials and interfaces research needs relevant to national environmental concerns was conducted at Pacific Northwest Laboratory. The purposes of the workshop were to refine the scientific research directions being planned for the Materials and Interface Program in the Molecular Science Research Center (MSRC) and further define the research and user equipment to the included as part of the proposed Environmental and Molecular Science Laboratory (EMSL). Three plenary information sessions served to outline the background, objectives, and status of the MSRC and EMSL initiatives; selected specific areas with environmentally related materials; and the status of capabilities and facilities planned for the EMSL. Attention was directed to four areas where materials and interface science can have a significant impact on prevention and remediation of environmental problems: in situ detection and characterization of hazardous wastes (sensors), minimization of hazardous waste (separation membranes, ion exchange materials, catalysts), waste containment (encapsulation and barrier materials), and fundamental understanding of contaminant transport mechanisms. During all other sessions, the participants were divided into three working groups for detailed discussion and the preparation of a written report. The working groups focused on the areas of interface structure and chemistry, materials and interface stability, and materials synthesis. These recommendations and suggestions for needed research will be useful for other researchers in proposing projects and for suggesting collaborative work with MSRC researchers. 1 fig

Positron emission mammography (PEM): Effect of activity concentration, object size, and object contrast on phantom lesion detection

International Nuclear Information System (INIS)

MacDonald, Lawrence R.; Wang, Carolyn L.; Eissa, Marna; Haseley, David; Kelly, Mary M.; Liu, Franklin; Parikh, Jay R.; Beatty, J. David; Rogers, James V.

2012-01-01

Purpose: To characterize the relationship between lesion detection sensitivity and injected activity as a function of lesion size and contrast on the PEM (positron emission mammography) Flex Solo II scanner using phantom experiments. Methods: Phantom lesions (spheres 4, 8, 12, 16, and 20 mm diameter) were randomly located in uniform background. Sphere activity concentrations were 3 to 21 times the background activity concentration (BGc). BGc was a surrogate for injected activity; BGc ranged from 0.44–4.1 kBq/mL, corresponding to 46–400 MBq injections. Seven radiologists read 108 images containing zero, one, or two spheres. Readers used a 5-point confidence scale to score the presence of spheres. Results: Sensitivity was 100% for lesions ≥12 mm under all conditions except for one 12 mm sphere with the lowest contrast and lowest BGc (60% sensitivity). Sensitivity was 100% for 8 mm spheres when either contrast or BGc was high, and 100% for 4 mm spheres only when both contrast and BGc were highest. Sphere contrast recovery coefficients (CRC) were 49%, 34%, 26%, 14%, and 2.8% for the largest to smallest spheres. Cumulative specificity was 98%. Conclusions: Phantom lesion detection sensitivity depends more on sphere size and contrast than on BGc. Detection sensitivity remained ≥90% for injected activities as low as 100 MBq, for lesions ≥8 mm. Low CRC in 4 mm objects results in moderate detection sensitivity even for 400 MBq injected activity, making it impractical to optimize injected activity for such lesions. Low CRC indicates that when lesions <8 mm are observed on PEM images they are highly tracer avid with greater potential of clinical significance. High specificity (98%) suggests that image statistical noise does not lead to false positive findings. These results apply to the 85 mm thick object used to obtain them; lesion detectability should be better (worse) for thinner (thicker) objects based on the reduced (increased) influence of photon attenuation.

A Spectral Evaluation of Models Performances in Mediterranean Oak Woodlands

Science.gov (United States)

Vargas, R.; Baldocchi, D. D.; Abramowitz, G.; Carrara, A.; Correia, A.; Kobayashi, H.; Papale, D.; Pearson, D.; Pereira, J.; Piao, S.; Rambal, S.; Sonnentag, O.

2009-12-01

Ecosystem processes are influenced by climatic trends at multiple temporal scales including diel patterns and other mid-term climatic modes, such as interannual and seasonal variability. Because interactions between biophysical components of ecosystem processes are complex, it is important to test how models perform in frequency (e.g. hours, days, weeks, months, years) and time (i.e. day of the year) domains in addition to traditional tests of annual or monthly sums. Here we present a spectral evaluation using wavelet time series analysis of model performance in seven Mediterranean Oak Woodlands that encompass three deciduous and four evergreen sites. We tested the performance of five models (CABLE, ORCHIDEE, BEPS, Biome-BGC, and JULES) on measured variables of gross primary production (GPP) and evapotranspiration (ET). In general, model performance fails at intermediate periods (e.g. weeks to months) likely because these models do not represent the water pulse dynamics that influence GPP and ET at these Mediterranean systems. To improve the performance of a model it is critical to identify first where and when the model fails. Only by identifying where a model fails we can improve the model performance and use them as prognostic tools and to generate further hypotheses that can be tested by new experiments and measurements.

EMSL Geochemistry, Biogeochemistry and Subsurface Science-Science Theme Advisory Panel Meeting

Energy Technology Data Exchange (ETDEWEB)

Brown, Gordon E.; Chaka, Anne; Shuh, David K.; Roden, Eric E.; Werth, Charles J.; Hess, Nancy J.; Felmy, Andrew R.; Rosso, Kevin M.; Baer, Donald R.; Bailey, Vanessa L.; Bowden, Mark E.; Grate, Jay W.; Hoyt, David W.; Kuprat, Laura R.; Lea, Alan S.; Mueller, Karl T.; Oostrom, Martinus; Orr, Galya; Pasa-Tolic, Ljiljana; Plata, Charity; Robinson, E. W.; Teller, Raymond G.; Thevuthasan, Suntharampillai; Wang, Hongfei; Wiley, H. S.; Wilkins, Michael J.

2011-08-01

This report covers the topics of discussion and the recommendations of the panel members. On December 8 and 9, 2010, the Geochemistry, Biogeochemistry, and Subsurface Science (GBSS) Science Theme Advisory Panel (STAP) convened for a more in-depth exploration of the five Science Theme focus areas developed at a similar meeting held in 2009. The goal for the fiscal year (FY) 2011 meeting was to identify potential topical areas for science campaigns, necessary experimental development needs, and scientific members for potential research teams. After a review of the current science in each of the five focus areas, the 2010 STAP discussions successfully led to the identification of one well focused campaign idea in pore-scale modeling and five longer-term potential research campaign ideas that would likely require additional workshops to identify specific research thrusts. These five campaign areas can be grouped into two categories: (1) the application of advanced high-resolution, high mass accuracy experimental techniques to elucidate the interplay between geochemistry and microbial communities in terrestrial ecosystems and (2) coupled computation/experimental investigations of the electron transfer reactions either between mineral surfaces and outer membranes of microbial cells or between the outer and inner membranes of microbial cells.

Policy, Protectionism and the Competent Child.

Science.gov (United States)

Wyness, Michael G.

1996-01-01

Examines the way recent childhood policy initiatives in Britain have generated contradictory models of child competence and adults' role, and attempts to locate policy within broader understandings of social change. Draws from case material on two dominant child care issues: child sex abuse and school deviance. (BGC)

Integrating Remote Sensing, Field Observations, and Models to Understand Disturbance and Climate Effects on the Carbon Balance of the West Coast U.S.

Energy Technology Data Exchange (ETDEWEB)

Cohen, Warren [USDA Forest Service

2014-07-03

As an element of NACP research, the proposed investigation is a two pronged approach that derives and evaluates a regional carbon (C) budget for Oregon, Washington, and California. Objectives are (1) Use multiple data sources, including AmeriFlux data, inventories, and multispectral remote sensing data to investigate trends in carbon storage and exchanges of CO2 and water with variation in climate and disturbance history; (2) Develop and apply regional modeling that relies on these multiple data sources to reduce uncertainty in spatial estimates of carbon storage and NEP, and relative contributions of terrestrial ecosystems and anthropogenic emissions to atmospheric CO2 in the region; (3) Model terrestrial carbon processes across the region, using the Biome-BGC terrestrial ecosystem model, and an atmospheric inverse modeling approach to estimate variation in rate and timing of terrestrial uptake and feedbacks to the atmosphere in response to climate and disturbance.

Multi-model analysis of terrestrial carbon cycles in Japan: limitations and implications of model calibration using eddy flux observations

Directory of Open Access Journals (Sweden)

K. Ichii

2010-07-01

Full Text Available Terrestrial biosphere models show large differences when simulating carbon and water cycles, and reducing these differences is a priority for developing more accurate estimates of the condition of terrestrial ecosystems and future climate change. To reduce uncertainties and improve the understanding of their carbon budgets, we investigated the utility of the eddy flux datasets to improve model simulations and reduce variabilities among multi-model outputs of terrestrial biosphere models in Japan. Using 9 terrestrial biosphere models (Support Vector Machine – based regressions, TOPS, CASA, VISIT, Biome-BGC, DAYCENT, SEIB, LPJ, and TRIFFID, we conducted two simulations: (1 point simulations at four eddy flux sites in Japan and (2 spatial simulations for Japan with a default model (based on original settings and a modified model (based on model parameter tuning using eddy flux data. Generally, models using default model settings showed large deviations in model outputs from observation with large model-by-model variability. However, after we calibrated the model parameters using eddy flux data (GPP, RE and NEP, most models successfully simulated seasonal variations in the carbon cycle, with less variability among models. We also found that interannual variations in the carbon cycle are mostly consistent among models and observations. Spatial analysis also showed a large reduction in the variability among model outputs. This study demonstrated that careful validation and calibration of models with available eddy flux data reduced model-by-model differences. Yet, site history, analysis of model structure changes, and more objective procedure of model calibration should be included in the further analysis.

Multi-model analysis of terrestrial carbon cycles in Japan: limitations and implications of model calibration using eddy flux observations

Science.gov (United States)

Ichii, K.; Suzuki, T.; Kato, T.; Ito, A.; Hajima, T.; Ueyama, M.; Sasai, T.; Hirata, R.; Saigusa, N.; Ohtani, Y.; Takagi, K.

2010-07-01

Terrestrial biosphere models show large differences when simulating carbon and water cycles, and reducing these differences is a priority for developing more accurate estimates of the condition of terrestrial ecosystems and future climate change. To reduce uncertainties and improve the understanding of their carbon budgets, we investigated the utility of the eddy flux datasets to improve model simulations and reduce variabilities among multi-model outputs of terrestrial biosphere models in Japan. Using 9 terrestrial biosphere models (Support Vector Machine - based regressions, TOPS, CASA, VISIT, Biome-BGC, DAYCENT, SEIB, LPJ, and TRIFFID), we conducted two simulations: (1) point simulations at four eddy flux sites in Japan and (2) spatial simulations for Japan with a default model (based on original settings) and a modified model (based on model parameter tuning using eddy flux data). Generally, models using default model settings showed large deviations in model outputs from observation with large model-by-model variability. However, after we calibrated the model parameters using eddy flux data (GPP, RE and NEP), most models successfully simulated seasonal variations in the carbon cycle, with less variability among models. We also found that interannual variations in the carbon cycle are mostly consistent among models and observations. Spatial analysis also showed a large reduction in the variability among model outputs. This study demonstrated that careful validation and calibration of models with available eddy flux data reduced model-by-model differences. Yet, site history, analysis of model structure changes, and more objective procedure of model calibration should be included in the further analysis.

Evaluation of Apoptotic and Growth Inhibitory Activity of Phloretin in ...

African Journals Online (AJOL)

Results: The results show that the inhibitory activity of phloretin in BGC823 gastric cancer cells was mediated by induction of apoptosis ... anti-proliferative effects of phloretin was dose-dependent and inhibited the growth of BGC823 gastric cancer cells by 73 % at 30 μM; .... weeks at 37 °C in 5 % CO2 in humidified incubator.

华北地区油松林生态系统对气候变化和CO2浓度升高的响应——基于BIOME-BGC模型和树木年轮的模拟%Responses of Pinus tabulaeformis forest ecosystem in North China to climate change and elevated CO2 :A simulation based on BIOME-BGC model and tree-ring data

Institute of Scientific and Technical Information of China (English)

彭俊杰; 何兴元; 陈振举; 崔明星; 张先亮; 周长虹

2012-01-01

应用BIOME-BGC模型和树木年轮数据模拟1952-2008年华北地区典型油松林生态系统净初级生产力(NPP)动态,探究了树木径向生长和NPP对区域气候变暖的响应以及未来气候情景下油松林生态系统NPP动态变化.结果表明:1952-2008年,研究区油松林生态系统NPP波动于244.12 ～645.31 g C·m-2·a-1,平均值为418.6 g C·m-2·a-1.5-6月的平均温度和上年8月至当年7月的降水是限制该地区油松径向生长和油松林生态系统NPP的主要因子.研究期间,随着区域暖干化趋势的加强,树木径向生长和生态系统NPP均呈下降趋势.未来气候情景下,NPP对温度和降水的单独和复合变化的响应为正向.CO2浓度升高有利于油松林生态系统NPP的增加,CO2的施肥效应使NPP增加16.1％.在生态系统和区域水平,树木年轮是一种理想的指示生态系统动态变化的代用资料,可以检验和校正包括BIOME-BGC模型在内的各种生态系统过程模型.%Based on BIOME-BGC model and tree-ring data, a modeling study was conducted to estimate the dynamic changes of the net primary productivity ( NPP) of Pinus tabulaeformis forest ecosystem in North China in 1952-2008, and explore the responses of the radial growth and NPP to regional climate warming as well as the dynamics of the NPP in the future climate change scenarios. The simulation results indicated the annual NPP of the P. tabulaeformis ecosystem in 1952-2008 fluctuated from 244. 12 to 645. 31 g C · m-2 · a-1, with a mean value of 418. 6 g C · m-2 · a-1. The mean air temperature in May-June and the precipitation from previous August to current July were the main factors limiting the radial growth of P. tabulaeformis and the NPP of P. tabulaeformis ecosystem. In the study period, both the radial growth and the NPP presented a decreasing trend due to the regional warming and drying climate condition. In the future climate scenarios, the NPP would have positive responses to the

Bayesian integration of flux tower data into a process-based simulator for quantifying uncertainty in simulated output

Science.gov (United States)

Raj, Rahul; van der Tol, Christiaan; Hamm, Nicholas Alexander Samuel; Stein, Alfred

2018-01-01

Parameters of a process-based forest growth simulator are difficult or impossible to obtain from field observations. Reliable estimates can be obtained using calibration against observations of output and state variables. In this study, we present a Bayesian framework to calibrate the widely used process-based simulator Biome-BGC against estimates of gross primary production (GPP) data. We used GPP partitioned from flux tower measurements of a net ecosystem exchange over a 55-year-old Douglas fir stand as an example. The uncertainties of both the Biome-BGC parameters and the simulated GPP values were estimated. The calibrated parameters leaf and fine root turnover (LFRT), ratio of fine root carbon to leaf carbon (FRC : LC), ratio of carbon to nitrogen in leaf (C : Nleaf), canopy water interception coefficient (Wint), fraction of leaf nitrogen in RuBisCO (FLNR), and effective soil rooting depth (SD) characterize the photosynthesis and carbon and nitrogen allocation in the forest. The calibration improved the root mean square error and enhanced Nash-Sutcliffe efficiency between simulated and flux tower daily GPP compared to the uncalibrated Biome-BGC. Nevertheless, the seasonal cycle for flux tower GPP was not reproduced exactly and some overestimation in spring and underestimation in summer remained after calibration. We hypothesized that the phenology exhibited a seasonal cycle that was not accurately reproduced by the simulator. We investigated this by calibrating the Biome-BGC to each month's flux tower GPP separately. As expected, the simulated GPP improved, but the calibrated parameter values suggested that the seasonal cycle of state variables in the simulator could be improved. It was concluded that the Bayesian framework for calibration can reveal features of the modelled physical processes and identify aspects of the process simulator that are too rigid.

Bayesian integration of flux tower data into a process-based simulator for quantifying uncertainty in simulated output

Directory of Open Access Journals (Sweden)

R. Raj

2018-01-01

Full Text Available Parameters of a process-based forest growth simulator are difficult or impossible to obtain from field observations. Reliable estimates can be obtained using calibration against observations of output and state variables. In this study, we present a Bayesian framework to calibrate the widely used process-based simulator Biome-BGC against estimates of gross primary production (GPP data. We used GPP partitioned from flux tower measurements of a net ecosystem exchange over a 55-year-old Douglas fir stand as an example. The uncertainties of both the Biome-BGC parameters and the simulated GPP values were estimated. The calibrated parameters leaf and fine root turnover (LFRT, ratio of fine root carbon to leaf carbon (FRC : LC, ratio of carbon to nitrogen in leaf (C : Nleaf, canopy water interception coefficient (Wint, fraction of leaf nitrogen in RuBisCO (FLNR, and effective soil rooting depth (SD characterize the photosynthesis and carbon and nitrogen allocation in the forest. The calibration improved the root mean square error and enhanced Nash–Sutcliffe efficiency between simulated and flux tower daily GPP compared to the uncalibrated Biome-BGC. Nevertheless, the seasonal cycle for flux tower GPP was not reproduced exactly and some overestimation in spring and underestimation in summer remained after calibration. We hypothesized that the phenology exhibited a seasonal cycle that was not accurately reproduced by the simulator. We investigated this by calibrating the Biome-BGC to each month's flux tower GPP separately. As expected, the simulated GPP improved, but the calibrated parameter values suggested that the seasonal cycle of state variables in the simulator could be improved. It was concluded that the Bayesian framework for calibration can reveal features of the modelled physical processes and identify aspects of the process simulator that are too rigid.

Integrating Remote Sensing, Field Observations, and Models to Understand Disturbance and Climate Effects on the Carbon Balance of the West Coast U.S., Final Report

Energy Technology Data Exchange (ETDEWEB)

Beverly E. Law

2011-10-05

As an element of NACP research, the proposed investigation is a two pronged approach that derives and evaluates a regional carbon (C) budget for Oregon, Washington, and California. Objectives are (1) Use multiple data sources, including AmeriFlux data, inventories, and multispectral remote sensing data to investigate trends in carbon storage and exchanges of CO2 and water with variation in climate and disturbance history; (2) Develop and apply regional modeling that relies on these multiple data sources to reduce uncertainty in spatial estimates of carbon storage and NEP, and relative contributions of terrestrial ecosystems and anthropogenic emissions to atmospheric CO2 in the region; (3) Model terrestrial carbon processes across the region, using the Biome-BGC terrestrial ecosystem model, and an atmospheric inverse modeling approach to estimate variation in rate and timing of terrestrial uptake and feedbacks to the atmosphere in response to climate and disturbance.

Assessing the effect of climate change on carbon sequestration in a Mexican dry forest in the Yucatan Peninsula

Science.gov (United States)

Z. Dai; K.D. Johnson; R.A. Birdsey; J.L. Hernandez-Stefanoni; J.M. Dupuy

2015-01-01

Assessing the effect of climate change on carbon sequestration in tropical forest ecosystems is important to inform monitoring, reporting, and verification (MRV) for reducing deforestation and forest degradation (REDD), and to effectively assess forest management options under climate change. Two process-based models, Forest-DNDC and Biome-BGC, with different spatial...

A fusion of top-down and bottom-up modeling techniques to constrain regional scale carbon budgets

Science.gov (United States)

Goeckede, M.; Turner, D. P.; Michalak, A. M.; Vickers, D.; Law, B. E.

2009-12-01

The effort to constrain regional scale carbon budgets benefits from assimilating as many high quality data sources as possible in order to reduce uncertainties. Two of the most common approaches used in this field, bottom-up and top-down techniques, both have their strengths and weaknesses, and partly build on very different sources of information to train, drive, and validate the models. Within the context of the ORCA2 project, we follow both bottom-up and top-down modeling strategies with the ultimate objective of reconciling their surface flux estimates. The ORCA2 top-down component builds on a coupled WRF-STILT transport module that resolves the footprint function of a CO2 concentration measurement in high temporal and spatial resolution. Datasets involved in the current setup comprise GDAS meteorology, remote sensing products, VULCAN fossil fuel inventories, boundary conditions from CarbonTracker, and high-accuracy time series of atmospheric CO2 concentrations. Surface fluxes of CO2 are normally provided through a simple diagnostic model which is optimized against atmospheric observations. For the present study, we replaced the simple model with fluxes generated by an advanced bottom-up process model, Biome-BGC, which uses state-of-the-art algorithms to resolve plant-physiological processes, and 'grow' a biosphere based on biogeochemical conditions and climate history. This approach provides a more realistic description of biomass and nutrient pools than is the case for the simple model. The process model ingests various remote sensing data sources as well as high-resolution reanalysis meteorology, and can be trained against biometric inventories and eddy-covariance data. Linking the bottom-up flux fields to the atmospheric CO2 concentrations through the transport module allows evaluating the spatial representativeness of the BGC flux fields, and in that way assimilates more of the available information than either of the individual modeling techniques alone

Prostaglandins and prostaglandin receptor antagonism in migraine

DEFF Research Database (Denmark)

Antonova, Maria

2013-01-01

Human models of headache may contribute to understanding of prostaglandins' role in migraine pathogenesis. The current thesis investigated the migraine triggering effect of prostaglandin E2 (PGE2) in migraine patients without aura, the efficacy of a novel EP4 receptor antagonist, BGC20....... The infusion of PGE2 caused the immediate migraine-like attacks and vasodilatation of the middle cerebral artery in migraine patients without aura. The highly specific and potent EP4 receptor antagonist, BGC20-1531, was not able to attenuate PGE2-induced headache and vasodilatation of both intra- and extra......-cerebral arteries. The intravenous infusion of PGF2α did not induce headache or statistically significant vasoconstriction of cerebral arteries in healthy volunteers. Novel data on PGE2-provoked immediate migraine-like attacks suggest that PGE2 may be one of the important final products in the pathogenesis...

Basal ganglia calcification as a putative cause for cognitive decline

OpenAIRE

de Oliveira, João Ricardo Mendes; de Oliveira, Matheus Fernandes

2013-01-01

ABSTRACT Basal ganglia calcifications (BGC) may be present in various medical conditions, such as infections, metabolic, psychiatric and neurological diseases, associated with different etiologies and clinical outcomes, including parkinsonism, psychosis, mood swings and dementia. A literature review was performed highlighting the main neuropsychological findings of BGC, with particular attention to clinical reports of cognitive decline. Neuroimaging studies combined with neuropsychological an...

基于Biome-BGC模型的天山北坡森林生态系统碳动态模拟%Simulation of Carbon Trend in Forest Ecosystem in Northern Slope of the Tianshan Mountains Based on Biome-BGC Model

Institute of Scientific and Technical Information of China (English)

韩其飞; 罗格平; 李超凡; 叶辉; 冯异星

2014-01-01

based on the generalized approach to simulate ecosystem development must be parameterized for the target ecosystems.Regarding the estimation of carbon dynamics,the use of process-based ecosystem models is of particular interest because this approach allows not only to estimate the carbon budget under various environmental conditions,but also to interpret and quantify the possible causes of carbon stock change along with the environmental change.The application of ecosystem models,however,encounters some specific difficulties in dryland environment,which is characterized by its climatic and human-induced features.After identifying the proper ecophysiological parameters used in Biome-BGC model,in this study the NPP (net primary productivity) and NEP (net ecological productivity) in the Tianshan Mountains were estimated.Furthermore,the responses of NPP/NEP to interannual climate change during the period of 1959-2009 and climate change scenarios in the future were modeled.Results showed that the average annual total NPP and NEP were 547.97 g · m-2 · a-1 and 61.24 g · m-2 · a-1 respectively,which revealed that the forests in the Tianshan Mountains perform as the carbon sinks.NPP and NEP were sensitive to the change of precipitation and the increase of air temperature.Under a scenario of 4 ℃ temperature increase,NPP was slightly improved,but NEP was decreased as soil respiration was boosted up.Drought stress was not significant in the study area as derived from the results.

Compact X-ray Light Source Workshop Report

Energy Technology Data Exchange (ETDEWEB)

Thevuthasan, Suntharampillai; Evans, James E.; Terminello, Louis J.; Koppenaal, David W.; Manke, Kristin L.; Plata, Charity

2012-12-01

This report, produced jointly by EMSL and FCSD, is the result of a workshop held in September 2011 that examined the utility of a compact x-ray light source (CXLS) in addressing many scientific challenges critical to advancing energy science and technology.

Evaluation of Blue Gum Chalid Infestation Woodlots in Western Kenya

International Nuclear Information System (INIS)

Otuoma, J.; Muchiri, M.N

2007-01-01

Blue gum chalcid (BGC) Leptocybe invasa is a gall-forming wasp that belongs to the insect order Hymenoptera, family Eulophidae. It attacks a wide range of Eucalyptus species mostly between the seedling stage and five years of age. BGC causes damage to eucalyptus by forming bump-shaped galls on the leaf midribs, petioles and stems.Twisted and knobbed leaves manifest severe infestation. The aim of this study was to establish the spatial distribution of BGC and extent of host plant damage in Eucalyptus woodlots in Western Kenya. The study was carried out in six permanent sampling plots in Eucalyptus woodlots in Busia, Bungoma, Kakamega and Nyando. Trees were assessed for crown damage by estimating and classifying the density of galls on the leaves into four levels of infestation: low (greater than 50% of foliage canopy with galls and no twisted or knobbed leaves), moderate (greater than 50% of foliage with galls and less than 50% of the leaves twisted and knobbed), high (greater than 50% of the leaves twisted and knobbed, galls on the twigs and some twigs deformed and severe (greater than 50% of the twigs deformed and regeneration foliage observed). An evaluation of the pests' infestation and the extent of host plant damage indicated that, 4% of the trees and severe infestation; 5% high; 20% moderate and 70% low. Approximately 1% of trees died as a result of loss of foliage attributable to severe infestation. Other observations from the study were that the severity of BGC infestation tended to decline as trees grew older and BGC infestation retarded tree growth

Aromatic Polyketide GTRI-02 is a Previously Unidentified Product of the act Gene Cluster in Streptomyces coelicolor A3(2).

Science.gov (United States)

Wu, Changsheng; Ichinose, Koji; Choi, Young Hae; van Wezel, Gilles P

2017-07-18

The biosynthesis of aromatic polyketides derived from type II polyketide synthases (PKSs) is complex, and it is not uncommon that highly similar gene clusters give rise to diverse structural architectures. The act biosynthetic gene cluster (BGC) of the model actinomycete Streptomyces coelicolor A3(2) is an archetypal type II PKS. Here we show that the act BGC also specifies the aromatic polyketide GTRI-02 (1) and propose a mechanism for the biogenesis of its 3,4-dihydronaphthalen-1(2H)-one backbone. Polyketide 1 was also produced by Streptomyces sp. MBT76 after activation of the act-like qin gene cluster by overexpression of the pathway-specific activator. Mining of this strain also identified dehydroxy-GTRI-02 (2), which most likely originated from dehydration of 1 during the isolation process. This work shows that even extensively studied model gene clusters such as act of S. coelicolor can still produce new chemistry, offering new perspectives for drug discovery. © 2017 Wiley-VCH Verlag GmbH & Co. KGaA, Weinheim.

Hysteresis in the Central African Rainforest

Science.gov (United States)

Pietsch, Stephan Alexander; Elias Bednar, Johannes; Gautam, Sishir; Petritsch, Richard; Schier, Franziska; Stanzl, Patrick

2014-05-01

Past climate change caused severe disturbances of the Central African rainforest belt, with forest fragmentation and re-expansion due to drier and wetter climate conditions. Besides climate, human induced forest degradation affected biodiversity, structure and carbon storage of Congo basin rainforests. Information on climatically stable, mature rainforest, unaffected by human induced disturbances, provides means of assessing the impact of forest degradation and may serve as benchmarks of carbon carrying capacity over regions with similar site and climate conditions. BioGeoChemical (BGC) ecosystem models explicitly consider the impacts of site and climate conditions and may assess benchmark levels over regions devoid of undisturbed conditions. We will present a BGC-model validation for the Western Congolian Lowland Rainforest (WCLRF) using field data from a recently confirmed forest refuge, show model - data comparisons for disturbed und undisturbed forests under different site and climate conditions as well as for sites with repeated assessment of biodiversity and standing biomass during recovery from intensive exploitation. We will present climatic thresholds for WCLRF stability, analyse the relationship between resilience, standing C-stocks and change in climate and finally provide evidence of hysteresis.

Simulations and Analysis of Net Primary Productivity in Quercus liaotungensis Forest of Donglingshan Mountain Range in Response to Different Climate Change Scenarios%辽东栎林净初级生产力对气候变化情景响应的模拟与分析

Institute of Scientific and Technical Information of China (English)

苏宏新; 桑卫国

2004-01-01

An ecosystem process model, BIOME-BGC, was used to explore the sensitivity of net primary productivity (NPP) of an oak (Quercus liaotungensis Koidz) forest ecosystem in Beijing area to global climate changes caused by increasing atmospheric CO2 concentrations. Firstly we tested the model, and validated the modeled outputs using observational data; the outputs of BIOME-BGC model were consistent with observed soil water content and annual NPP. Secondly the potential impacts of climate change on the oak forest ecosystem were predicted with BIOME-BGC model. We found that the simulated NPP was much more sensitive to a 20% precipitation increase or a doubling of atmospheric CO2 from 355 to 710 μmol/mol than to a 2 ℃ temperature increase. Our results also indicated that the effects of elevated CO2 and climate change on the response of NPP were not interactive.%利用生态系统模型BIOME-BGC模拟北京东灵山地区辽东栎(Suercus liaotungensis Koidz)林生态系统净初级生产力(net primary productivity,NPP)对全球气候变化潜在响应.首先,BIOME-BGC模型模拟的土壤含水量和NPP与该地区实际测量结果、其他模型模拟研究进行比较分析,结果显示BIOME-BGC能较好的模拟辽东栎林生态系统净生产力.然后,利用BIOME-BGC模拟辽东栎林生态系统NPP对不同气候变化的响应.结果表明:(1)NPP对温度变化不敏感,而对降水和CO2变化极为敏感;(2)温度、降水和CO2对NPP的影响并没有显示出交互作用.

Disturbance and climate effects on carbon stocks and fluxes across western Oregon USA.

Science.gov (United States)

B.E. Law; D. Turner; J. Campbell; O.J. Sun; S. Van Tuyl; W.D. Ritts; W.B. Cohen

2004-01-01

We used a spatially nested hierarchy of field and remote-sensing observations and a process model, Biome-BGC, to produce a carbon budget for the forested region of Oregon, and to determine the relative influence of differences in climate and disturbance among the ecoregions on carbon stocks and fluxes. The simulations suggest that annual net uptake (net ecosystem...

Biogeochemical modelling vs. tree-ring data - comparison of forest ecosystem productivity estimates

Science.gov (United States)

Zorana Ostrogović Sever, Maša; Barcza, Zoltán; Hidy, Dóra; Paladinić, Elvis; Kern, Anikó; Marjanović, Hrvoje

2017-04-01

Forest ecosystems are sensitive to environmental changes as well as human-induce disturbances, therefore process-based models with integrated management modules represent valuable tool for estimating and forecasting forest ecosystem productivity under changing conditions. Biogeochemical model Biome-BGC simulates carbon, nitrogen and water fluxes, and it is widely used for different terrestrial ecosystems. It was modified and parameterised by many researchers in the past to meet the specific local conditions. In this research, we used recently published improved version of the model Biome-BGCMuSo (BBGCMuSo), with multilayer soil module and integrated management module. The aim of our research is to validate modelling results of forest ecosystem productivity (NPP) from BBGCMuSo model with observed productivity estimated from an extensive dataset of tree-rings. The research was conducted in two distinct forest complexes of managed Pedunculate oak in SE Europe (Croatia), namely Pokupsko basin and Spačva basin. First, we parameterized BBGCMuSo model at a local level using eddy-covariance (EC) data from Jastrebarsko EC site. Parameterized model was used for the assessment of productivity on a larger scale. Results of NPP assessment with BBGCMuSo are compared with NPP estimated from tree ring data taken from trees on over 100 plots in both forest complexes. Keywords: Biome-BGCMuSo, forest productivity, model parameterization, NPP, Pedunculate oak

Understanding the Effect of Land Cover Classification on Model Estimates of Regional Carbon Cycling in the Boreal Forest Biome

Science.gov (United States)

Kimball, John; Kang, Sinkyu

2003-01-01

The original objectives of this proposed 3-year project were to: 1) quantify the respective contributions of land cover and disturbance (i.e., wild fire) to uncertainty associated with regional carbon source/sink estimates produced by a variety of boreal ecosystem models; 2) identify the model processes responsible for differences in simulated carbon source/sink patterns for the boreal forest; 3) validate model outputs using tower and field- based estimates of NEP and NPP; and 4) recommend/prioritize improvements to boreal ecosystem carbon models, which will better constrain regional source/sink estimates for atmospheric C02. These original objectives were subsequently distilled to fit within the constraints of a 1 -year study. This revised study involved a regional model intercomparison over the BOREAS study region involving Biome-BGC, and TEM (A.D. McGuire, UAF) ecosystem models. The major focus of these revised activities involved quantifying the sensitivity of regional model predictions associated with land cover classification uncertainties. We also evaluated the individual and combined effects of historical fire activity, historical atmospheric CO2 concentrations, and climate change on carbon and water flux simulations within the BOREAS study region.

Simulating the Dependence of Aspen on Redistributed Snow

Science.gov (United States)

Soderquist, B.; Kavanagh, K.; Link, T. E.; Seyfried, M. S.; Winstral, A. H.

2013-12-01

In mountainous regions across the western USA, the distribution of aspen (Populus tremuloides) is often directly related to heterogeneous soil moisture subsidies resulting from redistributed snow. With decades of climate and precipitation data across elevational and precipitation gradients, the Reynolds Creek Experimental Watershed (RCEW) in southwest Idaho provides a unique opportunity to study the relationship between aspen and redistributed snow. Within the RCEW, the total amount of precipitation has not changed in the past 50 years, but there are sharp declines in the percentage of the precipitation falling as snow. As shifts in the distribution of available moisture continue, future trends in aspen net primary productivity (NPP) remain uncertain. In order to assess the importance of snowdrift subsidies, NPP of three aspen stands was simulated at sites spanning elevational and precipitation gradients using the biogeochemical process model BIOME-BGC. At the aspen site experiencing the driest climate and lowest amount of precipitation from snow, approximately 400 mm of total precipitation was measured from November to March of 2008. However, peak measured snow water equivalent (SWE) held in drifts directly upslope of this stand was approximately 2100 mm, 5 times more moisture than the uniform winter precipitation layer initially assumed by BIOME-BGC. BIOME-BGC simulations in dry years forced by adjusted precipitation data resulted in NPP values approximately 30% higher than simulations assuming a uniform precipitation layer. Using BIOME-BGC and climate data from 1985-2011, the relationship between simulated NPP and measured basal area increments (BAI) improved after accounting for redistributed snow, indicating increased simulation representation. In addition to improved simulation capabilities, soil moisture data, diurnal branch water potential, and stomatal conductance observations at each site detail the use of soil moisture in the rooting zone and the onset

Estimating climate change effects on net primary production of rangelands in the United States

Science.gov (United States)

Matthew C. Reeves; Adam L. Moreno; Karen E. Bagne; Steven W. Running

2014-01-01

The potential effects of climate change on net primary productivity (NPP) of U.S. rangelands were evaluated using estimated climate regimes from the A1B, A2 and B2 global change scenarios imposed on the biogeochemical cycling model, Biome-BGC from 2001 to 2100. Temperature, precipitation, vapor pressure deficit, day length, solar radiation, CO2 enrichment and nitrogen...

Improving productivity in the gas industry

Energy Technology Data Exchange (ETDEWEB)

Robb, F F; Portsmouth, D J

1982-05-01

A study course designed to help BGC managers improve employee productivity reflected four main themes: evaluating quality and performance standards, examining new technologies, exploiting manpower resources, and improving usage of equipment and materials. Visiting speakers' contributions included 1) BGC's broad objectives and its methods of deploying financial resources effectively, 2) creativity as it relates to productivity and to the need for forecasts of risk and catastrophes, and 3) the paramount importance of management's commitment to formally stated objectives.

Campilobacteriose genital bovina em rebanhos leiteiros com problemas reprodutivos da microrregião de Varginha - Minas Gerais

Directory of Open Access Journals (Sweden)

Stynen A.P.R.

2003-01-01

Full Text Available The frequency of bovine genital campylobacteriosis (BGC in 157 cows from nine herds from the microregion of Varginha - Minas Gerais - Brazil was evaluated. Farmers use either artificial insemination and natural breeding after two insemination procedures or natural breeding. The diagnosis of BGC was performed by the direct fluorescent antibody test (DFAT using vaginal mucus. All studied herds showed C. fetus infected animals and, of 157 animals, 40 (25.5% were positive in DFAT: 7 (26.9% from herds with natural breeding and 33 (25.1% from herds with both artificial insemination and natural breeding after the second-to-third insemination. The high frequency of BGC found in this study shows that this disease is present among herds which have reproductive problems and the use of natural breeding after the second-to-third unsuccessful insemination could be a risk factor for the disease.

Assessing tropical rainforest growth traits: Data - Model fusion in the Congo basin and beyond

Science.gov (United States)

Pietsch, Stephan

2017-04-01

Virgin forest ecosystems resemble the key reference level for natural tree growth dynamics. The mosaic cycle concept describes such dynamics as local disequilibria driven by patch level succession cycles of breakdown, regeneration, juvenescence and old growth. These cycles, however, may involve different traits of light demanding and shade tolerant species assemblies. In this work a data model fusion concept will be introduced to assess the differences in growth dynamics of the mosaic cycle of the Western Congolian Lowland Rainforest ecosystem. Field data from 34 forest patches located in an ice age forest refuge, recently pinpointed to the ground and still devoid of direct human impact up to today - resemble the data base. A 3D error assessment procedure versus BGC model simulations for the 34 patches revealed two different growth dynamics, consistent with observed growth traits of pioneer and late succession species assemblies of the Western Congolian Lowland rainforest. An application of the same procedure to Central American Pacific rainforests confirms the strength of the 3D error field data model fusion concept to Central American Pacific rainforests confirms the strength of the 3D error field data model fusion concept to assess different growth traits of the mosaic cycle of natural forest dynamics.

Integration of ground and satellite data to model Mediterranean forest processes

Science.gov (United States)

Chiesi, M.; Fibbi, L.; Genesio, L.; Gioli, B.; Magno, R.; Maselli, F.; Moriondo, M.; Vaccari, F. P.

2011-06-01

The current work presents the testing of a modeling strategy that has been recently developed to simulate the gross and net carbon fluxes of Mediterranean forest ecosystems. The strategy is based on the use of a NDVI-driven parametric model, C-Fix, and of a biogeochemical model, BIOME-BGC, whose outputs are combined to simulate the behavior of forest ecosystems at different development stages. The performances of the modeling strategy are evaluated in three Italian study sites (San Rossore, Lecceto and Pianosa), where carbon fluxes are being measured through the eddy correlation technique. These sites are characterized by variable Mediterranean climates and are covered by different types of forest vegetation (pine wood, Holm oak forest and Macchia, respectively). The results of the tests indicate that the modeling strategy is generally capable of reproducing monthly GPP and NEE patterns in all three study sites. The highest accuracy is obtained in the most mature, homogenous pine wood of San Rossore, while the worst results are found in the Lecceto forest, where there are the most heterogeneous terrain, soil and vegetation conditions. The main error sources are identified in the inaccurate definition of the model inputs, particularly those regulating the site water budgets, which exert a strong control on forest productivity during the Mediterranean summer dry season. In general, the incorporation of NDVI-derived fAPAR estimates corrects for most of these errors and renders the forest flux simulations more stable and accurate.

Basal Ganglia Calcification with Tetanic Seizure Suggest Mitochondrial Disorder.

Science.gov (United States)

Finsterer, Josef; Enzelsberger, Barbara; Bastowansky, Adam

2017-04-09

BACKGROUND Basal ganglia calcification (BGC) is a rare sporadic or hereditary central nervous system (CNS) abnormality, characterized by symmetric or asymmetric calcification of the basal ganglia. CASE REPORT We report the case of a 65-year-old Gypsy female who was admitted for a tetanic seizure, and who had a history of polyneuropathy, restless-leg syndrome, retinopathy, diabetes, hyperlipidemia, osteoporosis with consecutive hyperkyphosis, cervicalgia, lumbalgia, struma nodosa requiring thyroidectomy and consecutive hypothyroidism, adipositas, resection of a vocal chord polyp, arterial hypertension, coronary heart disease, atheromatosis of the aorta, peripheral artery disease, chronic obstructive pulmonary disease, steatosis hepatis, mild renal insufficiency, long-term hypocalcemia, hyperphosphatemia, impingement syndrome, spondylarthrosis of the lumbar spine, and hysterectomy. History and clinical presentation suggested a mitochondrial defect which also manifested as hypoparathyroidism or Fanconi syndrome resulting in BGC. After substitution of calcium, no further tetanic seizures occurred. CONCLUSIONS Patients with BGC should be investigated for a mitochondrial disorder. A mitochondrial disorder may also manifest as tetanic seizure.

Quietly Building Capabilities: New Instruments, Expertise, 'Quiet Wing' Available at DOE User Facility

International Nuclear Information System (INIS)

Lea, Alan S.; Kabius, Bernd C.; Arey, Bruce W.; Kovarik, Libor; Wang, Chong M.; Orr, Galya; Lyubinetsky, Igor; Carper, Ross R.

2011-01-01

This feature article is prepared for publication in Microscopy Today. The goal is to communicate the value of the Quiet Wing, EMSL's growing microscopy capability, and the science they enable to the microscopy community and hopefully various related research communities (e.g. catalysis, etc.). The secondary goals are to demonstrate EMSL's leadership in microscopy and show our DOE client we are making excellent use of ARRA and other investments. Although the last decade in electron microscopy has seen tremendous gains in image resolution, new challenges in the field have come to the forefront. First, new ultra-sensitive instruments bring about unprecedented environmental specifications and facility needs for their optimal use. Second, in the quest for higher spatial resolutions, the importance of developing and sharing crucial expertise-from sample preparation to scientific vision-has perhaps been deemphasized. Finally, for imaging to accelerate discoveries related to large scientific and societal problems, in situ capabilities that replicate real-world process conditions are often required to deliver necessary information. This decade, these are among the hurdles leaders in the field are striving to overcome.

Processes influencing model-data mismatch in drought-stressed, fire-disturbed eddy flux sites

Science.gov (United States)

Mitchell, Stephen; Beven, Keith; Freer, Jim; Law, Beverly

2011-06-01

Semiarid forests are very sensitive to climatic change and among the most difficult ecosystems to accurately model. We tested the performance of the Biome-BGC model against eddy flux data taken from young (years 2004-2008), mature (years 2002-2008), and old-growth (year 2000) ponderosa pine stands at Metolius, Oregon, and subsequently examined several potential causes for model-data mismatch. We used the Generalized Likelihood Uncertainty Estimation methodology, which involved 500,000 model runs for each stand (1,500,000 total). Each simulation was run with randomly generated parameter values from a uniform distribution based on published parameter ranges, resulting in modeled estimates of net ecosystem CO2 exchange (NEE) that were compared to measured eddy flux data. Simulations for the young stand exhibited the highest level of performance, though they overestimated ecosystem C accumulation (-NEE) 99% of the time. Among the simulations for the mature and old-growth stands, 100% and 99% of the simulations underestimated ecosystem C accumulation. One obvious area of model-data mismatch is soil moisture, which was overestimated by the model in the young and old-growth stands yet underestimated in the mature stand. However, modeled estimates of soil water content and associated water deficits did not appear to be the primary cause of model-data mismatch; our analysis indicated that gross primary production can be accurately modeled even if soil moisture content is not. Instead, difficulties in adequately modeling ecosystem respiration, mainly autotrophic respiration, appeared to be the fundamental cause of model-data mismatch.

Bioenergy crop models: Descriptions, data requirements and future challenges

Energy Technology Data Exchange (ETDEWEB)

Nair, S. Surendran [University of Tennessee, Knoxville (UTK); Kang, Shujiang [ORNL; Zhang, Xuesong [Pacific Northwest National Laboratory (PNNL); Miguez, Fernando [Iowa State University; Izaurralde, Dr. R. Cesar [Pacific Northwest National Laboratory (PNNL); Post, Wilfred M [ORNL; Dietze, Michael [University of Illinois, Urbana-Champaign; Lynd, L. [Dartmouth College; Wullschleger, Stan D [ORNL

2012-01-01

Field studies that address the production of lignocellulosic biomass as a source of renewable energy provide critical data for the development of bioenergy crop models. A literature survey revealed that 14 models have been used for simulating bioenergy crops including herbaceous and woody bioenergy crops, and for crassulacean acid metabolism (CAM) crops. These models simulate field-scale production of biomass for switchgrass (ALMANAC, EPIC, and Agro-BGC), miscanthus (MISCANFOR, MISCANMOD, and WIMOVAC), sugarcane (APSIM, AUSCANE, and CANEGRO), and poplar and willow (SECRETS and 3PG). Two models are adaptations of dynamic global vegetation models and simulate biomass yields of miscanthus and sugarcane at regional scales (Agro-IBIS and LPJmL). Although it lacks the complexity of other bioenergy crop models, the environmental productivity index (EPI) is the only model used to estimate biomass production of CAM (Agave and Opuntia) plants. Except for the EPI model, all models include representations of leaf area dynamics, phenology, radiation interception and utilization, biomass production, and partitioning of biomass to roots and shoots. A few models simulate soil water, nutrient, and carbon cycle dynamics, making them especially useful for assessing the environmental consequences (e.g., erosion and nutrient losses) associated with the large-scale deployment of bioenergy crops. The rapid increase in use of models for energy crop simulation is encouraging; however, detailed information on the influence of climate, soils, and crop management practices on biomass production is scarce. Thus considerable work remains regarding the parameterization and validation of process-based models for bioenergy crops; generation and distribution of high-quality field data for model development and validation; and implementation of an integrated framework for efficient, high-resolution simulations of biomass production for use in planning sustainable bioenergy systems.

Diagnosis and Quantification of Climatic Sensitivity of Carbon Fluxes in Ensemble Global Ecosystem Models

Science.gov (United States)

Wang, W.; Hashimoto, H.; Milesi, C.; Nemani, R. R.; Myneni, R.

2011-12-01

Terrestrial ecosystem models are primary scientific tools to extrapolate our understanding of ecosystem functioning from point observations to global scales as well as from the past climatic conditions into the future. However, no model is nearly perfect and there are often considerable structural uncertainties existing between different models. Ensemble model experiments thus become a mainstream approach in evaluating the current status of global carbon cycle and predicting its future changes. A key task in such applications is to quantify the sensitivity of the simulated carbon fluxes to climate variations and changes. Here we develop a systematic framework to address this question solely by analyzing the inputs and the outputs from the models. The principle of our approach is to assume the long-term (~30 years) average of the inputs/outputs as a quasi-equlibrium of the climate-vegetation system while treat the anomalies of carbon fluxes as responses to climatic disturbances. In this way, the corresponding relationships can be largely linearized and analyzed using conventional time-series techniques. This method is used to characterize three major aspects of the vegetation models that are mostly important to global carbon cycle, namely the primary production, the biomass dynamics, and the ecosystem respiration. We apply this analytical framework to quantify the climatic sensitivity of an ensemble of models including CASA, Biome-BGC, LPJ as well as several other DGVMs from previous studies, all driven by the CRU-NCEP climate dataset. The detailed analysis results are reported in this study.

Astragaloside IV inhibits pathological functions of gastric cancer-associated fibroblasts.

Science.gov (United States)

Wang, Zhen-Fei; Ma, Da-Guang; Zhu, Zhe; Mu, Yong-Ping; Yang, Yong-Yan; Feng, Li; Yang, Hao; Liang, Jun-Qing; Liu, Yong-Yan; Liu, Li; Lu, Hai-Wen

2017-12-28

To investigate the inhibitory effect of astragaloside IV on the pathological functions of cancer-associated fibroblasts, and to explore the underlying mechanism. Paired gastric normal fibroblast (GNF) and gastric cancer-associated fibroblast (GCAF) cultures were established from resected tissues. GCAFs were treated with vehicle control or different concentrations of astragaloside IV. Conditioned media were prepared from GNFs, GCAFs, control-treated GCAFs, and astragaloside IV-treated GCAFs, and used to culture BGC-823 human gastric cancer cells. Proliferation, migration and invasion capacities of BGC-823 cells were determined by MTT, wound healing, and Transwell invasion assays, respectively. The action mechanism of astragaloside IV was investigated by detecting the expression of microRNAs and the expression and secretion of the oncogenic factor, macrophage colony-stimulating factor (M-CSF), and the tumor suppressive factor, tissue inhibitor of metalloproteinase 2 (TIMP2), in different groups of GCAFs. The expression of the oncogenic pluripotency factors SOX2 and NANOG in BGC-823 cells cultured with different conditioned media was also examined. GCAFs displayed higher capacities to induce BGC-823 cell proliferation, migration, and invasion than GNFs ( P GNFs, GCAFs expressed a lower level of microRNA-214 ( P < 0.01) and a higher level of microRNA-301a ( P < 0.01). Astragaloside IV treatment significantly up-regulated microRNA-214 expression ( P < 0.01) and down-regulated microRNA-301a expression ( P < 0.01) in GCAFs. Reestablishing the microRNA expression balance subsequently suppressed M-CSF production ( P < 0.01) and secretion ( P < 0.05), and elevated TIMP2 production ( P < 0.01) and secretion ( P < 0.05). Consequently, the ability of GCAFs to increase SOX2 and NANOG expression in BGC-823 cells was abolished by astragaloside IV. Astragaloside IV can inhibit the pathological functions of GCAFs by correcting their dysregulation of microRNA expression, and it is

Biogeochemical typing of paddy field by a data-driven approach revealing sub-systems within a complex environment--a pipeline to filtrate, organize and frame massive dataset from multi-omics analyses.

Directory of Open Access Journals (Sweden)

Diogo M O Ogawa

Full Text Available We propose the technique of biogeochemical typing (BGC typing as a novel methodology to set forth the sub-systems of organismal communities associated to the correlated chemical profiles working within a larger complex environment. Given the intricate characteristic of both organismal and chemical consortia inherent to the nature, many environmental studies employ the holistic approach of multi-omics analyses undermining as much information as possible. Due to the massive amount of data produced applying multi-omics analyses, the results are hard to visualize and to process. The BGC typing analysis is a pipeline built using integrative statistical analysis that can treat such huge datasets filtering, organizing and framing the information based on the strength of the various mutual trends of the organismal and chemical fluctuations occurring simultaneously in the environment. To test our technique of BGC typing, we choose a rich environment abounding in chemical nutrients and organismal diversity: the surficial freshwater from Japanese paddy fields and surrounding waters. To identify the community consortia profile we employed metagenomics as high throughput sequencing (HTS for the fragments amplified from Archaea rRNA, universal 16S rRNA and 18S rRNA; to assess the elemental content we employed ionomics by inductively coupled plasma optical emission spectroscopy (ICP-OES; and for the organic chemical profile, metabolomics employing both Fourier transformed infrared (FT-IR spectroscopy and proton nuclear magnetic resonance (1H-NMR all these analyses comprised our multi-omics dataset. The similar trends between the community consortia against the chemical profiles were connected through correlation. The result was then filtered, organized and framed according to correlation strengths and peculiarities. The output gave us four BGC types displaying uniqueness in community and chemical distribution, diversity and richness. We conclude therefore that

Grain yield and arsenic uptake of upland rice inoculated with arbuscular mycorrhizal fungi in As-spiked soils.

Science.gov (United States)

Wu, Fuyong; Hu, Junli; Wu, Shengchun; Wong, Ming Hung

2015-06-01

A pot trial was conducted to investigate the effects of three arbuscular mycorrhizal (AM) fungi species, including Glomus geosporum BGC HUN02C, G. versiforme BGC GD01B, and G. mosseae BGC GD01A, on grain yield and arsenic (As) uptake of upland rice (Zhonghan 221) in As-spiked soils. Moderate levels of AM colonization (24.1-63.1 %) were recorded in the roots of upland rice, and up to 70 mg kg(-1) As in soils did not seem to inhibit mycorrhizal colonization. Positive mycorrhizal growth effects in grain, husk, straw, and root of the upland rice, especially under high level (70 mg kg(-1)) of As in soils, were apparent. Although the effects varied among species of AM fungi, inoculation of AM fungi apparently enhanced grain yield of upland rice without increasing grain As concentrations in As-spiked soils, indicating that AM fungi could alleviate adverse effects on the upland rice caused by As in soils. The present results also show that mycorrhizal inoculation significantly (p rice production when growing in As-contaminated soils.

Ecohydrologic process modeling of mountain block groundwater recharge.

Science.gov (United States)

Magruder, Ian A; Woessner, William W; Running, Steve W

2009-01-01

Regional mountain block recharge (MBR) is a key component of alluvial basin aquifer systems typical of the western United States. Yet neither water scientists nor resource managers have a commonly available and reasonably invoked quantitative method to constrain MBR rates. Recent advances in landscape-scale ecohydrologic process modeling offer the possibility that meteorological data and land surface physical and vegetative conditions can be used to generate estimates of MBR. A water balance was generated for a temperate 24,600-ha mountain watershed, elevation 1565 to 3207 m, using the ecosystem process model Biome-BGC (BioGeochemical Cycles) (Running and Hunt 1993). Input data included remotely sensed landscape information and climate data generated with the Mountain Climate Simulator (MT-CLIM) (Running et al. 1987). Estimated mean annual MBR flux into the crystalline bedrock terrain is 99,000 m(3) /d, or approximately 19% of annual precipitation for the 2003 water year. Controls on MBR predictions include evapotranspiration (radiation limited in wet years and moisture limited in dry years), soil properties, vegetative ecotones (significant at lower elevations), and snowmelt (dominant recharge process). The ecohydrologic model is also used to investigate how climatic and vegetative controls influence recharge dynamics within three elevation zones. The ecohydrologic model proves useful for investigating controls on recharge to mountain blocks as a function of climate and vegetation. Future efforts will need to investigate the uncertainty in the modeled water balance by incorporating an advanced understanding of mountain recharge processes, an ability to simulate those processes at varying scales, and independent approaches to calibrating MBR estimates. Copyright © 2009 The Author(s). Journal compilation © 2009 National Ground Water Association.

Building a Collaboratory in Environmental and Molecular Science

Energy Technology Data Exchange (ETDEWEB)

Kouzes, R.T.; Myers, J.D.; Devaney, D.M.; Dunning, T.H.; Wise, J.A.

1994-03-01

A Collaboratory is a meta-laboratory that spans multiple geographical areas with collaborators interacting via electronic means. Collaboratories are designed to enable close ties between scientists in a given research area, promote collaborations involving scientists in diverse areas, accelerate the development and dissemination of basic knowledge, and minimize the time-lag between discovery and application. PNL is developing the concept of an Environmental and Molecular Sciences Collaboratory (EMSC) as a natural evolution of the EMSL project. The goal of the EMSC is to increase the efficiency of research and reduce the time required to implement new environmental remediation and preservation technologies. The EMSC will leverage the resources (intellectual and physical) of the EMSL by making them more accessible to remote collaborators as well as by making the resources of remote sites available to local researchers. It will provide a common set of computer hardware and software tools to support remote collaboration, a key step in establishing a collaborative culture for scientists in the theoretical, computational, and experimental molecular sciences across the nation. In short, the EMSC will establish and support an `electronic community of scientists researching and developing innovative environmental preservation and restoration technologies.

Building a Collaboratory in Environmental and Molecular Science

International Nuclear Information System (INIS)

Kouzes, R.T.; Myers, J.D.; Devaney, D.M.; Dunning, T.H.; Wise, J.A.

1994-03-01

A Collaboratory is a meta-laboratory that spans multiple geographical areas with collaborators interacting via electronic means. Collaboratories are designed to enable close ties between scientists in a given research area, promote collaborations involving scientists in diverse areas, accelerate the development and dissemination of basic knowledge, and minimize the time-lag between discovery and application. PNL is developing the concept of an Environmental and Molecular Sciences Collaboratory (EMSC) as a natural evolution of the EMSL project. The goal of the EMSC is to increase the efficiency of research and reduce the time required to implement new environmental remediation and preservation technologies. The EMSC will leverage the resources (intellectual and physical) of the EMSL by making them more accessible to remote collaborators as well as by making the resources of remote sites available to local researchers. It will provide a common set of computer hardware and software tools to support remote collaboration, a key step in establishing a collaborative culture for scientists in the theoretical, computational, and experimental molecular sciences across the nation. In short, the EMSC will establish and support an 'electronic community of scientists researching and developing innovative environmental preservation and restoration technologies

基于Biome-BGC模型的西双版纳橡胶林碳收支模拟%Simulation of carbon budget in rubber plantations in Xishuangbanna based on the Biome-BGC model

Institute of Scientific and Technical Information of China (English)

孙燕瓷; 马友鑫; 曹坤芳; 沈金祥; 张一平; 梅岑岑; 刘文俊

2017-01-01

以西双版纳橡胶适宜种植区(海拔550-600m)的橡胶林(Hevea brasiliensis)为研究对象,应用参数同化后的Biome-BGC模型模拟了1959-2012年橡胶林的碳循环.结果表明,(1)与涡度相关监测结果相比,橡胶林年总初级生产力(Gross Primary Productivity,GPP)、年总呼吸(Total Respiration,Rt)的模拟精度分别为98.37％和90％.由于对年GPP的过低估计和对年Rt的过高估计,年净生态系统交换量(Net Ecosystem Exchange,NEE)的模拟值比实测值低157.35 g C m-2 a-1.但若考虑干胶碳(139gCm-2a-1),模拟值与实测值十分接近;(2)橡胶林在模拟进行的前8年里因异养呼吸较高,以碳排放为主,NEE平均约357 gC m-2a-1;之后转为以碳固定为主,NEE平均约-146 g C m-2a-1;(3)橡胶林在40年的更新周期中可固定碳1835 g C m-2,是一个弱的碳汇.但与热带雨林相同周期固碳6720 g C m-2相比,仍为碳源.以上结果为深入了解橡胶种植对区域碳循环的影响提供了科学依据,建议当地政府一方面要有计划的对老胶林进行更新,以维持当前橡胶林生态系统中的碳平衡;另一方面要注重对热带雨林的保护,从而实现区域经济和生态环境保护的协调发展.%The carbon (C) cycle in rubber plantations,which are located in a suitable planting region (altitude 550-600 m) in Xishuangbanna,was simulated using the Biome-BGC model for the period 1959-2012.We obtained the following results.(1) Compared with the actual measurements,the accuracy was 98.37％ and 90％ for the simulated annual gross primary productivity (GPP) and total respiration (Rt),respectively.Because of an underestimate of GPP and an overestimate of Rt,the simulated annual net ecosystem exchange (NEE) was 157.35 g C m-2 a-1 lower than the measured value.However,the accuracy was greatly enhanced when dry rubber C stock (139 g C m-2 a-1) was taken into account.(2) During the initial 8 years,rubber plantation acted as a C source because of the higher

Engineering of lipid prodrug-based, hyaluronic acid-decorated nanostructured lipid carriers platform for 5-fluorouracil and cisplatin combination gastric cancer therapy

Directory of Open Access Journals (Sweden)

Qu CY

2015-06-01

Full Text Available Chun-Ying Qu,1,* Min Zhou,1,* Ying-wei Chen,2 Mei-mei Chen,3 Feng Shen,1 Lei-Ming Xu11Digestive Endoscopic Diagnosis and Treatment Center, Xinhua Hospital, School of Medicine, Shanghai Jiaotong University, Shanghai, People’s Republic of China; 2Shanghai Key Laboratory of Pediatric Gastroenterology and Nutrition, Shanghai, People’s Republic of China; 3Digestive Department, Xinhua Hospital, School of medicine, Shanghai Jiaotong University, Shanghai, People’s Republic of China*These authors contributed equally to this workPurpose: The first-line chemotherapy treatment protocol for gastric cancer is combination chemotherapy of 5-fluorouracil (5-FU and cisplatin (CDDP. The aim of this study was to engineer prodrug-based nanostructured lipid carriers (NLC platform for codelivery of 5-FU and CDDP to enhance therapy and decrease toxicity.Methods: First, 5-FU-stearic acid lipid conjugate was synthesized by two steps. Second, 5-FU-stearic acid prodrug and CDDP were loaded in NLC. Finally, hyaluronic acid (HA was coated onto NLC surface. Average size, zeta potential, and drug loading capacity of NLC were evaluated. Human gastric cancer cell line BGC823 (BGC823 cells was used for the testing of in vitro cytotoxicity assays. In vivo antitumor activity of NLC was evaluated in mice bearing BGC823 cells model.Results: HA-coated 5-FU-stearic acid prodrug and CDDP-loaded NLC (HA-FU/C-NLC showed a synergistic effect in combination therapy and displayed the greatest antitumor activity than all of the free drugs or uncoated NLC in vitro and in vivo.Conclusion: This work reveals that HA-coated NLC could be used as a novel carrier to codeliver 5-FU and CDDP for gastric cancer therapy. HA-FU/C-NLC could be a promising targeted and combinational therapy in nanomedicine.Keywords: gastric cancer, nanostructured lipid carriers, hyaluronic acid, combination chemotherapy, lipid prodrug

Integration of ground and satellite data to estimate the forest carbon fluxes of a Mediterranean region

Science.gov (United States)

Chiesi, M.; Maselli, F.; Moriondo, M.; Fibbi, L.; Bindi, M.; Running, S. W.

2009-04-01

reference series of monthly gross primary production (GPP) estimates. In particular this model estimates forest GPP as function of photosynthetically active radiation absorbed by vegetation (Veroustraete et al., 2002) combined with ground based estimates of incoming solar radiation and air temperature. These GPP values are used as reference data to both calibrate and integrate the functions of a more complex bio-geochemical model, BIOME-BGC, which is capable of simulating all main ecosystem processes. This model requires: daily climate data, information on the general environment (i.e. soil, vegetation and site conditions) and parameters describing the ecophysiological characteristics of vegetation. Both C-Fix and BIOME-BGC compute GPP as an expression of total, or potential, productivity of an ecosystem in equilibrium with the environment. This makes the GPP estimates of the two models practically inter-comparable and opens the possibility of using the more accurate GPP estimates of C-Fix to both calibrate BIOME-BGC and stabilize its outputs (Chiesi et al., 2007). In particular, by integrating BIOME-BGC respiration estimates to those of C-Fix, forest fluxes for the entire region are obtained, which are referable to ecosystems at equilibrium (climax) condition. These estimates are converted into NPP and NEE of real forests relying on a specifically developed conceptual framework which uses the ratio of actual over potential stand volume as indicator of ecosystem distance from climax. The accuracy of the estimated net carbon exchanges is finally evaluated against ground data derived from a recent forest inventory and from two eddy covariance flux towers located in Tuscany (San Rossore and Lecceto). The results of both these comparisons were quite positive, indicating the good capability of the method for forest carbon flux estimation in Mediterranean areas.

Scientific Discovery through Advanced Computing (SciDAC-3) Partnership Project Annual Report

Energy Technology Data Exchange (ETDEWEB)

Hoffman, Forest M. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States); Bochev, Pavel B. [Sandia National Lab. (SNL-NM), Albuquerque, NM (United States); Cameron-Smith, Philip J.. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Easter, Richard C [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Elliott, Scott M. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Ghan, Steven J. [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Liu, Xiaohong [Univ. of Wyoming, Laramie, WY (United States); Lowrie, Robert B. [Los Alamos National Lab. (LANL), Los Alamos, NM (United States); Lucas, Donald D. [Lawrence Livermore National Lab. (LLNL), Livermore, CA (United States); Ma, Po-lun [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Sacks, William J. [National Center for Atmospheric Research (NCAR), Boulder, CO (United States); Shrivastava, Manish [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Singh, Balwinder [Pacific Northwest National Lab. (PNNL), Richland, WA (United States); Tautges, Timothy J. [Argonne National Lab. (ANL), Argonne, IL (United States); Taylor, Mark A. [Sandia National Lab. (SNL-CA), Livermore, CA (United States); Vertenstein, Mariana [National Center for Atmospheric Research (NCAR), Boulder, CO (United States); Worley, Patrick H. [Oak Ridge National Lab. (ORNL), Oak Ridge, TN (United States)

2014-01-15

The Applying Computationally Efficient Schemes for BioGeochemical Cycles ACES4BGC Project is advancing the predictive capabilities of Earth System Models (ESMs) by reducing two of the largest sources of uncertainty, aerosols and biospheric feedbacks, with a highly efficient computational approach. In particular, this project is implementing and optimizing new computationally efficient tracer advection algorithms for large numbers of tracer species; adding important biogeochemical interactions between the atmosphere, land, and ocean models; and applying uncertainty quanti cation (UQ) techniques to constrain process parameters and evaluate uncertainties in feedbacks between biogeochemical cycles and the climate system.

Progesterone Receptor Membrane Component 1 (PGRMC1 in cell division: its role in bovine granulosa cells mitosis

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Laura Terzaghi

2015-07-01

Full Text Available The present studies were aimed to assess Progesterone Receptor Membrane Component-1 (PGRMC1 role in regulating bovine granulosa cells (bGC mitosis. First, we performed immunofluorescence studies on in vitro cultured bGC collected from antral follicles, which showed that PGRMC1 localizes to the spindle apparatus in mitotic cells. Then, to evaluate PGRMC1 effect on cell proliferation we silenced its expression with RNA interference technique (RNAi. Quantitative RT-PCR and immunoblotting confirmed down-regulation of PGRMC1 expression, when compared to CTRL-RNAi treated bGC (p<0.05. After 72h of culture, PGRMC1 silencing determined a lower growth rate (p<0.05 and a higher percentage of cells arrested at G2/M phase as assessed by flowcytometry (p<0.05. Accordingly, live imaging studies revealed more aberrant mitosis and a delayed M-phase in PGRMC1-RNAi treated cells compared to CTRL-RNAi group (p<0.05. These data confirmed that PGRMC1 is directly involved in bGC mitosis and ongoing preliminary studies are aimed to elucidate its putative mechanisms of action. Since PGRMC1 is a membrane protein, we hypothesize its possible involvement in vesicular trafficking and endocytosis, which is in turn an important process to assure proper cell division. To assess this hypothesis, we have preliminarily conducted immunofluorescence and in situ proximity ligation assay experiments that showed PGRMC1 co-localization and direct interaction with clathrin. This is important since clathrin is an essential protein for both endosomes formation, and cell division acting directly on the spindle apparatus. Thus our studies set the stage for analysis aimed to further characterize PGRMC1’s mechanism of action in mitotic cell.

Multi model and data analysis of terrestrial carbon cycle in Asia: From 2001 to 2006

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Ichii, K.; Takahashi, K.; Suzuki, T.; Ueyama, M.; Sasai, T.; Hirata, R.; Saigusa, N.

2009-12-01

Accurate monitoring and modeling of the current status and their causes of interannual variations in terrestrial carbon cycle are important. Recently, many studies analyze using multiple methods (e.g. satellite data and ecosystem models) to clarify the underlain mechanisms and recent trend since each single methodology contains its own biases. The multi-model and data ensemble approach is a powerful method to clarify the current status and their underlain mechanisms. So far, many studies using multiple sources of data and models are conducted in North America, Europe, Africa, Amazon, and Japan, however, studies in monsoon Asia are lacking. In this study, we analyzed interannual variations in terrestrial carbon cycles in monsoon Asia, and evaluated current capability of remote sensing and ecosystem model to capture them based on multiple model and data sources; flux observations, remote sensing (e.g. MODIS, AVHRR, and VGT), and ecosystem models (e.g. SVM, BEAMS, CASA, Biome-BGC, LPJ, and TRIFFID). The satellite observation and ecosystem models show clear characteristics in interannual variabilities in satellite-based NDVI and model-based GPP. These are characterized by (1) spring NDVI and modeled GPP anomalies related to temperature anomaly in mid and high latitudinal areas (positive anomalies in 2002 and 2005 and negative one in 2006), (2) NDVI and GPP anomalies in southeastern and central Asia related to precipitation (e.g. India from 2003-2006), and (3) summer NDVI and GPP anomalies in 2003 related to strong anomalies in solar radiations. NDVI anomalies related to radiation ones (2003 summer) were not accurately captured by terrestrial ecosystem models. For example, LPJ model rather shows GPP positive anomalies in Far East Asia regions probably caused by positive precipitation anomalies. Further analysis requires improvement of models to reproduce more consistent spatial patterns in NDVI anomaly, and longer term analysis (e.g. after 1982).

Design, Synthesis and Biological Evaluation of C(6-Modified Celastrol Derivatives as Potential Antitumor Agents

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Kaiyong Tang

2014-07-01

Full Text Available New six C6-celastrol derivatives were designed, synthesized, and evaluated for their in vitro cytotoxic activities against nine human cancer cell lines (BGC-823, H4, Bel7402, H522, Colo 205, HepG2 and MDA-MB-468. The results showed that most of the compounds displayed potent inhibition against BGC823, H4, and Bel7402, with IC50s of 1.84–0.39 μM. The best compound NST001A was tested in an in vivo antitumor assay on nude mice bearing Colo 205 xenografts, and showed significant inhibition of tumor growth at low concentrations. Therefore, celastrol C-6 derivatives are potential drug candidates for treating cancer.

Genome engineering for microbial natural product discovery.

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Choi, Si-Sun; Katsuyama, Yohei; Bai, Linquan; Deng, Zixin; Ohnishi, Yasuo; Kim, Eung-Soo

2018-03-03

The discovery and development of microbial natural products (MNPs) have played pivotal roles in the fields of human medicine and its related biotechnology sectors over the past several decades. The post-genomic era has witnessed the development of microbial genome mining approaches to isolate previously unsuspected MNP biosynthetic gene clusters (BGCs) hidden in the genome, followed by various BGC awakening techniques to visualize compound production. Additional microbial genome engineering techniques have allowed higher MNP production titers, which could complement a traditional culture-based MNP chasing approach. Here, we describe recent developments in the MNP research paradigm, including microbial genome mining, NP BGC activation, and NP overproducing cell factory design. Copyright © 2018 Elsevier Ltd. All rights reserved.

Modeling effects of hydrological changes on the carbon and nitrogen balance of oak in floodplains.

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Pietsch, Stephan A; Hasenauer, Hubert; Kucera, Jiŕi; Cermák, Jan

2003-08-01

We extended the applicability of the ecosystem model BIOME-BGC to floodplain ecosystems to study effects of hydrological changes on Quercus robur L. stands. The extended model assesses floodplain peculiarities, i.e., seasonal flooding and water infiltration from the groundwater table. Our interest was the tradeoff between (a). maintaining regional applicability with respect to available model input information, (b). incorporating the necessary mechanistic detail and (c). keeping the computational effort at an acceptable level. An evaluation based on observed transpiration, timber volume, soil carbon and soil nitrogen content showed that the extended model produced unbiased results. We also investigated the impact of hydrological changes on our oak stands as a result of the completion of an artificial canal network in 1971, which has stopped regular springtime flooding. A comparison of the 11 years before versus the 11 years after 1971 demonstrated that the hydrological changes affected mainly the annual variation across years in leaf area index (LAI) and soil carbon and nitrogen sequestration, leading to stagnation of carbon and nitrogen stocks, but to an increase in the variance across years. However, carbon sequestration to timber was unaffected and exhibited no significant change in cross-year variation. Finally, we investigated how drawdown of the water table, a general problem in the region, affects modeled ecosystem behavior. We found a further amplification of cross-year LAI fluctuations, but the variance in soil carbon and nitrogen stocks decreased. Volume increment was unaffected, suggesting a stabilization of the ecosystem two decades after implementation of water management measures.

Mutational Biases and GC-Biased Gene Conversion Affect GC Content in the Plastomes of Dendrobium Genus

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Niu, Zhitao; Xue, Qingyun; Wang, Hui; Xie, Xuezhu; Zhu, Shuying; Liu, Wei; Ding, Xiaoyu

2017-01-01

The variation of GC content is a key genome feature because it is associated with fundamental elements of genome organization. However, the reason for this variation is still an open question. Different kinds of hypotheses have been proposed to explain the variation of GC content during genome evolution. However, these hypotheses have not been explicitly investigated in whole plastome sequences. Dendrobium is one of the largest genera in the orchid species. Evolutionary studies of the plastomic organization and base composition are limited in this genus. In this study, we obtained the high-quality plastome sequences of D. loddigesii and D. devonianum. The comparison results showed a nearly identical organization in Dendrobium plastomes, indicating that the plastomic organization is highly conserved in Dendrobium genus. Furthermore, the impact of three evolutionary forces—selection, mutational biases, and GC-biased gene conversion (gBGC)—on the variation of GC content in Dendrobium plastomes was evaluated. Our results revealed: (1) consistent GC content evolution trends and mutational biases in single-copy (SC) and inverted repeats (IRs) regions; and (2) that gBGC has influenced the plastome-wide GC content evolution. These results suggest that both mutational biases and gBGC affect GC content in the plastomes of Dendrobium genus. PMID:29099062

Investigation of iron film-substrate interfaces using Rutherford backscattering and channeling techniques

International Nuclear Information System (INIS)

Maheswaran, S.; Thevuthasan, S.

1999-01-01

Thin films of α-Fe 2 O 3 (0001) (hematite) were epitaxially grown on Al 2 O 3 (0001) substrates using the new molecular beam epitaxy (MBE) system at the Environmental Molecular Sciences Laboratory (EMSL). We have investigated the interface between the hematite films and sapphire substrates using Rutherford Backscattering (RBS) and channeling experiments. Theoretical simulations were performed using VEGAS code to investigate the surface and interface structural properties of the films

Toward Sub-seasonal to Seasonal Arctic Sea Ice Forecasting Using the Regional Arctic System Model (RASM)

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Kamal, S.; Maslowski, W.; Roberts, A.; Osinski, R.; Cassano, J. J.; Seefeldt, M. W.

2017-12-01

The Regional Arctic system model has been developed and used to advance the current state of Arctic modeling and increase the skill of sea ice forecast. RASM is a fully coupled, limited-area model that includes the atmosphere, ocean, sea ice, land hydrology and runoff routing components and the flux coupler to exchange information among them. Boundary conditions are derived from NCEP Climate Forecasting System Reanalyses (CFSR) or Era Iterim (ERA-I) for hindcast simulations or from NCEP Coupled Forecast System Model version 2 (CFSv2) for seasonal forecasts. We have used RASM to produce sea ice forecasts for September 2016 and 2017, in contribution to the Sea Ice Outlook (SIO) of the Sea Ice Prediction Network (SIPN). Each year, we produced three SIOs for the September minimum, initialized on June 1, July 1 and August 1. In 2016, predictions used a simple linear regression model to correct for systematic biases and included the mean September sea ice extent, the daily minimum and the week of the minimum. In 2017, we produced a 12-member ensemble on June 1 and July 1, and 28-member ensemble August 1. The predictions of September 2017 included the pan-Arctic and regional Alaskan sea ice extent, daily and monthly mean pan-Arctic maps of sea ice probability, concentration and thickness. No bias correction was applied to the 2017 forecasts. Finally, we will also discuss future plans for RASM forecasts, which include increased resolution for model components, ecosystem predictions with marine biogeochemistry extensions (mBGC) to the ocean and sea ice components, and feasibility of optional boundary conditions using the Navy Global Environmental Model (NAVGEM).

Elevated CO2 induces changes in the ecohydrological functions of forests - from mechanisms to models

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Pötzelsberger, Elisabeth; Warren, Jeffrey M.; Wullschleger, Stan D.; Thornton, Peter E.; Norby, Richard J.; Hasenauer, Hubert

2010-05-01

Forests are known to considerably influence ecosystem water balance as a result of the many dynamic interactions between the plant physiology, morphology, phenology and other biophysical properties and environmental conditions. A changing climate will exert a new environmental setting for the forests and the biological feedbacks will be considerable. With the mechanistic ecosystem model Biome-BGC the dense net of cause-response relationships among carbon, nitrogen, water and energy cycles at a free-air CO2 enrichment (FACE) site in a North American deciduous broadleaved forest can be represented. At the Oak Ridge National Laboratory (ORNL) closed canopy sweetgum plantation elevated CO2 caused a decrease in stomatal conductance, and concurrent changes in daily transpiration were observed. This is in agreement with data from other FACE experiments. At the ORNL FACE site average transpiration reduction in a growing season was 10-16%, with 7-16% during mid summer, depending on the year. After parameterization of the model for this ecosystem the observed transpiration patterns could be well represented. Most importantly, the complete water budget at the site could be described and increased outflow could be observed (~15%). This yields crucial information for broader scale future water budget simulations. Changes in the water balance of deciduous forests will affect a wide range of ecosystem functions, from decomposition, over carbon and nutrient cycling to plant-plant competition and species composition.

Basal ganglia calcification as a putative cause for cognitive decline.

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de Oliveira, João Ricardo Mendes; de Oliveira, Matheus Fernandes

2013-01-01

Basal ganglia calcifications (BGC) may be present in various medical conditions, such as infections, metabolic, psychiatric and neurological diseases, associated with different etiologies and clinical outcomes, including parkinsonism, psychosis, mood swings and dementia. A literature review was performed highlighting the main neuropsychological findings of BGC, with particular attention to clinical reports of cognitive decline. Neuroimaging studies combined with neuropsychological analysis show that some patients have shown progressive disturbances of selective attention, declarative memory and verbal perseveration. Therefore, the calcification process might represent a putative cause for dementia syndromes, suggesting a probable link among calcinosis, the aging process and eventually with neuronal death. The increasing number of reports available will foster a necessary discussion about cerebral calcinosis and its role in determining symptomatology in dementia patients.

Mapping and modeling the biogeochemical cycling of turf grasses in the United States.

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Milesi, Cristina; Running, Steven W; Elvidge, Christopher D; Dietz, John B; Tuttle, Benjamin T; Nemani, Ramakrishna R

2005-09-01

Turf grasses are ubiquitous in the urban landscape of the United States and are often associated with various types of environmental impacts, especially on water resources, yet there have been limited efforts to quantify their total surface and ecosystem functioning, such as their total impact on the continental water budget and potential net ecosystem exchange (NEE). In this study, relating turf grass area to an estimate of fractional impervious surface area, it was calculated that potentially 163,800 km2 (+/- 35,850 km2) of land are cultivated with turf grasses in the continental United States, an area three times larger than that of any irrigated crop. Using the Biome-BGC ecosystem process model, the growth of warm-season and cool-season turf grasses was modeled at a number of sites across the 48 conterminous states under different management scenarios, simulating potential carbon and water fluxes as if the entire turf surface was to be managed like a well-maintained lawn. The results indicate that well-watered and fertilized turf grasses act as a carbon sink. The potential NEE that could derive from the total surface potentially under turf (up to 17 Tg C/yr with the simulated scenarios) would require up to 695 to 900 liters of water per person per day, depending on the modeled water irrigation practices, suggesting that outdoor water conservation practices such as xeriscaping and irrigation with recycled waste-water may need to be extended as many municipalities continue to face increasing pressures on freshwater.

Effects of gene silencing of CypB on gastric cancer cells.

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Guo, Feng; Zhang, Ying; Zhao, Chun-Na; Li, Lin; Guo, Yan-Jun

2015-04-01

To determine the effect of gene silencing of cyclophilin B (CypB) on growth and proliferation of gastric cancer cells. CypB siRNA lentivirus (LV-CypB-si) and control lentivirus (LV-si-con) were produced. CypB expression in gastric cancer cell lines was detected by Western blot. BGC823 and SGC7901 cells were chosen to be infected with LV-si-con and LV-CypB-si, and stable transfectants were isolated. The cell groups transfected with LV-CypB-siRNA, LV-siRNA-con and transfected no carrier were served as the experimental group, the implicit control group and the blank control group respectively. MTT and colony formation assays were used to examine the effect of CypB on the cell growth and proliferation in vitro. Cell cycle was analyzed with flow cytometry. The expression of VEGFR of BGC823-si and SGC7901-si was detected by Western blot. Gene silencing of CypB can inhibit gastric cancer cell growth, proliferation, cell cycle progress and tumorigenesis. CypB expression level was obviously higher in SGC7901 and BGC823 than MKN28 and GES. These two cell lines were infected with LV-si-con and LV-CypB-si respectively. MTT and cloney formation assays showed a significantly decreased rate of cell proliferation from the forth day or the fifth day in cells transfected with LV-CypB-si (PCypB resulted in slightly decreased percentage of S phase and increased percentage of G1 (PCypB could promote the G1-S transition of gastric cancer cell. In addition, the expression of VEGF of BGC823 and SGC7901 transfected with CypB siRNA was reduced in comparison with the implicit control group and the blank control group. Gene silencing of CypB decreases gastric cancer cells proliferation and in vivo tumorigenesis. These findings indiccate CypB could be a potential biomarker and therapeutic target for gastric cancer. Copyright © 2015 Hainan Medical College. Production and hosting by Elsevier B.V. All rights reserved.

Antitumor activity of ginseng sapogenins, 25-OH-PPD and 25-OCH3-PPD, on gastric cancer cells.

Science.gov (United States)

Zhao, Chen; Su, Guangyue; Wang, Xude; Zhang, Xiaoshu; Guo, Shuang; Zhao, Yuqing

2016-01-01

25-Hydroxyprotopanaxadiol (25-OH-PPD) and 25-methoxylprotopanaxadiol (25-OCH3-PPD), two ginseng sapogenins, have potent antitumor activity and their effects on gastric cancer (BGC-823, SGC-7901, MKN-28) cells and a gastric mucosa (GES-1) cell line are reported. Both compounds significantly inhibited the growth of gastric cancer cells, while having lesser inhibitory effects on GES-1 cells by MTT assay. A mechanistic study revealed that the two ginseng sapogenins could induce apoptosis in BGC-823 cells by morphological observation, DNA fragmentation, flow cytometry and western blot analysis. Besides, the apoptosis was inhibited by Ac-DEVD-CHO, a caspase 3 inhibitor, which was confirmed by cell viability analysis. These results indicate that 25-OH-PPD and 25-OCH3-PPD have potential to be promising agents for the treatment of gastric cancer.

A summary of ecological investigations at the burial ground complex, Savannah River Site - 1994

Energy Technology Data Exchange (ETDEWEB)

Friday, G.P.; Hartman, G.D.; Mackey, H.E. Jr.; Riley, R.S.; Roach, J.L.; Specht, W.L.; Westbury, H.M.; Wike, L.D.

1994-11-01

This report summarizes the results of three ecological investigations that were conducted in 1994 at the Burial Ground Complex (BGC) at the Savannah River Site (SRS). The three topics of study included remote sensing, aquatic toxicity testing, and qualitative surveys of herpetofauna and small mammals. Interim reports from each investigation are included in the appendices (A, B, and C). The objectives of the remote sensing effort were to compile historical aerial photography of the BGC and to develop a land use/cover map of the complex using recent aerial imagery. The goal of the aquatic toxicity testing was to determine if surface waters were toxic to aquatic biota whereas the objectives of the vertebrate surveys were to identify the species diversity and relative abundances of amphibians, reptiles, and small mammals inhabiting the study area.

Basal ganglia calcification as a putative cause for cognitive decline

Directory of Open Access Journals (Sweden)

João Ricardo Mendes de Oliveira

Full Text Available ABSTRACT Basal ganglia calcifications (BGC may be present in various medical conditions, such as infections, metabolic, psychiatric and neurological diseases, associated with different etiologies and clinical outcomes, including parkinsonism, psychosis, mood swings and dementia. A literature review was performed highlighting the main neuropsychological findings of BGC, with particular attention to clinical reports of cognitive decline. Neuroimaging studies combined with neuropsychological analysis show that some patients have shown progressive disturbances of selective attention, declarative memory and verbal perseveration. Therefore, the calcification process might represent a putative cause for dementia syndromes, suggesting a probable link among calcinosis, the aging process and eventually with neuronal death. The increasing number of reports available will foster a necessary discussion about cerebral calcinosis and its role in determining symptomatology in dementia patients

A summary of ecological investigations at the burial ground complex, Savannah River Site - 1994

International Nuclear Information System (INIS)

Friday, G.P.; Hartman, G.D.; Mackey, H.E. Jr.; Riley, R.S.; Roach, J.L.; Specht, W.L.; Westbury, H.M.; Wike, L.D.

1994-11-01

This report summarizes the results of three ecological investigations that were conducted in 1994 at the Burial Ground Complex (BGC) at the Savannah River Site (SRS). The three topics of study included remote sensing, aquatic toxicity testing, and qualitative surveys of herpetofauna and small mammals. Interim reports from each investigation are included in the appendices (A, B, and C). The objectives of the remote sensing effort were to compile historical aerial photography of the BGC and to develop a land use/cover map of the complex using recent aerial imagery. The goal of the aquatic toxicity testing was to determine if surface waters were toxic to aquatic biota whereas the objectives of the vertebrate surveys were to identify the species diversity and relative abundances of amphibians, reptiles, and small mammals inhabiting the study area

Scale-dependent performances of CMIP5 earth system models in simulating terrestrial vegetation carbon

Science.gov (United States)

Jiang, L.; Luo, Y.; Yan, Y.; Hararuk, O.

2013-12-01

Mitigation of global changes will depend on reliable projection for the future situation. As the major tools to predict future climate, Earth System Models (ESMs) used in Coupled Model Intercomparison Project Phase 5 (CMIP5) for the IPCC Fifth Assessment Report have incorporated carbon cycle components, which account for the important fluxes of carbon between the ocean, atmosphere, and terrestrial biosphere carbon reservoirs; and therefore are expected to provide more detailed and more certain projections. However, ESMs are never perfect; and evaluating the ESMs can help us to identify uncertainties in prediction and give the priorities for model development. In this study, we benchmarked carbon in live vegetation in the terrestrial ecosystems simulated by 19 ESMs models from CMIP5 with an observationally estimated data set of global carbon vegetation pool 'Olson's Major World Ecosystem Complexes Ranked by Carbon in Live Vegetation: An Updated Database Using the GLC2000 Land Cover Product' by Gibbs (2006). Our aim is to evaluate the ability of ESMs to reproduce the global vegetation carbon pool at different scales and what are the possible causes for the bias. We found that the performance CMIP5 ESMs is very scale-dependent. While CESM1-BGC, CESM1-CAM5, CESM1-FASTCHEM and CESM1-WACCM, and NorESM1-M and NorESM1-ME (they share the same model structure) have very similar global sums with the observation data but they usually perform poorly at grid cell and biome scale. In contrast, MIROC-ESM and MIROC-ESM-CHEM simulate the best on at grid cell and biome scale but have larger differences in global sums than others. Our results will help improve CMIP5 ESMs for more reliable prediction.

CT brain demonstration of basal ganglion calcification in adult HIV ...

African Journals Online (AJOL)

brain barrier has been postulated. Calcification of the basal ganglia in encephalopathic HIV/AIDS children has been relatively well documented. Only two adult HIV cases with basal ganglion calcification (BGC) have been reported in the literature.

Carbon Cycle Extremes in the 22nd and 23rd Century and Attribution to Climate Drivers

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Sharma, B.; Hoffman, F. M.; Kumar, J.; Ganguly, A. R.

2017-12-01

Terrestrial ecosystems are affected by climate extremes such as droughts and heatwaves which have a potential to modify carbon budgets. Previous studies have found the impact of negative extremes in gross primary production (GPP) and net ecosystem production (NEP) to be diminishing towards the end of the 21st century relative to the overall increase in global carbon uptake. A few studies have estimated that the land use changes (e.g. from forest to croplands) would cause more cumulative carbon loss between 1850 and 2300 than due to climate change caused by anthropogenic forcing over the same interval. However, not many studies have looked at the impact of carbon cycle extremes beyond 21st century especially under with and without LULCC scenarios. This study aims to analyze spatiotemporal extreme events in GPP and NEP using the model CESM1-BGC and understand the climate drivers they can be attributed to. Using the Community Earth System Model (CESM1-BGC), we investigated the impact of climate extremes on the terrestrial ecosystem using simulations forced by Representative Concentration Pathway 8.5 with and without land-use and land-cover change (LULCC). To capture non-linear feedbacks in the global carbon cycle, both these simulations were extended to the year 2300. It is important to understand the impacts of climate extremes on the carbon cycle for quantifying carbon-cycle climate feedback and estimating future atmospheric CO2 levels and temperature increases. The results of this study would help improve our understanding of carbon cycle extremes and inform future mitigation policy.

A Sensitivity Analysis Method to Study the Behavior of Complex Process-based Models

Science.gov (United States)

Brugnach, M.; Neilson, R.; Bolte, J.

2001-12-01

the output are identified, the causes of its variability can be found. Some of the advantages of this approach are that it reduces the dimensionality of the search space, it facilitates the interpretation of the results and it provides information that allows exploration of uncertainty at the process level, and how it might affect model output. We present an example using the vegetation model BIOME-BGC.

Global and regional effects of land-use change on climate in 21. century simulations with interactive carbon cycle

International Nuclear Information System (INIS)

Boysen, L.R.; Brovkin, V.; Pongratz, J.; Gayler, V.; Arora, V.K.; Cadule, P.; Noblet-Ducoudre, N. de; Kato, E.

2014-01-01

Bio-geophysical (BGP) and biogeochemical (BGC) effects of land-use and land cover change (LULCC) are separated at the global and regional scales in new interactive CO 2 simulations for the 21. century. Results from four earth system models (ESMs) are analyzed for the future RCP8.5 scenario from simulations with and without land-use and land cover change (LULCC), contributing to the Land-Use and Climate, Identification of robust impacts (LUCID) project. Over the period 2006-2100, LULCC causes the atmospheric CO 2 concentration to increase by 12, 22, and 66 ppm in CanESM2, MIROC-ESM, and MPI-ESM-LR, respectively. Statistically significant changes in global near-surface temperature are found in three models with a BGC induced global mean annual warming between 0.07 and 0.23 K. BGP-induced responses are simulated by three models in areas of intense LULCC of varying sign and magnitude (between -0.47 and 0.10 K). Modifications of the land carbon pool by LULCC are disentangled in accordance with processes that can lead to increases and decreases in this carbon pool. Global land carbon losses due to LULCC are simulated by all models: 218, 57, 35 and 34 Gt C by MPI-ESM-LR, MIROC-ESM, IPSL-CM5A-LR and CanESM2, respectively. On the contrary, the CO 2 -fertilization effect caused by elevated atmospheric CO 2 concentrations due to LULCC leads to a land carbon gain of 39 Gt C in MPI-ESM-LR and is almost negligible in the other models. A substantial part of the spread in models' responses to LULCC is attributed to the differences in implementation of LULCC (e.g., whether pastures or crops are simulated explicitly) and the simulation of specific processes. Simple idealized experiments with clear protocols for implementing LULCC in ESMs are needed to increase the understanding of model responses and the statistical significance of results, especially when analyzing the regional-scale impacts of LULCC. (authors)

Global and regional effects of land-use change on climate in 21st century simulations with interactive carbon cycle

Directory of Open Access Journals (Sweden)

L. R. Boysen

2014-09-01

Full Text Available Biogeophysical (BGP and biogeochemical (BGC effects of land-use and land cover change (LULCC are separated at the global and regional scales in new interactive CO2 simulations for the 21st century. Results from four earth system models (ESMs are analyzed for the future RCP8.5 scenario from simulations with and without land-use and land cover change (LULCC, contributing to the Land-Use and Climate, IDentification of robust impacts (LUCID project. Over the period 2006–2100, LULCC causes the atmospheric CO2 concentration to increase by 12, 22, and 66 ppm in CanESM2, MIROC-ESM, and MPI-ESM-LR, respectively. Statistically significant changes in global near-surface temperature are found in three models with a BGC-induced global mean annual warming between 0.07 and 0.23 K. BGP-induced responses are simulated by three models in areas of intense LULCC of varying sign and magnitude (between −0.47 and 0.10 K. Modifications of the land carbon pool by LULCC are disentangled in accordance with processes that can lead to increases and decreases in this carbon pool. Global land carbon losses due to LULCC are simulated by all models: 218, 57, 35 and 34 Gt C by MPI-ESM-LR, MIROC-ESM, IPSL-CM5A-LR and CanESM2, respectively. On the contrary, the CO2-fertilization effect caused by elevated atmospheric CO2 concentrations due to LULCC leads to a land carbon gain of 39 Gt C in MPI-ESM-LR and is almost negligible in the other models. A substantial part of the spread in models' responses to LULCC is attributed to the differences in implementation of LULCC (e.g., whether pastures or crops are simulated explicitly and the simulation of specific processes. Simple idealized experiments with clear protocols for implementing LULCC in ESMs are needed to increase the understanding of model responses and the statistical significance of results, especially when analyzing the regional-scale impacts of LULCC.

Biased Gene Conversion and GC-Content Evolution in the Coding Sequences of Reptiles and Vertebrates

Science.gov (United States)

Figuet, Emeric; Ballenghien, Marion; Romiguier, Jonathan; Galtier, Nicolas

2015-01-01

Mammalian and avian genomes are characterized by a substantial spatial heterogeneity of GC-content, which is often interpreted as reflecting the effect of local GC-biased gene conversion (gBGC), a meiotic repair bias that favors G and C over A and T alleles in high-recombining genomic regions. Surprisingly, the first fully sequenced nonavian sauropsid (i.e., reptile), the green anole Anolis carolinensis, revealed a highly homogeneous genomic GC-content landscape, suggesting the possibility that gBGC might not be at work in this lineage. Here, we analyze GC-content evolution at third-codon positions (GC3) in 44 vertebrates species, including eight newly sequenced transcriptomes, with a specific focus on nonavian sauropsids. We report that reptiles, including the green anole, have a genome-wide distribution of GC3 similar to that of mammals and birds, and we infer a strong GC3-heterogeneity to be already present in the tetrapod ancestor. We further show that the dynamic of coding sequence GC-content is largely governed by karyotypic features in vertebrates, notably in the green anole, in agreement with the gBGC hypothesis. The discrepancy between third-codon positions and noncoding DNA regarding GC-content dynamics in the green anole could not be explained by the activity of transposable elements or selection on codon usage. This analysis highlights the unique value of third-codon positions as an insertion/deletion-free marker of nucleotide substitution biases that ultimately affect the evolution of proteins. PMID:25527834

Synthesis of Remote Sensing and Field Observations to Model and Understand Disturbance and Climate Effects on the Carbon Balance of Oregon & Northern California

Energy Technology Data Exchange (ETDEWEB)

Beverly Law; David Turner; Warren Cohen; Mathias Goeckede

2008-05-22

The goal is to quantify and explain the carbon (C) budget for Oregon and N. California. The research compares "bottom -up" and "top-down" methods, and develops prototype analytical systems for regional analysis of the carbon balance that are potentially applicable to other continental regions, and that can be used to explore climate, disturbance and land-use effects on the carbon cycle. Objectives are: 1) Improve, test and apply a bottom up approach that synthesizes a spatially nested hierarchy of observations (multispectral remote sensing, inventories, flux and extensive sites), and the Biome-BGC model to quantify the C balance across the region; 2) Improve, test and apply a top down approach for regional and global C flux modeling that uses a model-data fusion scheme (MODIS products, AmeriFlux, atmospheric CO2 concentration network), and a boundary layer model to estimate net ecosystem production (NEP) across the region and partition it among GPP, R(a) and R(h). 3) Provide critical understanding of the controls on regional C balance (how NEP and carbon stocks are influenced by disturbance from fire and management, land use, and interannual climate variation). The key science questions are, "What are the magnitudes and distributions of C sources and sinks on seasonal to decadal time scales, and what processes are controlling their dynamics? What are regional spatial and temporal variations of C sources and sinks? What are the errors and uncertainties in the data products and results (i.e., in situ observations, remote sensing, models)?

Evaluation of Apoptotic and Growth Inhibitory Activity of Phloretin in ...

African Journals Online (AJOL)

Nuclear Magnetic Resonance (NMR), 13C-NMR and electrospray ionization tandem ... this effectively induced cleavage of anti-poly (ADP-ribose) polymerase (PARP) as well as downregulation of Bcl2 protein expression in BGC823 cells after 24 h ...

Molecular science solving global problems

International Nuclear Information System (INIS)

Dunning, T.H. Jr.; Stults, B.R.

1995-01-01

From the late 1940s to the late 1980s, the Department of Energy (DOE) had a critical role in the Cold War. Many sites were built to contribute to the nation's nuclear weapons effort. However, not enough attention was paid to how the waste generated at these facilities should be handled. As a result, a number of sites fouled the soil around them or dumped low-level radioactive waste into nearby rivers. A DOE laboratory is under construction with a charter to help. Called the Environmental Molecular Sciences Laboratory (EMSL), this national user facility will be located at DOE's Pacific Northwest Laboratory (PNL) in Richland, WA. This laboratory has been funded by DOE and Congress to play a major role as the nation confronts the enormous challenge of reducing environmental and human risks from hundreds of government and industrial waste sites in an economically viable manner. The original proposal for the EMSL took a number of twists and turns on its way to its present form, but one thing remained constant: the belief that safe, permanent, cost-effective solutions to many of the country's environmental problems could be achieved only by multidisciplinary teams working to understand and control molecular processes. The processes of most concern are those that govern the transport and transformation of contaminants, the treatment and storage of high-level mixed wastes, and the risks those contaminants ultimately pose to workers and the public

Aqueous-Phase Acetic Acid Ketonization over Monoclinic Zirconia

Energy Technology Data Exchange (ETDEWEB)

Cai, Qiuxia [Institute for Integrated Catalysis, Pacific Northwest; College; Lopez-Ruiz, Juan A. [Institute for Integrated Catalysis, Pacific Northwest; Cooper, Alan R. [Institute for Integrated Catalysis, Pacific Northwest; Wang, Jian-guo [College; Albrecht, Karl O. [Institute for Integrated Catalysis, Pacific Northwest; Mei, Donghai [Institute for Integrated Catalysis, Pacific Northwest

2017-12-13

The effect of aqueous phase on the acetic acid ketonization over monoclinic zirconia has been investigated using first-principles based density functional theory (DFT) calculations. To capture the aqueous phase chemistry over the solid zirconia catalyst surface, the aqueous phase is represented by 111 explicit water molecules with a liquid water density of 0.93 g/cm3 and the monoclinic zirconia is modeled by the most stable surface structure . The dynamic nature of aqueous phase/ interface was studied using ab initio molecular dynamics simulation, indicating that nearly half of the surface Zr sites are occupied by either adsorbed water molecules or hydroxyl groups at 550 K. DFT calculations show that the adsorption process of acetic acid from the liquid water phase to the surface is nearly thermodynamically neutral with a Gibbs free energy of -2.3 kJ/mol although the adsorption strength of acetic acid on the surface in aqueous phase is much stronger than in vapor phase. Therefore it is expected that the adsorption of acetic acid will dramatically affects aqueous phase ketonization reactivity over the monoclinic zirconia catalyst. Using the same ketonization mechanism via the β-keto acid intermediate, we have compared acetic acid ketonization to acetone in both vapor and aqueous phases. Our DFT calculation results show although the rate-determining step of the β-keto acid formation via the C-C coupling is not pronouncedly affected, the presence of liquid water molecules will dramatically affect dehydrogenation and hydrogenation steps via proton transfer mechanism. This work was financially supported by the United States Department of Energy (DOE)’s Bioenergy Technologies Office (BETO) and performed at the Pacific Northwest National Laboratory (PNNL). PNNL is a multi-program national laboratory operated for DOE by Battelle Memorial Institute. Computing time and advanced catalyst characterization use was granted by a user proposal at the William R. Wiley

Assessing the ability of three land ecosystem models to simulate gross carbon uptake of forests from boreal to Mediterranean climate in Europe

Directory of Open Access Journals (Sweden)

M. Jung

2007-08-01

Full Text Available Three terrestrial biosphere models (LPJ, Orchidee, Biome-BGC were evaluated with respect to their ability to simulate large-scale climate related trends in gross primary production (GPP across European forests. Simulated GPP and leaf area index (LAI were compared with GPP estimates based on flux separated eddy covariance measurements of net ecosystem exchange and LAI measurements along a temperature gradient ranging from the boreal to the Mediterranean region. The three models capture qualitatively the pattern suggested by the site data: an increase in GPP from boreal to temperate and a subsequent decline from temperate to Mediterranean climates. The models consistently predict higher GPP for boreal and lower GPP for Mediterranean forests. Based on a decomposition of GPP into absorbed photosynthetic active radiation (APAR and radiation use efficiency (RUE, the overestimation of GPP for the boreal coniferous forests appears to be primarily related to too high simulated LAI - and thus light absorption (APAR – rather than too high radiation use efficiency. We cannot attribute the tendency of the models to underestimate GPP in the water limited region to model structural deficiencies with confidence. A likely dry bias of the input meteorological data in southern Europe may create this pattern.

On average, the models compare similarly well to the site GPP data (RMSE of ~30% or 420 gC/m2/yr but differences are apparent for different ecosystem types. In terms of absolute values, we find the agreement between site based GPP estimates and simulations acceptable when we consider uncertainties about the accuracy in model drivers, a potential representation bias of the eddy covariance sites, and uncertainties related to the method of deriving GPP from eddy covariance measurements data. Continental to global data-model comparison studies should be fostered in the future since they are necessary to identify consistent model bias along environmental

Comparison of alternative spatial resolutions in the application of a spatially distributed biogeochemical model over complex terrain

Science.gov (United States)

Turner, D.P.; Dodson, R.; Marks, D.

1996-01-01

Spatially distributed biogeochemical models may be applied over grids at a range of spatial resolutions, however, evaluation of potential errors and loss of information at relatively coarse resolutions is rare. In this study, a georeferenced database at the 1-km spatial resolution was developed to initialize and drive a process-based model (Forest-BGC) of water and carbon balance over a gridded 54976 km2 area covering two river basins in mountainous western Oregon. Corresponding data sets were also prepared at 10-km and 50-km spatial resolutions using commonly employed aggregation schemes. Estimates were made at each grid cell for climate variables including daily solar radiation, air temperature, humidity, and precipitation. The topographic structure, water holding capacity, vegetation type and leaf area index were likewise estimated for initial conditions. The daily time series for the climatic drivers was developed from interpolations of meteorological station data for the water year 1990 (1 October 1989-30 September 1990). Model outputs at the 1-km resolution showed good agreement with observed patterns in runoff and productivity. The ranges for model inputs at the 10-km and 50-km resolutions tended to contract because of the smoothed topography. Estimates for mean evapotranspiration and runoff were relatively insensitive to changing the spatial resolution of the grid whereas estimates of mean annual net primary production varied by 11%. The designation of a vegetation type and leaf area at the 50-km resolution often subsumed significant heterogeneity in vegetation, and this factor accounted for much of the difference in the mean values for the carbon flux variables. Although area wide means for model outputs were generally similar across resolutions, difference maps often revealed large areas of disagreement. Relatively high spatial resolution analyses of biogeochemical cycling are desirable from several perspectives and may be particularly important in the

Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae

Science.gov (United States)

Peeters, Charlotte; Meier-Kolthoff, Jan P.; Verheyde, Bart; De Brandt, Evie; Cooper, Vaughn S.; Vandamme, Peter

2016-01-01

Partial gyrB gene sequence analysis of 17 isolates from human and environmental sources revealed 13 clusters of strains and identified them as Burkholderia glathei clade (BGC) bacteria. The taxonomic status of these clusters was examined by whole-genome sequence analysis, determination of the G+C content, whole-cell fatty acid analysis and biochemical characterization. The whole-genome sequence-based phylogeny was assessed using the Genome Blast Distance Phylogeny (GBDP) method and an extended multilocus sequence analysis (MLSA) approach. The results demonstrated that these 17 BGC isolates represented 13 novel Burkholderia species that could be distinguished by both genotypic and phenotypic characteristics. BGC strains exhibited a broad metabolic versatility and developed beneficial, symbiotic, and pathogenic interactions with different hosts. Our data also confirmed that there is no phylogenetic subdivision in the genus Burkholderia that distinguishes beneficial from pathogenic strains. We therefore propose to formally classify the 13 novel BGC Burkholderia species as Burkholderia arvi sp. nov. (type strain LMG 29317T = CCUG 68412T), Burkholderia hypogeia sp. nov. (type strain LMG 29322T = CCUG 68407T), Burkholderia ptereochthonis sp. nov. (type strain LMG 29326T = CCUG 68403T), Burkholderia glebae sp. nov. (type strain LMG 29325T = CCUG 68404T), Burkholderia pedi sp. nov. (type strain LMG 29323T = CCUG 68406T), Burkholderia arationis sp. nov. (type strain LMG 29324T = CCUG 68405T), Burkholderia fortuita sp. nov. (type strain LMG 29320T = CCUG 68409T), Burkholderia temeraria sp. nov. (type strain LMG 29319T = CCUG 68410T), Burkholderia calidae sp. nov. (type strain LMG 29321T = CCUG 68408T), Burkholderia concitans sp. nov. (type strain LMG 29315T = CCUG 68414T), Burkholderia turbans sp. nov. (type strain LMG 29316T = CCUG 68413T), Burkholderia catudaia sp. nov. (type strain LMG 29318T = CCUG 68411T) and Burkholderia peredens sp. nov. (type strain LMG 29314T = CCUG

Learning about Moths.

Science.gov (United States)

Albrecht, Kay; Walsh, Katherine

1996-01-01

Describes an early childhood classroom project involving moths that teaches children about moths' development from egg to adult stage. Includes information about the moth's enemies, care, and feeding. Outlines reading, art, music and movement, science, and math activities centering around moths. (BGC)

SRS Burial Ground Complex: Remediation in Progress

International Nuclear Information System (INIS)

Griffin, M.; Crapse, B.; Cowan, S.

1998-01-01

Closure of the various areas in the Burial Ground Complex (BGC) represents a major step in the reduction of risk at the Savannah River Site (SRS) and a significant investment of resources. The Burial Ground Complex occupies approximately 195 acres in the central section of the SRS. Approximately 160 acres of the BGC consists of hazardous and radioactive waste disposal sites that require remediation. Of these source acres, one-third have been remediated while two-thirds are undergoing interim or final action. These restoration activities have been carried out in a safe and cost effective manner while minimizing impact to operating facilities. Successful completion of these activities is in large part due to the teamwork demonstrated by the Department of Energy, contractor/subcontractor personnel, and the regulatory agencies. The experience and knowledge gained from the closure of these large disposal facilities can be used to expedite closure of similar facilities

HIRS-AMTS satellite sounding system test - Theoretical and empirical vertical resolving power. [High resolution Infrared Radiation Sounder - Advanced Moisture and Temperature Sounder

Science.gov (United States)

Thompson, O. E.

1982-01-01

The present investigation is concerned with the vertical resolving power of satellite-borne temperature sounding instruments. Information is presented on the capabilities of the High Resolution Infrared Radiation Sounder (HIRS) and a proposed sounding instrument called the Advanced Moisture and Temperature Sounder (AMTS). Two quite different methods for assessing the vertical resolving power of satellite sounders are discussed. The first is the theoretical method of Conrath (1972) which was patterned after the work of Backus and Gilbert (1968) The Backus-Gilbert-Conrath (BGC) approach includes a formalism for deriving a retrieval algorithm for optimizing the vertical resolving power. However, a retrieval algorithm constructed in the BGC optimal fashion is not necessarily optimal as far as actual temperature retrievals are concerned. Thus, an independent criterion for vertical resolving power is discussed. The criterion is based on actual retrievals of signal structure in the temperature field.

Intercomparisons of Prognostic, Diagnostic, and Inversion Modeling Approaches for Estimation of Net Ecosystem Exchange over the Pacific Northwest Region

Science.gov (United States)

Turner, D. P.; Jacobson, A. R.; Nemani, R. R.

2013-12-01

The recent development of large spatially-explicit datasets for multiple variables relevant to monitoring terrestrial carbon flux offers the opportunity to estimate the terrestrial land flux using several alternative, potentially complimentary, approaches. Here we developed and compared regional estimates of net ecosystem exchange (NEE) over the Pacific Northwest region of the U.S. using three approaches. In the prognostic modeling approach, the process-based Biome-BGC model was driven by distributed meteorological station data and was informed by Landsat-based coverages of forest stand age and disturbance regime. In the diagnostic modeling approach, the quasi-mechanistic CFLUX model estimated net ecosystem production (NEP) by upscaling eddy covariance flux tower observations. The model was driven by distributed climate data and MODIS FPAR (the fraction of incident PAR that is absorbed by the vegetation canopy). It was informed by coarse resolution (1 km) data about forest stand age. In both the prognostic and diagnostic modeling approaches, emissions estimates for biomass burning, harvested products, and river/stream evasion were added to model-based NEP to get NEE. The inversion model (CarbonTracker) relied on observations of atmospheric CO2 concentration to optimize prior surface carbon flux estimates. The Pacific Northwest is heterogeneous with respect to land cover and forest management, and repeated surveys of forest inventory plots support the presence of a strong regional carbon sink. The diagnostic model suggested a stronger carbon sink than the prognostic model, and a much larger sink that the inversion model. The introduction of Landsat data on disturbance history served to reduce uncertainty with respect to regional NEE in the diagnostic and prognostic modeling approaches. The FPAR data was particularly helpful in capturing the seasonality of the carbon flux using the diagnostic modeling approach. The inversion approach took advantage of a global

Matrine inhibits the adhesion and migration of BCG823 gastric cancer cells by affecting the structure and function of the vasodilator-stimulated phosphoprotein (VASP).

Science.gov (United States)

Zhang, Jing-wei; Su, Ke; Shi, Wen-tao; Wang, Ying; Hu, Peng-chao; Wang, Yang; Wei, Lei; Xiang, Jin; Yang, Fang

2013-08-01

Vasodilator-stimulated phosphoprotein (VASP) expression is upregulated in human cancers and correlates with more invasive advanced tumor stages. The aim of this study was to elucidate the mechanisms by which matrine, an alkaloid derived from Sophora species plants, acted on the VASP protein in human gastric cancer cells in vitro. VASP was expressed and purified. Intrinsic fluorescence spectroscopy was used to study the binding of matrine to VASP. CD spectroscopy was used to examine the changes in the VASP protein secondary structure. Human gastric carcinoma cell line BGC823 was tested. Scratch wound and cell adhesion assays were used to detect the cell migration and adhesion, respectively. Real-time PCR and Western blotting assays were used to measure mRNA and protein expression of VASP. In the fluorescence assay, the dissociation constant for binding of matrine to VASP protein was 0.86 mmol/L, thus the direct binding between the two molecules was weak. However, matrine (50 μg/mL) caused obvious change in the secondary structure of VASP protein shown in CD spectrum. Treatments of BGC823 cells with matrine (50 μg/mL) significantly inhibited the cell migration and adhesion. The alkaloid changed the subcellular distribution of VASP and formation of actin stress fibers in BGC823 cells. The alkaloid caused small but statistically significant decreases in VASP protein expression and phosphorylation, but had no significant effect on VASP mRNA expression. Matrine modulates the structure, subcellular distribution, expression and phosphorylation of VASP in human gastric cancer cells, thus inhibiting the cancer cell adhesion and migration.

Assessing the Variability in the Relationship Between the Particulate Backscattering Coefficient and the Chlorophyll a Concentration From a Global Biogeochemical-Argo Database

Science.gov (United States)

Barbieux, Marie; Uitz, Julia; Bricaud, Annick; Organelli, Emanuele; Poteau, Antoine; Schmechtig, Catherine; Gentili, Bernard; Obolensky, Grigor; Leymarie, Edouard; Penkerc'h, Christophe; D'Ortenzio, Fabrizio; Claustre, Hervé

2018-02-01

Characterizing phytoplankton distribution and dynamics in the world's open oceans requires in situ observations over a broad range of space and time scales. In addition to temperature/salinity measurements, Biogeochemical-Argo (BGC-Argo) profiling floats are capable of autonomously observing at high-frequency bio-optical properties such as the chlorophyll fluorescence, a proxy of the chlorophyll a concentration (Chla), the particulate backscattering coefficient (bbp), a proxy of the stock of particulate organic carbon, and the light available for photosynthesis. We analyzed an unprecedented BGC-Argo database of more than 8,500 multivariable profiles collected in various oceanic conditions, from subpolar waters to subtropical gyres. Our objective is to refine previously established Chla versus bbp relationships and gain insights into the sources of vertical, seasonal, and regional variability in this relationship. Despite some regional, seasonal and vertical variations, a general covariation occurs at a global scale. We distinguish two main contrasted situations: (1) concomitant changes in Chla and bbp that correspond to actual variations in phytoplankton biomass, e.g., in subpolar regimes; (2) a decoupling between the two variables attributed to photoacclimation or changes in the relative abundance of nonalgal particles, e.g., in subtropical regimes. The variability in the bbp:Chla ratio in the surface layer appears to be essentially influenced by the type of particles and by photoacclimation processes. The large BGC-Argo database helps identifying the spatial and temporal scales at which this ratio is predominantly driven by one or the other of these two factors.

Modeled ecohydrological responses to climate change at seven small watersheds in the northeastern United States

Science.gov (United States)

Pourmokhtarian, Afshin; Driscoll, Charles T.; Campbell, John L.; Hayhoe, Katharine; Stoner, Anne M. K.; Adams, Mary Beth; Burns, Douglas; Fernandez, Ivan; Mitchell, Myron J.; Shanley, James B.

2017-01-01

A cross-site analysis was conducted on seven diverse, forested watersheds in the northeastern United States to evaluate hydrological responses (evapotranspiration, soil moisture, seasonal and annual streamflow, and water stress) to projections of future climate. We used output from four atmosphere–ocean general circulation models (AOGCMs; CCSM4, HadGEM2-CC, MIROC5, and MRI-CGCM3) included in Phase 5 of the Coupled Model Intercomparison Project, coupled with two Representative Concentration Pathways (RCP 8.5 and 4.5). The coarse resolution AOGCMs outputs were statistically downscaled using an asynchronous regional regression model to provide finer resolution future climate projections as inputs to the deterministic dynamic ecosystem model PnET-BGC. Simulation results indicated that projected warmer temperatures and longer growing seasons in the northeastern United States are anticipated to increase evapotranspiration across all sites, although invoking CO2 effects on vegetation (growth enhancement and increases in water use efficiency (WUE)) diminish this response. The model showed enhanced evapotranspiration resulted in drier growing season conditions across all sites and all scenarios in the future. Spruce-fir conifer forests have a lower optimum temperature for photosynthesis, making them more susceptible to temperature stress than more tolerant hardwood species, potentially giving hardwoods a competitive advantage in the future. However, some hardwood forests are projected to experience seasonal water stress, despite anticipated increases in precipitation, due to the higher temperatures, earlier loss of snow packs, longer growing seasons, and associated water deficits. Considering future CO2effects on WUE in the model alleviated water stress across all sites. Modeled streamflow responses were highly variable, with some sites showing significant increases in annual water yield, while others showed decreases. This variability in streamflow responses poses a

Data Assimilation Tools for CO2 Reservoir Model Development – A Review of Key Data Types, Analyses, and Selected Software

Energy Technology Data Exchange (ETDEWEB)

Rockhold, Mark L.; Sullivan, E. C.; Murray, Christopher J.; Last, George V.; Black, Gary D.

2009-09-30

Pacific Northwest National Laboratory (PNNL) has embarked on an initiative to develop world-class capabilities for performing experimental and computational analyses associated with geologic sequestration of carbon dioxide. The ultimate goal of this initiative is to provide science-based solutions for helping to mitigate the adverse effects of greenhouse gas emissions. This Laboratory-Directed Research and Development (LDRD) initiative currently has two primary focus areas—advanced experimental methods and computational analysis. The experimental methods focus area involves the development of new experimental capabilities, supported in part by the U.S. Department of Energy’s (DOE) Environmental Molecular Science Laboratory (EMSL) housed at PNNL, for quantifying mineral reaction kinetics with CO2 under high temperature and pressure (supercritical) conditions. The computational analysis focus area involves numerical simulation of coupled, multi-scale processes associated with CO2 sequestration in geologic media, and the development of software to facilitate building and parameterizing conceptual and numerical models of subsurface reservoirs that represent geologic repositories for injected CO2. This report describes work in support of the computational analysis focus area. The computational analysis focus area currently consists of several collaborative research projects. These are all geared towards the development and application of conceptual and numerical models for geologic sequestration of CO2. The software being developed for this focus area is referred to as the Geologic Sequestration Software Suite or GS3. A wiki-based software framework is being developed to support GS3. This report summarizes work performed in FY09 on one of the LDRD projects in the computational analysis focus area. The title of this project is Data Assimilation Tools for CO2 Reservoir Model Development. Some key objectives of this project in FY09 were to assess the current state

Nitrogen deposition, land cover conversion, and contemporary carbon balance of Europe

Science.gov (United States)

Churkina, G.; Zaehle, S.; Hughes, J.; Viovy, N.; Jung, M.; Chen, Y.; Heimann, M.; Roedenbeck, C.; Jones, C.

2009-04-01

In Europe, atmospheric nitrogen deposition has more than doubled, forest cover was steadily increasing, and agricultural area was declining over the last 50 years. What effect have these changes had on the European carbon balance? In this study we estimate responses of the European land ecosystems to nitrogen deposition, land cover conversion and climate. We use results from four ecosystem process models such as BIOME-BGC, JULES, ORCHIDEE, and ORCHIDEE-CN to address this question. We discuss to which degree carbon balance of Europe has been altered by nitrogen deposition in comparison to other drivers and identify areas which carbon balance has been most effected by anthropogenic changes.

A conjugate of an anti-midkine single-chain variable fragment to doxorubicin inhibits tumor growth

Energy Technology Data Exchange (ETDEWEB)

Zhao, Shuli [Immunology and Reproductive Biology Laboratory, Medical School & State Key Laboratory of Pharmaceutical Biotechnology, Nanjing University, Nanjing (China); Nanjing Affiliated First Hospital, Nanjing Medical University, Nanjing (China); Zhao, Guangfeng; Xie, Hao; Huang, Yahong [Immunology and Reproductive Biology Laboratory, Medical School & State Key Laboratory of Pharmaceutical Biotechnology, Nanjing University, Nanjing (China); Hou, Yayi [Immunology and Reproductive Biology Laboratory, Medical School & State Key Laboratory of Pharmaceutical Biotechnology, Nanjing University, Nanjing (China); Jiangsu Key Laboratory of Molecular Medicine, Nanjing University, Nanjing (China)

2012-01-27

Doxorubicin (DOX) was conjugated to a single-chain variable fragment (scFv) against human midkine (MK), and the conjugate (scFv-DOX) was used to target the chemotherapeutic agent to a mouse solid tumor model in which the tumor cells expressed high levels of human MK. The His-tagged recombinant scFv was expressed in bacteria, purified by metal affinity chromatography, and then conjugated to DOX using oxidative dextran (Dex) as a linker. The molecular formula of this immunoconjugate was scFv(Dex){sub 1.3}(DOX){sub 20}. In vitro apoptosis assays showed that the scFv-DOX conjugate was more cytotoxic against MK-transfected human adenocarcinoma cells (BGC823-MK) than untransfected cells (55.3 ± 2.4 vs 22.4 ± 3.8%) for three independent experiments. Nude mice bearing BGC823-MK solid tumors received scFv-DOX or equivalent doses of scFv + DOX for 2 weeks and tumor growth was more effectively inhibited by the scFv-DOX conjugate than by scFv + DOX (51.83% inhibition vs 40.81%). Histological analysis of the tumor tissues revealed that the highest levels of DOX accumulated in tumors from mice treated with scFv-DOX and this resulted in more extensive tumor cell death than in animals treated with the equivalent dose of scFv + DOX. These results show that the scFv-DOX conjugate effectively inhibited tumor growth in vivo and suggest that antigen-specific scFv may be competent drug-carriers.

A conjugate of an anti-midkine single-chain variable fragment to doxorubicin inhibits tumor growth

International Nuclear Information System (INIS)

Zhao, Shuli; Zhao, Guangfeng; Xie, Hao; Huang, Yahong; Hou, Yayi

2012-01-01

Doxorubicin (DOX) was conjugated to a single-chain variable fragment (scFv) against human midkine (MK), and the conjugate (scFv-DOX) was used to target the chemotherapeutic agent to a mouse solid tumor model in which the tumor cells expressed high levels of human MK. The His-tagged recombinant scFv was expressed in bacteria, purified by metal affinity chromatography, and then conjugated to DOX using oxidative dextran (Dex) as a linker. The molecular formula of this immunoconjugate was scFv(Dex) 1.3 (DOX) 20 . In vitro apoptosis assays showed that the scFv-DOX conjugate was more cytotoxic against MK-transfected human adenocarcinoma cells (BGC823-MK) than untransfected cells (55.3 ± 2.4 vs 22.4 ± 3.8%) for three independent experiments. Nude mice bearing BGC823-MK solid tumors received scFv-DOX or equivalent doses of scFv + DOX for 2 weeks and tumor growth was more effectively inhibited by the scFv-DOX conjugate than by scFv + DOX (51.83% inhibition vs 40.81%). Histological analysis of the tumor tissues revealed that the highest levels of DOX accumulated in tumors from mice treated with scFv-DOX and this resulted in more extensive tumor cell death than in animals treated with the equivalent dose of scFv + DOX. These results show that the scFv-DOX conjugate effectively inhibited tumor growth in vivo and suggest that antigen-specific scFv may be competent drug-carriers

Accounting for Forest Harvest and Wildfire in a Spatially-distributed Carbon Cycle Process Model

Science.gov (United States)

Turner, D. P.; Ritts, W.; Kennedy, R. E.; Yang, Z.; Law, B. E.

2009-12-01

Forests are subject to natural disturbances in the form of wildfire, as well as management-related disturbances in the form of timber harvest. These disturbance events have strong impacts on local and regional carbon budgets, but quantifying the associated carbon fluxes remains challenging. The ORCA Project aims to quantify regional net ecosystem production (NEP) and net biome production (NBP) in Oregon, California, and Washington, and we have adopted an integrated approach based on Landsat imagery and ecosystem modeling. To account for stand-level carbon fluxes, the Biome-BGC model has been adapted to simulate multiple severities of fire and harvest. New variables include snags, direct fire emissions, and harvest removals. New parameters include fire-intensity-specific combustion factors for each carbon pool (based on field measurements) and proportional removal rates for harvest events. To quantify regional fluxes, the model is applied in a spatially-distributed mode over the domain of interest, with disturbance history derived from a time series of Landsat images. In stand-level simulations, the post disturbance transition from negative (source) to positive (sink) NEP is delayed approximately a decade in the case of high severity fire compared to harvest. Simulated direct pyrogenic emissions range from 11 to 25 % of total non-soil ecosystem carbon. In spatial mode application over Oregon and California, the sum of annual pyrogenic emissions and harvest removals was generally less that half of total NEP, resulting in significant carbon sequestration on the land base. Spatially and temporally explicit simulation of disturbance-related carbon fluxes will contribute to our ability to evaluate effects of management on regional carbon flux, and in our ability to assess potential biospheric feedbacks to climate change mediated by changing disturbance regimes.

Birding with Children: A Nest of Activities.

Science.gov (United States)

Ard, Linda; Wilkerson, Kristen

1996-01-01

Describes hummingbirds and how they can serve as sources of learning and enjoyment for young children. Gives information on feeding, breeding, and behavior of hummingbirds, and on their natural predators. Outlines activities for "discovery," making feeders, watching and charting hummingbirds, and other creative learning activities. (BGC)

Mechanistic insights into aqueous phase propanol dehydration in H-ZSM-5 zeolite

Energy Technology Data Exchange (ETDEWEB)

Mei, Donghai [Pacific Northwest National Laboratory, Physical and Computational Sciences Directorate & Institute for Integrated Catalysis, Richland WA 99352; Lercher, Johannes A. [Pacific Northwest National Laboratory, Physical and Computational Sciences Directorate & Institute for Integrated Catalysis, Richland WA 99352; Dept. of Chemistry and Catalysis Research Institute, TU München, Lichtenbergstrasse 4 Garching 85748 Germany

2016-10-06

Aqueous phase dehydration of 1-propanol over H-ZSM-5 zeolite was investigated using density functional theory (DFT) calculations. The water molecules in the zeolite pores prefer to aggregate via the hydrogen bonding network and be protonated at the Brønsted acidic sites (BAS). Two typical configurations, i.e., dispersed and clustered, of water molecules were identified by ab initio molecular dynamics simulation of the mimicking aqueous phase H-ZSM-5 zeolite unit cell with 20 water molecules per unit cell. DFT calculated Gibbs free energies suggest that the dimeric propanol-propanol, the propanol-water complex, and the trimeric propanol-propanol-water are formed at high propanol concentrations, which provide a kinetically feasible dehydration reaction channel of 1-propanol to propene. However, calculation results also indicate that the propanol dehydration via the unimolecular mechanism becomes kinetically discouraged due to the enhanced stability of the protonated dimeric propanol and the protonated water cluster acting as the BAS site for alcohol dehydration reaction. This work was supported by the US Department of Energy (DOE), Office of Science, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences & Biosciences. Pacific Northwest National Laboratory (PNNL) is a multiprogram national laboratory operated for DOE by Battelle. Computing time was granted by the grand challenge of computational catalysis of the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL). EMSL is a national scientific user facility located at Pacific Northwest National Laboratory (PNNL) and sponsored by DOE’s Office of Biological and Environmental Research.

Assessing management effects on Oak forests in Austria

Science.gov (United States)

Gautam, Sishir; Pietsch, Stephan A.; Hasenauer, Hubert

2010-05-01

Historic land use as well as silvicultural management practices have changed the structures and species composition of central European forests. Such changes have effects on the growth of forests and contribute to global warming. As insufficient information on historic forest management is available it is hard to explain the effect of management on forests growth and its possible consequences to the environment. In this situation, the BIOME-BGC model, which integrates the main physical, biological and physiological processes based on current understanding of ecophysiology is an option for assessing the management effects through tracking the cycling of energy, water, carbon and nutrients within a given ecosystems. Such models are increasingly employed to simulate current and future forest dynamics. This study first compares observed standing tree volume, carbon and nitrogen content in soil in the high forests and coppice with standards stands of Oak forests in Austria. Biome BGC is then used to assess the effects of management on forest growth and to explain the differences with measured parameters. Close positive correlations and unbiased results and statistically insignificant differences between predicted and observed volumes indicates the application of the model as a diagnostic tool to assess management effects in oak forests. The observed data in 2006 and 2009 was further compared with the results of respective model runs. Further analysis on simulated data shows that thinning leads to an increase in growth efficiency (GE), nitrogen use efficiency (NUE) and water use efficiency (WUE), and to a decrease in the radiation use efficiency (RUE) in both forests. Among all studied growth parameters, only the difference in the NUE was statistically significant. This indicates that the difference in the yield of forests is mainly governed by the NUE difference in stands due to thinning. The coppice with standards system produces an equal amount of net primary

Coal gasification systems engineering and analysis. Appendix G: Commercial design and technology evaluation

Science.gov (United States)

1980-01-01

A technology evaluation of five coal gasifier systems (Koppers-Totzek, Texaco, Babcock and Wilcox, Lurgi and BGC/Lurgi) and procedures and criteria for evaluating competitive commercial coal gasification designs is presented. The technology evaluation is based upon the plant designs and cost estimates developed by the BDM-Mittelhauser team.

ORIGINAL ARTICLE ORIG ORIG Ct brain demonstration of basal ...

African Journals Online (AJOL)

ganglia in encephalopathic HIV/AIDS children has been relatively well documented. Only two ... presented for CT scan of the brain for neurological symptoms, were reported to have BGC. .... with new onset seizures or a change in mental state. Postmortem ... tion is thought to be a major contributing factor in the development.

Hummingbirds Visit the Playground.

Science.gov (United States)

Ard, Linda; Wilkerson, Kristen

1996-01-01

Tells how hummingbirds can serve as a source of information and fun for children, including a rationale for attracting and teaching about hummingbirds and the outdoors. Explains that children need first-hand knowledge of nature and gives details on attracting hummingbirds and selecting safe plants for a hummingbird garden. (BGC)

Asia-MIP: Multi Model-data Synthesis of Terrestrial Carbon Cycles in Asia

Science.gov (United States)

Ichii, K.; Kondo, M.; Ito, A.; Kang, M.; Sasai, T.; SATO, H.; Ueyama, M.; Kobayashi, H.; Saigusa, N.; Kim, J.

2013-12-01

Asia, which is characterized by monsoon climate and intense human activities, is one of the prominent understudied regions in terms of terrestrial carbon budgets and mechanisms of carbon exchange. To better understand terrestrial carbon cycle in Asia, we initiated multi-model and data intercomparison project in Asia (Asia-MIP). We analyzed outputs from multiple approaches: satellite-based observations (AVHRR and MODIS) and related products, empirically upscaled estimations (Support Vector Regression) using eddy-covariance observation network in Asia (AsiaFlux, CarboEastAsia, FLUXNET), ~10 terrestrial biosphere models (e.g. BEAMS, Biome-BGC, LPJ, SEIB-DGVM, TRIFFID, VISIT models), and atmospheric inversion analysis (e.g. TransCom models). We focused on the two difference temporal coverage: long-term (30 years; 1982-2011) and decadal (10 years; 2001-2010; data intensive period) scales. The regions of covering Siberia, Far East Asia, East Asia, Southeast Asia and South Asia (60-80E, 10S-80N), was analyzed in this study for assessing the magnitudes, interannual variability, and key driving factors of carbon cycles. We will report the progress of synthesis effort to quantify terrestrial carbon budget in Asia. First, we analyzed the recent trends in Gross Primary Productivities (GPP) using satellite-based observation (AVHRR) and multiple terrestrial biosphere models. We found both model outputs and satellite-based observation consistently show an increasing trend in GPP in most of the regions in Asia. Mechanisms of the GPP increase were analyzed using models, and changes in temperature and precipitation play dominant roles in GPP increase in boreal and temperate regions, whereas changes in atmospheric CO2 and precipitation are important in tropical regions. However, their relative contributions were different. Second, in the decadal analysis (2001-2010), we found that the negative GPP and carbon uptake anomalies in 2003 summer in Far East Asia is one of the largest

Using LIDAR and Quickbird Data to Model Plant Production and Quantify Uncertainties Associated with Wetland Detection and Land Cover Generalizations

Science.gov (United States)

Cook, Bruce D.; Bolstad, Paul V.; Naesset, Erik; Anderson, Ryan S.; Garrigues, Sebastian; Morisette, Jeffrey T.; Nickeson, Jaime; Davis, Kenneth J.

2009-01-01

Spatiotemporal data from satellite remote sensing and surface meteorology networks have made it possible to continuously monitor global plant production, and to identify global trends associated with land cover/use and climate change. Gross primary production (GPP) and net primary production (NPP) are routinely derived from the MOderate Resolution Imaging Spectroradiometer (MODIS) onboard satellites Terra and Aqua, and estimates generally agree with independent measurements at validation sites across the globe. However, the accuracy of GPP and NPP estimates in some regions may be limited by the quality of model input variables and heterogeneity at fine spatial scales. We developed new methods for deriving model inputs (i.e., land cover, leaf area, and photosynthetically active radiation absorbed by plant canopies) from airborne laser altimetry (LiDAR) and Quickbird multispectral data at resolutions ranging from about 30 m to 1 km. In addition, LiDAR-derived biomass was used as a means for computing carbon-use efficiency. Spatial variables were used with temporal data from ground-based monitoring stations to compute a six-year GPP and NPP time series for a 3600 ha study site in the Great Lakes region of North America. Model results compared favorably with independent observations from a 400 m flux tower and a process-based ecosystem model (BIOME-BGC), but only after removing vapor pressure deficit as a constraint on photosynthesis from the MODIS global algorithm. Fine resolution inputs captured more of the spatial variability, but estimates were similar to coarse-resolution data when integrated across the entire vegetation structure, composition, and conversion efficiencies were similar to upland plant communities. Plant productivity estimates were noticeably improved using LiDAR-derived variables, while uncertainties associated with land cover generalizations and wetlands in this largely forested landscape were considered less important.

Incorporating Ecosystem Processes Controlling Carbon Balance Into Models of Coupled Human-Natural Systems

Science.gov (United States)

Currie, W.; Brown, D. G.; Brunner, A.; Fouladbash, L.; Hadzick, Z.; Hutchins, M.; Kiger, S. E.; Makino, Y.; Nassauer, J. I.; Robinson, D. T.; Riolo, R. L.; Sun, S.

2012-12-01

A key element in the study of coupled human-natural systems is the interactions of human populations with vegetation and soils. In human-dominated landscapes, vegetation production and change results from a combination of ecological processes and human decision-making and behavior. Vegetation is often dramatically altered, whether to produce food for humans and livestock, to harvest fiber for construction and other materials, to harvest fuel wood or feedstock for biofuels, or simply for cultural preferences as in the case of residential lawns with sparse trees in the exurban landscape. This alteration of vegetation and its management has a substantial impact on the landscape carbon balance. Models can be used to simulate scenarios in human-natural systems and to examine the integration of processes that determine future trajectories of carbon balance. However, most models of human-natural systems include little integration of the human alteration of vegetation with the ecosystem processes that regulate carbon balance. Here we illustrate a few case studies of pilot-study models that strive for this integration from our research across various types of landscapes. We focus greater detail on a fully developed research model linked to a field study of vegetation and soils in the exurban residential landscape of Southeastern Michigan, USA. The field study characterized vegetation and soil carbon storage in 5 types of ecological zones. Field-observed carbon storage in the vegetation in these zones ranged widely, from 150 g C/m2 in turfgrass zones, to 6,000 g C/m2 in zones defined as turfgrass with sparse woody vegetation, to 16,000 g C/m2 in a zone defined as dense trees and shrubs. Use of these zones facilitated the scaling of carbon pools to the landscape, where the areal mixtures of zone types had a significant impact on landscape C storage. Use of these zones also facilitated the use of the ecosystem process model Biome-BGC to simulate C trajectories and also

Eco-hydrological Responses to Soil and Water Conservation in the Jinghe River Basin

Science.gov (United States)

Peng, H.; Jia, Y.; Qiu, Y.

2011-12-01

The Jinghe River Basin is one of the most serious soil erosion areas in the Loess Plateau. Many measures of soil and water conservation were applied in the basin. Terrestrial ecosystem model BIOME-BGC and distributed hydrological model WEP-L were used to build eco-hydrological model and verified by field observation and literature values. The model was applied in the Jinghe River Basin to analyze eco-hydrological responses under the scenarios of vegetation type change due to soil and water conservation polices. Four scenarios were set under the measures of conversion of cropland to forest, forestation on bare land, forestation on slope wasteland and planting grass on bare land. Analysis results show that the soil and water conservation has significant effects on runoff and the carbon cycle in the Jinghe River Basin: the average annual runoff would decrease and the average annual NPP and carbon storage would increase. Key words: soil and water conservation; conversion of cropland to forest; eco-hydrology response; the Jinghe River Basin

Exploring the response of net primary productivity variations to urban expansion and climate change: a scenario analysis for Guangdong Province in China.

Science.gov (United States)

Pei, Fengsong; Li, Xia; Liu, Xiaoping; Lao, Chunhua; Xia, Gengrui

2015-03-01

Urban land development alters landscapes and carbon cycle, especially net primary productivity (NPP). Despite projections that NPP is often reduced by urbanization, little is known about NPP changes under future urban expansion and climate change conditions. In this paper, terrestrial NPP was calculated by using Biome-BGC model. However, this model does not explicitly address urban lands. Hence, we proposed a method of NPP-fraction to detect future urban NPP, assuming that the ratio of real NPP to potential NPP for urban cells remains constant for decades. Furthermore, NPP dynamics were explored by integrating the Biome-BGC and the cellular automata (CA), a widely used method for modeling urban growth. Consequently, urban expansion, climate change and their associated effects on the NPP were analyzed for the period of 2010-2039 using Guangdong Province in China as a case study. In addition, four scenarios were designed to reflect future conditions, namely baseline, climate change, urban expansion and comprehensive scenarios. Our analyses indicate that vegetation NPP in urban cells may increase (17.63 gC m(-2) year(-1)-23.35 gC m(-2) year(-1)) in the climate change scenario. However, future urban expansion may cause some NPP losses of 241.61 gC m(-2) year(-1), decupling the NPP increase of the climate change factor. Taking into account both climate change and urban expansion, vegetation NPP in urban area may decrease, minimally at a rate of 228.54 gC m(-2) year(-1) to 231.74 gC m(-2) year(-1). Nevertheless, they may account for an overall NPP increase of 0.78 TgC year(-1) to 1.28 TgC year(-1) in the whole province. All these show that the provincial NPP increase from climate change may offset the NPP decrease from urban expansion. Despite these results, it is of great significance to regulate reasonable expansion of urban lands to maintain carbon balance. Copyright © 2014 Elsevier Ltd. All rights reserved.

Attribution of changes in global wetland methane emissions from pre-industrial to present using CLM4.5-BGC

International Nuclear Information System (INIS)

Paudel, Rajendra; Mahowald, Natalie M; Hess, Peter G M; Meng, Lei; Riley, William J

2016-01-01

An understanding of potential factors controlling methane emissions from natural wetlands is important to accurately project future atmospheric methane concentrations. Here, we examine the relative contributions of climatic and environmental factors, such as precipitation, temperature, atmospheric CO 2 concentration, nitrogen deposition, wetland inundation extent, and land-use and land-cover change, on changes in wetland methane emissions from preindustrial to present day (i.e., 1850–2005). We apply a mechanistic methane biogeochemical model integrated in the Community Land Model version 4.5 (CLM4.5), the land component of the Community Earth System Model. The methane model explicitly simulates methane production, oxidation, ebullition, transport through aerenchyma of plants, and aqueous and gaseous diffusion. We conduct a suite of model simulations from 1850 to 2005, with all changes in environmental factors included, and sensitivity studies isolating each factor. Globally, we estimate that preindustrial methane emissions were higher by 10% than present-day emissions from natural wetlands, with emissions changes from preindustrial to the present of +15%, −41%, and −11% for the high latitudes, temperate regions, and tropics, respectively. The most important change is due to the estimated change in wetland extent, due to the conversion of wetland areas to drylands by humans. This effect alone leads to higher preindustrial global methane fluxes by 33% relative to the present, with the largest change in temperate regions (+80%). These increases were partially offset by lower preindustrial emissions due to lower CO 2 levels (10%), shifts in precipitation (7%), lower nitrogen deposition (3%), and changes in land-use and land-cover (2%). Cooler temperatures in the preindustrial regions resulted in our simulations in an increase in global methane emissions of 6% relative to present day. Much of the sensitivity to these perturbations is mediated in the model by

Greenness and Carbon Stocks of Mangroves: A climate-driven Effect

Science.gov (United States)

Lule, A. V.; Colditz, R. R.; Herrera-Silveira, J.; Guevara, M.; Rodriguez-Zuniga, M. T.; Cruz, I.; Ressl, R.; Vargas, R.

2017-12-01

Mangroves cover less than 1% of the earth's surface and are one o­­­f the most productive ecosystems of the world. They are highly vulnerable to climate variability due to their sensitivity to environmental changes; therefore, there are scientific and societal needs to designed frameworks to assess mangrove's vulnerability. We study the relationship between climate drivers, canopy greenness and carbon stocks to quantify a potential climate-driven effect on mangrove carbon dynamics. We identify greenness trends and their relationships with climate drivers and carbon stocks throughout 15 years (2001-2015) across mangrove forests of Mexico. We defined several categories for mangroves: a) Arid mangroves with superficial water input (ARsw); b) Humid mangroves with interior or underground water input (HUiw); and c) Humid mangroves with superficial water input (HUsw). We found a positive significant trend of greenness for ARsw and HUsw categories (pmangrove's categories (pmangrove categories showed higher greenness values during winter; which is likely driven by temperature with a lag of -3 to -5 months (r2 > 0.69). Precipitation and temperature drive canopy greenness only across HUsw. Regarding carbon stocks, the HUiw shows the lower amount of aboveground carbon (AGC; 12.7 Mg C ha-1) and the higher belowground carbon (BGC; 219 Mg C ha-1). The HUsw shows the higher amount of AGC (169.5 Mg C ha-1) and the ARsw the lower of BGC (92.4 Mg C ha-1). Climate drivers are better related with canopy greenness and AGC for both humid mangrove categories (r2 > 0.48), while the relationship of BGC and canopy greenness is lower for all categories (r2 mangrove's ecosystem function and environmental services, as well as their potential vulnerability to climate variability.

Sublingual sugar for hypoglycaemia in children with severe malaria: A pilot clinical study

Science.gov (United States)

Graz, Bertrand; Dicko, Moussa; Willcox, Merlin L; Lambert, Bernard; Falquet, Jacques; Forster, Mathieu; Giani, Sergio; Diakite, Chiaka; Dembele, Eugène M; Diallo, Drissa; Barennes, Hubert

2008-01-01

Background Hypoglycaemia is a poor prognostic indicator in severe malaria. Intravenous infusions are rarely feasible in rural areas. The efficacy of sublingual sugar (SLS) was assessed in a pilot randomized controlled trial among hypoglycaemic children with severe malaria in Mali. Methods Of 151 patients with presumed severe malaria, 23 children with blood glucose concentrations = 3.3 mmol/l (60 mg/dl) within 40 minutes after admission. Secondary outcome measures were early treatment response at 20 minutes, relapse (early and late), maximal BGC gain (CGmax), and treatment delay. Results There was no significant difference between the groups in the primary outcome measure. Treatment response occurred in 71% and 67% for SLS and IVG, respectively. Among the responders, relapses occurred in 30% on SLS at 40 minutes and in 17% on IVG at 20 minutes. There was one fatality in each group. Treatment failures in the SLS group were related to children with clenched teeth or swallowing the sugar, whereas in the IVG group, they were due to unavoidable delays in beginning an infusion (median time 17.5 min (range 3–40). Among SLS, the BGC increase was rapid among the nine patients who really kept the sugar sublingually. All but one increased their BGC by 10 minutes with a mean gain of 44 mg/dl (95%CI: 20.5–63.4). Conclusion Sublingual sugar appears to be a child-friendly, well-tolerated and effective promising method of raising blood glucose in severely ill children. More frequent repeated doses are needed to prevent relapse. Children should be monitored for early swallowing which leads to delayed absorption, and in this case another dose of sugar should be given. Sublingual sugar could be proposed as an immediate "first aid" measure while awaiting intravenous glucose. In many cases it may avert the need for intravenous glucose. PMID:19025610

Sublingual sugar for hypoglycaemia in children with severe malaria: A pilot clinical study

Directory of Open Access Journals (Sweden)

Giani Sergio

2008-11-01

Full Text Available Abstract Background Hypoglycaemia is a poor prognostic indicator in severe malaria. Intravenous infusions are rarely feasible in rural areas. The efficacy of sublingual sugar (SLS was assessed in a pilot randomized controlled trial among hypoglycaemic children with severe malaria in Mali. Methods Of 151 patients with presumed severe malaria, 23 children with blood glucose concentrations = 3.3 mmol/l (60 mg/dl within 40 minutes after admission. Secondary outcome measures were early treatment response at 20 minutes, relapse (early and late, maximal BGC gain (CGmax, and treatment delay. Results There was no significant difference between the groups in the primary outcome measure. Treatment response occurred in 71% and 67% for SLS and IVG, respectively. Among the responders, relapses occurred in 30% on SLS at 40 minutes and in 17% on IVG at 20 minutes. There was one fatality in each group. Treatment failures in the SLS group were related to children with clenched teeth or swallowing the sugar, whereas in the IVG group, they were due to unavoidable delays in beginning an infusion (median time 17.5 min (range 3–40. Among SLS, the BGC increase was rapid among the nine patients who really kept the sugar sublingually. All but one increased their BGC by 10 minutes with a mean gain of 44 mg/dl (95%CI: 20.5–63.4. Conclusion Sublingual sugar appears to be a child-friendly, well-tolerated and effective promising method of raising blood glucose in severely ill children. More frequent repeated doses are needed to prevent relapse. Children should be monitored for early swallowing which leads to delayed absorption, and in this case another dose of sugar should be given. Sublingual sugar could be proposed as an immediate "first aid" measure while awaiting intravenous glucose. In many cases it may avert the need for intravenous glucose.

Potential Applications of Gosat Based Carbon Budget Products to Refine Terrestrial Ecosystem Model

Science.gov (United States)

Kondo, M.; Ichii, K.

2011-12-01

Estimation of carbon exchange in terrestrial ecosystem associates with difficulties due to complex entanglement of physical and biological processes: thus, the net ecosystem productivity (NEP) estimated from simulation often differs among process-based terrestrial ecosystem models. In addition to complexity of the system, validation can only be conducted in a point scale since reliable observation is only available from ground observations. With a lack of large spatial data, extension of model simulation to a global scale results in significant uncertainty in the future carbon balance and climate change. Greenhouse gases Observing SATellite (GOSAT), launched by the Japanese space agency (JAXA) in January, 2009, is the 1st operational satellite promised to deliver the net land-atmosphere carbon budget to the terrestrial biosphere research community. Using that information, the model reproducibility of carbon budget is expected to improve: hence, gives a better estimation of the future climate change. This initial analysis is to seek and evaluate the potential applications of GOSAT observation toward the sophistication of terrestrial ecosystem model. The present study was conducted in two processes: site-based analysis using eddy covariance observation data to assess the potential use of terrestrial carbon fluxes (GPP, RE, and NEP) to refine the model, and extension of the point scale analysis to spatial using Carbon Tracker product as a prototype of GOSAT product. In the first phase of the experiment, it was verified that an optimization routine adapted to a terrestrial model, Biome-BGC, yielded the improved result with respect to eddy covariance observation data from AsiaFlux Network. Spatial data sets used in the second phase were consists of GPP from empirical algorithm (e.g. support vector machine), NEP from Carbon Tracker, and RE from the combination of these. These spatial carbon flux estimations was used to refine the model applying the exactly same

EPA (Environmental Protection Agency) Method Study 12, cyanide in water. Final report

Energy Technology Data Exchange (ETDEWEB)

Winter, J.; Britton, P.; Kroner, R.

1984-05-01

EPA Method Study 12, Cyanide in Water reports the results of a study by EMSL-Cincinnati for the parameters, Total Cyanide and Cyanides Amendable to Chlorination, present in water at microgram per liter levels. Four methods: pyridine-pyrazolone, pyridine-barbituric acid, electrode and Roberts-Jackson were used by 112 laboratories in Federal and State agencies, municipalities, universities, and the private/industrial sector. Sample concentrates were prepared in pairs with similar concentrations at each of three levels. Analysts diluted samples to volume with distilled and natural waters and analyzed them. Precision, accuracy, bias and the natural water interference were evaluated for each analytical method and comparisons were made between the four methods.

Does a General Temperature-Dependent Q10 Model of Soil Respiration Exist at Biome and Global Scale?

Institute of Scientific and Technical Information of China (English)

Hua CHEN; Han-Qin TIAN

2005-01-01

Temperate biome has important implications for modeling SR, especially in the Boreal biome. More detail model runs are needed to exactly evaluate the impact of using a fixed Q10 vs a temperature-dependent Q10 on SR estimate in ecosystem models (e.g., TEM, Biome-BGC, and PnET).

A statistical light use efficiency model explains 85% variations in global GPP

Science.gov (United States)

Jiang, C.; Ryu, Y.

2016-12-01

Photosynthesis is a complicated process whose modeling requires different levels of assumptions, simplification, and parameterization. Among models, light use efficiency (LUE) model is highly compact but powerful in monitoring gross primary production (GPP) from satellite data. Most of LUE models adopt a multiplicative from of maximum LUE, absorbed photosynthetically active radiation (APAR), and temperature and water stress functions. However, maximum LUE is a fitting parameter with large spatial variations, but most studies only use several biome dependent constants. In addition, stress functions are empirical and arbitrary in literatures. Moreover, meteorological data used are usually coarse-resolution, e.g., 1°, which could cause large errors. Finally, sunlit and shade canopy have completely different light responses but little considered. Targeting these issues, we derived a new statistical LUE model from a process-based and satellite-driven model, the Breathing Earth System Simulator (BESS). We have already derived a set of global radiation (5-km resolution), carbon and water fluxes (1-km resolution) products from 2000 to 2015 from BESS. By exploring these datasets, we found strong correlation between APAR and GPP for sunlit (R2=0.84) and shade (R2=0.96) canopy, respectively. A simple model, only driven by sunlit and shade APAR, was thus built based on linear relationships. The slopes of the linear function act as effective LUE of global ecosystem, with values of 0.0232 and 0.0128 umol C/umol quanta for sunlit and shade canopy, respectively. When compared with MPI-BGC GPP products, a global proxy of FLUXNET data, BESS-LUE achieved an overall accuracy of R2 = 0.85, whereas original BESS was R2 = 0.83 and MODIS GPP product was R2 = 0.76. We investigated spatiotemporal variations of the effective LUE. Spatially, the ratio of sunlit to shade values ranged from 0.1 (wet tropic) to 4.5 (dry inland). By using maps of sunlit and shade effective LUE the accuracy of

Saying Hello.

Science.gov (United States)

Garfat, Thom

1992-01-01

Explains how simple daily events can be pivotal for youth and children in therapeutic care, noting that the relationship between caregiver and child begins with the first step of "saying hello." Emphasizes that this relationship is a tool to help the child reach goals and that it is never easy to know how to begin. (BGC)

Responses of plant available water and forest productivity to variably layered coarse textured soils

Science.gov (United States)

Huang, Mingbin; Barbour, Lee; Elshorbagy, Amin; Si, Bing; Zettl, Julie

2010-05-01

Reforestation is a primary end use for reconstructed soils following oil sands mining in northern Alberta, Canada. Limited soil water conditions strongly restrict plant growth. Previous research has shown that layering of sandy soils can produce enhanced water availability for plant growth; however, the effect of gradation on these enhancements is not well defined. The objective of this study was to evaluate the effect of soil texture (gradation and layering) on plant available water and consequently on forest productivity for reclaimed coarse textured soils. A previously validated system dynamics (SD) model of soil moisture dynamics was coupled with ecophysiological and biogeochemical processes model, Biome-BGC-SD, to simulate forest dynamics for different soil profiles. These profiles included contrasting 50 cm textural layers of finer sand overlying coarser sand in which the sand layers had either a well graded or uniform soil texture. These profiles were compared to uniform profiles of the same sands. Three tree species of jack pine (Pinus banksiana Lamb.), white spruce (Picea glauce Voss.), and trembling aspen (Populus tremuloides Michx.) were simulated using a 50 year climatic data base from northern Alberta. Available water holding capacity (AWHC) was used to identify soil moisture regime, and leaf area index (LAI) and net primary production (NPP) were used as indices of forest productivity. Published physiological parameters were used in the Biome-BGC-SD model. Relative productivity was assessed by comparing model predictions to the measured above-ground biomass dynamics for the three tree species, and was then used to study the responses of forest leaf area index and potential productivity to AWHC on different soil profiles. Simulated results indicated soil layering could significantly increase AWHC in the 1-m profile for coarse textured soils. This enhanced AWHC could result in an increase in forest LAI and NPP. The increased extent varied with soil

Plant traits, productivity, biomass and soil properties from forest sites in the Pacific Northwest, 1999-2014

Science.gov (United States)

Berner, Logan T.; Law, Beverly E.

2016-01-01

Plant trait measurements are needed for evaluating ecological responses to environmental conditions and for ecosystem process model development, parameterization, and testing. We present a standardized dataset integrating measurements from projects conducted by the Terrestrial Ecosystem Research and Regional Analysis- Pacific Northwest (TERRA-PNW) research group between 1999 and 2014 across Oregon and Northern California, where measurements were collected for scaling and modeling regional terrestrial carbon processes with models such as Biome-BGC and the Community Land Model. The dataset contains measurements of specific leaf area, leaf longevity, leaf carbon and nitrogen for 35 tree and shrub species derived from more than 1,200 branch samples collected from over 200 forest plots, including several AmeriFlux sites. The dataset also contains plot-level measurements of forest composition, structure (e.g., tree biomass), and productivity, as well as measurements of soil structure (e.g., bulk density) and chemistry (e.g., carbon). Publically-archiving regional datasets of standardized, co-located, and geo-referenced plant trait measurements will advance the ability of earth system models to capture species-level climate sensitivity at regional to global scales.

Characterization of the Nigerian local turkey based on blood ...

African Journals Online (AJOL)

The BGC was significantly different (p<0.05) among the birds at 7, 11 and 23 weeks old, with highest values in black colour at 7 and 11WOA, and black and white colours at 23 WOA. Improvement for local turkey in Nigeria could be made using the markers RT, PCV, Hb, WBC and RBC for Marker-assisted selection. In view of ...

Simulation of maximum light use efficiency for some typical vegetation types in China

Institute of Scientific and Technical Information of China (English)

无

2006-01-01

Maximum light use efficiency (εmax) is a key parameter for the estimation of net primary productivity (NPP) derived from remote sensing data. There are still many divergences about its value for each vegetation type. The εmax for some typical vegetation types in China is simulated using a modified least squares function based on NOAA/AVHRR remote sensing data and field-observed NPP data. The vegetation classification accuracy is introduced to the process. The sensitivity analysis of εmax to vegetation classification accuracy is also conducted. The results show that the simulated values of εmax are greater than the value used in CASA model, and less than the values simulated with BIOME-BGC model. This is consistent with some other studies. The relative error of εmax resulting from classification accuracy is -5.5%―8.0%. This indicates that the simulated values of εmax are reliable and stable.

Development of a data driven process-based model for remote sensing of terrestrial ecosystem productivity, evapotranspiration, and above-ground biomass

Science.gov (United States)

El Masri, Bassil

2011-12-01

Modeling terrestrial ecosystem functions and structure has been a subject of increasing interest because of the importance of the terrestrial carbon cycle in global carbon budget and climate change. In this study, satellite data were used to estimate gross primary production (GPP), evapotranspiration (ET) for two deciduous forests: Morgan Monroe State forest (MMSF) in Indiana and Harvard forest in Massachusetts. Also, above-ground biomass (AGB) was estimated for the MMSF and the Howland forest (mixed forest) in Maine. Surface reflectance and temperature, vegetation indices, soil moisture, tree height and canopy area derived from the Moderate Resolution Imagining Spectroradiometer (MODIS), the Advanced Microwave Scanning Radiometer (AMRS-E), LIDAR, and aerial imagery respectively, were used for this purpose. These variables along with others derived from remotely sensed data were used as inputs variables to process-based models which estimated GPP and ET and to a regression model which estimated AGB. The process-based models were BIOME-BGC and the Penman-Monteith equation. Measured values for the carbon and water fluxes obtained from the Eddy covariance flux tower were compared to the modeled GPP and ET. The data driven methods produced good estimation of GPP and ET with an average root mean square error (RMSE) of 0.17 molC/m2 and 0.40 mm/day, respectively for the MMSF and the Harvard forest. In addition, allometric data for the MMSF were used to develop the regression model relating AGB with stem volume. The performance of the AGB regression model was compared to site measurements using remotely sensed data for the MMSF and the Howland forest where the model AGB RMSE ranged between 2.92--3.30 Kg C/m2. Sensitivity analysis revealed that improvement in maintenance respiration estimation and remotely sensed maximum photosynthetic activity as well as accurate estimate of canopy resistance will result in improved GPP and ET predictions. Moreover, AGB estimates were

Toward Rational Design of Cu/SSZ-13 Selective Catalytic Reduction Catalysts: Implications from Atomic-Level Understanding of Hydrothermal Stability

Energy Technology Data Exchange (ETDEWEB)

Song, James [Institute; The; amp, Linda Voiland School of Chemical Engineering and Bioengineering, Washington State University, P.O. Box 646515, Pullman, Washington 99164, United States; Wang, Yilin [Institute; Walter, Eric D. [Environmental; Washton, Nancy M. [Environmental; Mei, Donghai [Institute; Kovarik, Libor [Environmental; Engelhard, Mark H. [Environmental; Prodinger, Sebastian [Institute; Wang, Yong [Institute; The; amp, Linda Voiland School of Chemical Engineering and Bioengineering, Washington State University, P.O. Box 646515, Pullman, Washington 99164, United States; Peden, Charles H. F. [Institute; Gao, Feng [Institute

2017-11-03

The hydrothermal stability of Cu/SSZ-13 SCR catalysts has been extensively studied, yet atomic level understanding of changes to the zeolite support and the Cu active sites during hydrothermal aging are still lacking. In this work, via the utilization of spectroscopic methods including solid-state 27Al and 29Si NMR, EPR, DRIFTS, and XPS, together with imaging and elemental mapping using STEM, detailed kinetic analyses, and theoretical calculations with DFT, various Cu species, including two types of isolated active sites and CuOx clusters, were precisely quantified for samples hydrothermally aged under varying conditions. This quantification convincingly confirms the exceptional hydrothermal stability of isolated Cu2+-2Z sites, and the gradual conversion of [Cu(OH)]+-Z to CuOx clusters with increasing aging severity. This stability difference is rationalized from the hydrolysis activation barrier difference between the two isolated sites via DFT. Discussions are provided on the nature of the CuOx clusters, and their possible detrimental roles on catalyst stability. Finally, a few rational design principles for Cu/SSZ-13 are derived rigorously from the atomic-level understanding of this catalyst obtained here. The authors gratefully acknowledge the US Department of Energy (DOE), Energy Efficiency and Renewable Energy, Vehicle Technologies Office for the support of this work. Computing time was granted by a user proposal at the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) and by the National Energy Research Scientific Computing Center (NERSC). The experimental studies described in this paper were performed in the EMSL, a national scientific user facility sponsored by the DOE’s Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory (PNNL). PNNL is operated for the US DOE by Battelle.

Simultaneous reproduction of global carbon exchange and storage of terrestrial forest ecosystems

Science.gov (United States)

Kondo, M.; Ichii, K.

2012-12-01

performance of carbon fluxes and biomass simulations with them. An experiment was performed with a widely used model, Biome-BGC, and effects of disturbance and forest age were considered in the model run. As for disturbance, human influence index map derived by CIESIN was used. A global forest age map was prepared with model inversion method using CIESIN human influence index, GFED fire burnt area, and IIASA global forest biomass maps. To validate model GPP and RE, we prepared the global GPP map estimated with support vector machine and the global RE map derived by downscaling the carbon budget product (L4A) of Greenhouse gases Observing SATellite (GOSAT) in conjunction with IIASA biomass and soil carbon products. Through a process of testing the simultaneous reproducibility of the Biome-BGC model, it will be determined whether the current terrestrial ecosystem model is sophisticated enough for clarifying the mechanism of carbon cycle.

Transuranic elements in terrestrial animals and the environment: an introduction

International Nuclear Information System (INIS)

Potter, G.D.

1977-01-01

This discussion provides background information to the session on the ''Transuranic Elements in Terrestrial Animals.'' Briefly outlined are some of the historical events leading to the introduction and dispersion of the transuranic elements into the biosphere, to the establishment of the Nevada Applied Ecology Group (NAEG), and to the studies conducted by the Environmental Monitoring and Support Laboratory (EMSL-LV) and the University of Nevada-Las Vegas involving the transuranics distributed by the ''safety shots'' and the nuclear weapons testing program at the Nevada Test Site and the Tonopah Test Range. These studies are described in relation to the overall objectives of the NAEG program. Other potential sources of the transuranic radionuclides are also discussed

EDA-containing fibronectin increases proliferation of embryonic stem cells.

Directory of Open Access Journals (Sweden)

Noelia Losino

Full Text Available Embryonic stem cells (ESC need a set of specific factors to be propagated. They can also grow in conditioned medium (CM derived from a bovine granulosa cell line BGC (BGC-CM, a medium that not only preserves their main features but also increases ESC´s proliferation rate. The mitogenic properties of this medium were previously reported, ascribing this effect to an alternative spliced generated fibronectin isoform that contains the extra domain A (FN EDA(+. Here, we investigated if the FN EDA(+ isoform increased proliferation of mouse and human ES cells. We analyzed cell proliferation using conditioned media produced by different mouse embryonic fibroblast (MEF lines genetically engineered to express FN constitutively including or excluding the EDA domain (FN EDA(-, and in media supplemented with recombinant peptides containing or not the EDA. We found that the presence of EDA in the medium increased mouse and human ESC's proliferation rate. Here we showed for the first time that this FN isoform enhances ESC's proliferation. These findings suggest a possible conserved behavior for regulation of ES cells proliferation by this FN isoform and could contribute to improve their culturing conditions both for research and cell therapy.

Biisofraxidin on Apoptosis of Human Gastric Cancer BGC-823 Cells

African Journals Online (AJOL)

Wu et al. Trop J Pharm Res, October 2015; 14(10): 1803. Tropical Journal of Pharmaceutical Research ... Jian-Tao Wu1,2*, She-Min Lv1, Chun-Hui Lu1, Jun Gong1 and Jian-Bo An3 ..... Zhu AK, Zhou H, Xia JZ, Jin HC, Wang K, Yan J, Zuo JB,.

The spatial and temporal shifts of biofuel production in the ecosystem-level carbon and water dynamics in the central plains of US

Science.gov (United States)

Lin, P.; Brunsell, N. A.

2011-12-01

The grasslands of the central plains US are the leading producer of wheat, sorghum and a significant amount of corn and soybean. By linking the food production and energy cycles, increasing demand for ethanol, biodiesel, and food, not only regional ecosystems are altered by the influences of Land-Use Land-Cover (LULC), but it is also a challenge for us to gain more knowledge about the carbon balance on fuel and food. In order to ascertain the impacts of changing LULC on carbon and water dynamics, more specifically, to examine the impacts of altering current land cover to increase biofuel production in this region, we used Normalized Difference Vegetation Index (NDVI) data and precipitation record for the period from 1982 to 2003 to show the temporal dynamics associated with different landcover types as a function of location along the mean precipitation gradient; and then employed Biome-BGC model to estimate key carbon fluxes and storage pools associated with each of the different landcover classes, as well as the fluxes resulting from landcover changes. Results show an increasing trend of NDVI is from the west to the east, which agreed with the spatial distribution of precipitation, however due to some of LULC types are grown by irrigation, precipitation is not the main effect for vegetation development in west portion. However, overall within the study area, indicated by the temporal distributed plots of wavelet analysis for NDVI and precipitation, vegetation dynamics is obviously affected by long-term regional climatic factors, i.e. precipitation, not by short-term or individual local factors instead. On the other hand, by inputting actual land cover and interpolated meteorological data, as well as important ecosystem variables that govern carbon dynamics, we can better define the impacts of biofuel productions; moreover, this ecosystem carbon cycling simulation by Bio-BGC model illustrates that the extent of those landcover responses depend not only on the rate

Impacts of Land Use Change on Net Ecosystem Production in China's Taihu Lake Basin in 1985-2010

Science.gov (United States)

Xu, X.; Yang, G.

2017-12-01

Land use change play a major role in determining sources and sinks of carbon at regional and global scales. This study employs a modified BIOME-BGC model to examine the changes in the spatio-temporal pattern of net ecosystem production (NEP) in China's Taihu Lake Basin in 1985-2010 and the extent to which land use change impacted NEP. The BIOME-BGC model was calibrated with observed NEP at three open-path eddy covariance flux sites for three dominant land-use types in the Basin including cropland, evergreen needleleaf forest, and mixed forest. Land use data were interpreted from Landsat TM images in 1985, 2000, 2005 and 2010 at the scale of 1:100,000 based on a decision tree method. Two simulations are conducted to distinguish the net effects of land use change and increasing atmospheric concentrations of CO2 and nitrogen deposition on NEP. S1 deals with the actual outcomes of NEP under the interactions between land use change and increasing atmospheric concentration of CO2 and N deposition. S2 assumes that atmospheric CO2 concentration and N deposition remain unchanged at their 1985 levels: 338.32 ppm and 0.0005 kg m-2, respectively. The study estimates that NEP in the Basin showed an overall downward trend, decreasing by 9.8% (1.57 TgC) and 3.21 TgC (or 20.9%) from 1985 to 2010 under situation S1 and S2, respectively. The NEP distribution exhibits an apparent spatial heterogeneity at the municipal level. Land use changesin 1985-2010 reduced the regional NEP (3.21 Tg C in year 2010) by 19.9% compared to its 1985 level, while the increasing atmospheric CO2 concentrations and nitrogen deposition compensated for a half of the total carbon loss. Critical measures for regulating rapid urban expansion and population growth and reinforcing environment protection programs are recommended to increase the regional carbon sink.

Generating daily weather data for ecosystem modelling in the Congo River Basin

Science.gov (United States)

Petritsch, Richard; Pietsch, Stephan A.

2010-05-01

based on the ratio of values on rainy days and days without rain, respectively. For assessing the impact of our correction, we simulated the ecosystem behaviour using the climate data from Lastourville, Moanda and Mouilla with the mechanistic ecosystem model Biome-BGC. Differences in terms of the carbon, nitrogen and water cycle were subsequently analysed and discussed.

Basal Ganglia Calcification with Tetanic Seizure Suggest Mitochondrial Disorder

OpenAIRE

Finsterer, Josef; Enzelsberger, Barbara; Bastowansky, Adam

2017-01-01

Patient: Female, 65 Final Diagnosis: Mitochondrial disorder Symptoms: Headache ? tetanic seizure Medication: Diazepam Clinical Procedure: Admission Specialty: Neurology Objective: Challenging differential diagnosis Background: Basal ganglia calcification (BGC) is a rare sporadic or hereditary central nervous system (CNS) abnormality, characterized by symmetric or asymmetric calcification of the basal ganglia. Case Report: We report the case of a 65-year-old Gypsy female who was admitted for a...

Nitrogen deposition, land cover conversion, climate, and contemporary carbon balance of Europe (Invited)

Science.gov (United States)

Churkina, G.; Zahle, S.; Hughes, J.; Viovy, N.; Chen, Y.; Jung, M.; Ramankutty, N.; Roedenbeck, C.; Heimann, M.; Jones, C.

2009-12-01

In Europe, atmospheric nitrogen deposition has more than doubled, air temperature was rising, forest cover was steadily increasing, while agricultural area was declining over the last 50 years. What effect have these changes had on the European carbon balance? In this study we estimate responses of the European land ecosystems to nitrogen deposition, rising CO2, land cover conversion and climate change. We use results from three ecosystem process models such as BIOME-BGC, JULES, and ORCHIDEE (-CN) to address this question. We discuss to which degree carbon balance of Europe has been altered by nitrogen deposition in comparison to other drivers and identify areas which carbon balance has been affected by anthropogenic changes the most. We also analyze ecosystems carbon pools which were affected by the abovementioned environmental changes.

Detecting robust signals of interannual variability of gross primary productivity in Asia from multiple terrestrial carbon cycle models and long-term satellite-based vegetation data

Science.gov (United States)

Ichii, K.; Kondo, M.; Ueyama, M.; Kato, T.; Ito, A.; Sasai, T.; Sato, H.; Kobayashi, H.; Saigusa, N.

2014-12-01

Long term record of satellite-based terrestrial vegetation are important to evaluate terrestrial carbon cycle models. In this study, we demonstrate how multiple satellite observation can be used for evaluating past changes in gross primary productivity (GPP) and detecting robust anomalies in terrestrial carbon cycle in Asia through our model-data synthesis analysis, Asia-MIP. We focused on the two different temporal coverages: long-term (30 years; 1982-2011) and decadal (10 years; 2001-2011; data intensive period) scales. We used a NOAA/AVHRR NDVI record for long-term analysis and multiple satellite data and products (e.g. Terra-MODIS, SPOT-VEGETATION) as historical satellite data, and multiple terrestrial carbon cycle models (e.g. BEAMS, Biome-BGC, ORCHIDEE, SEIB-DGVM, and VISIT). As a results of long-term (30 years) trend analysis, satellite-based time-series data showed that approximately 40% of the area has experienced a significant increase in the NDVI, while only a few areas have experienced a significant decreasing trend over the last 30 years. The increases in the NDVI were dominant in the sub-continental regions of Siberia, East Asia, and India. Simulations using the terrestrial biosphere models also showed significant increases in GPP, similar to the results for the NDVI, in boreal and temperate regions. A modeled sensitivity analysis showed that the increases in GPP are explained by increased temperature and precipitation in Siberia. Precipitation, solar radiation, CO2fertilization and land cover changes are important factors in the tropical regions. However, the relative contributions of each factor to GPP changes are different among the models. Year-to-year variations of terrestrial GPP were overall consistently captured by the satellite data and terrestrial carbon cycle models if the anomalies are large (e.g. 2003 summer GPP anomalies in East Asia and 2002 spring GPP anomalies in mid to high latitudes). The behind mechanisms can be consistently

Environmental Assessment and Finding of No Significant Impact: Interim Measures for the Mixed Waste Management Facility Groundwater at the Burial Ground Complex at the Savannah River Site

Energy Technology Data Exchange (ETDEWEB)

N/A

1999-12-08

The U. S. Department of Energy (DOE) prepared this environmental assessment (EA) to analyze the potential environmental impacts associated with the proposed interim measures for the Mixed Waste Management Facility (MW) groundwater at the Burial Ground Complex (BGC) at the Savannah River Site (SRS), located near Aiken, South Carolina. DOE proposes to install a small metal sheet pile dam to impound water around and over the BGC groundwater seepline. In addition, a drip irrigation system would be installed. Interim measures will also address the reduction of volatile organic compounds (VOCS) from ''hot-spot'' regions associated with the Southwest Plume Area (SWPA). This action is taken as an interim measure for the MWMF in cooperation with the South Carolina Department of Health and Environmental Control (SCDHEC) to reduce the amount of tritium seeping from the BGC southwest groundwater plume. The proposed action of this EA is being planned and would be implemented concurrent with a groundwater corrective action program under the Resource Conservation and Recovery Act (RCRA). On September 30, 1999, SCDHEC issued a modification to the SRS RCRA Part B permit that adds corrective action requirements for four plumes that are currently emanating from the BGC. One of those plumes is the southwest plume. The RCRA permit requires SRS to submit a corrective action plan (CAP) for the southwest plume by March 2000. The permit requires that the initial phase of the CAP prescribe a remedy that achieves a 70-percent reduction in the annual amount of tritium being released from the southwest plume area to Fourmile Branch, a nearby stream. Approval and actual implementation of the corrective measure in that CAP may take several years. As an interim measure, the actions described in this EA would manage the release of tritium from the southwest plume area until the final actions under the CAP can be implemented. This proposed action is expected to reduce the

Comparison of growth response to thinning in oak forests managed as coppice with standards and high forest

Science.gov (United States)

Gautam, S.; Hasenauer, H.; Pietsch, S. A.

2009-04-01

The BIOME-BGC model integrates the main physical, biological and physiological processes based on current understanding of ecophysiology to assess forest ecosystem dynamics. This study evaluates the application of the model to assess the thinning effects on coppiced oak forests in Austria. We analyze the growth response, i.e. growth efficiency (GE), nitrogen use efficiency (NUE), water use efficiency (WUE) and radiation use efficiency (RUE) of oak forests to thinning. The results of coppice with standards and high forests simulations are analysed for differences in simulated growth response after thinning. The forest field data of the year 2006 and the respective model runs are used to evaluate model application. Strong positive relationship (r2 = 0.90) with unbiased results and statistically insignificant differences between predicted and observed volume allows the use of the model as a diagnostic tool to assess management effects. Results indicate that the coppice with standards exhibits a significantly higher yield by 2.97% (i.e. 10 cubic meters per hectare in one rotation), a higher harvest (49.9%) but a lower growing stock (19.69%) than the high forests. The higher growing stock and the lower extraction in the high forests confirm that the high forest sequestrates significantly more carbon than the coppice with standards. Results show that thinning leads to an increase in the GE, the NUE and the WUE, and to a decrease in the RUE. Although the coppice with standards forest ecosystem exhibits higher values in all studied growth parameters, only the difference in the NUE was statistically significant. This verifies that the difference in the yield between the coppice with standards and the high forests is mainly governed by the NUE difference in stands after thinning. The coppice with standards system produces an equal amount of net primary production while consuming significantly less nitrogen (16%) compared to the high forest system. In the coppice with

Deriving forest fire ignition risk with biogeochemical process modelling☆

Science.gov (United States)

Eastaugh, C.S.; Hasenauer, H.

2014-01-01

Climate impacts the growth of trees and also affects disturbance regimes such as wildfire frequency. The European Alps have warmed considerably over the past half-century, but incomplete records make it difficult to definitively link alpine wildfire to climate change. Complicating this is the influence of forest composition and fuel loading on fire ignition risk, which is not considered by purely meteorological risk indices. Biogeochemical forest growth models track several variables that may be used as proxies for fire ignition risk. This study assesses the usefulness of the ecophysiological model BIOME-BGC's ‘soil water’ and ‘labile litter carbon’ variables in predicting fire ignition. A brief application case examines historic fire occurrence trends over pre-defined regions of Austria from 1960 to 2008. Results show that summer fire ignition risk is largely a function of low soil moisture, while winter fire ignitions are linked to the mass of volatile litter and atmospheric dryness. PMID:26109905

Assessing the Implications of Changing Extreme Value Distributions of Weather on Carbon and Water Cycling in Grasslands

Science.gov (United States)

Brunsell, N. A.; Nippert, J. B.

2011-12-01

As the climate warms, it is generally acknowledged that the number and magnitude of extreme weather events will increase. We examined an ecophysiological model's responses to precipitation and temperature anomalies in relation to the mean and variance of annual precipitation along a pronounced precipitation gradient from eastern to western Kansas. This natural gradient creates a template of potential responses for both the mean and variance of annual precipitation to compare the timescales of carbon and water fluxes. Using data from several Ameriflux sites (KZU and KFS) and a third eddy covariance tower (K4B) along the gradient, BIOME-BGC was used to characterize water and carbon cycle responses to extreme weather events. Changes in the extreme value distributions were based on SRES A1B and A2 scenarios using an ensemble mean of 21 GCMs for the region, downscaled using a stochastic weather generator. We focused on changing the timing and magnitude of precipitation and altering the diurnal and seasonal temperature ranges. Biome-BGC was then forced with daily output from the stochastic weather generator, and we examined how potential changes in these extreme value distributions impact carbon and water cycling at the sites across the Kansas precipitation gradient at time scales ranging from daily to interannual. To decompose the time scales of response, we applied a wavelet based information theory analysis approach. Results indicate impacts in soil moisture memory and carbon allocation processes, which vary in response to both the mean and variance of precipitation along the precipitation gradient. These results suggest a more pronounced focus ecosystem responses to extreme events across a range of temporal scales in order to fully characterize the water and carbon cycle responses to global climate change.

Global net primary production and heterotrophic respiration for 1987

Energy Technology Data Exchange (ETDEWEB)

Hunt, R.E. Jr.; Piper, S.C.; Nemani, R. [Univ. of Montana, Missoula, MT (United States)]|[Scripps Institute of Oceanography, La Jolla, CA (United States)] [and others

1995-06-01

An ecosystem process model, BIOME-BGC, was parameterized and used to simulate the actual net primary production and heterotrophic respiration using daily climatic data, land cover type, leaf area index gridded to 1{degree} latitude by 1{degree} longitude grid cells for the year 1987. Global net primary production was 52 Pg C. These estimates were validated directly by two different methods. First, the grid cells were aggregated and used as inputs to a 3D atmospheric transport model, to compare CO{sub 2} station data with predictions. We simulated the intra-annual variation of atmospheric CO{sub 2} well for the northern hemisphere, but not for the southern hemisphere. Second, we calculated the net {sup 13}C uptake of vegetation, which is a function of water use efficiency. The {sup 13}C/{sup 12}C ratios agreed with measured data, indicating a strong limitation of global primary processes by the hydrologic cycle, especially precipitation. These are different from other global carbon models as we can simulate the year-to-year variation of climate, including El Nino, on the global carbon cycle.

Spectroscopic and Microscopic Characterization of Contaminant Uptake and Retention by Carbonates in the Soil and Vadose Zone

International Nuclear Information System (INIS)

Reeder, Richard J.; Fisher, Nicholas S.; Hess, Wayne P.; Beck, Kenneth M.

2003-01-01

The research focus of this previous EMSP grant was assessment of the role that carbonate minerals play in the uptake and sequestration of metal and radionuclide contaminants in soils and the vadose zone for conditions relevant to the Hanford Site and other sites in the DOE Complex. The project was a collaboration among researchers at SUNY-Stony Brook and EMSL/PNNL. Carbonates, particularly calcite, are present in the Hanford subsurface as grain coatings, disseminated particles, and dense caliche layers. Calcite is also predicted to be forming beneath leaking tanks. A range of metal and radionuclide species that pose risks at Hanford and other DOE sites were considered, including U(VI), Cr(CV), Cs, Pb(II), and selected lanthanides (as models for trivalent actinides). Batch sorption and co-precipitation experiments of these metals with pre-equilibrated calcite and selected uptake experiments on natural caliche formed the basis to determine the mechanisms of metal/radionuclide binding and to assess the effect on the stability of the sorbed species and the potential for remobilization. Our results provide ne information that can benefit DOE clean-up methodology and potentially provide new approaches for uptake of selected heavy metals

Plant traits, productivity, biomass and soil properties from forest sites in the Pacific Northwest, 1999–2014

Science.gov (United States)

Berner, Logan T.; Law, Beverly E.

2016-01-01

Plant trait measurements are needed for evaluating ecological responses to environmental conditions and for ecosystem process model development, parameterization, and testing. We present a standardized dataset integrating measurements from projects conducted by the Terrestrial Ecosystem Research and Regional Analysis- Pacific Northwest (TERRA-PNW) research group between 1999 and 2014 across Oregon and Northern California, where measurements were collected for scaling and modeling regional terrestrial carbon processes with models such as Biome-BGC and the Community Land Model. The dataset contains measurements of specific leaf area, leaf longevity, leaf carbon and nitrogen for 35 tree and shrub species derived from more than 1,200 branch samples collected from over 200 forest plots, including several AmeriFlux sites. The dataset also contains plot-level measurements of forest composition, structure (e.g., tree biomass), and productivity, as well as measurements of soil structure (e.g., bulk density) and chemistry (e.g., carbon). Publically-archiving regional datasets of standardized, co-located, and geo-referenced plant trait measurements will advance the ability of earth system models to capture species-level climate sensitivity at regional to global scales. PMID:26784559

Annual Report 2000. Chemical Structure and Dynamics; FINAL

International Nuclear Information System (INIS)

Colson, Steve D; McDowell, Rod S

2001-01-01

This annual report describes the research and accomplishments of the Chemical Structure and Dynamics Program in the year 2000, one of six research programs at the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) - a multidisciplinary, national scientific user facility and research organization. The Chemical Structure and Dynamics (CS and D) program is meeting the need for a fundamental, molecular-level understanding by (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interfacial chemical processes relevant to environmental chemistry; and (3) developing state-of-the-art research and analytical methods for characterizing complex materials of the types found in natural and contaminated systems

Annual Report 2000. Chemical Structure and Dynamics

Energy Technology Data Exchange (ETDEWEB)

Colson, Steven D.; McDowell, Robin S.

2001-04-15

This annual report describes the research and accomplishments of the Chemical Structure and Dynamics Program in the year 2000, one of six research programs at the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) - a multidisciplinary, national scientific user facility and research organization. The Chemical Structure and Dynamics (CS&D) program is meeting the need for a fundamental, molecular-level understanding by 1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; 2) developing a multidisciplinary capability for describing interfacial chemical processes relevant to environmental chemistry; and 3) developing state-of-the-art research and analytical methods for characterizing complex materials of the types found in natural and contaminated systems.

Modeling Impacts of Climate and Land Use Change on Ecosystem Processes to Quantify Exposure to Climate Change in Two Landscape Conservation Cooperatives

Science.gov (United States)

Quackenbush, A.

2015-12-01

Urban land cover and associated impervious surface area is expected to increase by as much as 50% over the next few decades across substantial portions of the United States. In combination with urban expansion, increases in temperature and changes in precipitation are expected to impact ecosystems through changes in productivity, disturbance and hydrological properties. In this study, we use the NASA Terrestrial Observation and Prediction System Biogeochemical Cycle (TOPS-BGC) model to explore the combined impacts of urbanization and climate change on hydrologic dynamics (snowmelt, runoff, and evapotranspiration) and vegetation carbon uptake (gross productivity). The model is driven using land cover predictions from the Spatially Explicit Regional Growth Model (SERGoM) to quantify projected changes in impervious surface area, and climate projections from the 30 arc-second NASA Earth Exchange Downscaled Climate Projection (NEX-DCP30) dataset derived from the CMIP5 climate scenarios. We present the modeling approach and an analysis of the ecosystem impacts projected to occur in the US, with an emphasis on protected areas in the Great Northern and Appalachian Landscape Conservation Cooperatives (LCC). Under the ensemble average of the CMIP5 models and land cover change scenarios for both representative concentration pathways (RCPs) 4.5 and 8.5, both LCCs are predicted to experience increases in maximum and minimum temperatures as well as annual average precipitation. In the Great Northern LCC, this is projected to lead to increased annual runoff, especially under RCP 8.5. Earlier melt of the winter snow pack and increased evapotranspiration, however, reduces summer streamflow and soil water content, leading to a net reduction in vegetation productivity across much of the Great Northern LCC, with stronger trends occurring under RCP 8.5. Increased runoff is also projected to occur in the Appalachian LCC under both RCP 4.5 and 8.5. However, under RCP 4.5, the model

Mutational Biases and GC-Biased Gene Conversion Affect GC Content in the Plastomes of Dendrobium Genus

Directory of Open Access Journals (Sweden)

Zhitao Niu

2017-11-01

Full Text Available The variation of GC content is a key genome feature because it is associated with fundamental elements of genome organization. However, the reason for this variation is still an open question. Different kinds of hypotheses have been proposed to explain the variation of GC content during genome evolution. However, these hypotheses have not been explicitly investigated in whole plastome sequences. Dendrobium is one of the largest genera in the orchid species. Evolutionary studies of the plastomic organization and base composition are limited in this genus. In this study, we obtained the high-quality plastome sequences of D. loddigesii and D. devonianum. The comparison results showed a nearly identical organization in Dendrobium plastomes, indicating that the plastomic organization is highly conserved in Dendrobium genus. Furthermore, the impact of three evolutionary forces—selection, mutational biases, and GC-biased gene conversion (gBGC—on the variation of GC content in Dendrobium plastomes was evaluated. Our results revealed: (1 consistent GC content evolution trends and mutational biases in single-copy (SC and inverted repeats (IRs regions; and (2 that gBGC has influenced the plastome-wide GC content evolution. These results suggest that both mutational biases and gBGC affect GC content in the plastomes of Dendrobium genus.

Game of Trust: Brand-generated content vs Consumer-generated advertising : A qualitative study of Arla Foods

OpenAIRE

Cheng, Emelie; Khan, Nadia

2017-01-01

This thesis studies how trust in two different types of social media advertising, brand-generated content (BGC) and consumer-generated advertising (CGA), influence Millennials purchase intention towards brands in the fast-moving consumer goods (FMCG) industry. The phenomenon of CGA has caught researchers’ interest since it is believed to influence consumers’ purchase intention by affecting their trust in the advertising. There is, however, a lack of prior research and contrasting views regard...

Phylogenomic Study of Burkholderia glathei-like Organisms, Proposal of 13 Novel Burkholderia Species and Emended Descriptions of Burkholderia sordidicola, Burkholderia zhejiangensis, and Burkholderia grimmiae

OpenAIRE

Peeters, Charlotte; Meier-Kolthoff, Jan P.; Verheyde, Bart; De Brandt, Evie; Cooper, Vaughn S.; Vandamme, Peter

2016-01-01

Partial gyrB gene sequence analysis of 17 isolates from human and environmental sources revealed 13 clusters of strains and identified them as Burkholderia glathei Glade (BGC) bacteria. The taxonomic status of these clusters was examined by whole-genome sequence analysis, determination of the G+C content, whole-cell fatty acid analysis and biochemical characterization. The whole-genome sequence-based phylogeny was assessed using the Genome Blast Distance Phylogeny (GBDP) method and an extende...

A Cultural Resources Reconnaissance at Lake Red Rock, Iowa

Science.gov (United States)

1984-05-01

vegetation and forest biomes that extended the length of the valley. It is implied that higher sinuosity, the graded topographies of the two lower terraces...11 B2t), the basal loess (II BgC ), proglacial lacustrine or ponding S sediments (III C), and the weathered Kansan till (IV C). Of these units, the...the poorly drained terrace settings and the generation of circumscribed aquatic biomes along this portion of the river. As illustrated by the

Exploring the role of pendant amines in transition metal complexes for the reduction of N2 to hydrazine and ammonia

Energy Technology Data Exchange (ETDEWEB)

Bhattacharya, Papri; Prokopchuk, Demyan E.; Mock, Michael T.

2017-03-01

This review examines the synthesis and acid reactivity of transition metal dinitrogen complexes bearing diphosphine ligands containing pendant amine groups in the second coordination sphere. This manuscript is a review of the work performed in the Center for Molecular Electrocatalysis. This work was supported as part of the Center for Molecular Electrocatalysis, an Energy Frontier Research Center funded by the U.S. Department of Energy (U.S. DOE), Office of Science, Office of Basic Energy Sciences. EPR studies on Fe were performed using EMSL, a national scientific user facility sponsored by the DOE’s Office of Biological and Environmental Research and located at PNNL. Computational resources were provided by the National Energy Research Scientific Computing Center (NERSC) at Lawrence Berkeley National Laboratory. Pacific Northwest National Laboratory is operated by Battelle for the U.S. DOE.

BIOMAP A Daily Time Step, Mechanistic Model for the Study of Ecosystem Dynamics

Science.gov (United States)

Wells, J. R.; Neilson, R. P.; Drapek, R. J.; Pitts, B. S.

2010-12-01

BIOMAP simulates competition between two Plant Functional Types (PFT) at any given point in the conterminous U.S. using a time series of daily temperature (mean, minimum, maximum), precipitation, humidity, light and nutrients, with PFT-specific rooting within a multi-layer soil. The model employs a 2-layer canopy biophysics, Farquhar photosynthesis, the Beer-Lambert Law for light attenuation and a mechanistic soil hydrology. In essence, BIOMAP is a re-built version of the biogeochemistry model, BIOME-BGC, into the form of the MAPSS biogeography model. Specific enhancements are: 1) the 2-layer canopy biophysics of Dolman (1993); 2) the unique MAPSS-based hydrology, which incorporates canopy evaporation, snow dynamics, infiltration and saturated and unsaturated percolation with ‘fast’ flow and base flow and a ‘tunable aquifer’ capacity, a metaphor of D’Arcy’s Law; and, 3) a unique MAPSS-based stomatal conductance algorithm, which simultaneously incorporates vapor pressure and soil water potential constraints, based on physiological information and many other improvements. Over small domains the PFTs can be parameterized as individual species to investigate fundamental vs. potential niche theory; while, at more coarse scales the PFTs can be rendered as more general functional groups. Since all of the model processes are intrinsically leaf to plot scale (physiology to PFT competition), it essentially has no ‘intrinsic’ scale and can be implemented on a grid of any size, taking on the characteristics defined by the homogeneous climate of each grid cell. Currently, the model is implemented on the VEMAP 1/2 degree, daily grid over the conterminous U.S. Although both the thermal and water-limited ecotones are dynamic, following climate variability, the PFT distributions remain fixed. Thus, the model is currently being fitted with a ‘reproduction niche’ to allow full dynamic operation as a Dynamic General Vegetation Model (DGVM). While global simulations

Regional assessment of boreal forest productivity using an ecological process model and remote sensing parameter maps.

Science.gov (United States)

Kimball, J. S.; Keyser, A. R.; Running, S. W.; Saatchi, S. S.

2000-06-01

An ecological process model (BIOME-BGC) was used to assess boreal forest regional net primary production (NPP) and response to short-term, year-to-year weather fluctuations based on spatially explicit, land cover and biomass maps derived by radar remote sensing, as well as soil, terrain and daily weather information. Simulations were conducted at a 30-m spatial resolution, over a 1205 km(2) portion of the BOREAS Southern Study Area of central Saskatchewan, Canada, over a 3-year period (1994-1996). Simulations of NPP for the study region were spatially and temporally complex, averaging 2.2 (+/- 0.6), 1.8 (+/- 0.5) and 1.7 (+/- 0.5) Mg C ha(-1) year(-1) for 1994, 1995 and 1996, respectively. Spatial variability of NPP was strongly controlled by the amount of aboveground biomass, particularly photosynthetic leaf area, whereas biophysical differences between broadleaf deciduous and evergreen coniferous vegetation were of secondary importance. Simulations of NPP were strongly sensitive to year-to-year variations in seasonal weather patterns, which influenced the timing of spring thaw and deciduous bud-burst. Reductions in annual NPP of approximately 17 and 22% for 1995 and 1996, respectively, were attributed to 3- and 5-week delays in spring thaw relative to 1994. Boreal forest stands with greater proportions of deciduous vegetation were more sensitive to the timing of spring thaw than evergreen coniferous stands. Similar relationships were found by comparing simulated snow depth records with 10-year records of aboveground NPP measurements obtained from biomass harvest plots within the BOREAS region. These results highlight the importance of sub-grid scale land cover complexity in controlling boreal forest regional productivity, the dynamic response of the biome to short-term interannual climate variations, and the potential implications of climate change and other large-scale disturbances.

To Tip or Not to Tip: The Case of the Congo Basin Rainforest Realm

Science.gov (United States)

Pietsch, S.; Bednar, J. E.; Fath, B. D.; Winter, P. A.

2017-12-01

The future response of the Congo basin rainforest, the second largest tropical carbon reservoir, to climate change is still under debate. Different Climate projections exist stating increase and decrease in rainfall and different changes in rainfall patterns. Within this study we assess all options of climate change possibilities to define the climatic thresholds of Congo basin rainforest stability and assess the limiting conditions for rainforest persistence. We use field data from 199 research plots from the Western Congo basin to calibrate and validate a complex BioGeoChemistry model (BGC-MAN) and assess model performance against an array of possible future climates. Next, we analyze the reasons for the occurrence of tipping points, their spatial and temporal probability of occurrence, will present effects of hysteresis and derive probabilistic spatial-temporal resilience landscapes for the region. Additionally, we will analyze attractors of forest growth dynamics and assess common linear measures for early warning signals of sudden shifts in system dynamics for their robustness in the context of the Congo Basin case, and introduce the correlation integral as a nonlinear measure of risk assessment.

Both selective and neutral processes drive GC content evolution in the human genome

Directory of Open Access Journals (Sweden)

Cagliani Rachele

2008-03-01

Full Text Available Abstract Background Mammalian genomes consist of regions differing in GC content, referred to as isochores or GC-content domains. The scientific debate is still open as to whether such compositional heterogeneity is a selected or neutral trait. Results Here we analyze SNP allele frequencies, retrotransposon insertion polymorphisms (RIPs, as well as fixed substitutions accumulated in the human lineage since its divergence from chimpanzee to indicate that biased gene conversion (BGC has been playing a role in within-genome GC content variation. Yet, a distinct contribution to GC content evolution is accounted for by a selective process. Accordingly, we searched for independent evidences that GC content distribution does not conform to neutral expectations. Indeed, after correcting for possible biases, we show that intron GC content and size display isochore-specific correlations. Conclusion We consider that the more parsimonious explanation for our results is that GC content is subjected to the action of both weak selection and BGC in the human genome with features such as nucleosome positioning or chromatin conformation possibly representing the final target of selective processes. This view might reconcile previous contrasting findings and add some theoretical background to recent evidences suggesting that GC content domains display different behaviors with respect to highly regulated biological processes such as developmentally-stage related gene expression and programmed replication timing during neural stem cell differentiation.

Predicting future land cover change and its impact on streamflow and sediment load in a trans-boundary river basin

Directory of Open Access Journals (Sweden)

J. Wang

2018-06-01

Full Text Available Sediment load can provide very important perspective on erosion of river basin. The changes of human-induced vegetation cover, such as deforestation or afforestation, affect sediment yield process of a catchment. We have already evaluated that climate change and land cover change changed the historical streamflow and sediment yield, and land cover change is the main factor in Red river basin. But future streamflow and sediment yield changes under potential future land cover change scenario still have not been evaluated. For this purpose, future scenario of land cover change is developed based on historical land cover changes and land change model (LCM. In addition, future leaf area index (LAI is simulated by ecological model (Biome-BGC based on future land cover scenario. Then future scenarios of land cover change and LAI are used to drive hydrological model and new sediment rating curve. The results of this research provide information that decision-makers need in order to promote water resources planning efforts. Besides that, this study also contributes a basic framework for assessing climate change impacts on streamflow and sediment yield that can be applied in the other basins around the world.

Molecular Science Research Center annual report

Energy Technology Data Exchange (ETDEWEB)

Knotek, M.L.

1991-01-01

The Chemical Structure and Dynamics group is studying chemical kinetics and reactions dynamics of terrestrial and atmospheric processes as well as the chemistry of complex waste forms and waste storage media. Staff are using new laser systems and surface-mapping techniques in combination with molecular clusters that mimic adsorbate/surface interactions. The Macromolecular Structure and Dynamics group is determining biomolecular structure/function relationships for processes the control the biological transformation of contaminants and the health effects of toxic substances. The Materials and Interfaces program is generating information needed to design and synthesize advanced materials for the analysis and separation of mixed chemical waste, the long-term storage of concentrated hazardous materials, and the development of chemical sensors for environmental monitoring of various organic and inorganic species. The Theory, Modeling, and Simulation group is developing detailed molecular-level descriptions of the chemical, physical, and biological processes in natural and contaminated systems. Researchers are using the full spectrum of computational techniques. The Computer and Information Sciences group is developing new approaches to handle vast amounts of data and to perform calculations for complex natural systems. The EMSL will contain a high-performance computing facility, ancillary computing laboratories, and high-speed data acquisition systems for all major research instruments.

Simulating the Dependence of Sagebrush Steppe Vegetation on Redistributed Snow in a Semi-Arid Watershed.

Science.gov (United States)

Soderquist, B.; Kavanagh, K.; Link, T. E.; Strand, E. K.; Seyfried, M. S.

2014-12-01

In mountainous regions across the western USA, the composition of aspen (Populus tremuloides) and sagebrush steppe plant communities is often closely related to heterogeneous soil moisture subsidies resulting from redistributed snow. With decades of climate and precipitation data across elevational and precipitation gradients, the Reynolds Creek Experimental Watershed (RCEW) and critical zone observatory (CZO) in southwest Idaho provides a unique opportunity to study the relationship between vegetation types and redistributed snow. Within the RCEW, the total amount of precipitation has remained unchanged over the past 50 years, however the percentage of the precipitation falling as snow has declined by approximately 4% per decade at mid-elevation sites. As shifts in precipitation phase continue, future trends in vegetation composition and net primary productivity (NPP) of different plant functional types remains a critical question. We hypothesize that redistribution of snow may supplement drought sensitive species like aspen more so than drought tolerant species like mountain big sagebrush (Artemisia tridentata spp. vaseyana). To assess the importance of snowdrift subsidies on sagebrush steppe vegetation, NPP of aspen, shrub, and grass species was simulated at three sites using the biogeochemical process model BIOME-BGC. Each site is located directly downslope from snowdrifts providing soil moisture inputs to aspen stands and neighboring vegetation. Drifts vary in size with the largest containing up to four times the snow water equivalent (SWE) of a uniform precipitation layer. Precipitation inputs used by BIOME-BGC were modified to represent the redistribution of snow and simulations were run using daily climate data from 1985-2013. Simulated NPP of annual grasses at each site was not responsive to subsidies from drifting snow. However, at the driest site, aspen and shrub annual NPP was increased by as much as 44 and 30%, respectively, with the redistribution of

Reduced uncertainty of regional scale CLM predictions of net carbon fluxes and leaf area indices with estimated plant-specific parameters

Science.gov (United States)

Post, Hanna; Hendricks Franssen, Harrie-Jan; Han, Xujun; Baatz, Roland; Montzka, Carsten; Schmidt, Marius; Vereecken, Harry

2016-04-01

Reliable estimates of carbon fluxes and states at regional scales are required to reduce uncertainties in regional carbon balance estimates and to support decision making in environmental politics. In this work the Community Land Model version 4.5 (CLM4.5-BGC) was applied at a high spatial resolution (1 km2) for the Rur catchment in western Germany. In order to improve the model-data consistency of net ecosystem exchange (NEE) and leaf area index (LAI) for this study area, five plant functional type (PFT)-specific CLM4.5-BGC parameters were estimated with time series of half-hourly NEE data for one year in 2011/2012, using the DiffeRential Evolution Adaptive Metropolis (DREAM) algorithm, a Markov Chain Monte Carlo (MCMC) approach. The parameters were estimated separately for four different plant functional types (needleleaf evergreen temperate tree, broadleaf deciduous temperate tree, C3-grass and C3-crop) at four different sites. The four sites are located inside or close to the Rur catchment. We evaluated modeled NEE for one year in 2012/2013 with NEE measured at seven eddy covariance sites in the catchment, including the four parameter estimation sites. Modeled LAI was evaluated by means of LAI derived from remotely sensed RapidEye images of about 18 days in 2011/2012. Performance indices were based on a comparison between measurements and (i) a reference run with CLM default parameters, and (ii) a 60 instance CLM ensemble with parameters sampled from the DREAM posterior probability density functions (pdfs). The difference between the observed and simulated NEE sum reduced 23% if estimated parameters instead of default parameters were used as input. The mean absolute difference between modeled and measured LAI was reduced by 59% on average. Simulated LAI was not only improved in terms of the absolute value but in some cases also in terms of the timing (beginning of vegetation onset), which was directly related to a substantial improvement of the NEE estimates in

Chemical structure and dynamics. Annual report 1995

Energy Technology Data Exchange (ETDEWEB)

Colson, S.D.; McDowell, R.S.

1996-05-01

The Chemical Structure and Dynamics program is a major component of Pacific Northwest National Laboratory`s Environmental Molecular Sciences Laboratory (EMSL), providing a state-of-the-art collaborative facility for studies of chemical structure and dynamics. We respond to the need for a fundamental, molecular-level understanding of chemistry at a wide variety of environmentally important interfaces by (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interfacial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in environmental chemistry and in nuclear waste processing and storage; and (3) developing state-of-the-art analytical methods for the characterization of waste tanks and pollutant distributions, and for detection and monitoring of trace atmospheric species.

Asymmetric warming significantly affects net primary production, but not ecosystem carbon balances of forest and grassland ecosystems in northern China.

Science.gov (United States)

Su, Hongxin; Feng, Jinchao; Axmacher, Jan C; Sang, Weiguo

2015-03-13

We combine the process-based ecosystem model (Biome-BGC) with climate change-scenarios based on both RegCM3 model outputs and historic observed trends to quantify differential effects of symmetric and asymmetric warming on ecosystem net primary productivity (NPP), heterotrophic respiration (Rh) and net ecosystem productivity (NEP) of six ecosystem types representing different climatic zones of northern China. Analysis of covariance shows that NPP is significant greater at most ecosystems under the various environmental change scenarios once temperature asymmetries are taken into consideration. However, these differences do not lead to significant differences in NEP, which indicates that asymmetry in climate change does not result in significant alterations of the overall carbon balance in the dominating forest or grassland ecosystems. Overall, NPP, Rh and NEP are regulated by highly interrelated effects of increases in temperature and atmospheric CO2 concentrations and precipitation changes, while the magnitude of these effects strongly varies across the six sites. Further studies underpinned by suitable experiments are nonetheless required to further improve the performance of ecosystem models and confirm the validity of these model predictions. This is crucial for a sound understanding of the mechanisms controlling the variability in asymmetric warming effects on ecosystem structure and functioning.

Asymmetric warming significantly affects net primary production, but not ecosystem carbon balances of forest and grassland ecosystems in northern China

Science.gov (United States)

Su, Hongxin; Feng, Jinchao; Axmacher, Jan C.; Sang, Weiguo

2015-03-01

We combine the process-based ecosystem model (Biome-BGC) with climate change-scenarios based on both RegCM3 model outputs and historic observed trends to quantify differential effects of symmetric and asymmetric warming on ecosystem net primary productivity (NPP), heterotrophic respiration (Rh) and net ecosystem productivity (NEP) of six ecosystem types representing different climatic zones of northern China. Analysis of covariance shows that NPP is significant greater at most ecosystems under the various environmental change scenarios once temperature asymmetries are taken into consideration. However, these differences do not lead to significant differences in NEP, which indicates that asymmetry in climate change does not result in significant alterations of the overall carbon balance in the dominating forest or grassland ecosystems. Overall, NPP, Rh and NEP are regulated by highly interrelated effects of increases in temperature and atmospheric CO2 concentrations and precipitation changes, while the magnitude of these effects strongly varies across the six sites. Further studies underpinned by suitable experiments are nonetheless required to further improve the performance of ecosystem models and confirm the validity of these model predictions. This is crucial for a sound understanding of the mechanisms controlling the variability in asymmetric warming effects on ecosystem structure and functioning.

Isolation, identification, and cytotoxicity of a new isobenzofuran derivative from marine Streptomyces sp. W007

Science.gov (United States)

Zhang, Hongyu; Xie, Zeping; Lou, Tingting; Jiang, Peng

2016-03-01

A new isobenzofuran derivative ( 1) was isolated from the marine Streptomyces sp. W007 and its structure was determined through extensive spectroscopic analyses, including 1D-NMR, 2D-NMR, and ESI-MS. The absolute configuration of compound 1 was determined by a combination of experimental analyses and comparison with reported data, including biogenetic reasoning, J-coupling analysis, NOESY, and 1H-1HCOSY. Compound 1 exhibited no cytotoxicity against human cells of gastric cancer BGC-823, lung cancer A549, and breast cancer MCF7.

The Herb Medicine Formula “Chong Lou Fu Fang” Increases the Cytotoxicity of Chemotherapeutic Agents and Down-Regulates the Expression of Chemotherapeutic Agent Resistance-Related Genes in Human Gastric Cancer Cells In Vitro

Directory of Open Access Journals (Sweden)

Yongping Liu

2011-01-01

Full Text Available The herb medicine formula “Chong Lou Fu Fang” (CLFF has efficacy in inhibiting the proliferation of human gastric cancer in vitro and in vivo. To explore the potentially useful combination of CLFF with chemotherapeutic agents commonly used in gastric cancer therapy, we assess the interaction between CLFF and these chemotherapeutic agents in both SGC-7901 cell lines and BGC-823 cell lines using a median effect analysis and apoptosis analysis, and we also investigate the influence of CLFF on chemotherapeutic agent-associated gene expression. The synergistic analysis indicated that CLFF had a synergistic effect on the cytotoxicity of 5-fluorouracil (5-FU in a relative broad dose inhibition range (20–95% fraction affected in SGC-7901cell lines and 5–65% fraction affected in BGC-823 cell lines, while the synergistic interaction between CLFF and oxaliplatin or docetaxel only existed in a low dose inhibition range (≤50% fraction affected in both cell lines. Combination of CLFF and chemotherapeutic agents could also induce apoptosis in a synergistic manner. After 24 h, CLFF alone or CLFF combination with chemotherapeutic agents could significantly suppress the levels of expression of chemotherapeutic agent resistance related genes in gastric cancer cells. Our findings indicate that there are useful synergistic interactions between CLFF and chemotherapeutic agents in gastric cancer cells, and the possible mechanisms might be partially due to the down-regulation of chemotherapeutic agent resistance related genes and the synergistic apoptotic effect.

Energy strategy and corporate planning: notes by the Department of Energy, Coal, Gas and Electricity Industries. Energy Commission paper number 15

Energy Technology Data Exchange (ETDEWEB)

1978-01-01

NCB's aim is the implementation of 'Plan for Coal' and the financial objective is to break even each year. BGC aims to supply premium contract markets and so conserve resources. Gas supplies from the Brent Field will replace the deleted supplies from the Southern Basin. The electricity industry expects demand to increase by 2.7% pa reaching 52GW in 1984/5 which can be met by existing stations and those on order, they propose to order one AGR in addition to this. Appliance marketing activities will be increased.

Development of a Long-Column Method to Test Constitutive Relations for LNAPL Movement in Two-Phase Systems

Science.gov (United States)

Oostrom, M.; Zhong, L.; Wietsma, T.; Covert, M.

2007-12-01

Multifluid relative permeability - saturation - capillary pressure (k-S-P) empirical constitutive models are components of numerical simulators that are used to predict fluid distributions following a nonaqueous phase liquid (NAPL) contamination event or during remediation. The S-P parameter values for these empirical models are either obtained from the literature or determined experimentally by fitting the models to measured data. Most of the experimental emphasis so far has been on testing the S-P component of the k-S-P constitutive relations. Due to the difficulties in obtaining quality relative permeability laboratory data for multiphase systems, testing of the k-S models that are used in multifluid flow simulators has been virtually non-existent. A new tool, the Multiple Location Saturation Pressure Apparatus (MLSPA), located in PNNL's EMSL Subsurface Flow and Transport Laboratory, has been developed to obtain data sets that can be used to test both S-P and k-S relationships for two-phase NAPL-water systems. The MLSPA is a long column (~1 m) equipped with several hydrophilic and hydrophobic pressure transducers. Fluid saturations are determined along the length of a column using a dual-energy gamma radiation system. Although the MLSPA is limited to porous media with a relatively small entry pressure and fairly homogeneous pore-size distributions, it offers the distinct advantage of obtaining S-P data at multiple locations. Besides for static determinations of S-P relations, the MLSPA offers the benefit that it can be used for more dynamic experiments where fluid pressures are changed more rapidly. The data sets produced by the dynamic experiments can be used in relative permeability models. Results of several experiments with crude-oil brine systems will be presented.

Rutherford Backscattering and Channeling Studies of Al and Mg Diffusion in Iron Oxide Thin Films

International Nuclear Information System (INIS)

Thevuthasan, Theva; McCready, David E.; Jiang, Weilin; Mcdaniel, Emily P.; Yi, Sang I.; Chambers, Scott A.; J.L. Duggan and I.L. Morgan

1999-01-01

Thin films of alpha-Fe2O3(0001) (hermatite) and gamma-Fe2O3 (001) (maghemite) were epitaxially grown on Al2O3(0001) substrates, respectively, using the new molecular beam epitaxy (MBE) system at the Environmental Molecular Sciences Laboratory (EMSL). We have investigated the crystalline quality of these films using Rutherford Backscattering (RBS) and channeling experiments. Minimum yields obtained from aligned and random spectra are 2.7+-0.3% for the alpha-Fe2o3(0001) film and 14.5+-0.6% for the gamma-Fe2O3 (001) film. Al and Mg outdiffusion into the hematite and maghemite films were observed at higher temperatures. Indiffusion of Fe atoms from the film into the substrate was observed for the gamma-Fe2o3(001)/MgO(001) system. In contrast, no Fe indiffusion was observed for the sapphire substrate

Three Mile Island nuclear reactor accident of March 1979. Environmental radiation data: Volume I. A report to the President's Commission on the Accident at Three Mile Island

International Nuclear Information System (INIS)

Bretthauer, E.W.; Grossman, R.F.; Thome, D.J.; Smith, A.E.

1981-03-01

This report contains a listing of environmental radiation monitoring data collected in the vicinity of Three Mile Island (TMI) following the March 28, 1979 accident. These data were collected by the EPA, NRC, DOE, HHS, the Commonwealth of Pennsylvania, or the Bethlehem Steel Corporation. The original report was printed in September 1979 and the update was released in December 1979. Volume 1 consists of the following 5 tables: Table 1-Measurements made by principal participants; Table 2-Cross-check program instituted by US Environmental Protection Agency (EPA) for iodine-131 in milk. Table 3-Comparison of EPA and US Nuclear Regulatory Commission (NRC) air data collected at the Three Mile Island (TMI) Observation Center; Table 4-Summary of EPA Environmental Monitoring Systems Laboratory-Las Vegas (EMSL-LV) and EPA Eastern Environmental Radiation Facility-Montgomery (EERF-Montgomery) sampling and analytical procedures; Table 5-Computer printout of environmental data collected by EPA

Chemical structure and dynamics: Annual report 1996

International Nuclear Information System (INIS)

Colson, S.D.; McDowell, R.S.

1997-03-01

The Chemical Structure and Dynamics (CS ampersand D) program is a major component of the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) developed by Pacific Northwest National Laboratory (PNNL) to provide a state-of-the-art collaborative facility for studies of chemical structure and dynamics. We respond to the need for a fundamental, molecular-level understanding of chemistry at a wide variety of environmentally important interfaces by (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interfacial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in environmental chemistry and in nuclear waste processing and storage; and (3) developing state-of-the-art analytical methods for characterizing waste tanks and pollutant distributions, and for detecting and monitoring trace atmospheric species

Chemical structure and dynamics: Annual report 1996

Energy Technology Data Exchange (ETDEWEB)

Colson, S.D.; McDowell, R.S.

1997-03-01

The Chemical Structure and Dynamics (CS&D) program is a major component of the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL) developed by Pacific Northwest National Laboratory (PNNL) to provide a state-of-the-art collaborative facility for studies of chemical structure and dynamics. We respond to the need for a fundamental, molecular-level understanding of chemistry at a wide variety of environmentally important interfaces by (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interfacial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in environmental chemistry and in nuclear waste processing and storage; and (3) developing state-of-the-art analytical methods for characterizing waste tanks and pollutant distributions, and for detecting and monitoring trace atmospheric species.

Simulating Water-Use Efficiency of Piceacrassi folia Forest under Representative Concentration Pathway Scenarios in the Qilian Mountains of Northwest China

Directory of Open Access Journals (Sweden)

Shouzhang Peng

2016-07-01

Full Text Available The current study used the Biome-Bio Geochemical Cycle (Biome-BGC model to simulate water-use efficiency (WUE of Piceacrassi folia (P. crassifolia forest under four representative concentration pathway (RCP scenarios, and investigated the responses of forest WUE to different combinations of climatic changes and CO2 concentrations in the Qilian Mountains of Northwest China. The model was validated by comparing simulated forest net primary productivity and transpiration under current climatic condition with independent field-measured data. Subsequently, the model was used to predict P. crassi folia forest WUE response to different climatic and CO2 change scenarios. Results showed that (1 increases in temperature, precipitation and atmospheric CO2 concentrations led to associated increases in WUE (ranging from 54% to 66% above the reference climate; (2 effect of CO2 concentration (increased WUE from 36% to 42.3% was more significant than that of climate change (increased WUE from 2.4% to 15%; and (3 forest WUE response to future global change was more intense at high elevations than at low ones, with CO2 concentration being the main factor that controlled forest WUE variation. These results provide valuable insight to help understand how these forest types might respond to future changes in climate and atmospheric CO2 concentration.

NRP-1 monoclonal antibody in combination with metronomic chemotherapy (MCT) inhibits the growth of gastric cancer xenografts in nude mice%NRP-1单抗联合节律化疗对裸鼠胃癌移植瘤生长的抑制

Institute of Scientific and Technical Information of China (English)

丁园; 徐芸; 陈玉强; 颜江华

2017-01-01

目的:探讨NRP-1单抗联合多西他赛节律化疗对胃癌裸鼠移植瘤的抗肿瘤疗效.方法:BALB/c裸鼠皮下接种胃癌BGC-823细胞制备移植瘤模型,将荷瘤裸鼠以数字随机表法随机分为对照组、NRP-1单抗组、节律化疗组(MCT)、联合组(NRP-1mAb+MCT),每组6只.除对照组,其余各组于造模第8天开始分别给予相应治疗,给药2周,观察裸鼠一般状况,隔天测量裸鼠体重及肿瘤体积.裸鼠处死后称瘤质量,H-E染色观察瘤组织形态,免疫组化检测裸鼠瘤组织中NRP-1蛋白、VEGF、MVD表达.结果:联合组移植瘤的体积和质量显著低于其他各组[(0.394±0.128) vs (0.748±0.152)、(0.867±0.361)、(1.247±0.494)g;(0.613±0.223) vs (0.866±0.115)、(1.098±0.343)、(1.474±0.644)cm3.均P＜0.05],抑瘤率较其他治疗组差异有统计学意义(P＜0.05).对照组癌组织细胞生长良好,血管丰富,给药组癌组织出现不同程度的片状坏死,血管成分减少.免疫组化染色显示,对照组NRP-1表达明显高于治疗各组(P＜0.05),联合组的NRP-1、VEGF、MVD表达均显著低于其余各组(P＜0.05).结论:NRP-1单抗联合多西他赛节律化疗可能通过下调NRP-1表达而显著抑制BGC-823胃癌移植瘤的生长及血管生成.%Objective:To investigate the antitumor effect of NRP-1 monoclonal antibody combined with docetaxel metronomic chemotherapy in nude mice bearing gastric cancer xenografts.Methods:BALB / c mice were inoculated subcutaneously with BGC-823 cells to establish xenograft model;the tumor bearing rats were randomly divided into control group,NRP-1 monoclonal antibody group (NRP-lmAb),rhythm chemotherapy group (MCT) and combined group (NRP-lmAb+MCT).Except the control group,the other three groups were given the corresponding treatment on the 8th day after the model establishment.After 2 weeks of administration,the general condition of nude mice was observed and the body weight and tumor volume were measured the next day

Chemical Structure and Dynamics annual report 1997

International Nuclear Information System (INIS)

Colson, S.D.; McDowell, R.S.

1998-03-01

The Chemical Structure and Dynamics (CS and D) program is a major component of the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL), developed by Pacific Northwest National Laboratory (PNNL) to provide a state-of-the-art collaborative facility for studies of chemical structure and dynamics. The authors respond to the need for a fundamental, molecular level understanding of chemistry at a wide variety of environmentally important interfaces by: (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interfacial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in environmental chemistry and in nuclear waste processing and storage; and (3) developing state-of-the-art analytical methods for characterizing complex materials of the types found in stored wastes and contaminated soils, and for detecting and monitoring trace atmospheric species. The focus of the research is defined primarily by DOE's environmental problems: fate and transport of contaminants in the subsurface environment, processing and storage of waste materials, cellular effects of chemical and radiological insult, and atmospheric chemistry as it relates to air quality and global change. Twenty-seven projects are described under the following topical sections: Reaction mechanisms at interfaces; High-energy processes at environmental interfaces; Cluster models of the condensed phase; and Miscellaneous

Chemical Structure and Dynamics annual report 1997

Energy Technology Data Exchange (ETDEWEB)

Colson, S.D.; McDowell, R.S.

1998-03-01

The Chemical Structure and Dynamics (CS and D) program is a major component of the William R. Wiley Environmental Molecular Sciences Laboratory (EMSL), developed by Pacific Northwest National Laboratory (PNNL) to provide a state-of-the-art collaborative facility for studies of chemical structure and dynamics. The authors respond to the need for a fundamental, molecular level understanding of chemistry at a wide variety of environmentally important interfaces by: (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interfacial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in environmental chemistry and in nuclear waste processing and storage; and (3) developing state-of-the-art analytical methods for characterizing complex materials of the types found in stored wastes and contaminated soils, and for detecting and monitoring trace atmospheric species. The focus of the research is defined primarily by DOE`s environmental problems: fate and transport of contaminants in the subsurface environment, processing and storage of waste materials, cellular effects of chemical and radiological insult, and atmospheric chemistry as it relates to air quality and global change. Twenty-seven projects are described under the following topical sections: Reaction mechanisms at interfaces; High-energy processes at environmental interfaces; Cluster models of the condensed phase; and Miscellaneous.

Synthetic Constraint of Ecosystem C Models Using Radiocarbon and Net Primary Production (NPP) in New Zealand Grazing Land

Science.gov (United States)

Baisden, W. T.

2011-12-01

land, these estimates can be derived primarily from measured aboveground NPP and calculated belowground NPP. Results suggest that only 19-36% of heterotrophic soil respiration is derived from the soil C with rapid turnover times. A final logical step in synthesis is the analysis of temporal variation in NPP, primarily due to climate, as driver of changes in plant inputs and resulting in dynamic changes in rapid and decadal soil C pools. In sites with good time series samples from 1959-1975, we examine the apparent impacts of measured or modelled (Biome-BGC) NPP on soil Δ14C. Ultimately, these approaches have the ability to empirically constrain, and provide limited verification, of the soil C cycle as commonly depicted ecosystem biogeochemistry models.

1999 Annual Mixed Waste Management Facility Groundwater Correction - Action Report (Volumes I, II, and III)

International Nuclear Information System (INIS)

Chase, J.

2000-01-01

This Corrective Action Report (CAR) for the Mixed Waste Management Facility (MWMF) is being prepared to comply with the Resource Conservation and Recovery Act (RCRA) Permit Number SC1 890 008 989, dated October 31, 1999. This CAR compiles and presents all groundwater sampling and monitoring activities that are conducted at the MWMF. As set forth in previous agreements with South Carolina Department of Health and Environmental Control (SCDHEC), all groundwater associated with the Burial Ground Complex (BGC) (comprised of the MWMF, Low-Level Radioactive Waste Disposal Facility, and Old Radioactive Waste Burial Ground) will be addressed under this RCRA Permit. This CAR is the first to be written for the MWMF and presents monitoring activities and results as an outcome of Interim Status and limited Permitted Status activities. All 1999 groundwater monitoring activities were conducted while the MWMF was operated during Interim Status. Changes to the groundwater monitoring program were made upon receipt of the RCRA Permit, where feasible. During 1999, 152 single-screened and six multi-screened groundwater monitoring wells at the BGC monitored groundwater quality in the uppermost aquifer as required by the South Carolina Hazardous Waste Management Regulations (SCHWMR), settlement agreements 87-52-SW and 91-51-SW, and RCRA Permit SC1 890 008 989. However, overall compliance with the recently issued RCRA Permit could not be implemented until the year 2000 due to the effective date of the RCRA Permit and scheduling of groundwater monitoring activities. Changes have been made to the groundwater monitoring network to meet Permit requirements for all 2000 sampling events

Variance-based sensitivity analysis of BIOME-BGC for gross and net primary production

NARCIS (Netherlands)

Raj, R.; Hamm, N.A.S.; van der Tol, C.; Stein, A.

2014-01-01

Parameterization and calibration of a process-based simulator (PBS) is a major challenge when simulating gross and net primary production (GPP and NPP). The large number of parameters makes the calibration computationally expensive and is complicated by the dependence of several parameters on other

North Thames engineering in the eighties

Energy Technology Data Exchange (ETDEWEB)

Day, J.F.

1982-05-01

The engineering management of BGC's North Thames Region (NTR) plans to maximize the capability of its current supply assets so as to minimize future investment. An important part of this plan lies in harnessing the potential of new electronic technologies. Recently, NTR has attempted to remove assets that are no longer valuable and to upgrade and refurbish those assets to be retained. Rather than computerizing its operations at full tilt, NTR is modernizing by carefully delegating more authority to the lower level engineers while maintaining frequent upper-to-lower level personal contacts - an approach it believes is compatible with computerization.

Multimodel simulations of forest harvesting effects on long‐term productivity and CN cycling in aspen forests.

Science.gov (United States)

Wang, Fugui; Mladenoff, David J; Forrester, Jodi A; Blanco, Juan A; Schelle, Robert M; Peckham, Scott D; Keough, Cindy; Lucash, Melissa S; Gower, Stith T

The effects of forest management on soil carbon (C) and nitrogen (N) dynamics vary by harvest type and species. We simulated long-term effects of bole-only harvesting of aspen (Populus tremuloides) on stand productivity and interaction of CN cycles with a multiple model approach. Five models, Biome-BGC, CENTURY, FORECAST, LANDIS-II with Century-based soil dynamics, and PnET-CN, were run for 350 yr with seven harvesting events on nutrient-poor, sandy soils representing northwestern Wisconsin, United States. Twenty CN state and flux variables were summarized from the models' outputs and statistically analyzed using ordination and variance analysis methods. The multiple models' averages suggest that bole-only harvest would not significantly affect long-term site productivity of aspen, though declines in soil organic matter and soil N were significant. Along with direct N removal by harvesting, extensive leaching after harvesting before canopy closure was another major cause of N depletion. These five models were notably different in output values of the 20 variables examined, although there were some similarities for certain variables. PnET-CN produced unique results for every variable, and CENTURY showed fewer outliers and similar temporal patterns to the mean of all models. In general, we demonstrated that when there are no site-specific data for fine-scale calibration and evaluation of a single model, the multiple model approach may be a more robust approach for long-term simulations. In addition, multimodeling may also improve the calibration and evaluation of an individual model.

Measurement and monitoring technologies are important SITE program component

International Nuclear Information System (INIS)

Anon.

1988-01-01

An ongoing component of the Superfund Innovative Technologies Evaluation (SITE) Program, managed by the US EPA at its Hazardous Waste Engineering Research Laboratory in Cincinnati, is the development and demonstration of new and innovative measurement and monitoring technologies that will be applicable to Superfund site characterization. There are four important roles for monitoring and measurement technologies at Superfund sites: (1) to assess the extent of contamination at a site, (2) to supply data and information to determine impacts to human health and the environment, (3) to supply data to select the appropriate remedial action, and (4) to monitor the success or effectiveness of the selected remedy. The Environmental Monitoring Systems Laboratory in Las Vegas, Nevada (EMSL-LV) has been supporting the development of improved measurement and monitoring techniques in conjunction with the SITE Program with a focus on two areas: Immunoassay for toxic substances and fiber optic sensing for in-situ analysis at Superfund sites

The Environmental and Molecular Sciences Laboratory project -- Continuous evolution in leadership

International Nuclear Information System (INIS)

Knutson, D.E.; McClusky, J.K.

1994-10-01

The Environmental and Molecular Sciences Laboratory (EMSL) construction project at Pacific Northwest Laboratory (PNL) in Richland, Washington, is a $230M Major Systems Acquisition for the US Department of Energy (DOE). The completed laboratory will be a national user facility that provides unparalleled capabilities for scientists involved in environmental molecular science research. This project, approved for construction by the Secretary of Energy in October 1993, is underway. The United States is embarking on an environmental cleanup effort that dwarfs previous scientific enterprise. Using current best available technology, the projected costs of cleaning up the tens of thousands of toxic waste sites, including DOE sites, is estimated to exceed one trillion dollars. The present state of scientific knowledge regarding the effects of exogenous chemicals on human biology is very limited. Long term environmental research at the molecular level is needed to resolve the concerns, and form the building blocks for a structure of cost effective process improvement and regulatory reform

Field screening procedures for determining the presence of volatile organic compounds in soil

International Nuclear Information System (INIS)

Crockett, A.B.; DeHaan, M.S.

1991-01-01

Many field screening procedures have been used to detect the presence of volatile organic compounds (VOC) in soils but almost none have been documented and verified. Users of these procedures have not really known whether their objectives in screening were met. A reliable VOC screening procedure could significantly reduce the number of samples currently being submitted to laboratories, thereby reducing costs and improving site characterization. The Environmental Protection Agency's Environmental Monitoring Systems Laboratory in Las Vegas (EMSL-LV) has therefore sponsored a research effort to evaluate and improve headspace methods for screening soils for VOC in the field. The research involved comparing several extraction procedures using soils from actual waste sites, and determining the agitation and mixing necessary to achieve equilibrium. Headspace was analyzed using a relatively simple portable gas chromatograph with a short column. The results were variable and show that several procedures should be attempted and the results evaluated before selecting a screening procedure. 10 refs., 6 tabs

The Environmental and Molecular Sciences Laboratory project -- Continuous evolution in leadership

Energy Technology Data Exchange (ETDEWEB)

Knutson, D.E.; McClusky, J.K.

1994-10-01

The Environmental and Molecular Sciences Laboratory (EMSL) construction project at Pacific Northwest Laboratory (PNL) in Richland, Washington, is a $230M Major Systems Acquisition for the US Department of Energy (DOE). The completed laboratory will be a national user facility that provides unparalleled capabilities for scientists involved in environmental molecular science research. This project, approved for construction by the Secretary of Energy in October 1993, is underway. The United States is embarking on an environmental cleanup effort that dwarfs previous scientific enterprise. Using current best available technology, the projected costs of cleaning up the tens of thousands of toxic waste sites, including DOE sites, is estimated to exceed one trillion dollars. The present state of scientific knowledge regarding the effects of exogenous chemicals on human biology is very limited. Long term environmental research at the molecular level is needed to resolve the concerns, and form the building blocks for a structure of cost effective process improvement and regulatory reform.

Enhancement of understory productivity by asynchronous phenology with overstory competitors in a temperate deciduous forest.

Science.gov (United States)

Jolly, William M; Nemani, Ramakrishna; Running, Steven W

2004-09-01

Some saplings and shrubs growing in the understory of temperate deciduous forests extend their periods of leaf display beyond that of the overstory, resulting in periods when understory radiation, and hence productivity, are not limited by the overstory canopy. To assess the importance of the duration of leaf display on the productivity of understory and overstory trees of deciduous forests in the north eastern United States, we applied the simulation model, BIOME-BGC with climate data for Hubbard Brook Experimental Forest, New Hampshire, USA and mean ecophysiological data for species of deciduous, temperate forests. Extension of the overstory leaf display period increased overstory leaf area index (LAI) by only 3 to 4% and productivity by only 2 to 4%. In contrast, extending the growing season of the understory relative to the overstory by one week in both spring and fall, increased understory LAI by 35% and productivity by 32%. A 2-week extension of the growing period in both spring and fall increased understory LAI by 53% and productivity by 55%.

Estimating daily forest carbon fluxes using a combination of ground and remotely sensed data

Science.gov (United States)

Chirici, Gherardo; Chiesi, Marta; Corona, Piermaria; Salvati, Riccardo; Papale, Dario; Fibbi, Luca; Sirca, Costantino; Spano, Donatella; Duce, Pierpaolo; Marras, Serena; Matteucci, Giorgio; Cescatti, Alessandro; Maselli, Fabio

2016-02-01

Several studies have demonstrated that Monteith's approach can efficiently predict forest gross primary production (GPP), while the modeling of net ecosystem production (NEP) is more critical, requiring the additional simulation of forest respirations. The NEP of different forest ecosystems in Italy was currently simulated by the use of a remote sensing driven parametric model (modified C-Fix) and a biogeochemical model (BIOME-BGC). The outputs of the two models, which simulate forests in quasi-equilibrium conditions, are combined to estimate the carbon fluxes of actual conditions using information regarding the existing woody biomass. The estimates derived from the methodology have been tested against daily reference GPP and NEP data collected through the eddy correlation technique at five study sites in Italy. The first test concerned the theoretical validity of the simulation approach at both annual and daily time scales and was performed using optimal model drivers (i.e., collected or calibrated over the site measurements). Next, the test was repeated to assess the operational applicability of the methodology, which was driven by spatially extended data sets (i.e., data derived from existing wall-to-wall digital maps). A good estimation accuracy was generally obtained for GPP and NEP when using optimal model drivers. The use of spatially extended data sets worsens the accuracy to a varying degree, which is properly characterized. The model drivers with the most influence on the flux modeling strategy are, in increasing order of importance, forest type, soil features, meteorology, and forest woody biomass (growing stock volume).

The TERRA-PNW Dataset: A New Source for Standardized Plant Trait, Forest Carbon Cycling, and Soil Properties Measurements from the Pacific Northwest US, 2000-2014.

Science.gov (United States)

Berner, L. T.; Law, B. E.

2015-12-01

Plant traits include physiological, morphological, and biogeochemical characteristics that in combination determine a species sensitivity to environmental conditions. Standardized, co-located, and geo-referenced species- and plot-level measurements are needed to address variation in species sensitivity to climate change impacts and for ecosystem process model development, parameterization and testing. We present a new database of plant trait, forest carbon cycling, and soil property measurements derived from multiple TERRA-PNW projects in the Pacific Northwest US, spanning 2000-2014. The database includes measurements from over 200 forest plots across Oregon and northern California, where the data were explicitly collected for scaling and modeling regional terrestrial carbon processes with models such as Biome-BGC and the Community Land Model. Some of the data are co-located at AmeriFlux sites in the region. The database currently contains leaf trait measurements (specific leaf area, leaf longevity, leaf carbon and nitrogen) from over 1,200 branch samples and 30 species, as well as plot-level biomass and productivity components, and soil carbon and nitrogen. Standardized protocols were used across projects, as summarized in an FAO protocols document. The database continues to expand and will include agricultural crops. The database will be hosted by the Oak Ridge National Laboratory (ORLN) Distributed Active Archive Center (DAAC). We hope that other regional databases will become publicly available to help enable Earth System Modeling to simulate species-level sensitivity to climate at regional to global scales.

Response of net primary productivity of Larix olgensis forest ecosystem to climate change%长白落叶松林生态系统净初级生产力对气候变化的响应

Institute of Scientific and Technical Information of China (English)

何丽鸿; 王海燕; 王璐; 王岳

2015-01-01

应用BIOME-BGC模型和样地调查数据,模拟并验证了吉林省汪清林业局长白落叶松林生态系统净初级生产力( NPP)在1980—2013年间的动态变化情况,分析了NPP对区域气候变化的响应以及在SRES A2和B2排放情景下长白落叶松林生态系统NPP的动态变化. 结果表明:BIOME-BGC模型较好地模拟了样地NPP的动态变化,且模拟NPP与样地实测生产力的动态变化规律相似;在1980—2013年间,长白落叶松林生态系统NPP(以碳计算)均值为477. 74 g/( m2·a) ,波动范围是286. 60~566. 27 g/( m2·a);研究区内长白落叶松林生态系统NPP与年降水量呈显著正相关;在未来A2和B2排放情景下,NPP对未来降水量增加的响应呈正向,对年均温度增加呈负相关,其中温度升高对NPP的负效应要大于降水量增加对NPP的正效应;此外,CO2浓度增加有利于长白落叶松林生态系统NPP的增加.%Based on the BIOME-BGC model and field-measured productivity data, a modeling study was conducted and tested to estimate the dynamic changes of net primary productivity ( NPP) of Larix olgensis forest ecosystem in Wangqing Forestry Bureau, Jilin Province in northeastern China during the period of 1980--2013 . The response of NPP to regional climate change and the dynamics of NPP under the SRES A2 and B2 scenarios were explored. The results were shown as follows: 1 ) the model-simulated NPPs were in accordance with the field-measured productivity, suggesting a successful modeling of NPP patterns by the BIOME-BGC model. 2) The mean NPP of L. olgensis was 477. 74 g/(m2·a), fluctuating between 286. 60 and 566. 27 g/( m2·a ) during 1980--2013. 3 ) There was a significant correlation between the NPP of L. olgensis forest ecosystem and annual precipitation. Under the SRES A2 and B2 scenarios, the NPP would have a positive response to the increase of annual precipitation. The temperature would have a stronger effect than the precipitation. The elevated CO2

Implications of changes in tropical shifting cultivation intensification on land productivity and GHG-related biogeochemistry

Science.gov (United States)

Bustier, Bernard; Ngoy, Alfred; Pietsch, Stephan; Mosnier, Aline

2017-04-01

Traditional shifting cultivation used to be a sustainable type of land use for the subsistence of populations in tropical rainforests. The vast resource of moist tropical forests together with low population densities allowed for long fallow periods on sparsely distributed slash and burn parcels with large areas of untouched forest in between. Population growth and concomitant increase in land demand for subsistence as well as increasing infrastructure development for commercial forestry, cash crops and mining, however, altered the picture over recent decades. As a result, fallow periods were reduced due to lack of pristine land. In this study we use field data and modeling results from the Congo Basin to assess the impacts of reduced fallow periods on Carbon sequestration dynamics using a BGC model calibrated and validated with > 150 research plots distributed over the western Congo Basin and representing different management and land use histories. We find that the average carbon sequestration rate reduces over the number of cultivation cycles and that a reduction of the fallow from 10 years to 7 years reduce the average carbon sequestration between 13 and 21% and from 7 years to 4 years between 23 and 29% depending on soil fertility. Results will be discussed in the context of population growth and changes in environmetal conditions.

Human and ecological remediation goals for soil mercury at East Fork Poplar Creek, Oak Ridge, TN

International Nuclear Information System (INIS)

Zafran, F.A.; Cornaby, B.W.; Hadden, C.T.

1995-01-01

Mercury, used in the past production of enriched lithium by the Department of Energy, is the principal chemical of concern in the 14-mile floodplain of East Fork Poplar Creek (EFPC). SAIC has developed risk-based remediation goal options (RGOS) for mercury in EFPC soils to protect the most sensitive human receptors. The existing chronic oral RfD for mercury is based on exposure of laboratory species to mercuric chloride. However, speciation and leaching/availability studies (conducted by EPA EMSL and Oak Ridge National Laboratory) indicated less soluble and less toxic mercury species, principally mercuric sulfide, with measurable quantities of metallic mercury also present, predominate in EFPC floodplain soils. SAIC derived human health RGOs using deterministic and probabilistic methods and incorporated the probability density function for bioavailability of mercury species from leaching/availability data generated by ORNL. Monte Carlo simulation was used in uncertainty analysis and supported the derivation of a protective, but realistic risk-based remediation goal of 400 mg mercury/kg soil. For ecological risk assessment, RGOs were based on risks through food chains from contaminants in soil. The authors describe a terrestrial food-chain model of contaminant transfer to primary producers, first-order consumers, mid-level predators, and top-level predators. The model uses published toxicity data, site-specific contaminant concentrations, and bioaccumulation factors calculated from measured body burdens of floodplain organisms to compute RGOs for various combinations of exposure parameters. Model calculations show that under reasonably conservative conditions, mid-level predators have the highest exposures relative to dietary limits and, therefore, require the lowest soil-mercury RGOs. Mercury concentrations of ∼500 mg/kg are protective of the receptor populations exposed through food chains at this site

Synergistic anti-proliferative effects of gambogic acid with docetaxel in gastrointestinal cancer cell lines

Directory of Open Access Journals (Sweden)

Zou Zhengyun

2012-04-01

Full Text Available Summary Background Gambogic acid has a marked anti-tumor effect for gastric and colorectal cancers in vitro and in vivo. However, recent investigations on gambogic acid have focused mainly on mono-drug therapy, and its potential role in cancer therapy has not been comprehensively illustrated. This study aimed to assess the interaction between gambogic acid and docetaxel on human gastrointestinal cancer cells and to investigate the mechanism of gambogic acid plus docetaxel treatment-induced apoptotic cell death. Methods MTT assay was used to determine IC50 values in BGC-823, MKN-28, LOVO and SW-116 cells after gambogic acid and docetaxel administration. Median effect analysis was applied for determination of synergism and antagonism. Synergistic interaction between gambogic acid and docetaxel was evaluated using the combination index (CI method. Furthermore, cellular apoptosis was analyzed by Annexin-V and propidium iodide (PI double staining. Additionally, mRNA expression of drug-associated genes, i.e., β-tublin III and tau, and the apoptosis-related gene survivin, were measured by quantitative reverse transcription polymerase chain reaction (qRT-PCR. Results Gambogic acid provided a synergistic effect on the cytotoxicity induced by docetaxel in all four cell lines. The combined application of gambogic acid and docetaxel enhanced apoptosis in gastrointestinal cancer cells. Moreover, gambogic acid markedly decreased the mRNA expression of docetaxel-related genes, including β-tubulin III, tau and survivin, in BGC-823 cells. Conclusions Gambogic acid plus docetaxel produced a synergistic anti-tumor effect in gastrointestinal cancer cells, suggesting that the drug combination may offer a novel treatment option for patients with gastric and colorectal cancers.

Distribution of Blue Gum Chalcid, Leptocybe invasa and it's Damage on Eucalyptus in East Africa

International Nuclear Information System (INIS)

Mutitu, K.E; Otieno, B.O; Oeba, V.O; Nyeko, P.; Day, R.K

2007-01-01

Blue Gum chalcid is a gall-forming wasp, which causes an extensive damage to Eucalyptus. It attacks mostly seedlings and field saplings. It causes damage on it's host by forming massive typical bump-shaped galls on trees canopy, specifically on the leaf midribs, petioles and stems of new growths. The pest was first reported in Kenya and Uganda in 2002 attacking the three major commercially grown Eucalyptus species; Eucalyptus grandis, E. camaldulennsis, E. saligna in East Africa. Eucalyptus is fast growing and widely planted in both plantations and farmers' woodlots. It is important for both industrial and domestic use. It is a major source of income generation for rural poor families. The objective of this study was to determine the spatial distribution, incidence and severity patterns of L. invasa and possible relationship to environment and biophysical factors in East Africa. Over 312 randomly selected stands were assessed for BGC incidence to it's distribution. In each identified stand 60 trees were selected from 3 randomly established plots of 20 trees each and BGC damage/incidence assessed on a 4-point scale. This was to determine the incidence and severity patterns. ANOVA using generalized linear procedures, regression analysis and correlation were done to determine the relationship between the percentage incidence of L. invasa infestation against altitude, age interval, agro-ecological zones and topography. There was widespread of pest in all the districts sampled. There was significant difference (p 0.05) on L. invasa incidence among the three species. The study recommends that. further studies on damage and L. invasa population dynamics relationship to environment and biophysical factors should be conducted

Meroterpenoids and isoberkedienolactone from endophytic fungus Penicillium sp. associated with Dysosma versipellis.

Science.gov (United States)

Li, Jun-Wei; Duan, Rui-Gang; Zou, Jian-Hua; Chen, Ri-Dao; Chen, Xiao-Guang; Dai, Jun-Gui

2014-06-01

Seven meroterpenoids and five small-molecular precursors were isolated from Penicillium sp., an endophytic fungus from Dysosma versipellis. The structures of new compounds, 11beta-acetoxyisoaustinone (1) and isoberkedienolactone (2) were elucidated based on analysis of the spectral data, and the absolute configuration of 2 was established by TDDFT ECD calculation with satisfactory match to its experimental ECD data. Meroterpenoids originated tetraketide and pentaketide precursors, resepectively, were found to be simultaneously produced in specific fungus of Penicillium species. These compounds showed weak cytotoxicity in vitro against HCT-116, HepG2, BGC-823, NCI-H1650, and A2780 cell lines with IC 50 > 10 micromol x L(-1).

Chemical structure and dynamics. Annual report 1994

Energy Technology Data Exchange (ETDEWEB)

Colson, S.D.

1995-07-01

The Chemical Structure and Dynamics program was organized as a major component of Pacific Northwest Laboratory`s Environmental and Molecular Sciences Laboratory (EMSL), a state-of-the-art collaborative facility for studies of chemical structure and dynamics. Our program responds to the need for a fundamental, molecular-level understanding of chemistry at the wide variety of environmentally important interfaces by (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces, and (2) developing a multidisciplinary capability for describing interfacial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in environmental chemistry and in nuclear waste processing and storage. This research effort was initiated in 1989 and will continue to evolve over the next few years into a program of rigorous studies of fundamental molecular processes in model systems, such as well-characterized surfaces, single-component solutions, clusters, and biological molecules; and studies of complex systems found in the environment (multispecies, multiphase solutions; solid/liquid, liquid/liquid, and gas/surface interfaces; colloidal dispersions; ultrafine aerosols; and functioning biological systems). The success of this program will result in the achievement of a quantitative understanding of chemical reactions at interfaces, and more generally in condensed media, that is comparable to that currently available for gas-phase reactions. This understanding will form the basis for the development of a priori theories for predictions of macroscopic chemical behavior in condensed and heterogeneous media, adding significantly to the value of field-scale environmental models, the prediction of short- and long-term nuclear waste storage stabilities, and other problems related to the primary missions of the DOE.

The resilience and functional role of moss in boreal and arctic ecosystems

Energy Technology Data Exchange (ETDEWEB)

Turetsky, Merritt; Bond-Lamberty, Benjamin; Euskirchen, Eugenie S.; Talbot, Julie; Frolking, Steve; McGuire, A. David; Tuittila, Eeva-Stiina

2012-08-24

Mosses in boreal and arctic ecosystems are ubiquitous components of plant communities, represent an important component of plant diversity, and strongly influence the cycling of water, nutrients, energy and carbon. Here we use a literature review and synthesis as well as model simulations to explore the role of moss in ecological stability and resilience. Our literature review of moss community responses to disturbance showed all possible responses (increases, decreases, no change) within most disturbance categories in boreal and arctic regions. Our modeling simulations suggest that loss of moss within northern plant communities will reduce soil carbon accumulation primarily by influencing decomposition rates and soil nitrogen availability. While two models (HPM and STM-TEM) showed a significant effect of moss removal, results from the Biome-BGC and DVM-TEM models suggest that northern, moss-rich ecosystems would need to experience extreme perturbation before mosses were eliminated. We highlight a number of issues that have not been adequately explored in moss communities, such as functional redundancy and singularity, relationships between response and effect traits, phenotypical plasticity in traits, and whether the effects of moss on ecosystem processes scale with local abundance. We also suggest that as more models explore issues related to ecological resilience, issues related to both parameter and conceptual uncertainty should be addressed: are the models more limited by uncertainty in the parameterization of the processes included or by what is not represented in the model at all? It seems clear from our review that mosses need to be incorporated into models as one or more plant functional types, but more empirical work is needed to determine how to best aggregate species.

The PRISM project

Science.gov (United States)

Guilyardi, E.

2003-04-01

The European Union's PRISM infrastructure project (PRogram for Integrated earth System Modelling) aims at designing a flexible environment to easily assemble and run Earth System Models (http://prism.enes.org). Europe's widely distributed modelling expertise is both a strength and a challenge. Recognizing this, the PRISM project aims at developing an efficient shared modelling software infrastructure for climate scientists, providing them with an opportunity for greater focus on scientific issues, including the necessary scientific diversity (models and approaches). The proposed PRISM system includes 1) the use - or definition - and promotion of scientific and technical standards to increase component modularity, 2) an end-to-end software environment (coupler, user interface, diagnostics) to launch, monitor and analyze complex Earth System Models built around the existing and future community models, 3) testing and quality standards to ensure HPC performance on a variety of platforms and 4) community wide inputs and requirements capture in all stages of system specifications and design through user/developers meetings, workshops and thematic schools. This science driven project, led by 22 institutes* and started December 1st 2001, benefits from a unique gathering of scientific and technical expertise. More than 30 models (both global and regional) have expressed interest to be part of the PRISM system and 6 types of components have been identified: atmosphere, atmosphere chemistry, land surface, ocean, sea ice and ocean biochemistry. Progress and overall architecture design will be presented. * MPI-Met (Coordinator), KNMI (co-coordinator), MPI-M&D, Met Office, University of Reading, IPSL, Meteo-France, CERFACS, DMI, SMHI, NERSC, ETH Zurich, INGV, MPI-BGC, PIK, ECMWF, UCL-ASTR, NEC, FECIT, SGI, SUN, CCRLE

Extreme Recombination Frequencies Shape Genome Variation and Evolution in the Honeybee, Apis mellifera

Science.gov (United States)

Wallberg, Andreas; Glémin, Sylvain; Webster, Matthew T.

2015-01-01

Meiotic recombination is a fundamental cellular process, with important consequences for evolution and genome integrity. However, we know little about how recombination rates vary across the genomes of most species and the molecular and evolutionary determinants of this variation. The honeybee, Apis mellifera, has extremely high rates of meiotic recombination, although the evolutionary causes and consequences of this are unclear. Here we use patterns of linkage disequilibrium in whole genome resequencing data from 30 diploid honeybees to construct a fine-scale map of rates of crossing over in the genome. We find that, in contrast to vertebrate genomes, the recombination landscape is not strongly punctate. Crossover rates strongly correlate with levels of genetic variation, but not divergence, which indicates a pervasive impact of selection on the genome. Germ-line methylated genes have reduced crossover rate, which could indicate a role of methylation in suppressing recombination. Controlling for the effects of methylation, we do not infer a strong association between gene expression patterns and recombination. The site frequency spectrum is strongly skewed from neutral expectations in honeybees: rare variants are dominated by AT-biased mutations, whereas GC-biased mutations are found at higher frequencies, indicative of a major influence of GC-biased gene conversion (gBGC), which we infer to generate an allele fixation bias 5 – 50 times the genomic average estimated in humans. We uncover further evidence that this repair bias specifically affects transitions and favours fixation of CpG sites. Recombination, via gBGC, therefore appears to have profound consequences on genome evolution in honeybees and interferes with the process of natural selection. These findings have important implications for our understanding of the forces driving molecular evolution. PMID:25902173

Raddeanin A induces human gastric cancer cells apoptosis and inhibits their invasion in vitro

International Nuclear Information System (INIS)

Xue, Gang; Zou, Xi; Zhou, Jin-Yong; Sun, Wei; Wu, Jian; Xu, Jia-Li; Wang, Rui-Ping

2013-01-01

Highlights: •Raddeanin A is a triterpenoid saponin in herb medicine Anemone raddeana Regel. •Raddeanin A can inhibit 3 kinds of gastric cancer cells’ proliferation and invasion. •Caspase-cascades’ activation indicates apoptosis induced by Raddeanin A. •MMPs, RECK, Rhoc and E-cad are involved in Raddeanin A-induced invasion inhibition. -- Abstract: Raddeanin A is one of the triterpenoid saponins in herbal medicine Anemone raddeana Regel which was reported to suppress the growth of liver and lung cancer cells. However, little was known about its effect on gastric cancer (GC) cells. This study aimed to investigate its inhibitory effect on three kinds of different differentiation stage GC cells (BGC-823, SGC-7901 and MKN-28) in vitro and the possible mechanisms. Proliferation assay and flow cytometry demonstrated Raddeanin A’s dose-dependent inhibitory effect and determined its induction of cells apoptosis, respectively. Transwell assay, wounding heal assay and cell matrix adhesion assay showed that Raddeanin A significantly inhibited the abilities of the invasion, migration and adhesion of the BGC-823 cells. Moreover, quantitative real time PCR and Western blot analysis found that Raddeanin A increased Bax expression while reduced Bcl-2, Bcl-xL and Survivin expressions and significantly activated caspase-3, caspase-8, caspase-9 and poly-ADP ribose polymerase (PARP). Besides, Raddeanin A could also up-regulate the expression of reversion inducing cysteine rich protein with Kazal motifs (RECK), E-cadherin (E-cad) and down-regulate the expression of matrix metalloproteinases-2 (MMP-2), MMP-9, MMP-14 and Rhoc. In conclusion, Raddeanin A inhibits proliferation of human GC cells, induces their apoptosis and inhibits the abilities of invasion, migration and adhesion, exhibiting potential to become antitumor drug

PGRMC1 participates in late events of bovine granulosa cells mitosis and oocyte meiosis.

Science.gov (United States)

Terzaghi, L; Tessaro, I; Raucci, F; Merico, V; Mazzini, G; Garagna, S; Zuccotti, M; Franciosi, F; Lodde, V

2016-08-02

Progesterone Receptor Membrane Component 1 (PGRMC1) is expressed in both oocyte and ovarian somatic cells, where it is found in multiple cellular sub-compartments including the mitotic spindle apparatus. PGRMC1 localization in the maturing bovine oocytes mirrors its localization in mitotic cells, suggesting a possible common action in mitosis and meiosis. To test the hypothesis that altering PGRMC1 activity leads to similar defects in mitosis and meiosis, PGRMC1 function was perturbed in cultured bovine granulosa cells (bGC) and maturing oocytes and the effect on mitotic and meiotic progression assessed. RNA interference-mediated PGRMC1 silencing in bGC significantly reduced cell proliferation, with a concomitant increase in the percentage of cells arrested at G2/M phase, which is consistent with an arrested or prolonged M-phase. This observation was confirmed by time-lapse imaging that revealed defects in late karyokinesis. In agreement with a role during late mitotic events, a direct interaction between PGRMC1 and Aurora Kinase B (AURKB) was observed in the central spindle at of dividing cells. Similarly, treatment with the PGRMC1 inhibitor AG205 or PGRMC1 silencing in the oocyte impaired completion of meiosis I. Specifically the ability of the oocyte to extrude the first polar body was significantly impaired while meiotic figures aberration and chromatin scattering within the ooplasm increased. Finally, analysis of PGRMC1 and AURKB localization in AG205-treated oocytes confirmed an altered localization of both proteins when meiotic errors occur. The present findings demonstrate that PGRMC1 participates in late events of both mammalian mitosis and oocyte meiosis, consistent with PGRMC1's localization at the mid-zone and mid-body of the mitotic and meiotic spindle.

BRAF activated non-coding RNA (BANCR) promoting gastric cancer cells proliferation via regulation of NF-κB1

International Nuclear Information System (INIS)

Zhang, Zhi-Xin; Liu, Zhi-Qiang; Jiang, Biao; Lu, Xin-Yang; Ning, Xiao-Fei; Yuan, Chuan-Tao; Wang, Ai-Liang

2015-01-01

Background and objective: Long non-coding RNA, BANCR, has been demonstrated to contribute to the proliferation and migration of tumors. However, its molecular mechanism underlying gastric cancer is still unknown. In present study, we investigated whether BANCR was involved in the development of gastric cancer cells via regulation of NF-κB1. Methods: Human gastric cancer tissues were isolated as well as human gastric cell lines MGC803 and BGC823 were cultured to investigate the role of BANCR in gastric cancer. Results: BANCR expression was significantly up-regulated in gastric tumor tissues and gastric cell lines. Down-regulation of BANCR inhibited gastric cancer cell growth and promoted cell apoptosis, and it also contributed to a significant decrease of NF-κB1 (P50/105) expression and 3′UTR of NF-κB1 activity. Overexpression of NF-κB1 reversed the effect of BANCR on cancer cell growth and apoptosis. MiroRNA-9 (miR-9) targeted NF-κB1, and miR-9 inhibitor also reversed the effects of BANCR on gastric cancer cell growth and apoptosis. Conclusion: BANCR was highly expressed both in gastric tumor tissues and in cancer cells. NF-κB1 and miR-9 were involved in the role of BANCR in gastric cancer cell growth and apoptosis. - Highlights: • BANCR up-regulated in gastric cancer (GC) tissues and cell lines MGC803 and BGC823. • Down-regulation of BANCR inhibited GC cell growth and promoted cell apoptosis. • Down-regulation of BANCR contributed to decreased 3′UTR of NF-κB1 and its expression. • Overexpressed NF-κB1 reversed the effect of BANCR on GC cell growth. • miR-9 inhibitor reversed the effect of BANCR on cancer GC cell growth

Raddeanin A induces human gastric cancer cells apoptosis and inhibits their invasion in vitro

Energy Technology Data Exchange (ETDEWEB)

Xue, Gang [Department of Oncology, Nanjing University of Chinese Medicine, Nanjing (China); Zou, Xi [Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Traditional Chinese Medicine, Nanjing (China); Zhou, Jin-Yong [Laboratory Center, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Traditional Chinese Medicine, Nanjing (China); Sun, Wei [Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Traditional Chinese Medicine, Nanjing (China); Wu, Jian [Laboratory Center, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Traditional Chinese Medicine, Nanjing (China); Xu, Jia-Li [Department of Oncology, Nanjing University of Chinese Medicine, Nanjing (China); Wang, Rui-Ping, E-mail: ruipingwang61@hotmail.com [Department of Oncology, Affiliated Hospital of Nanjing University of Chinese Medicine, Jiangsu Province Hospital of Traditional Chinese Medicine, Nanjing (China)

2013-09-20

Highlights: •Raddeanin A is a triterpenoid saponin in herb medicine Anemone raddeana Regel. •Raddeanin A can inhibit 3 kinds of gastric cancer cells’ proliferation and invasion. •Caspase-cascades’ activation indicates apoptosis induced by Raddeanin A. •MMPs, RECK, Rhoc and E-cad are involved in Raddeanin A-induced invasion inhibition. -- Abstract: Raddeanin A is one of the triterpenoid saponins in herbal medicine Anemone raddeana Regel which was reported to suppress the growth of liver and lung cancer cells. However, little was known about its effect on gastric cancer (GC) cells. This study aimed to investigate its inhibitory effect on three kinds of different differentiation stage GC cells (BGC-823, SGC-7901 and MKN-28) in vitro and the possible mechanisms. Proliferation assay and flow cytometry demonstrated Raddeanin A’s dose-dependent inhibitory effect and determined its induction of cells apoptosis, respectively. Transwell assay, wounding heal assay and cell matrix adhesion assay showed that Raddeanin A significantly inhibited the abilities of the invasion, migration and adhesion of the BGC-823 cells. Moreover, quantitative real time PCR and Western blot analysis found that Raddeanin A increased Bax expression while reduced Bcl-2, Bcl-xL and Survivin expressions and significantly activated caspase-3, caspase-8, caspase-9 and poly-ADP ribose polymerase (PARP). Besides, Raddeanin A could also up-regulate the expression of reversion inducing cysteine rich protein with Kazal motifs (RECK), E-cadherin (E-cad) and down-regulate the expression of matrix metalloproteinases-2 (MMP-2), MMP-9, MMP-14 and Rhoc. In conclusion, Raddeanin A inhibits proliferation of human GC cells, induces their apoptosis and inhibits the abilities of invasion, migration and adhesion, exhibiting potential to become antitumor drug.

Offsite environmental monitoring report: Radiation monitoring around United States nuclear test areas, calendar year 1993

International Nuclear Information System (INIS)

Chaloud, D.J; Daigler, D.M.; Davis, M.G.

1996-06-01

This report describes the Offsite Radiation Safety Program conducted during 1993 by the Environmental Protection Agency's (EPA's) Environmental Monitoring Systems Laboratory - Las Vegas (EMSL-LV). This laboratory operates an environmental radiation monitoring program in the region surrounding the Nevada Test Site (NTS) and at former test sites in Alaska, Colorado, Mississippi, Nevada, and New Mexico. The surveillance program is designed to measure levels and trends of radioactivity, if present, in the environment surrounding testing areas to ascertain whether current radiation levels and associated doses to the general public are in compliance with existing radiation protection standards. The surveillance program additionally has the responsibility to take action to protect the health and well being of the public in the event of any accidental release of radioactive contaminants. Offsite levels of radiation and radioactivity are assessed by sampling milk, water, and air; by deploying thermoluminescent dosimeters (TLDs) and using pressurized ionization chambers (PICs); by biological monitoring of foodstuffs including animal tissues and food crops; and by measurement of radioactive material deposited in humans

Electron-Scavenging Chemistry of Benzoquinone on TiO2(110)

Energy Technology Data Exchange (ETDEWEB)

Henderson, Michael A.; Shen, Mingmin

2017-04-03

The chemistry of benzoquinone (BQ) on TiO2(110) was examined using temperature programmed desorption (TPD), electron energy loss spectroscopy (EELS) and Auger electron spectroscopy (AES). BQ adsorbs mostly molecularly on the clean surface, although EELS demonstrates that electrons from surface Ti3+ sites at oxygen vacancy sites (VO) are readily oxidized by the high electron scavenging ability of the molecule. In contrast, when the surface is covered with water, subsequently adsorbed BQ molecules that scavenge surface electrons also abstract H from surface OHbr groups to form hydroquinone (HQ), which desorbs at ~450 K. This work was supported by the US Department of Energy, Office of Science, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences & Biosciences. Pacific Northwest National Laboratory (PNNL) is a multiprogram national laboratory operated for DOE by Battelle. The research was performed using the Environmental Molecular Sciences Laboratory (EMSL), a national scientific user facility sponsored by the Department of Energy's Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory.

Offsite environmental monitoring report: Radiation monitoring around United States nuclear test areas, calendar year 1993

Energy Technology Data Exchange (ETDEWEB)

Chaloud, D.J; Daigler, D.M.; Davis, M.G. [and others

1996-06-01

This report describes the Offsite Radiation Safety Program conducted during 1993 by the Environmental Protection Agency`s (EPA`s) Environmental Monitoring Systems Laboratory - Las Vegas (EMSL-LV). This laboratory operates an environmental radiation monitoring program in the region surrounding the Nevada Test Site (NTS) and at former test sites in Alaska, Colorado, Mississippi, Nevada, and New Mexico. The surveillance program is designed to measure levels and trends of radioactivity, if present, in the environment surrounding testing areas to ascertain whether current radiation levels and associated doses to the general public are in compliance with existing radiation protection standards. The surveillance program additionally has the responsibility to take action to protect the health and well being of the public in the event of any accidental release of radioactive contaminants. Offsite levels of radiation and radioactivity are assessed by sampling milk, water, and air; by deploying thermoluminescent dosimeters (TLDs) and using pressurized ionization chambers (PICs); by biological monitoring of foodstuffs including animal tissues and food crops; and by measurement of radioactive material deposited in humans.

Laboratory Directed Research and Development Annual Report for 2009

International Nuclear Information System (INIS)

Hughes, Pamela J.

2010-01-01

This report documents progress made on all LDRD-funded projects during fiscal year 2009. As a US Department of Energy (DOE) Office of Science (SC) national laboratory, Pacific Northwest National Laboratory (PNNL) has an enduring mission to bring molecular and environmental sciences and engineering strengths to bear on DOE missions and national needs. Their vision is to be recognized worldwide and valued nationally for leadership in accelerating the discovery and deployment of solutions to challenges in energy, national security, and the environment. To achieve this mission and vision, they provide distinctive, world-leading science and technology in: (1) the design and scalable synthesis of materials and chemicals; (2) climate change science and emissions management; (3) efficient and secure electricity management from generation to end use; and (4) signature discovery and exploitation for threat detection and reduction. PNNL leadership also extends to operating EMSL: the Environmental Molecular Sciences Laboratory, a national scientific user facility dedicated to providing itnegrated experimental and computational resources for discovery and technological innovation in the environmental molecular sciences.

Laboratory Directed Research and Development Annual Report for 2009

Energy Technology Data Exchange (ETDEWEB)

Hughes, Pamela J.

2010-03-31

This report documents progress made on all LDRD-funded projects during fiscal year 2009. As a US Department of Energy (DOE) Office of Science (SC) national laboratory, Pacific Northwest National Laboratory (PNNL) has an enduring mission to bring molecular and environmental sciences and engineering strengths to bear on DOE missions and national needs. Their vision is to be recognized worldwide and valued nationally for leadership in accelerating the discovery and deployment of solutions to challenges in energy, national security, and the environment. To achieve this mission and vision, they provide distinctive, world-leading science and technology in: (1) the design and scalable synthesis of materials and chemicals; (2) climate change science and emissions management; (3) efficient and secure electricity management from generation to end use; and (4) signature discovery and exploitation for threat detection and reduction. PNNL leadership also extends to operating EMSL: the Environmental Molecular Sciences Laboratory, a national scientific user facility dedicated to providing itnegrated experimental and computational resources for discovery and technological innovation in the environmental molecular sciences.

Design and methods for a community-based intervention to reduce sugar-sweetened beverage consumption among youth: H2GO! study

Directory of Open Access Journals (Sweden)

Monica L. Wang

2016-11-01

Full Text Available Abstract Background Reducing sugar-sweetened beverage (SSB intake is an important dietary target among underserved children at high risk for obesity and associated morbidities. Community-based approaches to reduce SSB intake are needed. The use of narrative-based approaches (presenting messages within the context of a story can facilitate connection with target health messages and empower children as behavior change agents within their families. The H2GO! program is a community-based behavioral intervention that integrates narrative-based strategies to reduce SSB consumption and promote water intake among school-age youth and parents. Methods Guided by the Social Cognitive Theory and the Social Ecological Model, the H2GO! intervention consists of 6 weekly sessions that target beverage knowledge, attitudes, and behaviors through youth-produced messages and narratives to reduce SSB intake and encourage water intake and parent–child activities. To reach underserved youth and families, we identified Boys & Girls Clubs (B&GC (youth-based community centers that serve an ethnically diverse and predominantly low socioeconomic status population as a community partner and study setting. Participants (children ages 9–12 years and their parents will be recruited from B&GC sites in Massachusetts, USA. Intervention efficacy will be assessed through a site-randomized trial (N = 2 youth-based community sites, pair-matched for size and racial/ethnic composition with 54 parent–child pairs (N = 108 enrolled per site (N = 216 total. The comparison site will carry on with usual practice. Child and parental SSB and water consumption (primary outcomes and parent and child beverage knowledge and attitudes (secondary outcomes will be measured via self-report surveys. Additional outcomes include children’s anthropometric data, additional dietary behaviors, and physical activity. Measures will be collected at baseline, 2 and 6 months follow-up. With

Ecological Effects of Grazing in the Northern Tianshan Mountains

Directory of Open Access Journals (Sweden)

Xiaotao Huang

2017-11-01

Full Text Available Identifying the effects of grazing is critical for the conservation, protection and sustainable use of arid grassland ecosystems. However, research regarding the ecological effects of grazing along mountainous elevation gradients is limited in arid areas, particularly at the regional scale. Using the Biome-BGC grazing model, we explored the effects of grazing on grassland net primary productivity (NPP, evapotranspiration (ET and water use efficiency (WUE from 1979 to 2012 along an elevation gradient in the northern Tianshan Mountains. The NPP, ET and WUE values were generally lower under the grazing scenario than under the ungrazed scenario; the differences between the grazing and ungrazed scenarios showed increasing trends over time; and distinct spatial heterogeneity in these differences was observed. Distinct decreases in NPP and WUE under the grazing scenario mainly occurred in regions with high livestock consumption. The decrease in ET was greater in mountainous areas with high grazing intensity due to decreased transpiration and increased surface runoff. This study contributes to a better understanding of the ecological effects of grazing along an elevation gradient in the northern Tianshan Mountains and provides data to support the scientific management of grassland ecosystems.

Simulating forest productivity and surface-atmosphere carbon exchange in the BOREAS study region

Energy Technology Data Exchange (ETDEWEB)

Kimball, J.S.; Thornton, P.E.; White, M.A.; Running, S.W. [Montana Univ., Missoula, MT (United States). School of Forestry

1997-12-31

Studies have shown that the boreal forest region is in danger of experiencing significant warming and drying in response to increases in atmospheric CO{sub 2} concentration and other greenhouse gases. Since the boreal forest region contains 16-24 per cent of the world`s soil carbon, warming in this region could result in a rapid, large-scale displacement and redistribution of boreal forest, enhanced release of CO{sub 2} to the atmosphere, and an intensification of global warming. A study was conducted in which a process-based, general ecosystem model (BIOME-BGC) was used to simulate daily gross primary production, maintenance and heterotrophic respiration, net primary production and net ecosystem carbon exchange of boreal aspen, jack pine and black spruce. The objective was to integrate point measurements across multiple spatial and temporal scales using process level models of the boreal forest water, energy and biogeochemical cycles. Climate characteristics that control simulated carbon fluxes were also studied. Results showed that trees with large daily evapotranspiration rates and those situated on sandy soils with low water holding capacities were especially vulnerable to increased temperature and drought conditions. Trees subject to frequent water stress during the growing season, particularly older trees that exhibit low photosynthetic and high respiration rates, were on the margin between being annual net sources or sinks for atmospheric carbon. 71 refs., 3 tabs., 5 figs.

Cytotoxicity assessment of functionalized CdSe, CdTe and InP quantum dots in two human cancer cell models.

Science.gov (United States)

Liu, Jing; Hu, Rui; Liu, Jianwei; Zhang, Butian; Wang, Yucheng; Liu, Xin; Law, Wing-Cheung; Liu, Liwei; Ye, Ling; Yong, Ken-Tye

2015-12-01

The toxicity of quantum dots (QDs) has been extensively studied over the past decade. Some common factors that originate the QD toxicity include releasing of heavy metal ions from degraded QDs and the generation of reactive oxygen species on the QD surface. In addition to these factors, we should also carefully examine other potential QD toxicity causes that will play crucial roles in impacting the overall biological system. In this contribution, we have performed cytotoxicity assessment of four types of QD formulations in two different human cancer cell models. The four types of QD formulations, namely, mercaptopropionic acid modified CdSe/CdS/ZnS QDs (CdSe-MPA), PEGylated phospholipid encapsulated CdSe/CdS/ZnS QDs (CdSe-Phos), PEGylated phospholipid encapsulated InP/ZnS QDs (InP-Phos) and Pluronic F127 encapsulated CdTe/ZnS QDs (CdTe-F127), are representatives for the commonly used QD formulations in biomedical applications. Both the core materials and the surface modifications have been taken into consideration as the key factors for the cytotoxicity assessment. Through side-by-side comparison and careful evaluations, we have found that the toxicity of QDs does not solely depend on a single factor in initiating the toxicity in biological system but rather it depends on a combination of elements from the particle formulations. More importantly, our toxicity assessment shows different cytotoxicity trend for all the prepared formulations tested on gastric adenocarcinoma (BGC-823) and neuroblastoma (SH-SY5Y) cell lines. We have further proposed that the cellular uptake of these nanocrystals plays an important role in determining the final faith of the toxicity impact of the formulation. The result here suggests that the toxicity of QDs is rather complex and it cannot be generalized under a few assumptions reported previously. We suggest that one have to evaluate the QD toxicity on a case to case basis and this indicates that standard procedures and comprehensive

Ecological risk assessment of ecosystem services in the Taihu Lake Basin of China from 1985 to 2020.

Science.gov (United States)

Xu, Xibao; Yang, Guishan; Tan, Yan; Zhuang, Qianlai; Li, Hengpeng; Wan, Rongrong; Su, Weizhong; Zhang, Jian

2016-06-01

There are tremendous theoretical, methodological and policy challenges in evaluating the impact of land-use change on the degradation of ecosystem services (ES) at the regional scale. This study addresses these challenges by developing an interdisciplinary methodology based on the Procedure for Ecological Tiered Assessment of Risk (PETAR). This novel methodology integrates ecological models with a land-use change model. This study quantifies the multi-dimensional degradation risks of ES in the Taihu Lake Basin (TLB) of China from 1985 to 2020. Four key ES related to water purification, water quantity adjustment, carbon sequestration and grain production are selected. The study employs models of Denitrification-Decomposition (DNDC), Soil-Water-Atmosphere-Plant (SWAP), Biome-BGC and Agro-ecological Zoning (AEZ) for assimilations. Land-use changes by 2020 were projected using a geographically weighted multinomial logit-cellular automata (GWML-CA) model. The results show that rapid land-use change has posed a great degradation risk of ES in the region in 1985-2020. Slightly less than two-thirds of the basin experienced degradation of ES over the 1985-2010 period, and about 12% of the basin will continue to experience degradation until 2020. Hot spots with severe deterioration in 2010-2020 are projected to be centered around some small and less developed cities in the region. Regulating accelerated urban sprawl and population growth, reinforcing current environmental programs, and establishing monitoring systems for observing dynamics of regional ES are suggested as practical counter-measures. Copyright © 2015 Elsevier B.V. All rights reserved.

Annual Report 1998: Chemical Structure and Dynamics

Energy Technology Data Exchange (ETDEWEB)

SD Colson; RS McDowell

1999-05-10

The Chemical Structure and Dynamics (CS&D) program is a major component of the William R. Wiley Environmental Molecular Sciences Labo- ratory (EMSL), developed by Pacific Northwest National Laboratory (PNNL) to provide a state-of- the-art collaborative facility for studies of chemical structure and dynamics. We respond to the need for a fundamental, molecular-level understanding of chemistry at a wide variety of environmentally important interfaces by (1) extending the experimental characterization and theoretical description of chemical reactions to encompass the effects of condensed media and interfaces; (2) developing a multidisciplinary capability for describing interracial chemical processes within which the new knowledge generated can be brought to bear on complex phenomena in envi- ronmental chemistry and in nuclear waste proc- essing and storage; and (3) developing state-of- the-art analytical methods for characterizing com- plex materials of the types found in stored wastes and contaminated soils, and for detecting and monitoring trace atmospheric species. Our program aims at achieving a quantitative understanding of chemical reactions at interfaces and, more generally, in condensed media, compa- rable to that currently available for gas-phase reactions. This understanding will form the basis for the development of a priori theories for pre- dicting macroscopic chemical behavior in con- densed and heterogeneous media, which will add significantly to the value of field-scale envi- ronmental models, predictions of short- and long- term nuclear waste storage stabilities, and other areas related to the primary missions of the U.S. Department of Energy (DOE).

Predicting results of daily-practice cystoscopies.

Science.gov (United States)

García-Velandria, F; Sánchez-García, J F; Rodríguez-Toves, L A; Alvarez-Buitrago, L; Conde-Redondo, C; Rodríguez-Tesedo, V; Amón-Sesmero, J H; Cepeda-Delgado, M; Cobos-Carbó, A; Alonso-Fernández, D; Martínez-Sagarra, J M

2014-10-01

Our objective was to elaborate a predictive model of bladder cancer, in an unselected clinical population submitted to cystoscopy. We recruited consecutive patients that underwent cystoscopy due to suspicion of bladder cancer or surveillance of a previously diagnosed bladder cancer. Urine cytology and a BTA-stat® (BTA) test were carried out for all patients. To avoid an assessment bias, the BTA-tests, cytologies and cystoscopies were conducted in a blinded fashion. We used logistic regression to predict cystoscopy results from cytology, BTA-test and clinical variables. From August 2011 to July 2012, we recruited 244 patients and 237 were valid for analysis. Newly diagnosed and surveillance cases were 13% and 87% respectively. Cytology and BTA-test sensitivities were 57.9% (CI 95: 42.2-72.1) and 63.2% (CI 95: 47.3-76.6) with specificities of 84.4% (CI 95: 78.7-88.8) and 82.9% (CI 95: 77.1-87.5). The predictive model included the BTA-test, cytology, time since previous tumour, and treatment with mitomicin or BGC during the last three months. The model predictive accuracy (AUC) was .85 (.78-.92), and dropped to 0.79 when excluding the BTA-test (P=.026). For the surveillance of bladder cancer, a 10% threshold on the model predicted probabilities resulted in an overall negative predictive value of 95.7%, and 95.0% in low grade tumours. In a cost containment environment, our prediction model could be used to space out cystoscopies in patients with previous, low grade tumours, resulting in a more efficient use of resources in the healthcare system. Copyright © 2013 AEU. Published by Elsevier Espana. All rights reserved.

The red queen model of recombination hotspots evolution in the light of archaic and modern human genomes.

Science.gov (United States)

Lesecque, Yann; Glémin, Sylvain; Lartillot, Nicolas; Mouchiroud, Dominique; Duret, Laurent

2014-11-01

Recombination is an essential process in eukaryotes, which increases diversity by disrupting genetic linkage between loci and ensures the proper segregation of chromosomes during meiosis. In the human genome, recombination events are clustered in hotspots, whose location is determined by the PRDM9 protein. There is evidence that the location of hotspots evolves rapidly, as a consequence of changes in PRDM9 DNA-binding domain. However, the reasons for these changes and the rate at which they occur are not known. In this study, we investigated the evolution of human hotspot loci and of PRDM9 target motifs, both in modern and archaic human lineages (Denisovan) to quantify the dynamic of hotspot turnover during the recent period of human evolution. We show that present-day human hotspots are young: they have been active only during the last 10% of the time since the divergence from chimpanzee, starting to be operating shortly before the split between Denisovans and modern humans. Surprisingly, however, our analyses indicate that Denisovan recombination hotspots did not overlap with modern human ones, despite sharing similar PRDM9 target motifs. We further show that high-affinity PRDM9 target motifs are subject to a strong self-destructive drive, known as biased gene conversion (BGC), which should lead to the loss of the majority of them in the next 3 MYR. This depletion of PRDM9 genomic targets is expected to decrease fitness, and thereby to favor new PRDM9 alleles binding different motifs. Our refined estimates of the age and life expectancy of human hotspots provide empirical evidence in support of the Red Queen hypothesis of recombination hotspots evolution.

The red queen model of recombination hotspots evolution in the light of archaic and modern human genomes.

Directory of Open Access Journals (Sweden)

Yann Lesecque

2014-11-01

Full Text Available Recombination is an essential process in eukaryotes, which increases diversity by disrupting genetic linkage between loci and ensures the proper segregation of chromosomes during meiosis. In the human genome, recombination events are clustered in hotspots, whose location is determined by the PRDM9 protein. There is evidence that the location of hotspots evolves rapidly, as a consequence of changes in PRDM9 DNA-binding domain. However, the reasons for these changes and the rate at which they occur are not known. In this study, we investigated the evolution of human hotspot loci and of PRDM9 target motifs, both in modern and archaic human lineages (Denisovan to quantify the dynamic of hotspot turnover during the recent period of human evolution. We show that present-day human hotspots are young: they have been active only during the last 10% of the time since the divergence from chimpanzee, starting to be operating shortly before the split between Denisovans and modern humans. Surprisingly, however, our analyses indicate that Denisovan recombination hotspots did not overlap with modern human ones, despite sharing similar PRDM9 target motifs. We further show that high-affinity PRDM9 target motifs are subject to a strong self-destructive drive, known as biased gene conversion (BGC, which should lead to the loss of the majority of them in the next 3 MYR. This depletion of PRDM9 genomic targets is expected to decrease fitness, and thereby to favor new PRDM9 alleles binding different motifs. Our refined estimates of the age and life expectancy of human hotspots provide empirical evidence in support of the Red Queen hypothesis of recombination hotspots evolution.

Evaluation of NASA's Carbon Monitoring System (CMS) Flux Pilot: Terrestrial CO2 Fluxes

Science.gov (United States)

Fisher, J. B.; Polhamus, A.; Bowman, K. W.; Collatz, G. J.; Potter, C. S.; Lee, M.; Liu, J.; Jung, M.; Reichstein, M.

2011-12-01

NASA's Carbon Monitoring System (CMS) flux pilot project combines NASA's Earth System models in land, ocean and atmosphere to track surface CO2 fluxes. The system is constrained by atmospheric measurements of XCO2 from the Japanese GOSAT satellite, giving a "big picture" view of total CO2 in Earth's atmosphere. Combining two land models (CASA-Ames and CASA-GFED), two ocean models (ECCO2 and NOBM) and two atmospheric chemistry and inversion models (GEOS-5 and GEOS-Chem), the system brings together the stand-alone component models of the Earth System, all of which are run diagnostically constrained by a multitude of other remotely sensed data. Here, we evaluate the biospheric land surface CO2 fluxes (i.e., net ecosystem exchange, NEE) as estimated from the atmospheric flux inversion. We compare against the prior bottom-up estimates (e.g., the CASA models) as well. Our evaluation dataset is the independently derived global wall-to-wall MPI-BGC product, which uses a machine learning algorithm and model tree ensemble to "scale-up" a network of in situ CO2 flux measurements from 253 globally-distributed sites in the FLUXNET network. The measurements are based on the eddy covariance method, which uses observations of co-varying fluxes of CO2 (and water and energy) from instruments on towers extending above ecosystem canopies; the towers integrate fluxes over large spatial areas (~1 km2). We present global maps of CO2 fluxes and differences between products, summaries of fluxes by TRANSCOM region, country, latitude, and biome type, and assess the time series, including timing of minimum and maximum fluxes. This evaluation shows both where the CMS is performing well, and where improvements should be directed in further work.

The response of the terrestrial biosphere to urbanization: land cover conversion, climate, and urban pollution

Directory of Open Access Journals (Sweden)

K. Trusilova

2008-11-01

Full Text Available Although urban areas occupy a relatively small fraction of land, they produce major disturbances of the carbon cycle through land use change, climate modification, and atmospheric pollution. In this study we quantify effects of urban areas on the carbon cycle in Europe. Among urbanization-driven environmental changes, which influence carbon sequestration in the terrestrial biosphere, we account for: (1 proportion of land covered by impervious materials, (2 local urban meteorological conditions, (3 urban high CO₂ concentrations, and (4 elevated atmospheric nitrogen deposition. We use the terrestrial ecosystem model BIOME-BGC to estimate fluxes of carbon exchange between the biosphere and the atmosphere in response to these urban factors.

We analysed four urbanization-driven changes individually, setting up our model in such a way that only one of the four was active at a time. From these model simulations we found that fertilization effects from the elevated CO₂ and the atmospheric nitrogen deposition made the strongest positive contributions to the carbon uptake (0.023 Pg C year⁻¹ and 0.039 Pg C year⁻¹, respectively, whereas, the impervious urban land and local urban meteorological conditions resulted in a reduction of carbon uptake (−0.005 Pg C year⁻¹ and −0.007 Pg C year⁻¹, respectively. The synergetic effect of the four urbanization-induced changes was an increase of the carbon sequestration in Europe of 0.058 Pg C year⁻¹.

Effects of fire on regional evapotranspiration in the central Canadian boreal forest

Energy Technology Data Exchange (ETDEWEB)

Bond-Lamberty, Benjamin; Peckham, Scott D.; Gower, Stith T.; Ewers, Brent

2009-04-08

Changes in fire regimes are driving the carbon balance of much of the North American boreal forest, but few studies have examined fire-driven changes in evapotranspiration (ET) at a regional scale. This study used a version of the Biome-BGC process model with dynamic and competing vegetation types, and explicit spatial representation of a large (106 km2) region, to simulate the effects of wildfire on ET and its components from 1948 to 2005 by comparing the fire dynamics of the 1948-1967 period with those of 1968-2005. Simulated ET averaged, over the entire temporal and spatial modeling domain, 323 mm yr-1; simulation results indicated that changes in fire in recent decades decreased regional ET by 1.4% over the entire simulation, and by 3.9% in the last ten years (1996-2005). Conifers dominated the transpiration (EC) flux (120 mm yr-1) but decreased by 18% relative to deciduous broadleaf trees in the last part of the 20th century, when increased fire resulted in increased soil evaporation, lower canopy evaporation, lower EC and a younger and more deciduous forest. Well- and poorly-drained areas had similar rates of evaporation from the canopy and soil, but EC was twice as high in the well-drained areas. Mosses comprised a significant part of the evaporative flux to the atmosphere (22 mm yr-1). Modeled annual ET was correlated with net primary production, but not with temperature or precipitation; ET and its components were consistent with previous field and modeling studies. Wildfire is thus driving significant changes in hydrological processes, changes that may control the future carbon balance of the boreal forest.

ALM-FATES: Using dynamic vegetation and demography to capture changes in forest carbon cycling and competition at the global scale

Science.gov (United States)

Holm, J. A.; Knox, R. G.; Koven, C.; Riley, W. J.; Bisht, G.; Fisher, R.; Christoffersen, B. O.; Dietze, M.; Chambers, J. Q.

2017-12-01

The inclusion of dynamic vegetation demography in Earth System Models (ESMs) has been identified as a critical step in moving ESMs towards more realistic representations of plant ecology and the processes that govern climatically important fluxes of carbon, energy, and water. Successful application of dynamic vegetation models, and process-based approaches to simulate plant demography, succession, and response to disturbances without climate envelopes at the global scale is a challenging endeavor. We integrated demographic processes using the Functionally-Assembled Terrestrial Ecosystem Simulator (FATES) in the newly developed ACME Land Model (ALM). We then use an ALM-FATES globally gridded simulation for the first time to investigate plant functional type (PFT) distributions and dynamic turnover rates. Initial global simulations successfully include six interacting and competing PFTs (ranging from tropical to boreal, evergreen, deciduous, needleleaf and broadleaf); including more PFTs is planned. Global maps of net primary productivity, leaf area index, and total vegetation biomass by ALM-FATES matched patterns and values when compared to CLM4.5-BGC and MODIS estimates. We also present techniques for PFT parameterization based on the Predictive Ecosystem Analyzer (PEcAn), field based turnover rates, improved PFT groupings based on trait-tradeoffs, and improved representation of multiple canopy positions. Finally, we applied the improved ALM-FATES model at a central Amazon tropical and western U.S. temperate sites and demonstrate improvements in predicted PFT size- and age-structure and regional distribution. Results from the Amazon tropical site investigate the ability and magnitude of a tropical forest to act as a carbon sink by 2100 with a doubling of CO2, while results from the temperate sites investigate the response of forest mortality with increasing droughts.

Genetic and evolutionary correlates of fine-scale recombination rate variation in Drosophila persimilis.

Science.gov (United States)

Stevison, Laurie S; Noor, Mohamed A F

2010-12-01

Recombination is fundamental to meiosis in many species and generates variation on which natural selection can act, yet fine-scale linkage maps are cumbersome to construct. We generated a fine-scale map of recombination rates across two major chromosomes in Drosophila persimilis using 181 SNP markers spanning two of five major chromosome arms. Using this map, we report significant fine-scale heterogeneity of local recombination rates. However, we also observed "recombinational neighborhoods," where adjacent intervals had similar recombination rates after excluding regions near the centromere and telomere. We further found significant positive associations of fine-scale recombination rate with repetitive element abundance and a 13-bp sequence motif known to associate with human recombination rates. We noted strong crossover interference extending 5-7 Mb from the initial crossover event. Further, we observed that fine-scale recombination rates in D. persimilis are strongly correlated with those obtained from a comparable study of its sister species, D. pseudoobscura. We documented a significant relationship between recombination rates and intron nucleotide sequence diversity within species, but no relationship between recombination rate and intron divergence between species. These results are consistent with selection models (hitchhiking and background selection) rather than mutagenic recombination models for explaining the relationship of recombination with nucleotide diversity within species. Finally, we found significant correlations between recombination rate and GC content, supporting both GC-biased gene conversion (BGC) models and selection-driven codon bias models. Overall, this genome-enabled map of fine-scale recombination rates allowed us to confirm findings of broader-scale studies and identify multiple novel features that merit further investigation.

An analysis pipeline for the inference of protein-protein interaction networks

Energy Technology Data Exchange (ETDEWEB)

Taylor, Ronald C.; Singhal, Mudita; Daly, Don S.; Gilmore, Jason M.; Cannon, William R.; Domico, Kelly O.; White, Amanda M.; Auberry, Deanna L.; Auberry, Kenneth J.; Hooker, Brian S.; Hurst, G. B.; McDermott, Jason E.; McDonald, W. H.; Pelletier, Dale A.; Schmoyer, Denise A.; Wiley, H. S.

2009-12-01

An analysis pipeline has been created for deployment of a novel algorithm, the Bayesian Estimator of Protein-Protein Association Probabilities (BEPro), for use in the reconstruction of protein-protein interaction networks. We have combined the Software Environment for BIological Network Inference (SEBINI), an interactive environment for the deployment and testing of network inference algorithms that use high-throughput data, and the Collective Analysis of Biological Interaction Networks (CABIN), software that allows integration and analysis of protein-protein interaction and gene-to-gene regulatory evidence obtained from multiple sources, to allow interactions computed by BEPro to be stored, visualized, and further analyzed. Incorporating BEPro into SEBINI and automatically feeding the resulting inferred network into CABIN, we have created a structured workflow for protein-protein network inference and supplemental analysis from sets of mass spectrometry bait-prey experiment data. SEBINI demo site: https://www.emsl.pnl.gov /SEBINI/ Contact: ronald.taylor@pnl.gov. BEPro is available at http://www.pnl.gov/statistics/BEPro3/index.htm. Contact: ds.daly@pnl.gov. CABIN is available at http://www.sysbio.org/dataresources/cabin.stm. Contact: mudita.singhal@pnl.gov.

Supporting documents for LLL area 27 (410 area) safety analysis reports, Nevada Test Site

Energy Technology Data Exchange (ETDEWEB)

Odell, B. N. [comp.

1977-02-01

The following appendices are common to the LLL Safety Analysis Reports Nevada Test Site and are included here as supporting documents to those reports: Environmental Monitoring Report for the Nevada Test Site and Other Test Areas Used for Underground Nuclear Detonations, U. S. Environmental Protection Agency, Las Vegas, Rept. EMSL-LV-539-4 (1976); Selected Census Information Around the Nevada Test Site, U. S. Environmental Protection Agency, Las Vegas, Rept. NERC-LV-539-8 (1973); W. J. Hannon and H. L. McKague, An Examination of the Geology and Seismology Associated with Area 410 at the Nevada Test Site, Lawrence Livermore Laboratory, Livermore, Rept. UCRL-51830 (1975); K. R. Peterson, Diffusion Climatology for Hypothetical Accidents in Area 410 of the Nevada Test Site, Lawrence Livermore Laboratory, Livermore, Rept. UCRL-52074 (1976); J. R. McDonald, J. E. Minor, and K. C. Mehta, Development of a Design Basis Tornado and Structural Design Criteria for the Nevada Test Site, Nevada, Lawrence Livermore Laboratory, Livermore, Rept. UCRL-13668 (1975); A. E. Stevenson, Impact Tests of Wind-Borne Wooden Missiles, Sandia Laboratories, Tonopah, Rept. SAND 76-0407 (1976); and Hydrology of the 410 Area (Area 27) at the Nevada Test Site.

Downscaling Climate Projections to a Mountainous Landscape: A Climate Impact Assessment for the U.S. Northern Rockies Crown of the Continent Ecosystem

Science.gov (United States)

Oyler, J.; Anderson, R.; Running, S. W.

2010-12-01

In topographically complex landscapes, there is often a mismatch in scale between global climate model projections and more local climate-forcing factors and related ecological/hydrological processes. To overcome this limitation, the objective of this study was to downscale climate projections to the rugged Crown of the Continent Ecosystem (CCE) within the U.S. Northern Rockies and assess future impacts on water balances, vegetation dynamics, and carbon fluxes. A 40-year (1970-2009) spatial historical climate dataset (800m resolution, daily timestep) was generated for the CCE and modified for terrain influences. Regional climate projections were downscaled by applying them to the fine-scale historical dataset using a modified delta downscaling method and stochastic weather generator. The downscaled projections were used to drive the Biome-BGC ecosystem model. Overall CCE impacts included decreases in April 1 snow water equivalent, less days with snow on the ground, increased vegetation water stress, and increased growing degree days. The relaxing of temperature constraints increased annual net primary productivity (NPP) throughout most of the CCE landscape. However, an increase in water stress seems to have limited the growth in NPP and, in some areas, NPP actually decreased. Thus, CCE vegetation productivity trends under increasing temperatures will likely be determined by local changes in hydrologic function. Given the greater uncertainty in precipitation projections, future work should concentrate on determining thresholds in water constraints that greatly modify the magnitude and direction of carbon accumulation within the CCE under a warming climate.

Storm Effects on Net Ecosystem Productivity in Boreal Forests

Science.gov (United States)

Vestin, Patrik; Grelle, Achim; Lagergren, Fredrik; Hellström, Margareta; Langvall, Ola; Lindroth, Anders

2010-05-01

Regional carbon budgets are to some extent determined by disturbance in ecosystems. Disturbance is believed to be partly responsible for the large inter-annual variability of the terrestrial carbon balance. When neglecting anthropogenic disturbance, forest fires have been considered the most important kind of disturbance. However, also insect outbreaks and wind-throw may be major factors in regional carbon budgets. The effects of wind-throw on CO2 fluxes in boreal forests are not well known due to lack of data. Principally, the reduced carbon sequestration capacity, increased substrate availability and severe soil perturbation following wind-throw are expected to result in increased CO2 fluxes from the forest to the atmosphere. In January 2005, the storm Gudrun hit Sweden, which resulted in approx. 66 × 106m3storm-felled stem wood distributed over an area of approx. 272 000 ha. Eddy covariance flux measurements started at storm-felled areas in Asa and Toftaholm in central Sweden during summer 2005. Data from the first months suggests increased CO2 fluxes by a factor of 2.5-10, as compared to normal silviculture (clear-cutting). An important question is how long such enhanced CO2 fluxes persist. The BIOME-BGC model will be calibrated against measured CO2 fluxes from both sites for 2005 through 2009. Modeled data will be used to fill gaps in the data sets and annual carbon balances will be calculated. Data from Asa and Toftaholm will be presented at the conference.

Evolution and Diversity of Biosynthetic Gene Clusters in Fusarium

Directory of Open Access Journals (Sweden)

Koen Hoogendoorn

2018-06-01

Full Text Available Plant pathogenic fungi in the Fusarium genus cause severe damage to crops, resulting in great financial losses and health hazards. Specialized metabolites synthesized by these fungi are known to play key roles in the infection process, and to provide survival advantages inside and outside the host. However, systematic studies of the evolution of specialized metabolite-coding potential across Fusarium have been scarce. Here, we apply a combination of bioinformatic approaches to identify biosynthetic gene clusters (BGCs across publicly available genomes from Fusarium, to group them into annotated families and to study gain/loss events of BGC families throughout the history of the genus. Comparison with MIBiG reference BGCs allowed assignment of 29 gene cluster families (GCFs to pathways responsible for the production of known compounds, while for 57 GCFs, the molecular products remain unknown. Comparative analysis of BGC repertoires using ancestral state reconstruction raised several new hypotheses on how BGCs contribute to Fusarium pathogenicity or host specificity, sometimes surprisingly so: for example, a gene cluster for the biosynthesis of hexadehydro-astechrome was identified in the genome of the biocontrol strain Fusarium oxysporum Fo47, while being absent in that of the tomato pathogen F. oxysporum f.sp. lycopersici. Several BGCs were also identified on supernumerary chromosomes; heterologous expression of genes for three terpene synthases encoded on the Fusarium poae supernumerary chromosome and subsequent GC/MS analysis showed that these genes are functional and encode enzymes that each are able to synthesize koraiol; this observed functional redundancy supports the hypothesis that localization of copies of BGCs on supernumerary chromosomes provides freedom for evolutionary innovations to occur, while the original function remains conserved. Altogether, this systematic overview of biosynthetic diversity in Fusarium paves the way for

Rugged optical mirrors for the operation of Fourier-Transform Spectrometers in rough environments

Science.gov (United States)

Feist, Dietrich G.

2014-05-01

The Total Carbon Column Observing Network (TCCON) and the Network for the Detection of Atmospheric Composition Change (NDACC) operate a growing number of Fourier-Transform Spectrometers (FTS) that measure the total column of several atmospheric trace gases. For these measurements, the sun is used as a light source. This is typically achieved by a solar tracker that uses a pair of optical mirrors to guide the sunlight into the instrument. There is a growing demand to operate these instruments in remote locations that fill the gaps in the global observation network. Besides the logistical challenges of running a remote site, the environment at these locations can be very harsh compared to the sheltered environment of the instruments' home institutions. While the FTS itself is usually well protected inside a building or container, the solar tracker and especially its mirrors are exposed to the environment. There they may suffer from - temperature fluctuations - high humidity - sea salt corrosion at coastal sites - dirt and dust - air pollution from anthropogenic sources - deposition from plants or animals The Max Planck Institute for Biogeochemistry (MPI-BGC) operates a TCCON station on Ascension Island, about 200 m from the sea. Under the rough conditions at this site, typical optical mirrors that are made for laboratory conditions are destroyed by sea salt spray within a few weeks. Besides, typical gold-coated mirrors cannot be cleaned as their soft surface is easily scratched or damaged. To overcome these problems, the MPI-BGC has developed optical mirrors that - offer good reflectivity in the near and mid infrared - are highly resistant to salt and chlorine - have a hard surface so that they can be cleaned often and easily - are not affected by organic solvents - last for months in very harsh environments - can be reused after polishing These mirrors could be applied to most TCCON and NDACC sites. This way, the network could be expanded to regions where operation

Redox-active cytotoxic diorganotin(IV) cycloalkylhydroxamate complexes with different ring sizes: reduction behaviour and theoretical interpretation.

Science.gov (United States)

Shang, Xianmei; Alegria, Elisabete C B A; Guedes da Silva, M Fátima C; Kuznetsov, Maxim L; Li, Qingshan; Pombeiro, Armando J L

2012-12-01

Two series of new diorganotin(IV) cycloalkylhydroxamate complexes with different ring sizes (cyclopropyl, cyclobutyl, cyclopentyl and cyclohexyl), formulated as the mononuclear [R(2)Sn(HL)(2)] (1:2) (a, R=(n)Bu and Ph) and the polymeric [R(2)SnL](n) (1:1) (b, R=(n)Bu) compounds, were prepared and fully characterized. Single crystal X-ray diffraction for [(n)Bu(2)Sn{C(5)H(9)C(O)NHO}(2)] (3a) discloses the cis geometry and strong intermolecular NH⋯O interactions. The in vitro cytotoxic activities of the complexes were evaluated against HL-60, Bel-7402, BGC-823 and KB human tumour cell lines, the greater activity concerning [(n)Bu(2)Sn(HL)(2)] [HL=C(3)H(5)C(O)NHO (1a), C(6)H(11)C(O)NHO (4a)] towards BGC-823. The complexes undergo, by cyclic voltammetry and controlled-potential electrolysis, one irreversible overall two-electron cathodic process at a reduction potential that does not appear to correlate with the antitumour activity. The electrochemical behaviour of [R(2)Sn{C(5)H(9)C(O)NHO}(2)] [R=(n)Bu (3a), Ph (7a)] was also investigated using density functional theory (DFT) methods, showing that the ultimate complex structure and the mechanism of its formation are R dependent: for the aromatic (R=Ph) complex, the initial reduction step is centred on the phenyl ligands and at the metal, being followed by a second reduction with SnO and SnC ruptures, whereas for the alkyl (R=(n)Bu) complex the first reduction step is centred on one of the hydroxamate ligands and is followed by a second reduction with SnO bond cleavages and preservation of the alkyl ligands. In both cases, the final complexes are highly coordinative unsaturated Sn(II) species with the cis geometry, features that can be of biological significance. Copyright © 2012 Elsevier Inc. All rights reserved.

The Seasonal Cycle of Satellite Chlorophyll Fluorescence Observations and its Relationship to Vegetation Phenology and Ecosystem Atmosphere Carbon Exchange

Science.gov (United States)

Joiner, J.; Yoshida, Y.; Vasilkov, A. P.; Schaefer, K.; Jung, M.; Guanter, L.; Zhang, Y; Garrity, S.; Middleton, E. M.; Huemmrich, K. F.;

Changes in terrestrial CO2 budget in Siberia in the past three decades

Science.gov (United States)

Ichii, K.; Kondo, M.; Ueyama, M.; Ito, A.; Kobayashi, H.; Maksyutov, S. S.; Maki, T.; Nakamura, T.; Niwa, Y.; Patra, P. K.; Saeki, T.; Sato, H.; Sasai, T.; Saigusa, N.; Tian, H.; Yanagi, Y.; Zhang, B.

2015-12-01

Siberia is one of the regions where significant warming is proceeding, and the warming might cause changes in terrestrial carbon cycle. We analyzed interannual and decadal changes in terrestrial CO2 fluxes in the regions using multiple data sets, such as empirically estimated carbon fluxes based on multiple eddy-covariance sites (empirical upscaling; Support Vector Regression with AsiaFlux data), satellite-based vegetation index data, multiple terrestrial carbon cycle models from Asia-MIP (e.g. BEAMS, Biome-BGC, SEIB-DGVM, and VISIT), and atmospheric inverse models (e.g. ACTM, JMA, NICAM-TM) for the past 3 decades (1980s, 1990s, and 2000s). First, we checked the consistency in interannual variation of net carbon exchange between empirical upscaling and Asia-MIP model for 2001-2011 period, and found these two estimations show overall consistent interannual variation. Second, we analyzed net carbon exchange form Asia-MIP models and atmospheric inversions for the past three decades, and found persistent increases in terrestrial CO2 sink from two estimates. Magnitudes of estimated terrestrial CO2 sinks are also consistent (e.g. Asia-MIP: 0.2 PgC yr-1 in 1980s and 0.3 PgC yr-1 in 2000s and Inversions: 0.2 PgC yr-1 in 1980s and 0.5 PgC/yr in 2000s). We further analyzed the cause of persistent increases in CO2 uptake in the region using Asia-MIP model outputs, and climate changes (both warming and increases in water availability) and CO2 fertilization plays almost equivalent roles in sink increases. In addition, both gross primary productivity (GPP) and ecosystem respiration (RE) were increased, but increase in GPP was larger than that in RE.

Cytotoxicity assessment of functionalized CdSe, CdTe and InP quantum dots in two human cancer cell models

International Nuclear Information System (INIS)

Liu, Jing; Hu, Rui; Liu, Jianwei; Zhang, Butian; Wang, Yucheng; Liu, Xin; Law, Wing-Cheung; Liu, Liwei; Ye, Ling; Yong, Ken-Tye

2015-01-01

The toxicity of quantum dots (QDs) has been extensively studied over the past decade. Some common factors that originate the QD toxicity include releasing of heavy metal ions from degraded QDs and the generation of reactive oxygen species on the QD surface. In addition to these factors, we should also carefully examine other potential QD toxicity causes that will play crucial roles in impacting the overall biological system. In this contribution, we have performed cytotoxicity assessment of four types of QD formulations in two different human cancer cell models. The four types of QD formulations, namely, mercaptopropionic acid modified CdSe/CdS/ZnS QDs (CdSe-MPA), PEGylated phospholipid encapsulated CdSe/CdS/ZnS QDs (CdSe-Phos), PEGylated phospholipid encapsulated InP/ZnS QDs (InP-Phos) and Pluronic F127 encapsulated CdTe/ZnS QDs (CdTe-F127), are representatives for the commonly used QD formulations in biomedical applications. Both the core materials and the surface modifications have been taken into consideration as the key factors for the cytotoxicity assessment. Through side-by-side comparison and careful evaluations, we have found that the toxicity of QDs does not solely depend on a single factor in initiating the toxicity in biological system but rather it depends on a combination of elements from the particle formulations. More importantly, our toxicity assessment shows different cytotoxicity trend for all the prepared formulations tested on gastric adenocarcinoma (BGC-823) and neuroblastoma (SH-SY5Y) cell lines. We have further proposed that the cellular uptake of these nanocrystals plays an important role in determining the final faith of the toxicity impact of the formulation. The result here suggests that the toxicity of QDs is rather complex and it cannot be generalized under a few assumptions reported previously. We suggest that one have to evaluate the QD toxicity on a case to case basis and this indicates that standard procedures and comprehensive

Cytotoxicity assessment of functionalized CdSe, CdTe and InP quantum dots in two human cancer cell models

Energy Technology Data Exchange (ETDEWEB)

Liu, Jing [Institute of Gerontology and Geriatrics & Beijing Key Lab of Aging and Geriatrics, Chinese PLA General Hospital, Beijing 100853 (China); Hu, Rui [School of Electrical and Electronic Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798 (Singapore); Liu, Jianwei [Institute of Gerontology and Geriatrics & Beijing Key Lab of Aging and Geriatrics, Chinese PLA General Hospital, Beijing 100853 (China); Zhang, Butian; Wang, Yucheng [School of Electrical and Electronic Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798 (Singapore); Liu, Xin [Lawrence Berkeley National Laboratory, Berkeley, CA (United States); Law, Wing-Cheung [Department of Industrial and System Engineering, The Hang Kong Polytechnic University, Hung Hom (Hong Kong); Liu, Liwei [School of Science, Changchun University of Science and Technology, Changchun 130022 (China); Ye, Ling, E-mail: lye_301@163.com [Institute of Gerontology and Geriatrics & Beijing Key Lab of Aging and Geriatrics, Chinese PLA General Hospital, Beijing 100853 (China); Yong, Ken-Tye, E-mail: ktyong@ntu.edu.sg [School of Electrical and Electronic Engineering, Nanyang Technological University, 50 Nanyang Avenue, Singapore 639798 (Singapore)

2015-12-01

The toxicity of quantum dots (QDs) has been extensively studied over the past decade. Some common factors that originate the QD toxicity include releasing of heavy metal ions from degraded QDs and the generation of reactive oxygen species on the QD surface. In addition to these factors, we should also carefully examine other potential QD toxicity causes that will play crucial roles in impacting the overall biological system. In this contribution, we have performed cytotoxicity assessment of four types of QD formulations in two different human cancer cell models. The four types of QD formulations, namely, mercaptopropionic acid modified CdSe/CdS/ZnS QDs (CdSe-MPA), PEGylated phospholipid encapsulated CdSe/CdS/ZnS QDs (CdSe-Phos), PEGylated phospholipid encapsulated InP/ZnS QDs (InP-Phos) and Pluronic F127 encapsulated CdTe/ZnS QDs (CdTe-F127), are representatives for the commonly used QD formulations in biomedical applications. Both the core materials and the surface modifications have been taken into consideration as the key factors for the cytotoxicity assessment. Through side-by-side comparison and careful evaluations, we have found that the toxicity of QDs does not solely depend on a single factor in initiating the toxicity in biological system but rather it depends on a combination of elements from the particle formulations. More importantly, our toxicity assessment shows different cytotoxicity trend for all the prepared formulations tested on gastric adenocarcinoma (BGC-823) and neuroblastoma (SH-SY5Y) cell lines. We have further proposed that the cellular uptake of these nanocrystals plays an important role in determining the final faith of the toxicity impact of the formulation. The result here suggests that the toxicity of QDs is rather complex and it cannot be generalized under a few assumptions reported previously. We suggest that one have to evaluate the QD toxicity on a case to case basis and this indicates that standard procedures and comprehensive

Large-scale recumbent isoclinal folds in the footwall of the West Cycladic Detachment System (Greece)

Science.gov (United States)

Rice, A. Hugh N.; Grasemann, Bernhard

2017-04-01

The Pindos Zone in the Cyclades underwent Eocene high-pressure metamorphism and syn-orogenic exhumation, overprinted by Miocene low-angled extension. Although this represents a combination of likely high-strain-events, structural evidence of large-scale folding is rare. Here potential examples of such folding on Kea and Kythnos, in the Western Cyclades, are evaluated. These islands lie within the Cycladic Blueschist Nappe (lower nappe) of the Pindos Zone and in the footwall of the top-to-SSW West Cycladic Detachment System (WCDS). On Kea, no lithostratigraphy can be established in the 450 m thick greenschist facies mixed sedimentary-volcanoclastic-marble mylonite/phyllonite succession. On the east side of the island, lensoid marble layers frequently bifurcate, which might be reflecting early, sheared-out isoclinal folding, although no evidence of folded compositional layering has been found in potential fold-hinge zones and the bifurcation points are not arranged in a way suggestive of a fold axes parallel to the NNE-SSW oriented stretching lineation. However, at two localities, medium-scale recumbent isoclinal folding has been mapped, with NNE-SSW fold-axes exposed for up to 250 m and amplitudes of up to 170 m. On Kythnos, stretching lineations in greenschist facies rocks show a rotation from ENE-WSW in the north to NNE-SSW in the south, taken to represent a reorientation of the Eocene exhumation strain during block rotation coincident with top-to-SSW movement of the WCDS. The distribution of the three marble units that crop out in central/southern Kythnos suggest large-scale, likely isoclinal folding occurred. (1) Petroussa Lithodeme - a blue-grey calcite (BGC) marble with quartz-calcite-white-mica (QCWM) schists, forming a continuous outcrop around the island, thinning from >16m in the SE to <8m thick mylonites in the SW, overlain by grey sericite-albite-graphite-schists (Flabouria Lithodeme); (2) Rizou Lithodeme - massive grey to BGC marble, with abundant

Modeling the carbon dynamics of the pastures ecosystem in Xinjiang with Biome-BGC model%基于BIOME-BGC模型的新疆牧区生态系统碳动态模拟

Institute of Scientific and Technical Information of China (English)

朱士华; 张弛; 李超凡

2016-01-01

干旱区生态系统对气候变化的响应复杂而敏感.牧区由于放牧效应的存在以及人为因素的频繁扰动,生态环境极为脆弱,加之实测数据的稀缺,很难对旱地牧区碳动态时空格局形成完整准确的认识.基于修正的Biome-BGC放牧模型,文中评估了新疆牧区1981-2007年间多种情景模式下的碳动态格局.结果表明:新疆牧区总体上表现为碳汇,27年间共固持59Tg(1Tg=1012g)C,其中VEGC(植被碳)和SOC(土壤碳)占比相当,分别占总固持量的43.04％、43.08％;放牧导致20.58Tg C的流失,而CO2施肥效应则导致了64.29TgC的固定,气候变化导致的碳失汇量为9.52Tg.80年代中期牧区VEGC存在显著下降过程,可能与这段时期的持续干旱有关,但SOC受此影响较小,研究描绘了旱地碳动态时空格局,为后续研究提供数据支持.

Interactions between nitrogen deposition, land cover conversion, and climate change determine the contemporary carbon balance of Europe

Science.gov (United States)

Churkina, G.; Zaehle, S.; Hughes, J.; Viovy, N.; Chen, Y.; Jung, M.; Heumann, B. W.; Ramankutty, N.; Heimann, M.; Jones, C.

2010-09-01

European ecosystems are thought to take up large amounts of carbon, but neither the rate nor the contributions of the underlying processes are well known. In the second half of the 20th century, carbon dioxide concentrations have risen by more that 100 ppm, atmospheric nitrogen deposition has more than doubled, and European mean temperatures were increasing by 0.02 °C yr-1. The extents of forest and grasslands have increased with the respective rates of 5800 km2 yr-1 and 1100 km2 yr-1 as agricultural land has been abandoned at a rate of 7000 km2 yr-1. In this study, we analyze the responses of European land ecosystems to the aforementioned environmental changes using results from four process-based ecosystem models: BIOME-BGC, JULES, ORCHIDEE, and O-CN. The models suggest that European ecosystems sequester carbon at a rate of 56 TgC yr-1 (mean of four models for 1951-2000) with strong interannual variability (±88 TgC yr-1, average across models) and substantial inter-model uncertainty (±39 TgC yr-1). Decadal budgets suggest that there has been a continuous increase in the mean net carbon storage of ecosystems from 85 TgC yr-1 in 1980s to 108 TgC yr-1 in 1990s, and to 114 TgC yr-1 in 2000-2007. The physiological effect of rising CO2 in combination with nitrogen deposition and forest re-growth have been identified as the important explanatory factors for this net carbon storage. Changes in the growth of woody vegetation are suggested as an important contributor to the European carbon sink. Simulated ecosystem responses were more consistent for the two models accounting for terrestrial carbon-nitrogen dynamics than for the two models which only accounted for carbon cycling and the effects of land cover change. Studies of the interactions of carbon-nitrogen dynamics with land use changes are needed to further improve the quantitative understanding of the driving forces of the European land carbon balance.

Assessment of the potential of urban organic carbon dynamics to off-set urban anthropogenic emissions

Science.gov (United States)

Gottschalk, P.; Churkina, G.; Wattenbach, M.; Cubasch, U.

2010-12-01

The impact of urban systems on current and future global carbon emissions has been a focus of several studies. Many mitigation options in terms of increasing energy efficiency are discussed. However, apart from technical mitigation potential urban systems also have a considerable biogenic potential to mitigate carbon through an optimized management of organic carbon pools of vegetation and soil. Berlin city area comprises almost 50% of areas covered with vegetation or largely covered with vegetation. This potentially offers various areas for carbon mitigation actions. To assess the mitigation potentials our first objective is to estimate how large current vegetation and soil carbon stocks of Berlin are. We use publicly available forest and soil inventories to calculate soil organic carbon of non-pervious areas and forest standing biomass carbon. This research highlights data-gaps and assigns uncertainty ranges to estimated carbon resources. The second objective is to assess the carbon mitigation potential of Berlin’s vegetation and soils using a biogeochemical simulation model. BIOME-BGC simulates carbon-, nitrogen- and water-fluxes of ecosystems mechanistically. First, its applicability for Berlin forests is tested at selected sites. A spatial application gives an estimate of current net carbon fluxes. The application of such a model allows determining the sensitivity of key ecosystem processes (e.g. carbon gains through photosynthesis, carbon losses through decomposition) towards external drivers. This information can then be used to optimise forest management in terms of carbon mitigation. Initial results of Berlin’s current carbon stocks and its spatial distribution and preliminary simulations results will be presented.

Detecting metastasis of gastric carcinoma using high-resolution micro-CT system: in vivo small animal study

Science.gov (United States)

Liu, Junting; Tian, Jie; Liang, Jimin; Li, Xiangsi; Yang, Xiang; Chen, Xiaofeng; Chen, Yi; Zhou, Yuanfang; Wang, Xiaorui

2011-03-01

Immunocytochemical and immunofluorescence staining are used for identifying the characteristics of metastasis in traditional ways. Micro-computed tomography (micro-CT) is a useful tool for monitoring and longitudinal imaging of tumor in small animal in vivo. In present study, we evaluated the feasibility of the detection for metastasis of gastric carcinoma by high-resolution micro-CT system with omnipaque accumulative enhancement method in the organs. Firstly, a high-resolution micro-CT ZKKS-MCT-sharp micro-CT was developed by our research group and Guangzhou Zhongke Kaisheng Medical Technology Co., Ltd. Secondly, several gastric carcinoma models were established through inoculating 2x106 BGC-823 gastric carcinoma cells subcutaneously. Thirdly, micro-CT scanning was performed after accumulative enhancement method of intraperitoneal injection of omnipaque contrast agent containing 360 mg iodine with a concentration of 350 mg I/ml. Finally, we obtained high-resolution anatomical information of the metastasis in vivo in a BALB/c NuNu nude mouse, the 3D tumor architecture is revealed in exquisite detail at about 35 μm spatial resolution. In addition, the accurate shape and volume of the micrometastasis as small as 0.78 mm3 can be calculated with our software. Overall, our data suggest that this imaging approach and system could be used to enhance the understanding of tumor proliferation, metastasis and could be the basis for evaluating anti-tumor therapies.

Post-Neogene tectonism along the Aravalli Range, Rajasthan, India

Science.gov (United States)

Sen, Deepawati; Sen, Saurindranath

1983-03-01

The Aravalli Range runs southwest from Delhi for a distance of about 700 km. Its western margin is well defined, but the eastern margin is diffuse. Five geomorphic provinces are recognized in the study area: the western piedmont plains; the ridge and valley province which in the Central Aravallis occurs at two different heights separated by a fault scarp; the plateau province demarcated from the former by a fault scarp, confined to the Southern Aravallis, and occurring for a short stretch at two heights across another fault scarp; the BGC rolling plains east of the Range; and the BGC uplands south of the above. The scarps coincide with Precambrian faults. A series of rapids and water-falls, together with deeply entrenched river courses across the scarps and the youthful aspects of the escarpments with no projecting spurs, or straight river courses along their feet, all point unmistakably to a recent or post-Neogene vertical uplift along pre-existing faults. Presence of knickpoints at a constant distance from the Range in all west-flowing rivers, the ubiquitous terraces, and river courses entrenched within their own flood-plain deposits of thick gritty to conglomeratic sand, are indicative of a constant disturbance with a gradual rise of the Range east of the knickpoint, wherefrom the coarse materials were carried by the fast west-flowing streams. There is a differential uplift across the plateau scarp together with a right-lateral offset. This epeirogenic tectonism is ascribed to the collision of the Eurasian and the subducting Indian plates and to a locking of their continental crusts. By early Pleistocene, with the MBT gradually dying off, continued plate movement caused a flexural bending of the plate by a moment generated at the back, and a possible delinking of the continental crust along the zone of subduction. The felexural bending ripped open the Precambrian regional faults. The differential uplift and the difference in the distances of the nodes on two

What We Have Learned From 20+ Years of Research on Effects of Drought, Fire and Management on Carbon and Water Dynamics of Pacific Northwest Semi-Arid Forests

Science.gov (United States)

Law, B. E.; Berner, L. T.; Kwon, H.; Schmidt, A.

2016-12-01

Eco-climatic heterogeneity and proximity to oceans provides endless learning opportunities for eco-physiologists and modelers alike. We have been conducting measurements and modeling of ecosystem responses to climate and disturbance over Oregon's strong climatic gradient since 1990, and in the Metolius semi-arid region. Some of our findings have challenged common assumptions. Our first flux site was the Metolius old-growth ponderosa pine site (established 1996), followed by flux measurements at clusters of different age forests. We found that the old pine site continued to be an annual net carbon sink, contrary to expectations. Twenty years after stand-replacing disturbance, naturally regenerating young ponderosa pine was still a net carbon source, and a young pine plantation with removed debris (lower decomposition) was a weak sink. Physiological sensitivity to climate varies with tree size. Young pine forests responded to seasonal drought sooner and to a more severe degree. During extreme drought years, old pine showed only a small decline in water transport efficiency (11-24%), whereas efficiency declined by 46% in mature pine, and 80% in young pine. Thus, young trees risk hydraulic failure, which may account for higher mortality in young plantations nearby. Carbon uptake (GPP), soil fluxes, and evapotranspiration (calculated from sapflux or eddy flux data) are strongly coupled in the semi-arid ecosystems, suggesting it is feasible to combine sapflux and soil flux data along with water-use efficiency (GPP/LE) from high quality eddy flux data to estimate NEE in the landscape near flux sites or in patches of forests too small for EC measurements. Highlights show our key findings from development and application of multiple models, including SPA, Biome-BGC and CLM, and ideas for future directions.

Nine New and Five Known Polyketides Derived from a Deep Sea-Sourced Aspergillus sp. 16-02-1

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Xiu-Wen Chen

2014-05-01

Full Text Available Nine new C9 polyketides, named aspiketolactonol (1, aspilactonols A–F (2–7, aspyronol (9 and epiaspinonediol (11, were isolated together with five known polyketides, (S-2-(2′-hydroxyethyl-4-methyl-γ-butyrolactone (8, dihydroaspyrone (10, aspinotriol A (12, aspinotriol B (13 and chaetoquadrin F (14, from the secondary metabolites of an Aspergillus sp. 16-02-1 that was isolated from a deep-sea sediment sample. Structures of the new compounds, including their absolute configurations, were determined by spectroscopic methods, especially the 2D NMR, circular dichroism (CD, Mo2-induced CD and Mosher’s 1H NMR analyses. Compound 8 was isolated from natural sources for the first time, and the possible biosynthetic pathways for 1–14 were also proposed and discussed. Compounds 1–14 inhibited human cancer cell lines, K562, HL-60, HeLa and BGC-823, to varying extents.

吴起县2000-2013年植被NPP变化特征

Institute of Scientific and Technical Information of China (English)

王娟; 何慧娟

2015-01-01

利用美国蒙大拿大学运用生物地球化学模式(Biome-BGC)估算出的净初级生产力产品(MOD17A3),研究吴起县2000—2013年植被净初级生产力(netprimaryproductivety,NPP)的变化特征。结果表明：吴起县2000—2013年年均NPP变化范围在156.92~275.37gC·m-2·a-1,平均值为218.27gC·m-2·a-1,14a植被NPP在波动中呈显著增加趋势(P50%的区域分布在吴起县南部白豹乡、楼坊坪乡及长官庙乡部分地区。

Cytotoxic cassaine diterpenoid-diterpenoid amide dimers and diterpenoid amides from the leaves of Erythrophleum fordii.

Science.gov (United States)

Du, Dan; Qu, Jing; Wang, Jia-Ming; Yu, Shi-Shan; Chen, Xiao-Guang; Xu, Song; Ma, Shuang-Gang; Li, Yong; Ding, Guang-Zhi; Fang, Lei

2010-10-01

Detailed phytochemical investigation from the leaves of Erythrophleum fordii resulted in the isolation of 13 compounds, including three cassaine diterpenoid-diterpenoid amide dimers (1, 3 and 5), and seven cassaine diterpenoid amides (6 and 8-13), together with three previously reported ones, erythrophlesins D (2), C (4) and 3beta-hydroxynorerythrosuamide (7). Compounds 1, 3 and 5 are further additions to the small group of cassaine diterpenoid dimers represented by erythrophlesins A-D. Their structures were determined by analysis of extensive one- and two-dimensional NMR experiments and ESIMS methods. Cytotoxic activities of the isolated compounds were tested against HCT-8, Bel-7402, BGC-823, A549 and A2780 human cancer cell lines in the MTT test. Results showed that compounds 1 and 3-5 exhibited significantly selective cytotoxic activities (IC(50)<10 microM) against these cells, respectively. Copyright © 2010 Elsevier Ltd. All rights reserved.

Simulating forest productivity and surface-atmosphere carbon exchange in the BOREAS study region.

Science.gov (United States)

Kimball, John S.; Thornton, Peter E.; White, Mike A.; Running, Steven W.

1997-01-01

A process-based, general ecosystem model (BIOME-BGC) was used to simulate daily gross primary production, maintenance and heterotrophic respiration, net primary production and net ecosystem carbon exchange of boreal aspen, jack pine and black spruce stands. Model simulations of daily net carbon exchange of the ecosystem (NEE) explained 51.7% (SE = 1.32 g C m(-2) day(-1)) of the variance in daily NEE derived from stand eddy flux measurements of CO(2) during 1994. Differences between measured and simulated results were attributed to several factors including difficulties associated with measuring nighttime CO(2) fluxes and model assumptions of site homogeneity. However, comparisons between simulations and field data improved markedly at coarser time-scales. Model simulations explained 66.1% (SE = 0.97 g C m(-2) day(-1)) of the variance in measured NEE when 5-day means of daily results were compared. Annual simulations of aboveground net primary production ranged from 0.6-2.4 Mg C ha(-1) year(-1) and were concurrent with results derived from tree increment core measurements and allometric equations. Model simulations showed that all of the sites were net sinks (0.1-4.1 Mg C ha(-1) year(-1)) of atmospheric carbon for 1994. Older conifer stands showed narrow margins between uptake of carbon by net photosynthesis and carbon release through respiration. Younger stands were more productive than older stands, primarily because of lower maintenance respiration costs. However, all sites appeared to be less productive than temperate forests. Productivity simulations were strongly linked to stand morphology and site conditions. Old jack pine and aspen stands showed decreased productivity in response to simulated low soil water contents near the end of the 1994 growing season. Compared with the aspen stand, the jack pine stand appeared better adapted to conserve soil water through lower daily evapotranspiration losses but also exhibited a narrower margin between daily net

Assessing the impacts of climate change and nitrogen deposition on Norway spruce growth in Austria with BIOME-BGC

Energy Technology Data Exchange (ETDEWEB)

Eastaugh, Chris S.; Potzelsberger, Elisabeth; Hasenaueur, Hubert

2011-03-15

The purpose of this study is to determine if the climate change has had an apparent impact in Austrian forests. This research has been conducted on Norway spruce forests as this is the predominant species in Austria. Growth data between regions which have different temperature and precipitation trendsw was then compared, with results showing increased productivity in all regions thus implying that growth of the forest is driven by other factors than climate. This conclusion is consistent with previous studies supporting that forest growth is mainly driven by increasing nitrogen deposition.

Simulating effects of fire disturbance and climate change on boreal forest productivity and evapotranspiration

International Nuclear Information System (INIS)

Kang, Sinkyu; Kimball, John S.; Running, Steven W.

2006-01-01

We used a terrestrial ecosystem process model, BIOME-BGC, to investigate historical climate change and fire disturbance effects on regional carbon and water budgets within a 357,500 km 2 portion of the Canadian boreal forest. Historical patterns of increasing atmospheric CO 2 , climate change, and regional fire activity were used as model drivers to evaluate the relative effects of these impacts to spatial patterns and temporal trends in forest net primary production (NPP) and evapotranspiration (ET). Historical trends of increasing atmospheric CO 2 resulted in overall 13% and 5% increases in annual NPP and ET from 1994 to 1996, respectively. NPP was found to be relatively sensitive to changes in air temperature (T a ), while ET was more sensitive to precipitation (P) change within the ranges of observed climate variability (e.g., +/-2 o C for T a and +/-20% for P). In addition, the potential effect of climate change related warming on NPP is exacerbated or offset depending on whether these changes are accompanied by respective decreases or increases in precipitation. Historical fire activity generally resulted in reductions of both NPP and ET, which consumed an average of approximately 6% of annual NPP from 1959 to 1996. Areas currently occupied by dry conifer forests were found to be subject to more frequent fire activity, which consumed approximately 8% of annual NPP. The results of this study show that the North American boreal ecosystem is sensitive to historical patterns of increasing atmospheric CO 2 , climate change and regional fire activity. The relative impacts of these disturbances on NPP and ET interact in complex ways and are spatially variable depending on regional land cover and climate gradients. (author)

Pacific Northwest Regional and Ecozone-scale Carbon Cycle Responses to 25 Years of Variation in Climate and Disturbance

Science.gov (United States)

Turner, D. P.; Ritts, W. D.; Kennedy, R. E.; Gray, A. N.; Yang, Z.

2015-12-01

Spatial variation in climate, soils, disturbance regime, and forest management - as well as temporal variation in weather - all influence terrestrial carbon sources and sinks. Spatially-distributed, process-based, carbon cycle simulation models provide a means to integrate information from these various influences to estimate carbon pools and flux over large domains. Here we apply the Biome-BGC model over the 4 state (OR, WA, ID, Western MT) Northwest U.S. region for the interval from 1986-2010. Landsat data was used to characterize disturbances and revealed that the overall disturbance rate on forest land across the region was 0.8 % yr-1, with 49 % as harvests, 28 % as fire, and 23 % as pest/pathogen. A large proportion of the harvested area was on private forestland (62 %) and a large proportion of total burned area was on public forestland (89 %). Net ecosystem production (NEP) for the 2006-2010 interval on forestland was predominantly positive (a carbon sink) throughout the region, with maximum values in the Coast Range, intermediate values in the Cascade Mountains, and relatively low values in the Inland Rocky Mountain ecoregions. Croplands throughout the region had consistently high NEP. Localized negative NEPs were mostly associated with recent disturbances. There was large interannual variation in regional NEP, with notably low values across the region in 2003. In all ecoregions there was a downward trend in NEP over the 25 year study period. The net ecosystem carbon balance was positive in OR, near neutral in ID and WA, and negative (a carbon source) MT. The Northwest region as a whole was a carbon sink in the 2006-2010 period.

Simulations show decreasing carbon stocks and potential for carbon emissions in Rocky Mountain forests over the next century.

Science.gov (United States)

Boisvenue, Céline; Running, Steven W

2010-07-01

Climate change has altered the environment in which forests grow, and climate change models predict more severe alterations to come. Forests have already responded to these changes, and the future temperature and precipitation scenarios are of foremost concern, especially in the mountainous western United States, where forests occur in the dry environments that interface with grasslands. The objective of this study was to understand the trade-offs between temperature and water controls on these forested sites in the context of available climate projections. Three temperature and precipitation scenarios from IPCC AR4 AOGCMs ranging in precipitation levels were input to the process model Biome-BGC for key forested sites in the northern U.S. Rocky Mountains. Despite the omission of natural and human-caused disturbances in our simulations, our results show consequential effects from these conservative future temperature and precipitation scenarios. According to these projections, if future precipitation and temperatures are similar to or drier than the dry scenario depicted here, high-elevation forests on both the drier and wetter sites, which have in the absence of disturbance accumulated carbon, will reduce their carbon accumulation. Under the marginally drier climate projections, most forests became carbon sources by the end of the simulation horizon (2089). Under all three scenarios, growing season lengthened, the number of days with snow on the ground decreased, peak snow occurred earlier, and water stress increased through the projection horizon (1950-2089) for all sites, which represent the temperature and precipitation spectrum of forests in this region. The quantity, form, and timing of precipitation ultimately drive the carbon accumulation trajectory of forests in this region.

Simulating effects of fire disturbance and climate change on boreal forest productivity and evapotranspiration.

Science.gov (United States)

Kang, Sinkyu; Kimball, John S; Running, Steven W

2006-06-01

We used a terrestrial ecosystem process model, BIOME-BGC, to investigate historical climate change and fire disturbance effects on regional carbon and water budgets within a 357,500 km(2) portion of the Canadian boreal forest. Historical patterns of increasing atmospheric CO2, climate change, and regional fire activity were used as model drivers to evaluate the relative effects of these impacts to spatial patterns and temporal trends in forest net primary production (NPP) and evapotranspiration (ET). Historical trends of increasing atmospheric CO2 resulted in overall 13% and 5% increases in annual NPP and ET from 1994 to 1996, respectively. NPP was found to be relatively sensitive to changes in air temperature (T(a)), while ET was more sensitive to precipitation (P) change within the ranges of observed climate variability (e.g., +/-2 degrees C for T(a) and +/-20% for P). In addition, the potential effect of climate change related warming on NPP is exacerbated or offset depending on whether these changes are accompanied by respective decreases or increases in precipitation. Historical fire activity generally resulted in reductions of both NPP and ET, which consumed an average of approximately 6% of annual NPP from 1959 to 1996. Areas currently occupied by dry conifer forests were found to be subject to more frequent fire activity, which consumed approximately 8% of annual NPP. The results of this study show that the North American boreal ecosystem is sensitive to historical patterns of increasing atmospheric CO2, climate change and regional fire activity. The relative impacts of these disturbances on NPP and ET interact in complex ways and are spatially variable depending on regional land cover and climate gradients.

GL-1196 Suppresses the Proliferation and Invasion of Gastric Cancer Cells via Targeting PAK4 and Inhibiting PAK4-Mediated Signaling Pathways

Directory of Open Access Journals (Sweden)

Jian Zhang

2016-04-01

Full Text Available Gastric cancer, which is the most common malignant gastrointestinal tumor, has jumped to the third leading cause of cancer-related mortality worldwide. It is of great importance to identify novel and potent drugs for gastric cancer treatment. P21-activated kinase 4 (PAK4 has emerged as an attractive target for the development of anticancer drugs in consideration of its vital functions in tumorigenesis and progression. In this paper, we reported that GL-1196, as a small molecular compound, effectively suppressed the proliferation of human gastric cancer cells through downregulation of PAK4/c-Src/EGFR/cyclinD1 pathway and CDK4/6 expression. Moreover, GL-1196 prominently inhibited the invasion of human gastric cancer cells in parallel with blockage of the PAK4/LIMK1/cofilin pathway. Interestingly, GL-1196 also inhibited the formation of filopodia and induced cell elongation in SGC7901 and BGC823 cells. Taken together, these results provided novel insights into the potential therapeutic strategy for gastric cancer.

Output ordering and prioritisation system (OOPS): ranking biosynthetic gene clusters to enhance bioactive metabolite discovery.

Science.gov (United States)

Peña, Alejandro; Del Carratore, Francesco; Cummings, Matthew; Takano, Eriko; Breitling, Rainer

2017-12-18

The rapid increase of publicly available microbial genome sequences has highlighted the presence of hundreds of thousands of biosynthetic gene clusters (BGCs) encoding valuable secondary metabolites. The experimental characterization of new BGCs is extremely laborious and struggles to keep pace with the in silico identification of potential BGCs. Therefore, the prioritisation of promising candidates among computationally predicted BGCs represents a pressing need. Here, we propose an output ordering and prioritisation system (OOPS) which helps sorting identified BGCs by a wide variety of custom-weighted biological and biochemical criteria in a flexible and user-friendly interface. OOPS facilitates a judicious prioritisation of BGCs using G+C content, coding sequence length, gene number, cluster self-similarity and codon bias parameters, as well as enabling the user to rank BGCs based upon BGC type, novelty, and taxonomic distribution. Effective prioritisation of BGCs will help to reduce experimental attrition rates and improve the breadth of bioactive metabolites characterized.

Gas industries in Europe and America and trends of deregulation; Obei no gas jigyo to kisei kanwa no doko

Energy Technology Data Exchange (ETDEWEB)

Santo, Y [Osaka Gas Co. Ltd., Osaka (Japan)

1994-12-01

This paper describes an outline of natural gas industries in Europe and America, introduction of competition to gas industry in the USA, introduction of competition to gas industry in the UK, and gas industries in the continental Europe. For the new gas distribution system in the USA, pipeline enterprises are permitted to do only transportation services. Sale of gas is based on the direct contract between producers and distributors. In the UK, the British Gas Corporation (BGC) was converted into the private British Gas plc (BG) in 1986. With introducing the competition conditions, the BG has drastically modified its organization, to divide it into the domestic gas division, overseas gas division and the division of development and production of gas. As a consequence of the introduction of competition conditions, the market share of BG has drastically decreased. Moreover, gas industries in Germany, France, Italy, Spain, Belgium, Austria and the Netherlands are briefly described. 4 figs.

NME2 reduces proliferation, migration and invasion of gastric cancer cells to limit metastasis.

Directory of Open Access Journals (Sweden)

Yan-fei Liu

Full Text Available Gastric cancer is one of the most common malignancies and has a high rate of metastasis. We hypothesize that NME2 (Nucleoside Diphosphate Kinase 2, which has previously been considered as an anti-metastatic gene, plays a role in the invasiveness of gastric cancer cells. Using a tissue chip technology and immunohistochemistry, we demonstrated that NME2 expression was associated with levels of differentiation of gastric cancer cells and their metastasis into the lymph nodes. When the NME2 gene product was over-expressed by ;in vitro stable transfection, cells from BGC823 and MKN45 gastric cancer cell lines had reduced rates of proliferation, migration, and invasion through the collagen matrix, suggesting an inhibitory activity of NME2 in the propagation and invasion of gastric cancer. NME2 could, therefore, severe as a risk marker for gastric cancer invasiveness and a potential new target for gene therapy to enhance or induce NME2 expression.

Ammonia Oxidation by Abstraction of Three Hydrogen Atoms from a Mo–NH ₃ Complex

Energy Technology Data Exchange (ETDEWEB)

Bhattacharya, Papri; Heiden, Zachariah M.; Wiedner, Eric S.; Raugei, Simone; Piro, Nicholas A.; Kassel, W. Scott; Bullock, R. Morris; Mock, Michael T.

2017-02-15

We report ammonia oxidation by homolytic cleavage of all three H atoms from a Mo-15NH3 complex using the 2,4,6-tri-tert-butylphenoxyl radical to afford a Mo-alkylimido (Mo=15NR) complex (R = 2,4,6-tri-t-butylcyclohexa-2,5-dien-1-one). Reductive cleavage of Mo=15NR generates a terminal Mo≡N nitride, and a [Mo-15NH]+ complex is formed by protonation. Computational analysis describes the energetic profile for the stepwise removal of three H atoms from the Mo-15NH3 complex and the formation of Mo=15NR. Acknowledgment. This work was supported as part of the Center for Molecular Electrocatalysis, an Energy Frontier Re-search Center funded by the U.S. Department of Energy (U.S. DOE), Office of Science, Office of Basic Energy Sciences. EPR and mass spectrometry experiments were performed using EMSL, a national scientific user facility sponsored by the DOE’s Office of Biological and Environmental Research and located at PNNL. The authors thank Dr. Eric D. Walter and Dr. Rosalie Chu for assistance in performing EPR and mass spectroscopy analysis, respectively. Computational resources provided by the National Energy Re-search Scientific Computing Center (NERSC) at Lawrence Berkeley National Laboratory. Pacific North-west National Laboratory is operated by Battelle for the U.S. DOE.

青海省森林土壤生态服务价值评估研究%Value Assessment on Service Function of Forest Soil in Qinghai Province

Institute of Scientific and Technical Information of China (English)

黄桂林; 刘晶; 侯盟; 崔雪晴; 徐生旺

2015-01-01

Based on the continuous forest inventory data,climate data,flux tower data and remote sensing data,the carbon cycling,water cycling and nutrient cycling of forest ecosystem were simulated by using Biome-BGC model in Qinghai province.Furthermore,the model validation was conducted by using the da-ta including above-and belowground biomass,soil organic matter density,soil water content measured at forest plots in 2012 and 2013.So the substance quantity of the carbon sink functions,water resource and evapotranspiration in forest ecosystem from 1998 to 2012 were acquired.Meanwhile,the total substance quantity and total value of three ecological service functions involved from soil carbon storage,soil water conservation and soil nutrient supply in 2000,2005,2010 and 2012 were evaluated.The results showed that the mean value of forest soil services in Qinghai province was 8442287.22 × 104 yuan /a,and the mean value was increasing at 0.25% speed each year.The service value of soil carbon storage accounted for 98.37% of the total value,whereas the ratio of value of both the soil water conservation and soil nutri-ent supply to the total value was less than 2%.The reason of increasing of soil carbon storage was mainly caused by the increase of carbon sforage of the forest litter,so we should pay attention to the conservation of forest litter.%利用青海森林资源一类清查数据、气候数据、通量塔数据、遥感数据，通过 Biome-BGC 模型对1998—2012年青海森林生态系统的碳循环、水循环和养分循环进行模拟计算，并利用2012—2013年监测所得的森林样地的地上／地下生物量、土壤有机碳密度和土壤实际含水率数据进行模型验证，得到1998—2012年青海省森林生态系统固碳、水资源及蒸散量。根据模型结果选择2000年、2005年、2010年和2012年4个年度对青海省森林土壤的固碳功能、保水功能和提供营养3项生态服务的价值量进�

Evaluation and uncertainty analysis of regional-scale CLM4.5 net carbon flux estimates

Science.gov (United States)

Post, Hanna; Hendricks Franssen, Harrie-Jan; Han, Xujun; Baatz, Roland; Montzka, Carsten; Schmidt, Marius; Vereecken, Harry

2018-01-01

Modeling net ecosystem exchange (NEE) at the regional scale with land surface models (LSMs) is relevant for the estimation of regional carbon balances, but studies on it are very limited. Furthermore, it is essential to better understand and quantify the uncertainty of LSMs in order to improve them. An important key variable in this respect is the prognostic leaf area index (LAI), which is very sensitive to forcing data and strongly affects the modeled NEE. We applied the Community Land Model (CLM4.5-BGC) to the Rur catchment in western Germany and compared estimated and default ecological key parameters for modeling carbon fluxes and LAI. The parameter estimates were previously estimated with the Markov chain Monte Carlo (MCMC) approach DREAM(zs) for four of the most widespread plant functional types in the catchment. It was found that the catchment-scale annual NEE was strongly positive with default parameter values but negative (and closer to observations) with the estimated values. Thus, the estimation of CLM parameters with local NEE observations can be highly relevant when determining regional carbon balances. To obtain a more comprehensive picture of model uncertainty, CLM ensembles were set up with perturbed meteorological input and uncertain initial states in addition to uncertain parameters. C3 grass and C3 crops were particularly sensitive to the perturbed meteorological input, which resulted in a strong increase in the standard deviation of the annual NEE sum (σ ∑ NEE) for the different ensemble members from ˜ 2 to 3 g C m-2 yr-1 (with uncertain parameters) to ˜ 45 g C m-2 yr-1 (C3 grass) and ˜ 75 g C m-2 yr-1 (C3 crops) with perturbed forcings. This increase in uncertainty is related to the impact of the meteorological forcings on leaf onset and senescence, and enhanced/reduced drought stress related to perturbation of precipitation. The NEE uncertainty for the forest plant functional type (PFT) was considerably lower (σ ∑ NEE ˜ 4.0-13.5 g C

Simulating effects of fire disturbance and climate change on boreal forest productivity and evapotranspiration

Energy Technology Data Exchange (ETDEWEB)

Kang, Sinkyu [Department of Environmental Science, Kangwon National University, Chunchon, Kangwon-do 200-701 (Korea, Republic of); Kimball, John S.; Running, Steven W. [Numerical Terradynamic Simulation Group, Department of Ecosystem and Conservation Sciences, The University of Montana, Missoula, MT 59812 (United States)

2006-06-01

We used a terrestrial ecosystem process model, BIOME-BGC, to investigate historical climate change and fire disturbance effects on regional carbon and water budgets within a 357,500 km{sup 2} portion of the Canadian boreal forest. Historical patterns of increasing atmospheric CO{sub 2}, climate change, and regional fire activity were used as model drivers to evaluate the relative effects of these impacts to spatial patterns and temporal trends in forest net primary production (NPP) and evapotranspiration (ET). Historical trends of increasing atmospheric CO{sub 2} resulted in overall 13% and 5% increases in annual NPP and ET from 1994 to 1996, respectively. NPP was found to be relatively sensitive to changes in air temperature (T{sub a}), while ET was more sensitive to precipitation (P) change within the ranges of observed climate variability (e.g., +/-2 {sup o}C for T{sub a} and +/-20% for P). In addition, the potential effect of climate change related warming on NPP is exacerbated or offset depending on whether these changes are accompanied by respective decreases or increases in precipitation. Historical fire activity generally resulted in reductions of both NPP and ET, which consumed an average of approximately 6% of annual NPP from 1959 to 1996. Areas currently occupied by dry conifer forests were found to be subject to more frequent fire activity, which consumed approximately 8% of annual NPP. The results of this study show that the North American boreal ecosystem is sensitive to historical patterns of increasing atmospheric CO{sub 2}, climate change and regional fire activity. The relative impacts of these disturbances on NPP and ET interact in complex ways and are spatially variable depending on regional land cover and climate gradients. (author)

A new framework for evaluating the impacts of drought on net primary productivity of grassland.

Science.gov (United States)

Lei, Tianjie; Wu, Jianjun; Li, Xiaohan; Geng, Guangpo; Shao, Changliang; Zhou, Hongkui; Wang, Qianfeng; Liu, Leizhen

2015-12-01

This paper presented a valuable framework for evaluating the impacts of droughts (single factor) on grassland ecosystems. This framework was defined as the quantitative magnitude of drought impact that unacceptable short-term and long-term effects on ecosystems may experience relative to the reference standard. Long-term effects on ecosystems may occur relative to the reference standard. Net primary productivity (NPP) was selected as the response indicator of drought to assess the quantitative impact of drought on Inner Mongolia grassland based on the Standardized Precipitation Index (SPI) and BIOME-BGC model. The framework consists of six main steps: 1) clearly defining drought scenarios, such as moderate, severe and extreme drought; 2) selecting an appropriate indicator of drought impact; 3) selecting an appropriate ecosystem model and verifying its capabilities, calibrating the bias and assessing the uncertainty; 4) assigning a level of unacceptable impact of drought on the indicator; 5) determining the response of the indicator to drought and normal weather state under global-change; and 6) investigating the unacceptable impact of drought at different spatial scales. We found NPP losses assessed using the new framework were more sensitive to drought and had higher precision than the long-term average method. Moreover, the total and average losses of NPP are different in different grassland types during the drought years from 1961-2009. NPP loss was significantly increased along a gradient of increasing drought levels. Meanwhile, NPP loss variation under the same drought level was different in different grassland types. The operational framework was particularly suited for integrative assessing the effects of different drought events and long-term droughts at multiple spatial scales, which provided essential insights for sciences and societies that must develop coping strategies for ecosystems for such events. Copyright © 2015 Elsevier B.V. All rights reserved.

Measuring the Effects of Disturbance & Climate on the CO2 & Energy Exchange of Ponderosa Pine Forests in the Pacific Northwest: Integration of Eddy Flux, Plant and Soil Measurements

Energy Technology Data Exchange (ETDEWEB)

Beverly E. Law; Larry Mahrt

2007-01-05

The goal is to quantify and understand the influence of climate and disturbance on ecosystem processes and thus net carbon uptake by forests. The objective is to combine tower and ground-based observations to quantify the effects of disturbance on processes controlling carbon storage and CO{sub 2} and energy exchange in varying climatic conditions. Specific objectives are: (1) Investigate the effects of logging and fire on carbon storage and carbon dioxide and energy exchange in chronosequences of ponderosa pine, using consistent methodology; (2) Determine key environmental factors controlling carbon storage and carbon dioxide and energy exchange in these forests through a combination of measurements and process modeling; and (3) Assess spatial variation of the concentrations and transport in complex terrain. The eddy covariance method is used for measurements of CO2, water vapor, and energy exchanges in a chronosequence of ponderosa pine forests (burned in 2002 wildfire, 10 year-old stand, 90 year-old mature stand). The mature stand has been an AmeriFlux site since 2000 (following previous flux sites in young and old stands initiated in 1996). In addition to the eddy covariance measurements, a large suite of biological processes and ecosystem properties are determined for the purpose of developing independent forest carbon budgets and NEP estimates; these include photosynthesis, stand respiration, soil CO{sub 2} fluxes, annual litterfall, foliar chemistry, and bole increment, and soil organic matter among other parameters. The measurements are being integrated and evaluated with two ecosystem models (BIOME-BGC and SPA). Such analyses are needed to assess regional terrestrial ecosystem carbon budgets. The results will contribute scientific understanding of carbon processes, and will provide comprehensive data sets for forest managers and those preparing national carbon inventories to use in assessments of carbon sequestration in relation to interannual climate

Floodplain Vegetation Productivity and Carbon Cycle Dynamics of the Middle Fork Flathead River of Northwest Montana

Science.gov (United States)

Oakins, A. J.; Kimball, J. S.; Relyea, S.; Stanford, J. A.

2005-05-01

River floodplains are vital natural features that store floodwaters, improve water quality, provide habitat, and create recreational opportunities. Recent studies have shown that strong interactions among flooding, channel and sediment movement, vegetation, and groundwater create a dynamic shifting habitat mosaic that promotes biodiversity and complex food webs. Multiple physical and environmental processes interact within these systems to influence forest productivity, including water availability, nutrient supply, soil texture, and disturbance history. This study is designed to quantify the role of groundwater depth and meteorology in determining spatial and temporal patterns of net primary productivity (NPP) within the Nyack floodplain of the Middle Fork Flathead River, Northwestern Montana. We examine three intensive field sites composed of mature, mixed deciduous and evergreen conifer forest with varying hydrologic and vegetative characteristics. We use a modified Biome-BGC ecosystem process model with field-collected data (LAI, increment growth cores, groundwater depth, vegetation sap-flow, and local meteorology) to describe the effects of floodplain groundwater dynamics on vegetation community structure, and carbon/nitrogen cycling. Initial results indicate that conifers are more sensitive than deeper-rooted deciduous species to variability in groundwater depth and meteorological conditions. Forest productivity also shows a non-linear response to groundwater depth. Sites with intermediate groundwater depths (0.2-0.5m) allow vegetation to maintain connectivity to groundwater over longer periods during the growing season, are effectively uncoupled from atmospheric constraints on photosynthesis, and generally have greater productivity. Shallow groundwater sites (<0.2m) are less productive due to the indirect effects of reduced soil aerobic decomposition and reduced plant available nitrogen.

NID Copper Sample Analysis

Energy Technology Data Exchange (ETDEWEB)

Kouzes, Richard T.; Zhu, Zihua

2011-02-01

The current focal point of the nuclear physics program at PNNL is the MAJORANA DEMONSTRATOR, and the follow-on Tonne-Scale experiment, a large array of ultra-low background high-purity germanium detectors, enriched in 76Ge, designed to search for zero-neutrino double-beta decay (0νββ). This experiment requires the use of germanium isotopically enriched in 76Ge. The DEMONSTRATOR will utilize 76Ge from Russia, but for the Tonne-Scale experiment it is hoped that an alternate technology under development at Nonlinear Ion Dynamics (NID) will be a viable, US-based, lower-cost source of separated material. Samples of separated material from NID require analysis to determine the isotopic distribution and impurities. The MAJORANA DEMONSTRATOR is a DOE and NSF funded project with a major science impact. DOE is funding NID through an SBIR grant for development of their separation technology for application to the Tonne-Scale experiment. The Environmental Molecular Sciences facility (EMSL), a DOE user facility at PNNL, has the required mass spectroscopy instruments for making these isotopic measurements that are essential to the quality assurance for the MAJORANA DEMONSTRATOR and for the development of the future separation technology required for the Tonne-Scale experiment. A sample of isotopically separated copper was provided by NID to PNNL for isotopic analysis as a test of the NID technology. The results of that analysis are reported here.

Iron loading effects in Fe/SSZ-13 NH3-SCR catalysts: nature of the Fe-ions and structure-function relationships

Energy Technology Data Exchange (ETDEWEB)

Gao, Feng; Zheng, Yang; Kukkadapu, Ravi K.; Wang, Yilin; Walter, Eric D.; Schwenzer, Birgit; Szanyi, Janos; Peden, Charles HF

2016-05-06

Using a traditional aqueous solution ion-exchange method under a protecting atmosphere of N2, a series of Fe/SSZ-13 catalysts with various Fe loadings were synthesized. UV-Vis, EPR and Mössbauer spectroscopies, coupled with temperature programmed reduction and desorption techniques, were used to probe the nature of the Fe sites. The major monomeric and dimeric Fe species are extra-framework [Fe(OH)2]+ and [HO-Fe-O-Fe-OH]2+. Larger oligomers with unknown nuclearity, poorly crystallized Fe2O3 particles, together with isolated Fe2+ ions, are minor Fe-containing moieties. Reaction rate and Fe loading correlations suggest that isolated Fe3+ ions are the active sites for standard SCR while the dimeric sites are the active centers for NO oxidation. NH3 oxidation, on the other hand, is catalyzed by sites with higher nuclearity. A low-temperature standard SCR reaction network is proposed that includes redox cycling of both monomeric and dimeric Fe species, for SCR and NO2 generation, respectively. The authors gratefully acknowledge the US Department of Energy (DOE), Energy Efficiency and Renewable Energy, Vehicle Technologies Program for the support of this work. The research described in this paper was performed at the Environmental Molecular Sciences Laboratory (EMSL), a national scientific user facility sponsored by the DOE’s Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory (PNNL). PNNL is operated for the US DOE by Battelle.

Instability of Hydrogenated TiO2

Energy Technology Data Exchange (ETDEWEB)

Nandasiri, Manjula I.; Shutthanandan, V.; Manandhar, Sandeep; Schwarz, Ashleigh M.; Oxenford, Lucas S.; Kennedy, John V.; Thevuthasan, Suntharampillai; Henderson, Michael A.

2015-11-06

Hydrogenated TiO2 (H-TiO2) is toted as a viable visible light photocatalyst. We report a systematic study on the thermal stability of H-implanted TiO2 using X-ray photoelectron spectroscopy (XPS), ultraviolet photoelectron spectroscopy (UPS), Rutherford backscattering spectrometry (RBS) and nuclear reaction analysis (NRA). Protons (40 keV) implanted at a ~2 atom % level within a ~120 nm wide profile of rutile TiO2(110) were situated ~300 nm below the surface. NRA revealed that this H-profile broadened preferentially toward the surface after annealing at 373 K, dissipated out of the crystal into vacuum at 473 K, and was absent within the beam sampling depth (~800 nm) at 523 K. Photoemission showed that the surface was reduced in concert with these changes. Similar anneals had no effect on pristine TiO2(110). The facile bulk diffusivity of H in rutile, as well as its activity toward interfacial reduction, significantly limits the utilization of H-TiO2 as a photocatalyst. This work was supported by the US Department of Energy, Office of Science, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences & Biosciences. Pacific Northwest National Laboratory (PNNL) is a multiprogram national laboratory operated for DOE by Battelle. The research was performed using the Environmental Molecular Sciences Laboratory (EMSL), a national scientific user facility sponsored by the Department of Energy's Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory.

NID Copper Sample Analysis

International Nuclear Information System (INIS)

Kouzes, Richard T.; Zhu, Zihua

2011-01-01

The current focal point of the nuclear physics program at PNNL is the MAJORANA DEMONSTRATOR, and the follow-on Tonne-Scale experiment, a large array of ultra-low background high-purity germanium detectors, enriched in 76 Ge, designed to search for zero-neutrino double-beta decay (0νββ). This experiment requires the use of germanium isotopically enriched in 76 Ge. The DEMONSTRATOR will utilize 76 Ge from Russia, but for the Tonne-Scale experiment it is hoped that an alternate technology under development at Nonlinear Ion Dynamics (NID) will be a viable, US-based, lower-cost source of separated material. Samples of separated material from NID require analysis to determine the isotopic distribution and impurities. The MAJORANA DEMONSTRATOR is a DOE and NSF funded project with a major science impact. DOE is funding NID through an SBIR grant for development of their separation technology for application to the Tonne-Scale experiment. The Environmental Molecular Sciences facility (EMSL), a DOE user facility at PNNL, has the required mass spectroscopy instruments for making these isotopic measurements that are essential to the quality assurance for the MAJORANA DEMONSTRATOR and for the development of the future separation technology required for the Tonne-Scale experiment. A sample of isotopically separated copper was provided by NID to PNNL for isotopic analysis as a test of the NID technology. The results of that analysis are reported here.

Putty-like bone fillers based on CaP ceramics or Biosilicate® combined with carboxymethylcellulose: Characterization, optimization, and evaluation.

Science.gov (United States)

Gabbai-Armelin, Paulo R; Renno, Ana Cm; Crovace, Murilo C; Magri, Angela Mp; Zanotto, Edgar D; Peitl, Oscar; Leeuwenburgh, Sander Cg; Jansen, John A; van den Beucken, Jeroen Jjp

2017-08-01

Calcium phosphates and bioactive glass ceramics have been considered promising biomaterials for use in surgeries. However, their moldability should be further enhanced. We here thereby report the handling, physicochemical features, and morphological characteristics of formulations consisting of carboxymethylcellulose-glycerol and hydroxyapatite-tricalcium phosphate or Biosilicate® particles. We hypothesized that combining either material with carboxymethylcellulose-glycerol would improve handling properties, retaining their bioactivity. In addition to scanning electron microscopy, cohesion, mineralization, pH, and viscoelastic properties of the novel formulations, cell culture experiments were performed to evaluate the cytotoxicity and cell proliferation. Putty-like formulations were obtained with improved cohesion and moldability. Remarkably, mineralization in simulated body fluid of hydroxyapatite-tricalcium phosphate/carboxymethylcellulose-glycerol formulations was enhanced compared to pure hydroxyapatite-tricalcium phosphate. Cell experiments showed that all formulations were noncytotoxic and that HA-TCP60 and BGC50 extracts led to an increased cell proliferation. We conclude that combining carboxymethylcellulose-glycerol with either hydroxyapatite-tricalcium phosphate or Biosilicate® allows for the generation of moldable putties, improves handling properties, and retains the ceramic bioactivity.

Characteristic and Source of Atmospheric PM10- and PM2.5-bound PAHs in a Typical Metallurgic City Near Yangtze River in China.

Science.gov (United States)

Zhang, Hong; Wang, Ruwei; Xue, Huaqin; Hu, Ruoyu; Liu, Guijian

2018-02-01

The characteristics of atmospheric PM 10 - and PM 2.5 -bound polycyclic aromatic hydrocarbons (PAHs) were investigated in Tongling city, China. Results showed that the total concentrations of PM 10 - and PM 2.5 -bound PAHs exhibited distinct seasonal and spatial variability. The metallurgic sites showed the highest PAH concentrations, which is mainly attributed to the metallurgic activities (mainly copper ore smelting) and coal combustion as the smelting fuel. The rural area showed the lowest concentrations, but exhibited significant increase from summer to autumn. This seasonal fluctuation is mainly caused by the biomass burning at the sites in the harvest season. The diagnostic ratio indicated that the main PAHs sources were vehicle exhausts, coal combustion and biomass burning. The total BaP equivalent concentration (BAP-TEQ) was found to be maximum at DGS site in winter, whereas it was minimum at BGC site in summer. Risk assessment indicates that residential exposure to PAHs in the industrial area, especially in the winter season, may pose a greater inhalation cancer risk than people living in living area and rural area.

A unified approach to fixed-order controller design via linear matrix inequalities

Directory of Open Access Journals (Sweden)

T. Iwasaki

1995-01-01

Full Text Available We consider the design of fixed-order (or low-order linear controllers which meet certain performance and/or robustness specifications. The following three problems are considered; covariance control as a nominal performance problem,-stabilization as a robust stabilization problem, and robust L∞ control problem as a robust performance problem. All three control problems are converted to a single linear algebra problem of solving a linear matrix inequality (LMI of the type BGC+(BGCT+Q<0 for the unknown matrix G. Thus this paper addresses the fixed-order controller design problem in a unified way. Necessary and sufficient conditions for the existence of a fixed-order controller which satisfies the design specifications for each problem are derived, and an explicit controller formula is given. In any case, the resulting problem is shown to be a search for a (structured positive definite matrix X such that X∈1 and X−1∈2 where 1 and 2 are convex sets defined by LMIs. Computational aspects of the nonconvex LMI problem are discussed.

Interactions between nitrogen deposition, land cover conversion, and climate change determine the contemporary carbon balance of Europe

Directory of Open Access Journals (Sweden)

G. Churkina

2010-09-01

Full Text Available European ecosystems are thought to take up large amounts of carbon, but neither the rate nor the contributions of the underlying processes are well known. In the second half of the 20th century, carbon dioxide concentrations have risen by more that 100 ppm, atmospheric nitrogen deposition has more than doubled, and European mean temperatures were increasing by 0.02 °C yr⁻¹. The extents of forest and grasslands have increased with the respective rates of 5800 km² yr⁻¹ and 1100 km² yr⁻¹ as agricultural land has been abandoned at a rate of 7000 km² yr⁻¹. In this study, we analyze the responses of European land ecosystems to the aforementioned environmental changes using results from four process-based ecosystem models: BIOME-BGC, JULES, ORCHIDEE, and O-CN. The models suggest that European ecosystems sequester carbon at a rate of 56 TgC yr⁻¹ (mean of four models for 1951–2000 with strong interannual variability (±88 TgC yr⁻¹, average across models and substantial inter-model uncertainty (±39 TgC yr⁻¹. Decadal budgets suggest that there has been a continuous increase in the mean net carbon storage of ecosystems from 85 TgC yr⁻¹ in 1980s to 108 TgC yr⁻¹ in 1990s, and to 114 TgC yr⁻¹ in 2000–2007. The physiological effect of rising CO₂ in combination with nitrogen deposition and forest re-growth have been identified as the important explanatory factors for this net carbon storage. Changes in the growth of woody vegetation are suggested as an important contributor to the European carbon sink. Simulated ecosystem responses were more consistent for the two models accounting for terrestrial carbon-nitrogen dynamics than for the two models which only accounted for carbon cycling and the effects of land cover change. Studies of the interactions of carbon-nitrogen dynamics with

Growing Season Conditions Mediate the Dependence of Aspen on Redistributed Snow Under Climate Change.

Science.gov (United States)

Soderquist, B.; Kavanagh, K.; Link, T. E.; Seyfried, M. S.; Strand, E. K.

2016-12-01

Precipitation regimes in many semiarid ecosystems are becoming increasingly dominated by winter rainfall as a result of climate change. Across these regions, snowpack plays a vital role in the distribution and timing of soil moisture availability. Rising temperatures will result in a more uniform distribution of soil moisture, advanced spring phenology, and prolonged growing seasons. Productive and wide ranging tree species like aspen, Populus tremuloides, may experience increased vulnerability to drought and mortality resulting from both reduced snowpack and increased evaporative demand during the growing season. We simulated the net primary production (NPP) of aspen stands spanning the rain:snow transition zone in the Reynolds Creek Critical Zone Observatory (RCCZO) in southwest Idaho, USA. Within the RCCZO, the total amount of precipitation has remained unchanged over the past 50 years, however the percentage of the precipitation falling as snow has declined by approximately 4% per decade at mid-elevation sites. The biogeochemical process model Biome-BGC was used to simulate aspen NPP at three stands located directly below snowdrifts that provide melt water late into the spring. After adjusting precipitation inputs to account for the redistribution of snow, we assessed climate change impacts on future aspen productivity. Mid-century (2046-2065) aspen NPP was simulated using temperature projections from a multi-model average under high emission conditions using the Multivariate Adaptive Constructed Analogs (MACA) data set. While climate change simulations indicated over a 20% decrease in annual NPP for some years, NPP rates for other mid-century years remained relatively unchanged due to variations in growing season conditions. Mid-century years with the largest decreases in NPP typically showed increased spring transpiration rates resulting from earlier leaf flush combined with warmer spring conditions. During these years, the onset of drought stress occurred

In silico-based vaccine design against Ebola virus glycoprotein

Directory of Open Access Journals (Sweden)

Dash R

2017-03-01

Full Text Available Raju Dash,1 Rasel Das,2 Md Junaid,3 Md Forhad Chowdhury Akash,4 Ashekul Islam,5 SM Zahid Hosen1 1Molecular Modeling and Drug Design Laboratory (MMDDL, Pharmacology Research Division, Bangladesh Council of Scientific and Industrial Research (BCSIR, Chittagong, Bangladesh; 2Nanotechnology and Catalysis Research Center, University of Malaya, Kuala Lumpur, Malaysia; 3Department of Pharmaceutical Sciences, North South University, Dhaka, Bangladesh; 4Department of Pharmacy, BGC Trust University Bangladesh, Chittagong, Bangladesh; 5Department of Biochemistry and Molecular Biology, University of Chittagong, Chittagong, Bangladesh Abstract: Ebola virus (EBOV is one of the lethal viruses, causing more than 24 epidemic outbreaks to date. Despite having available molecular knowledge of this virus, no definite vaccine or other remedial agents have been developed yet for the management and avoidance of EBOV infections in humans. Disclosing this, the present study described an epitope-based peptide vaccine against EBOV, using a combination of B-cell and T-cell epitope predictions, followed by molecular docking and molecular dynamics simulation approach. Here, protein sequences of all glycoproteins of EBOV were collected and examined via in silico methods to determine the most immunogenic protein. From the identified antigenic protein, the peptide region ranging from 186 to 220 and the sequence HKEGAFFLY from the positions of 154–162 were considered the most potential B-cell and T-cell epitopes, correspondingly. Moreover, this peptide (HKEGAFFLY interacted with HLA-A*32:15 with the highest binding energy and stability, and also a good conservancy of 83.85% with maximum population coverage. The results imply that the designed epitopes could manifest vigorous enduring defensive immunity against EBOV. Keywords: Ebola virus, epitope, glycoprotein, vaccine design

The impact of growing-season length variability on carbon assimilation and evapotranspiration over 88 years in the eastern US deciduous forest

Science.gov (United States)

White; Running; Thornton

1999-02-01

Recent research suggests that increases in growing-season length (GSL) in mid-northern latitudes may be partially responsible for increased forest growth and carbon sequestration. We used the BIOME-BGC ecosystem model to investigate the impacts of including a dynamically regulated GSL on simulated carbon and water balance over a historical 88-year record (1900-1987) for 12 sites in the eastern USA deciduous broadleaf forest. For individual sites, the predicted GSL regularly varied by more than 15 days. When grouped into three climatic zones, GSL variability was still large and rapid. There is a recent trend in colder, northern sites toward a longer GSL, but not in moderate and warm climates. The results show that, for all sites, prediction of a long GSL versus using the mean GSL increased net ecosystem production (NEP), gross primary production (GPP), and evapotranspiration (ET); conversely a short GSL is predicted to decrease these parameters. On an absolute basis, differences in GPP between the dynamic and mean GSL simulations were larger than the differences in NEP. As a percentage difference, though, NEP was much more sensitive to changes in GSL than were either GPP or ET. On average, a 1-day change in GSL changed NEP by 1.6%, GPP by 0.5%, and ET by 0.2%. Predictions of NEP and GPP in cold climates were more sensitive to changes in GSL than were predictions in warm climates. ET was not similarly sensitive. First, our results strongly agree with field measurements showing a high correlation between NEP and dates of spring growth, and second they suggest that persistent increases in GSL may lead to long-term increases in carbon storage.

Model-model Perencanaan Strategik

OpenAIRE

Amirin, Tatang M

2005-01-01

The process of strategic planning, used to be called as long-term planning, consists of several components, including strategic analysis, setting strategic direction (covering of mission, vision, and values), and action planning. Many writers develop models representing the steps of the strategic planning process, i.e. basic planning model, problem-based planning model, scenario model, and organic or self-organizing model.

Model-to-model interface for multiscale materials modeling

Energy Technology Data Exchange (ETDEWEB)

Antonelli, Perry Edward [Iowa State Univ., Ames, IA (United States)

2017-12-17

A low-level model-to-model interface is presented that will enable independent models to be linked into an integrated system of models. The interface is based on a standard set of functions that contain appropriate export and import schemas that enable models to be linked with no changes to the models themselves. These ideas are presented in the context of a specific multiscale material problem that couples atomistic-based molecular dynamics calculations to continuum calculations of fluid ow. These simulations will be used to examine the influence of interactions of the fluid with an adjacent solid on the fluid ow. The interface will also be examined by adding it to an already existing modeling code, Large-scale Atomic/Molecular Massively Parallel Simulator (LAMMPS) and comparing it with our own molecular dynamics code.

Greenland in Warm (1.5 °C) and Warmer (RCP 8.5) Worlds: The Influence of the Paris Agreement on Ice Sheet Surface Melting

Science.gov (United States)

Reusch, D. B.

2017-12-01

Melting on the surface of the Greenland ice sheet has been changing dramatically as global air temperatures have increased in recent decades, including melt extent often exceeding the 1981-2010 median through much of the melt season and the onset of intermittent melt moving to earlier in the year. To evaluate potential future change, we investigate surface melting characteristics under both "low" (limited to 1.5 °C) and "high" (RCP 8.5) warming scenarios including analysis of differences in scenario outcomes. Climatologies of melt-relevant variables are developed from two publicly available ensembles of CESM1-CAM5-BGC GCM runs: the 30-member Large Ensemble (CESM LE; Kay et al. 2015) for historical calibration and the RCP 8.5 scenario and the 11-member Low Warming ensemble (CESM LW; Sanderson et al. 2017) for the 1.5 °C scenario. For higher spatial resolution (15 km) and improved polar-centric model physics, we also apply the regional forecast model Polar WRF to decadal subsets (1996-2005; 2071-80) using GCM data archived at sub-daily resolution for boundary conditions. Models were skill-tested against ERA-Interim Reanalysis (ERAI) and AWS observations. For example, CESM LE tends to overpredict both maximum (above-freezing) and minimum daily average surface temperatures compared to observations from the GC-Net Swiss Camp AWS. Ensembles of members differing only by initial conditions allow us to also estimate intramodel uncertainty. Historical (1981-2000) CESM LE spatially averaged July temperatures are 2 +/- 0.2 °C cooler than ERAI while local anomalies in individual members reach up to +/- 2 °C. As expected, Greenland does not escape future (2081-2100) warming (and expectations of more widespread surface melting) even in the LW scenario, but positive changes versus ERAI are mostly coastal (2-3 °C) with the interior showing only minor change (+/- 1 °C). In contrast, under RCP 8.5, the entire ice sheet has warmed by 2-6 °C, or a median increase of 5 °C versus

The age of the Matuyama-Brunhes transition: New data from the Sulmona paleolake, Italy

Science.gov (United States)

Renne, P. R.; Nomade, S.; Sprain, C. J.; Sagnotti, L.; Scardia, G.; Giaccio, B.

2014-12-01

The age of the Matuyama-Brunhes geomagnetic polarity transition (MBT) is a key datum for the Pleistocene time scale. Modern estimates of this age vary over a range approaching the 21 ka period of an orbital precession cycle. Singer (2014) placed the transition at 776 ±2 ka, in agreement with the estimate of 773.1 ±0.8 ka of Channell et al. (2010) based on an orbitally-tuned marine ice volume age model for North Atlantic sediment cores. The 40Ar/39Ar data of Singer (2014) are from basaltic lavas with transitional paleomagnetic directions and/or anomalously low paleointensities, representing episodic sampling of the geomagnetic field with limited stratigraphic context. New data from Sulmona paleolake in central Italy (Sagnotti et al., 2014) reveals directional and relative paleointensity records with unsurpassed stratigraphic resolution of the MBT. Here, biogenic carbonates contain numerous sanidine-bearing tuffs derived from nearby volcanoes of the alkalic Roman volcanic province. These tuffs, dated in the LSCE and BGC labs, punctuate the stratigraphic record of the MBT, documenting a smoothly varying sediment accumulation rate of 20-25 cm/ka during the interval between 720-810 ka. A minimum age of 781.3 ±2.3 ka (nominal calibrations of Nomade et al., 2005 and Steiger and Jäger, 1977) for the MBT is provided by a tuff 1 m above the MBT. Linear interpolation between bracketing tuffs yields an age of 786.1 ±1.5 ka for the MBT, and indicate a duration Leonhardt and Fabian, 2007) over a time interval of several ka. Regardless of which calibrating parameters are used, our 40Ar/39Ar age for the MBT at Sulmona is 15 ±3 ka older than that of Singer (2014). These results underscore the need for high-precision dating applied to geomagnetic polarity transitions that are based on high-resolution magnetostratigraphy, in order to calibrate the GPTS and validate age models based on orbital tuning.

Synthesis and Bioactivity of N-Benzoyl-N'-[5-(2'-substituted phenyl-2-furoyl] Semicarbazide Derivatives

Directory of Open Access Journals (Sweden)

Zining Cui

2010-06-01

Full Text Available In order to find novel chitin synthesis inhibitors (CSIs with good activity, benzoylphenylurea, a typical kind of CSIs, was chosen as the lead compound and 15 novel derivatives containing furan moieties were designed by converting the urea linkage of benzoylphenylureas into a semicarbazide and changing the aniline part into furoyl groups. The title compounds were synthesized by the reaction of substituted benzoyl isocyanates with 5-(substituted phenyl-2-furoyl hydrazine, and the structures were confirmed by IR, 1H-NMR, elemental analysis and single crystal X-ray diffraction analyses (compound E2. The bioassay results indicated that the title compounds exhibit good insecticidal activity, especially towards Plutella xylostella L., but had lower fungicidal activity. Inspiringly, the title compounds possessed obvious anticancer activity against human promyelocytic leukemic cell line (HL-60, and some of the title compounds also had activity against human hepatocellular carcinoma cell line (Bel-7402, human gastric carcinoma cell line (BGC-823, and human nasopharyngeal carcinoma cell line (KB. The results indicated that the linkage in the lead compounds was important to the bioactivity and spectra. The modification on the urea linkage is an effective strategy to discover new pesticide and drug candidates.

Estimating dissolved organic carbon concentration in turbid coastal waters using optical remote sensing observations

Science.gov (United States)

Cherukuru, Nagur; Ford, Phillip W.; Matear, Richard J.; Oubelkheir, Kadija; Clementson, Lesley A.; Suber, Ken; Steven, Andrew D. L.

2016-10-01

Dissolved Organic Carbon (DOC) is an important component in the global carbon cycle. It also plays an important role in influencing the coastal ocean biogeochemical (BGC) cycles and light environment. Studies focussing on DOC dynamics in coastal waters are data constrained due to the high costs associated with in situ water sampling campaigns. Satellite optical remote sensing has the potential to provide continuous, cost-effective DOC estimates. In this study we used a bio-optics dataset collected in turbid coastal waters of Moreton Bay (MB), Australia, during 2011 to develop a remote sensing algorithm to estimate DOC. This dataset includes data from flood and non-flood conditions. In MB, DOC concentration varied over a wide range (20-520 μM C) and had a good correlation (R2 = 0.78) with absorption due to coloured dissolved organic matter (CDOM) and remote sensing reflectance. Using this data set we developed an empirical algorithm to derive DOC concentrations from the ratio of Rrs(412)/Rrs(488) and tested it with independent datasets. In this study, we demonstrate the ability to estimate DOC using remotely sensed optical observations in turbid coastal waters.

TFF1 inhibits proliferation and induces apoptosis of gastric cancer cells in vitro

Directory of Open Access Journals (Sweden)

Yanli Ge

2012-05-01

Full Text Available Trefoil Factor Family (TFF plays an essential role in the intestinal epithelial restitution, but the relationship between TFF1 and gastric cancer (GC is still unclear. The present study aimed to determine the role of TFF1 in repairing gastric mucosa and in the pathogenesis of GC.The TFF1 expression in different gastric mucosas was measured with immunohistochemistry. Then, siRNA targeting TFF1 or plasmids expressing TFF1 gene were transfected into BGC823 cells, SGC7901 cells and GES-1 cells. The cell proliferation was detected with MTT assay and apoptosis and cell cycle measured by flow cytometry.From normal gastric mucosa to mucosa with dysplasia and to gastric cancer, the TFF1 expression had a decreasing trend. Down-regulation of TFF1 expression significantly reduced the apoptosis of three cell lines and markedly facilitated their proliferation but had no significant effect on cell cycle. Over-expression of TFF1 could promote apoptosis of three cell lines and inhibit proliferation but had no pronounced effect on cell cycle. TFF1 can inhibit proliferation and induce apoptosis of GC cells in vitro.

Models and role models.

Science.gov (United States)

ten Cate, Jacob M

2015-01-01

Developing experimental models to understand dental caries has been the theme in our research group. Our first, the pH-cycling model, was developed to investigate the chemical reactions in enamel or dentine, which lead to dental caries. It aimed to leverage our understanding of the fluoride mode of action and was also utilized for the formulation of oral care products. In addition, we made use of intra-oral (in situ) models to study other features of the oral environment that drive the de/remineralization balance in individual patients. This model addressed basic questions, such as how enamel and dentine are affected by challenges in the oral cavity, as well as practical issues related to fluoride toothpaste efficacy. The observation that perhaps fluoride is not sufficiently potent to reduce dental caries in the present-day society triggered us to expand our knowledge in the bacterial aetiology of dental caries. For this we developed the Amsterdam Active Attachment biofilm model. Different from studies on planktonic ('single') bacteria, this biofilm model captures bacteria in a habitat similar to dental plaque. With data from the combination of these models, it should be possible to study separate processes which together may lead to dental caries. Also products and novel agents could be evaluated that interfere with either of the processes. Having these separate models in place, a suggestion is made to design computer models to encompass the available information. Models but also role models are of the utmost importance in bringing and guiding research and researchers. 2015 S. Karger AG, Basel

Hydrological models are mediating models

Science.gov (United States)

Babel, L. V.; Karssenberg, D.

2013-08-01

Despite the increasing role of models in hydrological research and decision-making processes, only few accounts of the nature and function of models exist in hydrology. Earlier considerations have traditionally been conducted while making a clear distinction between physically-based and conceptual models. A new philosophical account, primarily based on the fields of physics and economics, transcends classes of models and scientific disciplines by considering models as "mediators" between theory and observations. The core of this approach lies in identifying models as (1) being only partially dependent on theory and observations, (2) integrating non-deductive elements in their construction, and (3) carrying the role of instruments of scientific enquiry about both theory and the world. The applicability of this approach to hydrology is evaluated in the present article. Three widely used hydrological models, each showing a different degree of apparent physicality, are confronted to the main characteristics of the "mediating models" concept. We argue that irrespective of their kind, hydrological models depend on both theory and observations, rather than merely on one of these two domains. Their construction is additionally involving a large number of miscellaneous, external ingredients, such as past experiences, model objectives, knowledge and preferences of the modeller, as well as hardware and software resources. We show that hydrological models convey the role of instruments in scientific practice by mediating between theory and the world. It results from these considerations that the traditional distinction between physically-based and conceptual models is necessarily too simplistic and refers at best to the stage at which theory and observations are steering model construction. The large variety of ingredients involved in model construction would deserve closer attention, for being rarely explicitly presented in peer-reviewed literature. We believe that devoting

Effects of land use and fine-scale environmental heterogeneity on net ecosystem production over a temperate coniferous forest landscape

Energy Technology Data Exchange (ETDEWEB)

Turner, David P.; Guzy, Michael; Lefsky, Michael A.; Tuyl, Steve van; Sun, Osbert; Law, Beverly E. [Oregon State Univ. Corvallis, OR (United States). Dept. of Forest Science; Daly, Chris [Oregon State Univ., Corvallis, OR (United States). Dept. of Geosciences

2003-04-01

In temperate coniferous forests, spatial variation in net ecosystem production (NEP) is often associated with variation in stand age and heterogeneity in environmental factors such as soil depth. However, coarse spatial resolution analyses used to evaluate the terrestrial contribution to global NEP do not generally incorporate these effects. In this study, a fine-scale (25 m grid) analysis of NEP over a 164-km{sup 2} area of productive coniferous forests in the Pacific Northwest region of the United States was made to evaluate the effects of including fine scale information in landscape-scale NEP assessments. The Enhanced Thematic Mapper (ETM+) sensor resolved five cover classes in the study area and further differentiated between young, mature and old-growth conifer stands. ETM+ was also used to map current leaf area index (LAI) based on an empirical relationship of observed LAI to spectral vegetation indices. A daily time step climatology, based on 18 years of meteorological observations, was distributed (1 km resolution) over the mountainous terrain of the study area using the DAYMET model. Estimates of carbon pools and flux associated with soil, litter, coarse woody debris and live trees were then generated by running a carbon cycle model (Biome-BGC) to a state that reflected the current successional status and LAI of each grid cell, as indicated by the remote sensing observations. Estimated annual NEP for 1997 over the complete study area averaged 230 g C m{sup 2}, with most of the area acting as a carbon sink. The area-wide NEP is strongly positive because of reduced harvesting in the last decade and the recovery of areas harvested between 1940 and 1990. The average value was greater than would be indicated if the entire area was assumed to be a mature conifer stand, as in a coarse-scale analysis. The mean NEP varied interannually by over a factor of two. This variation was 38% less than the interannual variation for a single point. The integration of process

Effects of land use and fine-scale environmental heterogeneity on net ecosystem production over a temperate coniferous forest landscape

International Nuclear Information System (INIS)

Turner, David P.; Guzy, Michael; Lefsky, Michael A.; Tuyl, Steve van; Sun, Osbert; Law, Beverly E.; Daly, Chris

2003-01-01

In temperate coniferous forests, spatial variation in net ecosystem production (NEP) is often associated with variation in stand age and heterogeneity in environmental factors such as soil depth. However, coarse spatial resolution analyses used to evaluate the terrestrial contribution to global NEP do not generally incorporate these effects. In this study, a fine-scale (25 m grid) analysis of NEP over a 164-km 2 area of productive coniferous forests in the Pacific Northwest region of the United States was made to evaluate the effects of including fine scale information in landscape-scale NEP assessments. The Enhanced Thematic Mapper (ETM+) sensor resolved five cover classes in the study area and further differentiated between young, mature and old-growth conifer stands. ETM+ was also used to map current leaf area index (LAI) based on an empirical relationship of observed LAI to spectral vegetation indices. A daily time step climatology, based on 18 years of meteorological observations, was distributed (1 km resolution) over the mountainous terrain of the study area using the DAYMET model. Estimates of carbon pools and flux associated with soil, litter, coarse woody debris and live trees were then generated by running a carbon cycle model (Biome-BGC) to a state that reflected the current successional status and LAI of each grid cell, as indicated by the remote sensing observations. Estimated annual NEP for 1997 over the complete study area averaged 230 g C m 2 , with most of the area acting as a carbon sink. The area-wide NEP is strongly positive because of reduced harvesting in the last decade and the recovery of areas harvested between 1940 and 1990. The average value was greater than would be indicated if the entire area was assumed to be a mature conifer stand, as in a coarse-scale analysis. The mean NEP varied interannually by over a factor of two. This variation was 38% less than the interannual variation for a single point. The integration of process models

Single-Amino Acid Modifications Reveal Additional Controls on the Proton Pathway of [FeFe]-Hydrogenase

Energy Technology Data Exchange (ETDEWEB)

Cornish, Adam J.; Ginovska, Bojana; Thelen, Adam; da Silva, Julio C. S.; Soares, Thereza A.; Raugei, Simone; Dupuis, Michel; Shaw, Wendy J.; Hegg, Eric L.

2016-06-07

The proton pathway of [FeFe]-hydrogenase is essential for enzymatic H2 production and oxidation and is composed of four residues and a modeled water molecule. Recently, a computational analysis of this pathway revealed that the solvent-exposed residue of the pathway (Glu282) could form hydrogen bonds to two residues outside of the pathway (Arg286 and Ser320), implicating that these residues could function in regulating proton transfer. Substituting Arg286 with leucine eliminates hydrogen bonding with Glu282 and results in a 2.5-fold enhancement in H2 production activity, suggesting that Arg286 serves an important role in controlling the rate of proton delivery. In contrast, substitution of Ser320 with alanine reduces the rate approximately 5-fold, implying that it either acts as a member of the pathway or influences Glu282 to enable proton transfer. Interestingly, QM/MM and molecular dynamics calculations indicate that Ser320 does not play an electronic or structural role. QM calculations also estimate that including Ser320 in the pathway does not significantly change the barrier to proton movement, providing further support for its role as a member of the proton pathway. While further studies are needed to quantify the role of Ser320, collectively, these data provide evidence that the enzyme scaffold plays a significant role in modulating the activity of the enzyme, demonstrating that the rate of intraprotein proton transfer can be accelerated, particularly in a non-biological context. This work was supported by the DOE Great Lakes Bioenergy Research Center (DOE BER Office of Science, DE-FC02-07ER64494). In addition, support from the DOE Office of Science Early Career Research Program through the Office of Basic Energy Sciences (WJS, BGP, SR) is gratefully acknowledged. Computational resources were provided at W. R. Wiley Environmental Molecular Science Laboratory (EMSL), a national scientific user facility sponsored by the Department of Energy’s Office of

Modeling Documents with Event Model

Directory of Open Access Journals (Sweden)

Longhui Wang

2015-08-01

Full Text Available Currently deep learning has made great breakthroughs in visual and speech processing, mainly because it draws lessons from the hierarchical mode that brain deals with images and speech. In the field of NLP, a topic model is one of the important ways for modeling documents. Topic models are built on a generative model that clearly does not match the way humans write. In this paper, we propose Event Model, which is unsupervised and based on the language processing mechanism of neurolinguistics, to model documents. In Event Model, documents are descriptions of concrete or abstract events seen, heard, or sensed by people and words are objects in the events. Event Model has two stages: word learning and dimensionality reduction. Word learning is to learn semantics of words based on deep learning. Dimensionality reduction is the process that representing a document as a low dimensional vector by a linear mode that is completely different from topic models. Event Model achieves state-of-the-art results on document retrieval tasks.

Semiparametric modeling: Correcting low-dimensional model error in parametric models

International Nuclear Information System (INIS)

Berry, Tyrus; Harlim, John

2016-01-01

In this paper, a semiparametric modeling approach is introduced as a paradigm for addressing model error arising from unresolved physical phenomena. Our approach compensates for model error by learning an auxiliary dynamical model for the unknown parameters. Practically, the proposed approach consists of the following steps. Given a physics-based model and a noisy data set of historical observations, a Bayesian filtering algorithm is used to extract a time-series of the parameter values. Subsequently, the diffusion forecast algorithm is applied to the retrieved time-series in order to construct the auxiliary model for the time evolving parameters. The semiparametric forecasting algorithm consists of integrating the existing physics-based model with an ensemble of parameters sampled from the probability density function of the diffusion forecast. To specify initial conditions for the diffusion forecast, a Bayesian semiparametric filtering method that extends the Kalman-based filtering framework is introduced. In difficult test examples, which introduce chaotically and stochastically evolving hidden parameters into the Lorenz-96 model, we show that our approach can effectively compensate for model error, with forecasting skill comparable to that of the perfect model.

Vector models and generalized SYK models

Energy Technology Data Exchange (ETDEWEB)

Peng, Cheng [Department of Physics, Brown University,Providence RI 02912 (United States)

2017-05-23

We consider the relation between SYK-like models and vector models by studying a toy model where a tensor field is coupled with a vector field. By integrating out the tensor field, the toy model reduces to the Gross-Neveu model in 1 dimension. On the other hand, a certain perturbation can be turned on and the toy model flows to an SYK-like model at low energy. A chaotic-nonchaotic phase transition occurs as the sign of the perturbation is altered. We further study similar models that possess chaos and enhanced reparameterization symmetries.

[Bone remodeling and modeling/mini-modeling.

Science.gov (United States)

Hasegawa, Tomoka; Amizuka, Norio

Modeling, adapting structures to loading by changing bone size and shapes, often takes place in bone of the fetal and developmental stages, while bone remodeling-replacement of old bone into new bone-is predominant in the adult stage. Modeling can be divided into macro-modeling(macroscopic modeling)and mini-modeling(microscopic modeling). In the cellular process of mini-modeling, unlike bone remodeling, bone lining cells, i.e., resting flattened osteoblasts covering bone surfaces will become active form of osteoblasts, and then, deposit new bone onto the old bone without mediating osteoclastic bone resorption. Among the drugs for osteoporotic treatment, eldecalcitol(a vitamin D3 analog)and teriparatide(human PTH[1-34])could show mini-modeling based bone formation. Histologically, mature, active form of osteoblasts are localized on the new bone induced by mini-modeling, however, only a few cell layer of preosteoblasts are formed over the newly-formed bone, and accordingly, few osteoclasts are present in the region of mini-modeling. In this review, histological characteristics of bone remodeling and modeling including mini-modeling will be introduced.

Projecting the Dependence of Sage-steppe Vegetation on Redistributed Snow in a Warming Climate.

Science.gov (United States)

Soderquist, B.; Kavanagh, K.; Link, T. E.; Seyfried, M. S.; Strand, E. K.

2015-12-01

In mountainous regions, the redistribution of snow by wind can increase the effective precipitation available to vegetation. Moisture subsidies caused by drifting snow may be critical to plant productivity in semi-arid ecosystems. However, with increasing temperatures, the distribution of precipitation is becoming more uniform as rain replaces drifting snow. Understanding the ecohydrological interactions between sagebrush steppe vegetation communities and the heterogeneous distribution of soil moisture is essential for predicting and mitigating future losses in ecosystem diversity and productivity in regions characterized by snow dominated precipitation regimes. To address the dependence of vegetation productivity on redistributed snow, we simulated the net primary production (NPP) of aspen, sagebrush, and C3 grass plant functional types spanning a precipitation phase (rain:snow) gradient in the Reynolds Creek Experimental Watershed and Critical Zone Observatory (RCEW-CZO). The biogeochemical process model Biome-BGC was used to simulate NPP at three sites located directly below snowdrifts that provide melt water late into the spring. To assess climate change impacts on future plant productivity, mid-century (2046-2065) NPP was simulated using the average temperature increase from the Multivariate Adaptive Constructed Analogs (MACA) data set under the RCP 8.5 emission scenario. At the driest site, mid-century projections of decreased snow cover and increased growing season evaporative demand resulted in limiting soil moisture up to 30 and 40 days earlier for aspen and sage respectively. While spring green up for aspen occurred an average of 13 days earlier under climate change scenarios, NPP remained negative up to 40 days longer during the growing season. These results indicate that the loss of the soil moisture subsidy stemming from prolonged redistributed snow water resources can directly influence ecosystem productivity in the rain:snow transition zone.

The Fate of Aspen in a World with Diminishing Snowpacks

Science.gov (United States)

Kavanagh, K.; Link, T. E.; Seyfried, M. S.; Kemp, K. B.

2010-12-01

Aspen (Populus tremuloides) productivity is tightly coupled with soil moisture. In the mountainous regions of the western USA, annual replenishment of soil moisture commonly occurs during snowmelt. Therefore, snow pack depth and duration can play an important role in sustaining aspen productivity. The presence of almost 50 years of detailed climate data across an elevational transect in the Reynolds Creek Experimental Watershed (RCEW) in southwestern Idaho offers a novel opportunity to better understand the role of shifting precipitation patterns on aspen productivity. Over the past 50 years, the proportion of the precipitation falling in the form of snow decreased by almost a factor of 2 at mid to low elevations in the RCEW, coupled with a roughly four week advance of snow ablation, and decline of large snow drifts that release moisture into the early summer. Results from growth ring increment, stable isotope analysis, sapflux and a process model (Biome BGC), will be used to determine the impact of shifting precipitation patterns on tree productivity along this transect over the past 50 years. Aspen trees located on moist microsites continue to transpire water and maintain high stomatal conductance 21 days later in the growing season relative to individuals on drier microsites. Predictions of net primary productivity (NPP) in aspen are very sensitive to precipitation patterns. NPP becomes negative as early as day 183 (90 days post budbreak) for years with little winter and spring precipitation whereas, in years with ample winter and spring precipitation, NPP remains positive until day 260 when leaf fall occurs. These results give unique insight into the conditions that deciduous tree species will encounter in a warming climate where snow water equivalent continues to diminish and soil moisture declines soon after budbreak occurs.

[Anthraquinones from the roots of Knoxia valerianoides].

Science.gov (United States)

Zhao, Feng; Wang, Sujuan; Wu, Xiuli; Yu, Yang; Yue, Zhenggang; Liu, Bo; Lin, Sheng; Zhu, Chenggen; Yang, Yongchun; Shi, Jiangong

2011-11-01

To investigate the chemical constituents of the roots of Knoxia valerianoides and their biological activities. The anthraquinones were isolated by using a combination of various chromatographic techniques including column chromatography over silica gel, Sephadex LH-20, and reversed-phase HPLC. Structures of the isolates were identified by their physical-chemical properties and spectroscopic analysis including 2D NMR and MS. Antioxidant, anti-HIV, neuroprotective, and cytotoxic activities were screened by using cell-based models. Twenty-two constituents were isolated from an ethanolic extract of the roots of K. valerianoides. Their structures were identified as nordamnacanthal (1), ibericin (2), rubiadin (3), damnacanthol (4), 2-ethoxymethylknoxiavaledin (5), 3-hydroxymorindone (6), knoxiadin (7), 2-formyl knoxiavaledin (8), lucidin (9), xanthopurpurin (10), 1, 3-dihydroxy-2-methoxy-9, 10- anthraquinone (11), lucidin(-methyl ether (12), digiferruginol (13), 3-hydroxy-2-methyl-9,10-anthraquinone (14), rubiadin-1-methyl ether (15), 6-methoxylucidin (-ethyl ether (16), 1,3,6-trihydroxy-2-methyl-9,10-anthraquinone (17), 1,3-dihydroxy-2-hydroxy methyl-6-methoxy-9,10-anthraquinone (18), 1,3,6-trihydroxy-2-methoxymethyl-9,10- anthraquinone (19), 3,6-dihydroxy-2- hydroxymethyl-9,10-anthraquinone (20), and 1,6-dihydroxy-2-methyl-9,10-anthra quinone (21). In the in vitro assays, at a concentration of 1 x 10(-5) mol x L(-1), no compounds were active against human cancer cell lines (HCT-8, Bel7402, BGC-823, A549, and A2780), deserum and glutamate induced PC12-syn cell damage, LPS induced NO production in macrophage, Fe2+-cystine induced rat liver microsomal lipid peroxidation, HIV-1 replication, and protein tyrosine phosphatase 1B (PTP1B). Compounds 9-21 were obtained from the roots of K. valerianoides for the first time.

ROCK PROPERTIES MODEL ANALYSIS MODEL REPORT

International Nuclear Information System (INIS)

Clinton Lum

2002-01-01

The purpose of this Analysis and Model Report (AMR) is to document Rock Properties Model (RPM) 3.1 with regard to input data, model methods, assumptions, uncertainties and limitations of model results, and qualification status of the model. The report also documents the differences between the current and previous versions and validation of the model. The rock properties models are intended principally for use as input to numerical physical-process modeling, such as of ground-water flow and/or radionuclide transport. The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. This work was conducted in accordance with the following planning documents: WA-0344, ''3-D Rock Properties Modeling for FY 1998'' (SNL 1997, WA-0358), ''3-D Rock Properties Modeling for FY 1999'' (SNL 1999), and the technical development plan, Rock Properties Model Version 3.1, (CRWMS MandO 1999c). The Interim Change Notice (ICNs), ICN 02 and ICN 03, of this AMR were prepared as part of activities being conducted under the Technical Work Plan, TWP-NBS-GS-000003, ''Technical Work Plan for the Integrated Site Model, Process Model Report, Revision 01'' (CRWMS MandO 2000b). The purpose of ICN 03 is to record changes in data input status due to data qualification and verification activities. These work plans describe the scope, objectives, tasks, methodology, and implementing procedures for model construction. The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. The work scope for this activity consists of the following: (1) Conversion of the input data (laboratory measured porosity data, x-ray diffraction mineralogy, petrophysical calculations of bound water, and petrophysical calculations of porosity) for each borehole into stratigraphic coordinates; (2) Re-sampling and merging of data sets; (3) Development of geostatistical simulations of porosity; (4

Automated protein structure modeling with SWISS-MODEL Workspace and the Protein Model Portal.

Science.gov (United States)

Bordoli, Lorenza; Schwede, Torsten

2012-01-01

Comparative protein structure modeling is a computational approach to build three-dimensional structural models for proteins using experimental structures of related protein family members as templates. Regular blind assessments of modeling accuracy have demonstrated that comparative protein structure modeling is currently the most reliable technique to model protein structures. Homology models are often sufficiently accurate to substitute for experimental structures in a wide variety of applications. Since the usefulness of a model for specific application is determined by its accuracy, model quality estimation is an essential component of protein structure prediction. Comparative protein modeling has become a routine approach in many areas of life science research since fully automated modeling systems allow also nonexperts to build reliable models. In this chapter, we describe practical approaches for automated protein structure modeling with SWISS-MODEL Workspace and the Protein Model Portal.

Hybrid inversions of CO2 fluxes at regional scale applied to network design

Science.gov (United States)

Kountouris, Panagiotis; Gerbig, Christoph; -Thomas Koch, Frank

2013-04-01

generated from a different biosphere model (BIOME-BGC). Initially we perform single-station inversions for Ochsenkopf tall tower located in Germany. Further expansion of the inversion framework to multiple stations and its application to network design will address the questions of how well a set of network stations can constrain a given target quantity, and whether there are objective criteria to select an optimal configuration for new stations that maximizes the uncertainty reduction.

NID Copper Sample Analysis

Energy Technology Data Exchange (ETDEWEB)

Kouzes, Richard T.; Zhu, Zihua

2011-09-12

The current focal point of the nuclear physics program at PNNL is the MAJORANA DEMONSTRATOR, and the follow-on Tonne-Scale experiment, a large array of ultra-low background high-purity germanium detectors, enriched in 76Ge, designed to search for zero-neutrino double-beta decay (0νββ). This experiment requires the use of germanium isotopically enriched in 76Ge. The MAJORANA DEMONSTRATOR is a DOE and NSF funded project with a major science impact. The DEMONSTRATOR will utilize 76Ge from Russia, but for the Tonne-Scale experiment it is hoped that an alternate technology, possibly one under development at Nonlinear Ion Dynamics (NID), will be a viable, US-based, lower-cost source of separated material. Samples of separated material from NID require analysis to determine the isotopic distribution and impurities. DOE is funding NID through an SBIR grant for development of their separation technology for application to the Tonne-Scale experiment. The Environmental Molecular Sciences facility (EMSL), a DOE user facility at PNNL, has the required mass spectroscopy instruments for making isotopic measurements that are essential to the quality assurance for the MAJORANA DEMONSTRATOR and for the development of the future separation technology required for the Tonne-Scale experiment. A sample of isotopically separated copper was provided by NID to PNNL in January 2011 for isotopic analysis as a test of the NID technology. The results of that analysis are reported here. A second sample of isotopically separated copper was provided by NID to PNNL in August 2011 for isotopic analysis as a test of the NID technology. The results of that analysis are also reported here.

Quenching of electron transfer reactions through coadsorption: A study of oxygen photodesorption from TiO2(110)

Energy Technology Data Exchange (ETDEWEB)

Petrik, Nikolay G.; Kimmel, Gregory A.; Shen, Mingmin; Henderson, Michael A.

2016-10-01

Using temperature programmed desorption (TPD) and photon stimulated desorption (PSD), we show that coadsorbates of varying binding energies on the rutile TiO2(110) surface exert a commensurate inhibiting influence on the hole-mediated photodesorption of adsorbed O2. A variety of coadsorbates (Ar, Kr, Xe, N2, CO, CO2, CH4, N2O, acetone, methanol or water) were shown to quench O2 photoactivity, with the extent correlating with the coadsorbate’s gas phase basicity, which in turn determines the strength of the coadsorbate-Ti4+ bond. Coadsorbed rare gases inhibited the photodesorption of O2 by ~10-25%, whereas strongly bound species (water, methanol and acetone) nearly completely inhibited O2 PSD. We suggest that coadsorption of these molecules inhibit the arrival probability of holes to the surface. Band bending effects, which vary with the extent of charge transfer between the coadsorbate and the TiO2(110) surface, are not expected to be significant in the cases of the rare gases and physisorbed species. These results indicate that neutral coadsorbates can exert a significant influence on charge transfer events by altering the interfacial dipole in the vicinity of the target molecule. This work was supported by the US Department of Energy, Office of Science, Office of Basic Energy Sciences, Division of Chemical Sciences, Geosciences & Biosciences. The work was performed using EMSL, a national scientific user facility sponsored by the Department of Energy's Office of Biological and Environmental Research and located at Pacific Northwest National Laboratory (PNNL). PNNL is a multiprogram national laboratory operated for DOE by Battelle under Contract DE-AC05-76RL01830.

Radiation monitoring around United States nuclear test areas, calendar year 1989

International Nuclear Information System (INIS)

1990-05-01

This report describes the Offsite Radiation Safety Program conducted during 1989 by the Environmental Protection Agency's (EPA's) Environmental Monitoring Systems Laboratory-Las Vegas (EMSL-LV). This laboratory operates an environmental radiation monitoring program in the region surrounding the Nevada Test Site (NTS) and at former test sites in Alaska, Colorado, Mississippi, Nevada, and New Mexico. The surveillance program is designed to measure levels, and trends of radioactivity, if present, in the environment surrounding testing areas to ascertain whether the testing is in compliance with existing radiation protection standards, and to take action to protect the health and well being of the public in the event of any accidental release of radioactive contaminants. Offsite levels of radiation and radioactivity are assessed by sampling milk, water, and air; by deploying thermoluminescent dosimeters (TLDs) and using pressurized ion chambers (PICs); and by biological monitoring of both animals and humans. To implement protective actions, provide immediate radiation monitoring, and obtain environmental samples rapidly after any release of radioactivity, personnel with mobile monitoring equipment are placed in areas downwind from the test site prior to each test. Comparison of the measurements and sample analysis results with background levels and with appropriate standards and regulations indicated that there was no radioactivity detected offsite by the various EPA monitoring networks and no exposure above natural background to the population living in the vicinity of the NTS that could be attributed to NTS activities. Trends were evaluated in the Noble Gas and Tritium, Milk Surveillance, TLD, and PIC networks, and the Long-Term Hydrological Monitoring Program. 35 refs., 68 figs., 32 tabs

Radiation monitoring around United States nuclear test areas, calendar year 1989

Energy Technology Data Exchange (ETDEWEB)

1990-05-01

This report describes the Offsite Radiation Safety Program conducted during 1989 by the Environmental Protection Agency's (EPA's) Environmental Monitoring Systems Laboratory-Las Vegas (EMSL-LV). This laboratory operates an environmental radiation monitoring program in the region surrounding the Nevada Test Site (NTS) and at former test sites in Alaska, Colorado, Mississippi, Nevada, and New Mexico. The surveillance program is designed to measure levels, and trends of radioactivity, if present, in the environment surrounding testing areas to ascertain whether the testing is in compliance with existing radiation protection standards, and to take action to protect the health and well being of the public in the event of any accidental release of radioactive contaminants. Offsite levels of radiation and radioactivity are assessed by sampling milk, water, and air; by deploying thermoluminescent dosimeters (TLDs) and using pressurized ion chambers (PICs); and by biological monitoring of both animals and humans. To implement protective actions, provide immediate radiation monitoring, and obtain environmental samples rapidly after any release of radioactivity, personnel with mobile monitoring equipment are placed in areas downwind from the test site prior to each test. Comparison of the measurements and sample analysis results with background levels and with appropriate standards and regulations indicated that there was no radioactivity detected offsite by the various EPA monitoring networks and no exposure above natural background to the population living in the vicinity of the NTS that could be attributed to NTS activities. Trends were evaluated in the Noble Gas and Tritium, Milk Surveillance, TLD, and PIC networks, and the Long-Term Hydrological Monitoring Program. 35 refs., 68 figs., 32 tabs.

Helium Ion Microscope: A New Tool for Sub-nanometer Imaging of Soft Materials

Science.gov (United States)

Shutthanandan, V.; Arey, B.; Smallwood, C. R.; Evans, J. E.

2017-12-01

High-resolution inspection of surface details is needed in many biological and environmental researches to understand the Soil organic material (SOM)-mineral interactions along with identifying microbial communities and their interactions. SOM shares many imaging characteristics with biological samples and getting true surface details from these materials are challenging since they consist of low atomic number materials. FE-SEM imaging is the main imagining technique used to image these materials in the past. These SEM images often show loss of resolution and increase noise due to beam damage and charging issues. Newly developed Helium Ion Microscope (HIM), on the other hand can overcome these difficulties and give very fine details. HIM is very similar to scanning electron microscopy (SEM) but instead of using electrons as a probe beam, HIM uses helium ions with energy ranges from 5 to 40 keV. HIM offers a series of advantages compared to SEM such as nanometer and sub-nanometer image resolutions (about 0.35 nm), detailed surface topography, high surface sensitivity, low Z material imaging (especially for polymers and biological samples), high image contrast, and large depth of field. In addition, HIM also has the ability to image insulating materials without any conductive coatings so that surface details are not modified. In this presentation, several scientific applications across biology and geochemistry will be presented to highlight the effectiveness of this powerful microscope. Acknowledgements: Research was performed using the Environmental Molecular Sciences Laboratory (EMSL), a national scientific user facility sponsored by the Department of Energy's Office of Biological and Environmental Research and located at PNNL. Work was supported by DOE-BER Mesoscale to Molecules Bioimaging Project FWP# 66382.

Geologic Framework Model Analysis Model Report

Energy Technology Data Exchange (ETDEWEB)

R. Clayton

2000-12-19

The purpose of this report is to document the Geologic Framework Model (GFM), Version 3.1 (GFM3.1) with regard to data input, modeling methods, assumptions, uncertainties, limitations, and validation of the model results, qualification status of the model, and the differences between Version 3.1 and previous versions. The GFM represents a three-dimensional interpretation of the stratigraphy and structural features of the location of the potential Yucca Mountain radioactive waste repository. The GFM encompasses an area of 65 square miles (170 square kilometers) and a volume of 185 cubic miles (771 cubic kilometers). The boundaries of the GFM were chosen to encompass the most widely distributed set of exploratory boreholes (the Water Table or WT series) and to provide a geologic framework over the area of interest for hydrologic flow and radionuclide transport modeling through the unsaturated zone (UZ). The depth of the model is constrained by the inferred depth of the Tertiary-Paleozoic unconformity. The GFM was constructed from geologic map and borehole data. Additional information from measured stratigraphy sections, gravity profiles, and seismic profiles was also considered. This interim change notice (ICN) was prepared in accordance with the Technical Work Plan for the Integrated Site Model Process Model Report Revision 01 (CRWMS M&O 2000). The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. The GFM is one component of the Integrated Site Model (ISM) (Figure l), which has been developed to provide a consistent volumetric portrayal of the rock layers, rock properties, and mineralogy of the Yucca Mountain site. The ISM consists of three components: (1) Geologic Framework Model (GFM); (2) Rock Properties Model (RPM); and (3) Mineralogic Model (MM). The ISM merges the detailed project stratigraphy into model stratigraphic units that are most useful for the primary downstream models and the

Geologic Framework Model Analysis Model Report

International Nuclear Information System (INIS)

Clayton, R.

2000-01-01

The purpose of this report is to document the Geologic Framework Model (GFM), Version 3.1 (GFM3.1) with regard to data input, modeling methods, assumptions, uncertainties, limitations, and validation of the model results, qualification status of the model, and the differences between Version 3.1 and previous versions. The GFM represents a three-dimensional interpretation of the stratigraphy and structural features of the location of the potential Yucca Mountain radioactive waste repository. The GFM encompasses an area of 65 square miles (170 square kilometers) and a volume of 185 cubic miles (771 cubic kilometers). The boundaries of the GFM were chosen to encompass the most widely distributed set of exploratory boreholes (the Water Table or WT series) and to provide a geologic framework over the area of interest for hydrologic flow and radionuclide transport modeling through the unsaturated zone (UZ). The depth of the model is constrained by the inferred depth of the Tertiary-Paleozoic unconformity. The GFM was constructed from geologic map and borehole data. Additional information from measured stratigraphy sections, gravity profiles, and seismic profiles was also considered. This interim change notice (ICN) was prepared in accordance with the Technical Work Plan for the Integrated Site Model Process Model Report Revision 01 (CRWMS M and O 2000). The constraints, caveats, and limitations associated with this model are discussed in the appropriate text sections that follow. The GFM is one component of the Integrated Site Model (ISM) (Figure l), which has been developed to provide a consistent volumetric portrayal of the rock layers, rock properties, and mineralogy of the Yucca Mountain site. The ISM consists of three components: (1) Geologic Framework Model (GFM); (2) Rock Properties Model (RPM); and (3) Mineralogic Model (MM). The ISM merges the detailed project stratigraphy into model stratigraphic units that are most useful for the primary downstream models and

Model(ing) Law

DEFF Research Database (Denmark)

Carlson, Kerstin

The International Criminal Tribunal for the former Yugoslavia (ICTY) was the first and most celebrated of a wave of international criminal tribunals (ICTs) built in the 1990s designed to advance liberalism through international criminal law. Model(ing) Justice examines the case law of the ICTY...

Comparisons of Multilevel Modeling and Structural Equation Modeling Approaches to Actor-Partner Interdependence Model.

Science.gov (United States)

Hong, Sehee; Kim, Soyoung

2018-01-01

There are basically two modeling approaches applicable to analyzing an actor-partner interdependence model: the multilevel modeling (hierarchical linear model) and the structural equation modeling. This article explains how to use these two models in analyzing an actor-partner interdependence model and how these two approaches work differently. As an empirical example, marital conflict data were used to analyze an actor-partner interdependence model. The multilevel modeling and the structural equation modeling produced virtually identical estimates for a basic model. However, the structural equation modeling approach allowed more realistic assumptions on measurement errors and factor loadings, rendering better model fit indices.

Translating building information modeling to building energy modeling using model view definition.

Science.gov (United States)

Jeong, WoonSeong; Kim, Jong Bum; Clayton, Mark J; Haberl, Jeff S; Yan, Wei

2014-01-01

This paper presents a new approach to translate between Building Information Modeling (BIM) and Building Energy Modeling (BEM) that uses Modelica, an object-oriented declarative, equation-based simulation environment. The approach (BIM2BEM) has been developed using a data modeling method to enable seamless model translations of building geometry, materials, and topology. Using data modeling, we created a Model View Definition (MVD) consisting of a process model and a class diagram. The process model demonstrates object-mapping between BIM and Modelica-based BEM (ModelicaBEM) and facilitates the definition of required information during model translations. The class diagram represents the information and object relationships to produce a class package intermediate between the BIM and BEM. The implementation of the intermediate class package enables system interface (Revit2Modelica) development for automatic BIM data translation into ModelicaBEM. In order to demonstrate and validate our approach, simulation result comparisons have been conducted via three test cases using (1) the BIM-based Modelica models generated from Revit2Modelica and (2) BEM models manually created using LBNL Modelica Buildings library. Our implementation shows that BIM2BEM (1) enables BIM models to be translated into ModelicaBEM models, (2) enables system interface development based on the MVD for thermal simulation, and (3) facilitates the reuse of original BIM data into building energy simulation without an import/export process.

Translating Building Information Modeling to Building Energy Modeling Using Model View Definition

Directory of Open Access Journals (Sweden)

WoonSeong Jeong

2014-01-01

Full Text Available This paper presents a new approach to translate between Building Information Modeling (BIM and Building Energy Modeling (BEM that uses Modelica, an object-oriented declarative, equation-based simulation environment. The approach (BIM2BEM has been developed using a data modeling method to enable seamless model translations of building geometry, materials, and topology. Using data modeling, we created a Model View Definition (MVD consisting of a process model and a class diagram. The process model demonstrates object-mapping between BIM and Modelica-based BEM (ModelicaBEM and facilitates the definition of required information during model translations. The class diagram represents the information and object relationships to produce a class package intermediate between the BIM and BEM. The implementation of the intermediate class package enables system interface (Revit2Modelica development for automatic BIM data translation into ModelicaBEM. In order to demonstrate and validate our approach, simulation result comparisons have been conducted via three test cases using (1 the BIM-based Modelica models generated from Revit2Modelica and (2 BEM models manually created using LBNL Modelica Buildings library. Our implementation shows that BIM2BEM (1 enables BIM models to be translated into ModelicaBEM models, (2 enables system interface development based on the MVD for thermal simulation, and (3 facilitates the reuse of original BIM data into building energy simulation without an import/export process.

Models Archive and ModelWeb at NSSDC

Science.gov (United States)

Bilitza, D.; Papitashvili, N.; King, J. H.

2002-05-01

In addition to its large data holdings, NASA's National Space Science Data Center (NSSDC) also maintains an archive of space physics models for public use (ftp://nssdcftp.gsfc.nasa.gov/models/). The more than 60 model entries cover a wide range of parameters from the atmosphere, to the ionosphere, to the magnetosphere, to the heliosphere. The models are primarily empirical models developed by the respective model authors based on long data records from ground and space experiments. An online model catalog (http://nssdc.gsfc.nasa.gov/space/model/) provides information about these and other models and links to the model software if available. We will briefly review the existing model holdings and highlight some of its usages and users. In response to a growing need by the user community, NSSDC began to develop web-interfaces for the most frequently requested models. These interfaces enable users to compute and plot model parameters online for the specific conditions that they are interested in. Currently included in the Modelweb system (http://nssdc.gsfc.nasa.gov/space/model/) are the following models: the International Reference Ionosphere (IRI) model, the Mass Spectrometer Incoherent Scatter (MSIS) E90 model, the International Geomagnetic Reference Field (IGRF) and the AP/AE-8 models for the radiation belt electrons and protons. User accesses to both systems have been steadily increasing over the last years with occasional spikes prior to large scientific meetings. The current monthly rate is between 5,000 to 10,000 accesses for either system; in February 2002 13,872 accesses were recorded to the Modelsweb and 7092 accesses to the models archive.

Modelling the models

CERN Multimedia

Anaïs Schaeffer

2012-01-01

By analysing the production of mesons in the forward region of LHC proton-proton collisions, the LHCf collaboration has provided key information needed to calibrate extremely high-energy cosmic ray models.   Average transverse momentum (pT) as a function of rapidity loss ∆y. Black dots represent LHCf data and the red diamonds represent SPS experiment UA7 results. The predictions of hadronic interaction models are shown by open boxes (sibyll 2.1), open circles (qgsjet II-03) and open triangles (epos 1.99). Among these models, epos 1.99 shows the best overall agreement with the LHCf data. LHCf is dedicated to the measurement of neutral particles emitted at extremely small angles in the very forward region of LHC collisions. Two imaging calorimeters – Arm1 and Arm2 – take data 140 m either side of the ATLAS interaction point. “The physics goal of this type of analysis is to provide data for calibrating the hadron interaction models – the well-known &...

Model Manipulation for End-User Modelers

DEFF Research Database (Denmark)

Acretoaie, Vlad

, and transformations using their modeling notation and editor of choice. The VM* languages are implemented via a single execution engine, the VM* Runtime, built on top of the Henshin graph-based transformation engine. This approach combines the benefits of flexibility, maturity, and formality. To simplify model editor......End-user modelers are domain experts who create and use models as part of their work. They are typically not Software Engineers, and have little or no programming and meta-modeling experience. However, using model manipulation languages developed in the context of Model-Driven Engineering often...... requires such experience. These languages are therefore only used by a small subset of the modelers that could, in theory, benefit from them. The goals of this thesis are to substantiate this observation, introduce the concepts and tools required to overcome it, and provide empirical evidence in support...

Modeling energy-economy interactions using integrated models

International Nuclear Information System (INIS)

Uyterlinde, M.A.

1994-06-01

Integrated models are defined as economic energy models that consist of several submodels, either coupled by an interface module, or embedded in one large model. These models can be used for energy policy analysis. Using integrated models yields the following benefits. They provide a framework in which energy-economy interactions can be better analyzed than in stand-alone models. Integrated models can represent both energy sector technological details, as well as the behaviour of the market and the role of prices. Furthermore, the combination of modeling methodologies in one model can compensate weaknesses of one approach with strengths of another. These advantages motivated this survey of the class of integrated models. The purpose of this literature survey therefore was to collect and to present information on integrated models. To carry out this task, several goals were identified. The first goal was to give an overview of what is reported on these models in general. The second one was to find and describe examples of such models. Other goals were to find out what kinds of models were used as component models, and to examine the linkage methodology. Solution methods and their convergence properties were also a subject of interest. The report has the following structure. In chapter 2, a 'conceptual framework' is given. In chapter 3 a number of integrated models is described. In a table, a complete overview is presented of all described models. Finally, in chapter 4, the report is summarized, and conclusions are drawn regarding the advantages and drawbacks of integrated models. 8 figs., 29 refs

On the role of model structure in hydrological modeling : Understanding models

NARCIS (Netherlands)

Gharari, S.

2016-01-01

Modeling is an essential part of the science of hydrology. Models enable us to formulate what we know and perceive from the real world into a neat package. Rainfall-runoff models are abstract simplifications of how a catchment works. Within the research field of scientific rainfall-runoff modeling,

Evolution of computational models in BioModels Database and the Physiome Model Repository.

Science.gov (United States)

Scharm, Martin; Gebhardt, Tom; Touré, Vasundra; Bagnacani, Andrea; Salehzadeh-Yazdi, Ali; Wolkenhauer, Olaf; Waltemath, Dagmar

2018-04-12

A useful model is one that is being (re)used. The development of a successful model does not finish with its publication. During reuse, models are being modified, i.e. expanded, corrected, and refined. Even small changes in the encoding of a model can, however, significantly affect its interpretation. Our motivation for the present study is to identify changes in models and make them transparent and traceable. We analysed 13734 models from BioModels Database and the Physiome Model Repository. For each model, we studied the frequencies and types of updates between its first and latest release. To demonstrate the impact of changes, we explored the history of a Repressilator model in BioModels Database. We observed continuous updates in the majority of models. Surprisingly, even the early models are still being modified. We furthermore detected that many updates target annotations, which improves the information one can gain from models. To support the analysis of changes in model repositories we developed MoSt, an online tool for visualisations of changes in models. The scripts used to generate the data and figures for this study are available from GitHub https://github.com/binfalse/BiVeS-StatsGenerator and as a Docker image at https://hub.docker.com/r/binfalse/bives-statsgenerator/ . The website https://most.bio.informatik.uni-rostock.de/ provides interactive access to model versions and their evolutionary statistics. The reuse of models is still impeded by a lack of trust and documentation. A detailed and transparent documentation of all aspects of the model, including its provenance, will improve this situation. Knowledge about a model's provenance can avoid the repetition of mistakes that others already faced. More insights are gained into how the system evolves from initial findings to a profound understanding. We argue that it is the responsibility of the maintainers of model repositories to offer transparent model provenance to their users.

Model documentation report: Transportation sector model of the National Energy Modeling System

Energy Technology Data Exchange (ETDEWEB)

1994-03-01

This report documents the objectives, analytical approach and development of the National Energy Modeling System (NEMS) Transportation Model (TRAN). The report catalogues and describes the model assumptions, computational methodology, parameter estimation techniques, model source code, and forecast results generated by the model. This document serves three purposes. First, it is a reference document providing a detailed description of TRAN for model analysts, users, and the public. Second, this report meets the legal requirements of the Energy Information Administration (EIA) to provide adequate documentation in support of its statistical and forecast reports (Public Law 93-275, 57(b)(1)). Third, it permits continuity in model development by providing documentation from which energy analysts can undertake model enhancements, data updates, and parameter refinements.

Modeling complexes of modeled proteins.

Science.gov (United States)

Anishchenko, Ivan; Kundrotas, Petras J; Vakser, Ilya A

2017-03-01

Structural characterization of proteins is essential for understanding life processes at the molecular level. However, only a fraction of known proteins have experimentally determined structures. This fraction is even smaller for protein-protein complexes. Thus, structural modeling of protein-protein interactions (docking) primarily has to rely on modeled structures of the individual proteins, which typically are less accurate than the experimentally determined ones. Such "double" modeling is the Grand Challenge of structural reconstruction of the interactome. Yet it remains so far largely untested in a systematic way. We present a comprehensive validation of template-based and free docking on a set of 165 complexes, where each protein model has six levels of structural accuracy, from 1 to 6 Å C α RMSD. Many template-based docking predictions fall into acceptable quality category, according to the CAPRI criteria, even for highly inaccurate proteins (5-6 Å RMSD), although the number of such models (and, consequently, the docking success rate) drops significantly for models with RMSD > 4 Å. The results show that the existing docking methodologies can be successfully applied to protein models with a broad range of structural accuracy, and the template-based docking is much less sensitive to inaccuracies of protein models than the free docking. Proteins 2017; 85:470-478. © 2016 Wiley Periodicals, Inc. © 2016 Wiley Periodicals, Inc.

Modeling styles in business process modeling

NARCIS (Netherlands)

Pinggera, J.; Soffer, P.; Zugal, S.; Weber, B.; Weidlich, M.; Fahland, D.; Reijers, H.A.; Mendling, J.; Bider, I.; Halpin, T.; Krogstie, J.; Nurcan, S.; Proper, E.; Schmidt, R.; Soffer, P.; Wrycza, S.

2012-01-01

Research on quality issues of business process models has recently begun to explore the process of creating process models. As a consequence, the question arises whether different ways of creating process models exist. In this vein, we observed 115 students engaged in the act of modeling, recording

Comparison: Binomial model and Black Scholes model

Directory of Open Access Journals (Sweden)

Amir Ahmad Dar

2018-03-01

Full Text Available The Binomial Model and the Black Scholes Model are the popular methods that are used to solve the option pricing problems. Binomial Model is a simple statistical method and Black Scholes model requires a solution of a stochastic differential equation. Pricing of European call and a put option is a very difficult method used by actuaries. The main goal of this study is to differentiate the Binominal model and the Black Scholes model by using two statistical model - t-test and Tukey model at one period. Finally, the result showed that there is no significant difference between the means of the European options by using the above two models.

Modelling in Business Model design

NARCIS (Netherlands)