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

NASA Astrophysics Data System (ADS)

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.

Simulating effects of fire on northern Rocky Mountain landscapes with the ecological process model FIRE-BGC.

PubMed

Keane, R E; Ryan, K C; Running, S W

1996-03-01

A mechanistic, biogeochemical succession model, FIRE-BGC, was used to investigate the role of fire on long-term landscape dynamics in northern Rocky Mountain coniferous forests of Glacier National Park, Montana, USA. FIRE-BGC is an individual-tree model-created by merging the gap-phase process-based model FIRESUM with the mechanistic ecosystem biogeochemical model FOREST-BGC-that has mixed spatial and temporal resolution in its simulation architecture. Ecological processes that act at a landscape level, such as fire and seed dispersal, are simulated annually from stand and topographic information. Stand-level processes, such as tree establishment, growth and mortality, organic matter accumulation and decomposition, and undergrowth plant dynamics are simulated both daily and annually. Tree growth is mechanistically modeled based on the ecosystem process approach of FOREST-BGC where carbon is fixed daily by forest canopy photosynthesis at the stand level. Carbon allocated to the tree stem at the end of the year generates the corresponding diameter and height growth. The model also explicitly simulates fire behavior and effects on landscape characteristics. We simulated the effects of fire on ecosystem characteristics of net primary productivity, evapotranspiration, standing crop biomass, nitrogen cycling and leaf area index over 200 years for the 50,000-ha McDonald Drainage in Glacier National Park. Results show increases in net primary productivity and available nitrogen when fires are included in the simulation. Standing crop biomass and evapotranspiration decrease under a fire regime. Shade-intolerant species dominate the landscape when fires are excluded. Model tree increment predictions compared well with field data.

Modeling potential hydrochemical responses to climate change and rising CO2 at the Hubbard Brook Experimental Forest using a dynamic biogeochemical model (PnET-BGC)

Treesearch

Afshin Pourmokhtarian; Charles T. Driscoll; John L. Campbell; Katharine Hayhoe

2012-01-01

Dynamic hydrochemical models are useful tools for understanding and predicting the interactive effects of climate change, atmospheric CO2, and atmospheric deposition on the hydrology and water quality of forested watersheds. We used the biogeochemical model, PnET-BGC, to evaluate the effects of potential future changes in temperature,...

An ancient depleted mantle source for Archean crust in Rajasthan, India

NASA Technical Reports Server (NTRS)

Macdougall, J. D.; Gopalan, K.; Lugmair, G. W.; Roy, A. B.

1983-01-01

Data from an initial set of Banded Gneiss Complex (BGC) east of the city of Udaipur are given. In this region the BGC comprises typical grey gneiss with variably abundant granitic and mafic components. Efforts to date were concentrated on the mafic components which, based on chemical data, appear to be metavolcanic. All samples examined were recrystallized under amphibolite or upper amphibolite facies conditions. Pertinent chemical data for a small number of amphibolites analyzed so far are: SiO2: 49-53%; MgO: 5.7-7.3%; K2O: 0.24-0.50%; Ni: 106-140 ppm; Zr: 37-159 ppm. From Sm/Nd data, all amphibolites show small to moderate LREE enrichments.

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

PubMed

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.

Evaluating, predicting and mapping belowground carbon stores in Kenyan mangroves.

PubMed

Gress, Selena K; Huxham, Mark; Kairo, James G; Mugi, Lilian M; Briers, Robert A

2017-01-01

Despite covering only approximately 138 000 km 2 , mangroves are globally important carbon sinks with carbon density values three to four times that of terrestrial forests. A key challenge in evaluating the carbon benefits from mangrove forest conservation is the lack of rigorous spatially resolved estimates of mangrove sediment carbon stocks; most mangrove carbon is stored belowground. Previous work has focused on detailed estimations of carbon stores over relatively small areas, which has obvious limitations in terms of generality and scope of application. Most studies have focused only on quantifying the top 1 m of belowground carbon (BGC). Carbon stored at depths beyond 1 m, and the effects of mangrove species, location and environmental context on these stores, are poorly studied. This study investigated these variables at two sites (Gazi and Vanga in the south of Kenya) and used the data to produce a country-specific BGC predictive model for Kenya and map BGC store estimates throughout Kenya at spatial scales relevant for climate change research, forest management and REDD+ (reduced emissions from deforestation and degradation). The results revealed that mangrove species was the most reliable predictor of BGC; Rhizophora muronata had the highest mean BGC with 1485.5 t C ha -1 . Applying the species-based predictive model to a base map of species distribution in Kenya for the year 2010 with a 2.5 m 2 resolution produced an estimate of 69.41 Mt C [±9.15 95% confidence interval (C.I.)] for BGC in Kenyan mangroves. When applied to a 1992 mangrove distribution map, the BGC estimate was 75.65 Mt C (±12.21 95% C.I.), an 8.3% loss in BGC stores between 1992 and 2010 in Kenya. The country-level mangrove map provides a valuable tool for assessing carbon stocks and visualizing the distribution of BGC. Estimates at the 2.5 m 2 resolution provide sufficient details for highlighting and prioritizing areas for mangrove conservation and restoration. © 2016 John Wiley & Sons Ltd.

GC-Biased Gene Conversion in Yeast Is Specifically Associated with Crossovers: Molecular Mechanisms and Evolutionary Significance

PubMed Central

Lesecque, Yann; Mouchiroud, Dominique; Duret, Laurent

2013-01-01

GC-biased gene conversion (gBGC) is a process associated with recombination that favors the transmission of GC alleles over AT alleles during meiosis. gBGC plays a major role in genome evolution in many eukaryotes. However, the molecular mechanisms of gBGC are still unknown. Different steps of the recombination process could potentially cause gBGC: the formation of double-strand breaks (DSBs), the invasion of the homologous or sister chromatid, and the repair of mismatches in heteroduplexes. To investigate these models, we analyzed a genome-wide data set of crossovers (COs) and noncrossovers (NCOs) in Saccharomyces cerevisiae. We demonstrate that the overtransmission of GC alleles is specific to COs and that it occurs among conversion tracts in which all alleles are converted from the same donor haplotype. Thus, gBGC results from a process that leads to long-patch repair. We show that gBGC is associated with longer tracts and that it is driven by the nature (GC or AT) of the alleles located at the extremities of the tract. These observations invalidate the hypotheses that gBGC is due to the base excision repair machinery or to a bias in DSB formation and suggest that in S. cerevisiae, gBGC is caused by the mismatch repair (MMR) system. We propose that the presence of nicks on both DNA strands during CO resolution could be the cause of the bias in MMR activity. Our observations are consistent with the hypothesis that gBGC is a nonadaptive consequence of a selective pressure to limit the mutation rate in mitotic cells. PMID:23505044

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

NASA Astrophysics Data System (ADS)

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), and Indian Ocean (IOBioArgo). As examples, bio-optical sensors are identifying regional anomalies in light attenuation/scattering, with implications for ocean productivity and carbon export; SOCCOM floats show high CO2 outgassing in the Antarctic Circumpolar Current, due to previously unmeasured winter fluxes.

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

NASA Astrophysics Data System (ADS)

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.

Modelling the impacts of reoccurring fires in tropical savannahs using Biome-BGC.

NASA Astrophysics Data System (ADS)

Fletcher, Charlotte; Petritsch, Richard; Pietsch, Stephan

2010-05-01

Fires are a dominant feature of tropical savannahs and have occurred throughout history by natural as well as human-induced means. These fires have a profound influence on the landscape in terms of flux dynamics and vegetative species composition. This study attempts to understand the impacts of fire regimes on flux dynamics and vegetation composition in savannahs using the Biome-BGC model. The Batéké Plateau, Gabon - an area of savannah grasslands in the Congo basin, serves as a case-study. To achieve model validation for savannahs, data sets from stands with differing levels of past burning are used. It is hypothesised that the field measurements from those stands with lower-levels of past burning will correlate with the Biome-BGC model output, meaning that the model is validated for the savannah excluding fire regimes. However, in reality, fire is frequent in the savannah. Data on past fire events are available from the Moderate Resolution Imaging Spectroradiometer (MODIS) to provide the fire regimes of the model. As the field data-driven measurements of the burnt stands are influenced by fire in the savannah, this will therefore result in a Biome-BGC model validated for the impacts of fire on savannah ecology. The validated model can then be used to predict the savannah's flux dynamics under the fire scenarios expected with climate and/or human impact change.

Effects of celecoxib on cell apoptosis and Fas, FasL and Bcl-2 expression in a BGC-823 human gastric cancer cell line.

PubMed

Li, Qian; Peng, Jie; Liu, Ting; Zhang, Guiying

2017-09-01

Fas, which is an apoptotic-related protein, has an important role in cell apoptosis. Fas ligand (FasL) binds to Fas and activates apoptosis signal transduction. We previously demonstrated that the efficiency of celecoxib inhibited the proliferation and apoptosis of HT-29 colon cancer cell line. The BGC823 cell line was used as an experimental model to evaluate the potential role of celecoxib on gastric cancer cell apoptosis. Inhibitory effects of celecoxib on cell viability were determined by MTT assay. Cell apoptosis was evaluated by flow cytometric analysis and laser confocal microscopy. The results of the present study demonstrated that celecoxib inhibited the viability of BGC823 cells in a concentration- and time-dependent manner. Furthermore, the effect of BGC823 cells apoptosis was increased in a concentration-dependent manner. Western blotting was used to determine the protein expression levels of Fas, FasL, and B-cell lymphoma-2 (Bcl-2). During the celecoxib-induced apoptosis of BGC823 cells, celecoxib upregulated Fas expression and downregulated FasL and Bcl-2 expression in a concentration-dependent manner. These results suggest that celecoxib inhibited the growth and induced apoptosis of BGC823 gastric cancer cells by regulating the protein expression of Fas, FasL and Bcl-2.

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

NASA Astrophysics Data System (ADS)

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 without the nitrogen transport module is also executed. The model without nitrogen transport fails in predicting the spatial patterns of vegetation carbon, which indicates the importance of having a nitrogen transport module in spatially distributed ecohydrologic modeling.

Vegetation/Ecosystem Modeling and Analysis Project:Comparing biogeography and biogeochemistry models in a continental-scale study of terrestrial ecosystem responses to climate change and CO2 doubling

NASA Astrophysics Data System (ADS)

1995-12-01

We compare the simulations of three biogeography models (BIOME2, Dynamic Global Phytogeography Model (DOLY), and Mapped Atmosphere-Plant Soil System (MAPSS)) and three biogeochemistry models (BIOME-BGC (BioGeochemistry Cycles), CENTURY, and Terrestrial Ecosystem Model (TEM)) for the conterminous United States under contemporary conditions of atmospheric CO2 and climate. We also compare the simulations of these models under doubled CO2 and a range of climate scenarios. For contemporary conditions, the biogeography models successfully simulate the geographic distribution of major vegetation types and have similar estimates of area for forests (42 to 46% of the conterminous United States), grasslands (17 to 27%), savannas (15 to 25%), and shrublands (14 to 18%). The biogeochemistry models estimate similar continental-scale net primary production (NPP; 3125 to 3772 × 1012 gC yr-1) and total carbon storage (108 to 118 × 1015 gC) for contemporary conditions. Among the scenarios of doubled CO2 and associated equilibrium climates produced by the three general circulation models (Oregon State University (OSU), Geophysical Fluid Dynamics Laboratory (GFDL), and United Kingdom Meteorological Office (UKMO)), all three biogeography models show both gains and losses of total forest area depending on the scenario (between 38 and 53% of conterminous United States area). The only consistent gains in forest area with all three models (BIOME2, DOLY, and MAPSS) were under the GFDL scenario due to large increases in precipitation. MAPSS lost forest area under UKMO, DOLY under OSU, and BIOME2 under both UKMO and OSU. The variability in forest area estimates occurs because the hydrologic cycles of the biogeography models have different sensitivities to increases in temperature and CO2. However, in general, the biogeography models produced broadly similar results when incorporating both climate change and elevated CO2 concentrations. For these scenarios, the NPP estimated by the biogeochemistry models increases between 2% (BIOME-BGC with UKMO climate) and 35% (TEM with UKMO climate). Changes in total carbon storage range from losses of 33% (BIOME-BGC with UKMO climate) to gains of 16% (TEM with OSU climate). The CENTURY responses of NPP and carbon storage are positive and intermediate to the responses of BIOME-BGC and TEM. The variability in carbon cycle responses occurs because the hydrologic and nitrogen cycles of the biogeochemistry models have different sensitivities to increases in temperature and CO2. When the biogeochemistry models are run with the vegetation distributions of the biogeography models, NPP ranges from no response (BIOME-BGC with all three biogeography model vegetations for UKMO climate) to increases of 40% (TEM with MAPSS vegetation for OSU climate). The total carbon storage response ranges from a decrease of 39% (BIOME-BGC with MAPSS vegetation for UKMO climate) to an increase of 32% (TEM with MAPSS vegetation for OSU and GFDL climates). The UKMO responses of BIOME-BGC with MAPSS vegetation are primarily caused by decreases in forested area and temperature-induced water stress. The OSU and GFDL responses of TEM with MAPSS vegetations are primarily caused by forest expansion and temperature-enhanced nitrogen cycling.

Vegetation/ecosystem modeling and analysis project: Comparing biogeography and biogeochemistry models in a continental-scale study of terrestrial ecosystem responses to climate change and CO2 doubling

NASA Astrophysics Data System (ADS)

Melillo, J. M.; Borchers, J.; Chaney, J.; Fisher, H.; Fox, S.; Haxeltine, A.; Janetos, A.; Kicklighter, D. W.; Kittel, T. G. F.; McGuire, A. D.; McKeown, R.; Neilson, R.; Nemani, R.; Ojima, D. S.; Painter, T.

1995-12-01

We compare the simulations of three biogeography models (BIOME2, Dynamic Global Phytogeography Model (DOLY), and Mapped Atmosphere-Plant Soil System (MAPSS)) and three biogeochemistry models (BIOME-BGC (BioGeochemistry Cycles), CENTURY, and Terrestrial Ecosystem Model (TEM)) for the conterminous United States under contemporary conditions of atmospheric CO2 and climate. We also compare the simulations of these models under doubled CO2 and a range of climate scenarios. For contemporary conditions, the biogeography models successfully simulate the geographic distribution of major vegetation types and have similar estimates of area for forests (42 to 46% of the conterminous United States), grasslands (17 to 27%), savannas (15 to 25%), and shrublands (14 to 18%). The biogeochemistry models estimate similar continental-scale net primary production (NPP; 3125 to 3772×1012 gCyr-1) and total carbon storage (108 to 118×1015 gC) for contemporary conditions. Among the scenarios of doubled CO2 and associated equilibrium climates produced by the three general circulation models (Oregon State University (OSU), Geophysical Fluid Dynamics Laboratory (GFDL), and United Kingdom Meteorological Office (UKMO)), all three biogeography models show both gains and losses of total forest area depending on the scenario (between 38 and 53% of conterminous United States area). The only consistent gains in forest area with all three models (BIOME2, DOLY, and MAPSS) were under the GFDL scenario due to large increases in precipitation. MAPSS lost forest area under UKMO, DOLY under OSU, and BIOME2 under both UKMO and OSU. The variability in forest area estimates occurs because the hydrologic cycles of the biogeography models have different sensitivities to increases in temperature and CO2. However, in general, the biogeography models produced broadly similar results when incorporating both climate change and elevated CO2 concentrations. For these scenarios, the NPP estimated by the biogeochemistry models increases between 2% (BIOME-BGC with UKMO climate) and 35% (TEM with UKMO climate). Changes in total carbon storage range from losses of 33% (BIOME-BGC with UKMO climate) to gains of 16% (TEM with OSU climate). The CENTURY responses of NPP and carbon storage are positive and intermediate to the responses of BIOME-BGC and TEM. The variability in carbon cycle responses occurs because the hydrologic and nitrogen cycles of the biogeochemistry models have different sensitivities to increases in temperature and CO2. When the biogeochemistry models are run with the vegetation distributions of the biogeography models, NPP ranges from no response (BIOME-BGC with all three biogeography model vegetations for UKMO climate) to increases of 40% (TEM with MAPSS vegetation for OSU climate). The total carbon storage response ranges from a decrease of 39% (BIOME-BGC with MAPSS vegetation for UKMO climate) to an increase of 32% (TEM with MAPSS vegetation for OSU and GFDL climates). The UKMO responses of BIOME-BGC with MAPSS vegetation are primarily caused by decreases in forested area and temperature-induced water stress. The OSU and GFDL responses of TEM with MAPSS vegetations are primarily caused by forest expansion and temperature-enhanced nitrogen cycling.

Biomass and fire dynamics in a temperate forest-grassland mosaic: Integrating multi-species herbivory, climate, and fire with the FireBGCv2/GrazeBGC system

Treesearch

Robert A. Riggs; Robert E. Keane; Norm Cimon; Rachel Cook; Lisa Holsinger; John Cook; Timothy DelCurto; L.Scott Baggett; Donald Justice; David Powell; Martin Vavra; Bridgett Naylor

2015-01-01

Landscape fire succession models (LFSMs) predict spatially-explicit interactions between vegetation succession and disturbance, but these models have yet to fully integrate ungulate herbivory as a driver of their processes. We modified a complex LFSM, FireBGCv2, to include a multi-species herbivory module, GrazeBGC. The system is novel in that it explicitly...

Scaling approach of terrestrial carbon cycle over Alaska's black spruce forests: a synthesis of field observation, remote sensing, and ecosystem modeling

NASA Astrophysics Data System (ADS)

Ueyama, M.; Date, T.; Harazono, Y.; Ichii, K.

2007-12-01

Spatio-temporal scale up of the eddy covariance data is an important challenge especially in the northern high latitude ecosystems, since continuous ground observations are rarely conducted. In this study, we measured the carbon fluxes at a black spruce forest in interior Alaska, and then scale up the eddy covariance data to spatio- temporal variations in regional carbon budget by using satellite remote sensing data and a process based ecosystem model, Biome-BGC. At point scale, both satellite-based empirical model and Biome-BGC could reproduce seasonal and interannual variations in GPP/RE/NEE. The magnitude of GPP/RE is also consistent among the models. However, spatial patterns in GPP/RE are something different among the models; high productivity in low elevation area is estimated by the satellite-based model whereas insignificant relationship is simulated by Biome-BGC. Long- term satellite records, AVHRR and MODIS, show the gradual decline of NDVI in Alaska's black spruce forests between 1981 and 2006, resulting in a general trend of decreasing GPP/RE for Alaska's black spruce forests. These trends are consistent with the Biome-BGC simulation. The trend of carbon budget is also consistent among the models, where the carbon budget of black spruce forests did not significantly change in the period. The simulated results suggest that the carbon fluxes in black spruce forests could be more sensitive to water availability than air temperature.

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

PubMed

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.

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

NASA Astrophysics Data System (ADS)

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.

Calibration of two complex ecosystem models with different likelihood functions

NASA Astrophysics Data System (ADS)

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 goodness metric on calibration. The different likelihoods are different functions of RMSE (root mean squared error) weighted by measurement uncertainty: exponential / linear / quadratic / linear normalized by correlation. As a first calibration step sensitivity analysis was performed in order to select the influential parameters which have strong effect on the output data. In the second calibration step only the sensitive parameters were calibrated (optimal values and confidence intervals were calculated). In case of PaSim more parameters were found responsible for the 95% of the output data variance than is case of BBGC MuSo. Analysis of the results of the optimized models revealed that the exponential likelihood estimation proved to be the most robust (best model simulation with optimized parameter, highest confidence interval increase). The cross-validation of the model simulations can help in constraining the highly uncertain greenhouse gas budget of grasslands.

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

NASA Astrophysics Data System (ADS)

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.

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

PubMed

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 with the spatial heterogeneity under the three vegetation types. According to the temporal and spatial heterogeneity of the optimal values, the parameters of the BIOME-BGC model could be classified in order to adopt different parameter strategies in practical application. The conclusion could help to deeply understand the parameters and the optimal values of the ecological process models, and provide a way or reference for obtaining the reasonable values of parameters in models application.

Calibration and Application of FOREST-BGC in NorthWestern of Portugal

NASA Astrophysics Data System (ADS)

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.

Quantification of GC-biased gene conversion in the human genome

PubMed Central

Glémin, Sylvain; Arndt, Peter F.; Messer, Philipp W.; Petrov, Dmitri; Galtier, Nicolas; Duret, Laurent

2015-01-01

Much evidence indicates that GC-biased gene conversion (gBGC) has a major impact on the evolution of mammalian genomes. However, a detailed quantification of the process is still lacking. The strength of gBGC can be measured from the analysis of derived allele frequency spectra (DAF), but this approach is sensitive to a number of confounding factors. In particular, we show by simulations that the inference is pervasively affected by polymorphism polarization errors and by spatial heterogeneity in gBGC strength. We propose a new general method to quantify gBGC from DAF spectra, incorporating polarization errors, taking spatial heterogeneity into account, and jointly estimating mutation bias. Applying it to human polymorphism data from the 1000 Genomes Project, we show that the strength of gBGC does not differ between hypermutable CpG sites and non-CpG sites, suggesting that in humans gBGC is not caused by the base-excision repair machinery. Genome-wide, the intensity of gBGC is in the nearly neutral area. However, given that recombination occurs primarily within recombination hotspots, 1%–2% of the human genome is subject to strong gBGC. On average, gBGC is stronger in African than in non-African populations, reflecting differences in effective population sizes. However, due to more heterogeneous recombination landscapes, the fraction of the genome affected by strong gBGC is larger in non-African than in African populations. Given that the location of recombination hotspots evolves very rapidly, our analysis predicts that, in the long term, a large fraction of the genome is affected by short episodes of strong gBGC. PMID:25995268

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

NASA Astrophysics Data System (ADS)

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.

FIFE data analysis: Testing BIOME-BGC predictions for grasslands

NASA Technical Reports Server (NTRS)

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-based ecosystem simulations at a variety of scales are possible. The second objective of this study is concerned with determining the accuracy of the estimated fluxes from BIOME-BGC, when extrapolated spatially over the entire 15-km by 15-km FIFE site. To accomplish this objective, a topographically distributed map of soil depth at the FIFE site was developed. These spatially-distributed fluxes were then tested with data from aircraft by eddy-flux correlation obtained during the FIFE experiment.

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

PubMed

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.

Grassland production under global change scenarios for New Zealand pastoral agriculture

NASA Astrophysics Data System (ADS)

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-sampled quickly and cost-effectively for specific land-use change scenarios and future projections.

Grassland production under global change scenarios for New Zealand pastoral agriculture

NASA Astrophysics Data System (ADS)

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

2014-05-01

We adapt and integrate the Biome-BGC and Land Use in Rural New Zealand (LURNZ) models to simulate pastoral agriculture and to make land-use change, intensification 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 (AR4) 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 emphasize 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 (DLUCS): the Biome-BGC data products at a national or regional level can be re-sampled quickly and cost-effectively for specific land-use change scenarios and future projections.

Parameterisation of Biome BGC to assess forest ecosystems in Africa

NASA Astrophysics Data System (ADS)

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 executed and the simulated results compared. Once the model was optimised for forests in the Congo basin it was validated against observed tree volume, soil carbon and soil nitrogen from a set of independent plots.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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 annual NPP.

Pre-Launch Tasks Proposed in our Contract of December 1991

NASA Technical Reports Server (NTRS)

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.

Pre-Launch Tasks Proposed in our Contract of December 1991

NASA Technical Reports Server (NTRS)

Running, Steven W.; Nemani, Ramakrishna R.; Glassy, Joseph

1997-01-01

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.

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

NASA Astrophysics Data System (ADS)

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

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

PubMed

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.

The Impact of Boys & Girls Club/Keystone Club Participation on Alumni

ERIC Educational Resources Information Center

Swigert, Tami; Boyd, Barry L.

2010-01-01

This study examined the impact of the Boys & Girls Clubs of America (BGC), and its Keystone Club (KC) component, on the leadership and citizenship development of its alumni. 14 alumni were interviewed using a structured interview technique. The constant comparative method was utilized to identify leadership traits and skills that alumni…

Blue-green eggshell coloration is not a sexually selected signal of female quality in an open-nesting polygynous passerine.

PubMed

Honza, Marcel; Požgayová, Milica; Procházka, Petr; Cherry, Michael I

2011-06-01

It has been proposed that blue-green egg colours have evolved as a post-mating signal of female quality, selected by males allocating their parental effort in response to the strength of this signal. We tested two main assumptions of the sexually selected egg coloration hypothesis: (1) whether the intensity of eggshell blue-green chroma (BGC) reflects female quality; and (2) whether males make their decisions on the level of parental care that they provide according to the intensity of eggshell BGC. As a model species, we chose the facultatively polygynous great reed warbler (Acrocephalus arundinaceus). In this species, females simultaneously paired with the same male, compete for his nest attendance and could benefit from signalling their quality through egg coloration. However, we found no association between the variation in eggshell BGC and the measures of female quality (physical condition, mean egg volume and age). Moreover, great reed warbler males did not adjust their investment (as measured in terms of nest defence against a brood parasite) in relation to the eggshell BGC. We conclude that blue-green egg coloration in this open-nesting passerine is unlikely to have a signalling function. Rather, the large colour variation among clutches of individual females may depend on yearly fluctuations in environmental conditions.

Assessing Forest NPP: BIOME-BGC Predictions versus BEF Derived Estimates

NASA Astrophysics Data System (ADS)

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

2007-05-01

Forest productivity has always been a major issue within sustainable forest management. While in the past terrestrial forest inventory data have been the major source for assessing forest productivity, recent developments in ecosystem modeling offer an alternative approach using ecosystem models such as Biome-BGC to estimate Net Primary Production (NPP). In this study we compare two terrestrial driven approaches for assessing NPP: (i) estimates from a species specific adaptation of the biogeochemical ecosystem model BIOME-BGC calibrated for Alpine conditions; and (ii) NPP estimates derived from inventory data using biomass expansion factors (BEF). The forest inventory data come from 624 sample plots across Austria and consist of repeated individual tree observations and include growth as well as soil and humus information. These locations are covered with spruce, beech, oak, pine and larch stands, thus addressing the main Austrian forest types. 144 locations were previously used in a validating effort to produce species-specific parameter estimates of the ecosystem model. The remaining 480 sites are from the Austrian National Forest Soil Survey carried out at the Federal Research and Training Centre for Forests, Natural Hazards and Landscape (BFW). By using diameter at breast height (dbh) and height (h) volume and subsequently biomass of individual trees were calculated, aggregated for the whole forest stand and compared with the model output. Regression analyses were performed for both volume and biomass estimates.

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

NASA Astrophysics Data System (ADS)

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

2014-07-01

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. In particular, it is 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, a classic big-leaf model, and the ED and ZELIG 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 ED and ZELIG correctly estimated the magnitude of LAI decline. None of the models fully captured the observed post-disturbance C fluxes. Biome-BGC net primary production (NPP) was correctly resilient, but for the wrong reasons, while ED and ZELIG 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. As a result we expect that most ecosystem models, developed to simulate processes following stand-replacing disturbances, will not simulate well the gradual and less extensive tree mortality characteristic of moderate disturbances.

Seasonal and interannual variability in wetland methane emissions simulated by CLM4Me' and CAM-chem and comparisons to observations of concentrations

DOE Office of Scientific and Technical Information (OSTI.GOV)

Meng, L.; Paudel, R.; Hess, P. G. M.

Understanding the temporal and spatial variation of wetland methane emissions is essential to the estimation of the global methane budget. Our goal for this study is three-fold: (i) to evaluate the wetland methane fluxes simulated in two versions of the Community Land Model, the Carbon-Nitrogen (CN; i.e., CLM4.0) and the Biogeochemistry (BGC; i.e., CLM4.5) versions using the methane emission model CLM4Me' so as to determine the sensitivity of the emissions to the underlying carbon model; (ii) to compare the simulated atmospheric methane concentrations to observations, including latitudinal gradients and interannual variability so as to determine the extent to which themore » atmospheric observations constrain the emissions; (iii) to understand the drivers of seasonal and interannual variability in atmospheric methane concentrations. Simulations of the transport and removal of methane use the Community Atmosphere Model with chemistry (CAM-chem) model in conjunction with CLM4Me' methane emissions from both CN and BGC simulations and other methane emission sources from literature. In each case we compare model-simulated atmospheric methane concentration with observations. In addition, we simulate the atmospheric concentrations based on the TransCom wetland and rice paddy emissions derived from a different terrestrial ecosystem model, Vegetation Integrative Simulator for Trace gases (VISIT). Our analysis indicates CN wetland methane emissions are higher in the tropics and lower at high latitudes than emissions from BGC. In CN, methane emissions decrease from 1993 to 2004 while this trend does not appear in the BGC version. In the CN version, methane emission variations follow satellite-derived inundation wetlands closely. However, they are dissimilar in BGC due to its different carbon cycle. CAM-chem simulations with CLM4Me' methane emissions suggest that both prescribed anthropogenic and predicted wetlands methane emissions contribute substantially to seasonal and interannual variability in atmospheric methane concentration. Simulated atmospheric CH 4 concentrations in CAM-chem are highly correlated with observations at most of the 14 measurement stations evaluated with an average correlation between 0.71 and 0.80 depending on the simulation (for the period of 1993–2004 for most stations based on data availability). Our results suggest that different spatial patterns of wetland emissions can have significant impacts on Northern and Southern hemisphere (N–S) atmospheric CH 4 concentration gradients and growth rates. In conclusion, this study suggests that both anthropogenic and wetland emissions have significant contributions to seasonal and interannual variations in atmospheric CH 4 concentrations. However, our analysis also indicates the existence of large uncertainties in terms of spatial patterns and magnitude of global wetland methane budgets, and that substantial uncertainty comes from the carbon model underlying the methane flux modules.« less

Seasonal and interannual variability in wetland methane emissions simulated by CLM4Me' and CAM-chem and comparisons to observations of concentrations

DOE PAGES

Meng, L.; Paudel, R.; Hess, P. G. M.; ...

2015-07-03

Understanding the temporal and spatial variation of wetland methane emissions is essential to the estimation of the global methane budget. Our goal for this study is three-fold: (i) to evaluate the wetland methane fluxes simulated in two versions of the Community Land Model, the Carbon-Nitrogen (CN; i.e., CLM4.0) and the Biogeochemistry (BGC; i.e., CLM4.5) versions using the methane emission model CLM4Me' so as to determine the sensitivity of the emissions to the underlying carbon model; (ii) to compare the simulated atmospheric methane concentrations to observations, including latitudinal gradients and interannual variability so as to determine the extent to which themore » atmospheric observations constrain the emissions; (iii) to understand the drivers of seasonal and interannual variability in atmospheric methane concentrations. Simulations of the transport and removal of methane use the Community Atmosphere Model with chemistry (CAM-chem) model in conjunction with CLM4Me' methane emissions from both CN and BGC simulations and other methane emission sources from literature. In each case we compare model-simulated atmospheric methane concentration with observations. In addition, we simulate the atmospheric concentrations based on the TransCom wetland and rice paddy emissions derived from a different terrestrial ecosystem model, Vegetation Integrative Simulator for Trace gases (VISIT). Our analysis indicates CN wetland methane emissions are higher in the tropics and lower at high latitudes than emissions from BGC. In CN, methane emissions decrease from 1993 to 2004 while this trend does not appear in the BGC version. In the CN version, methane emission variations follow satellite-derived inundation wetlands closely. However, they are dissimilar in BGC due to its different carbon cycle. CAM-chem simulations with CLM4Me' methane emissions suggest that both prescribed anthropogenic and predicted wetlands methane emissions contribute substantially to seasonal and interannual variability in atmospheric methane concentration. Simulated atmospheric CH 4 concentrations in CAM-chem are highly correlated with observations at most of the 14 measurement stations evaluated with an average correlation between 0.71 and 0.80 depending on the simulation (for the period of 1993–2004 for most stations based on data availability). Our results suggest that different spatial patterns of wetland emissions can have significant impacts on Northern and Southern hemisphere (N–S) atmospheric CH 4 concentration gradients and growth rates. In conclusion, this study suggests that both anthropogenic and wetland emissions have significant contributions to seasonal and interannual variations in atmospheric CH 4 concentrations. However, our analysis also indicates the existence of large uncertainties in terms of spatial patterns and magnitude of global wetland methane budgets, and that substantial uncertainty comes from the carbon model underlying the methane flux modules.« less

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

NASA Astrophysics Data System (ADS)

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

2014-12-01

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. In particular, it is unclear whether models can robustly simulate moderate (non-catastrophic) disturbances, which tend to increase biological and structural complexity and are increasingly common in aging U.S. forests. We tested whether three forest ecosystem models—Biome-BGC, a classic big-leaf model, and the ED and ZELIG 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 ED and ZELIG correctly estimated the magnitude of LAI decline. None of the models fully captured the observed post-disturbance C fluxes. Biome-BGC net primary production (NPP) was correctly resilient, but for the wrong reasons, while ED and ZELIG 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. As a result we expect that most ecosystem models, developed to simulate processes following stand-replacing disturbances, will not simulate well the gradual and less extensive tree mortality characteristic of moderate disturbances.

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

PubMed

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.

[Effects of traditional Tibetan drug Liu Tea on proliferation and chemotherapeutic sensitivity of drug-resistant human gastric cancer cell BGC823/5-FU].

PubMed

Cheng, Yan; Hasiqi, Mei-Ge; Qin, Xiao-Zhen; Tang, Xiang-You; Chen, Jian-Nan; Wang, Hui-Yin; Gao, Ao

2016-02-01

To investigate the effects of Liu Tea extracts(LTE) on proliferation, apoptosis and drug sensitivity of drug-resistant gastric cancer cell BGC823/5-FU. MTT assay was used to analyze effect of LTE on cell growth and sensitivity chemotherapeutic drugs, and synergistic effect of the combination of LTE with 5-FU on BGC823/5-FU cells. Combination index (CI) was calculated by CompuSyn. Cell apoptosis was measured by flow cytometry (FCM). Protein expressions of P-gp, Bcl-2, Bax and Caspase-3 (17KD) were detected by Western blot at different concentrations of LTE in BGC823/5-FU cells (100, 200, 400 mg•L⁻¹). The results showed that LTE had an inhibitory effect on growth of BGC823/5-FU cell in a dose-time-dependent manner and significantly reduced IC₅₀ of 5-FU, CDDP, PTX and ADM to BGC823/5-FU cells(P<0.05), indicating it could reverse tolerance of drug resistant cells to chemotherapeutic drugs, with reversion multiples of 2.35, 1.68, 1.96, 0.52. The combination of LTE with 5-FU had positive synergistic effect on the BGC-823 cell line. FCM assay suggested that LTE could induce BGC823/5-FU apoptosis. The apoptosis rate was up to 46.2% when the cells were treated with 800 mg•L⁻¹ LTE after 24 h(P<0.01). According to the protein detection results, with the increase in concentration of LTE, the protein expression of Bcl-2 was gradually decreased(P<0.01), the expression of Bax and Caspase-3 were extremely increased(P<0.01), with statistical significance in difference(P<0.01) but no difference in the expression of P-gp between experiment group and control group. LTE can inhibit the growth of drug-resistant human gastric cancer cell BGC823/5-FU and reverse its chemotherapeutic tolerance to some extent. Inhibition of antiapoptotic proteins, activation of proapoptotic proteins and induction of apoptosis of resistant cells may be its main mechanisms. Copyright© by the Chinese Pharmaceutical Association.

Inhibitory effect of saponins and polysaccharides from Radix ranunculi ternati on human gastric cancer BGC823 cells.

PubMed

Niu, Lidan; Zhou, Yingfeng; Sun, Bing; Hu, Junling; Kong, Lingyu; Duan, Sufang

2013-01-01

The effects of different Radix ranunculi ternati extracts on human gastric cancer BGC823 cells were investigated, different methods were used to extract the saponins and polysaccharides from Radix ranunculi ternati, and MTT assay and colony formation assay were used to observe the effects of saponins and polysaccharides from Radix ranunculi ternati on in-vitro cultured human gastric cancer BGC823 cells. The results found that the saponins and polysaccharides from Radix Ranunculi Ternati had certain effects on both the growth and colony formation of human gastric cancer BGC823 cells, while improving the immune function of normal mice, of which saponins had more significant effects than polysaccharides.

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

NASA Astrophysics Data System (ADS)

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

2015-12-01

Forest carbon processes are affected by soil moisture, soil temperature and solar radiation. Most of the current biogeochemical models are 1-D and represent one point in space. Therefore they can neither resolve topographically driven hill-slope soil moisture patterns, nor simulate the nonlinear effects of soil moisture on carbon processes. A spatially-distributed biogeochemistry model, Flux-PIHM-BGC, has been developed by coupling the Biome-BGC (BBGC) model with a coupled physically-based land surface hydrologic model, Flux-PIHM. Flux-PIHM incorporates a land-surface scheme (adapted from the Noah land surface model) into the Penn State Integrated Hydrologic Model (PIHM). 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. Flux-PIHM-BGC model was tested at the Susquehanna/Shale Hills critical zone observatory (SSHCZO). The abundant observations at the SSHCZO, including eddy covariance fluxes, soil moisture, groundwater level, sap flux, stream discharge, litterfall, leaf area index, aboveground carbon stock, and soil carbon efflux, provided an ideal test bed for the coupled model. Model results show that when uniform solar radiation is used, vegetation carbon and soil carbon are positively correlated with soil moisture in space, which agrees with the observations within the watershed. When topographically-driven solar radiation is used, however, the wetter valley floor becomes radiation limited, and produces less vegetation and soil carbon than the drier hillslope due to the assumption that canopy height is uniform in the watershed. This contradicts with the observations, and suggests that a tree height model with dynamic allocation model are needed to reproduce the spatial variation of carbon processes within a watershed.

Improved simulation of poorly drained forests using Biome-BGC.

PubMed

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.

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

NASA Astrophysics Data System (ADS)

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.

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

DOE PAGES

Bond-Lamberty, Benjamin; Fisk, Justin P.; Holm, Jennifer; ...

2015-01-27

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 Experimentmore » 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.« less

[Effect of Golgi α-mannosidase 2 (GM2) gene knockdown on adhesion abilities of human gastric carcinoma cell line BGC-823 and its mechanism].

PubMed

Zeng, Bo; Zeng, Zhen; Liu, Chang; Yang, Yaying

2017-06-01

Objective To investigate the effect of Golgi α-mannosidase II (GM2) gene knockdown on adhesion abilities of BGC-823 human gastric carcinoma cells. Methods Three plasmid vectors expressing GM2 shRNAs and a negative control plasmid vector were designed, constructed and then transfected into BGC-823 cells by Lipofectamine TM 2000. After transfection, the mRNA and protein levels of GM2 in BGC-823 cells were detected by real-time quantitative PCR (qRT-PCR) and Western blotting to evaluate the transfection efficacy. The best plasmid for GM2 gene knockdown was selected and stably transfected into BGC-823 cells. Adhesion abilities of BGC-823 cells after GM2 gene silencing were observed by cell-cell, cell-matrix and cell-endothelial cell adhesion assays. At the same time, the expressions of E-cadherin, P-selectin, CD44v6 and intercellular adhesion molecule-1 (ICAM-1) proteins were detected by Western blotting after GM2 gene knockdown. Results The expression of GM2 was effectively knockdown in GM2-shRNA-2-transfected BGC-823 cells. Compared with the blank control group and the negative control group, the intercellular adhesion ability of the GM2-shRNA-2-transfected cells increased significantly, while their cell-matrix and cell-endothelium adhesion abilities markedly decreased. In GM2-shRNA-2 transfection group, E-cadherin expression was significantly elevated and the P-selectin expression was significantly reduced, while the expression levels of CD44v6 and ICAM-1 were not obviously changed. Conclusion After GM2 gene knockdown, the intercellular adhesion ability of gastric carcinoma BGC-823 cells is enhanced, while the adhesion abilities with the extracellular matrix and endothelial cells are weakened. The changes might be related to the up-regulated expression of E-cadherin and the down-regulation of P-selectin.

Clinical and Angiographic Outcomes with the Combined Local Aspiration and Retriever in the North American Solitaire Stent-Retriever Acute Stroke (NASA) Registry.

PubMed

Malisch, Tim W; Zaidat, Osama O; Castonguay, Alicia C; Marden, Franklin A; Gupta, Rishi; Sun, Chung-Huan J; Martin, Coleman O; Holloway, William E; Mueller-Kronast, Nils; English, Joey; Linfante, Italo; Dabus, Guilherme; Bozorgchami, Hormozd; Xavier, Andrew; Rai, Ansaar T; Froehler, Michael; Badruddin, Aamir; Nguyen, Thanh N; Taqi, M Asif; Abraham, Michael G; Janardhan, Vallabh; Shaltoni, Hashem; Novakovic, Robin; Yoo, Albert J; Abou-Chebl, Alex; Chen, Peng Roc; Britz, Gavin W; Kaushal, Ritesh; Nanda, Ashish; Nogueira, Raul G

2018-02-01

Various techniques are used to enhance the results of mechanical thrombectomy with stent-retrievers, including proximal arrest with balloon guide catheter (BGC), conventional large bore proximal catheter (CGC), or in combination with local aspiration through a large-bore catheter positioned at the clot interface (Aspiration-Retriever Technique for Stroke [ARTS]). We evaluated the impact of ARTS in the North American Solitaire Acute Stroke (NASA) registry. Data on the use of the aspiration technique were available for 285 anterior circulation patients, of which 29 underwent ARTS technique, 131 CGC, and 125 BGC. Baseline demographics were comparable, except that ARTS patients are less likely to have hypertension or atrial fibrillation. The ARTS group had more ICA occlusions (41.4 vs. 22% in the BGC, p = 0.04 and 26% in CGC, p = 0.1) and less MCA/M1 occlusions (44.8 vs. 68% in BGC and 62% in CGC). Time from arterial puncture to reperfusion or end of procedure with ARTS was shorter than with CGC (54 vs. 91 min, p = 0.001) and was comparable to the BGC time (54 vs. 67, p = 0.11). Final degree of reperfusion was comparable among the groups (TICI [modified Thrombolysis in Cerebral Infarction] score 2b or higher was 72 vs. 70% for CGC vs. 78% for BGC). Procedural complications, mortality, and good clinical outcome at 90 days were similar between the groups. The ARTS mechanical thrombectomy in acute ischemic stroke patients appears to yield better results as compared to the use of CGCs with no significant difference when compared to BGC. This early ARTS technique NASA registry data are limited by the earlier generation distal large bore catheters and small sample size. Future studies should focus on the comparison of ARTS and BGC techniques.

Application of BIOME-BGC to Managed Forest Ecosystems in Europe

NASA Astrophysics Data System (ADS)

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

2007-05-01

European forests have been severely modified by humans resulting in a reduction of forest covered land area, a change in tree species distribution and the deterioration of forest soils. One option to assess forest management impacts on the cycling of carbon, nitrogen and water is the use of BGC-Models. Such models are considered as diagnostic tools for studying sustainability of forest ecosystems and have been used for climate change impact studies on forest growth and carbon sequestration issues. In our efforts to develop an appropriate diagnostic tool to assess the dynamics of carbon, nitrogen, water and energy flux for sustainable forest ecosystem management and climate change studies, we have selected BIOME-BGC. The main reason was that the general model structure is flexible enough to integrate large scale, regional as well as forest stand level information. During the last years we worked on the following extensions: (1) Tested and extended algorithms to interpolate daily climate input data as they are needed to run the model for any location within the country; (2) We developed a set of species specific parameters for all major tree species in Central Europe: Norway spruce (two variants highland and lowlands), Scots pine, Stone pine, larch, common beech and oak forests. These parameters sets are important since in BIOME-BGC vegetation is distinguished in biomes or plant functional types but the impacts of forest management (e.g. changes in stand density) may differ substantially among the tree species assigned to a single biome. (3) We extended the model to cover the full variation ranging from conditions including temperature extremes at the timberline to periodic ground water access or flooding in lowlands. (4) We adapted the spinup procedure to ensure unbiased predictions on forest status in the absence of past and present management impacts. (5) Explicitly addressed the effects of past and present forest management as they may differ by species and silvicultural practice. (6) We assess climate change impacts on managed forests and discuss the impacts of our results on forest management practices.

Nonlinear Interactions between Climate and Atmospheric Carbon Dioxide Drivers of Terrestrial and Marine Carbon Cycle Changes

NASA Astrophysics Data System (ADS)

Hoffman, F. M.; Randerson, J. T.; Moore, J. K.; Goulden, M.; Fu, W.; Koven, C.; Swann, A. L. S.; Mahowald, N. M.; Lindsay, K. T.; Munoz, E.

2017-12-01

Quantifying interactions between global biogeochemical cycles and the Earth system is important for predicting future atmospheric composition and informing energy policy. We applied a feedback analysis framework to three sets of Historical (1850-2005), Representative Concentration Pathway 8.5 (2006-2100), and its extension (2101-2300) simulations from the Community Earth System Model version 1.0 (CESM1(BGC)) to quantify drivers of terrestrial and ocean responses of carbon uptake. In the biogeochemically coupled simulation (BGC), the effects of CO2 fertilization and nitrogen deposition influenced marine and terrestrial carbon cycling. In the radiatively coupled simulation (RAD), the effects of rising temperature and circulation changes due to radiative forcing from CO2, other greenhouse gases, and aerosols were the sole drivers of carbon cycle changes. In the third, fully coupled simulation (FC), both the biogeochemical and radiative coupling effects acted simultaneously. We found that climate-carbon sensitivities derived from RAD simulations produced a net ocean carbon storage climate sensitivity that was weaker and a net land carbon storage climate sensitivity that was stronger than those diagnosed from the FC and BGC simulations. For the ocean, this nonlinearity was associated with warming-induced weakening of ocean circulation and mixing that limited exchange of dissolved inorganic carbon between surface and deeper water masses. For the land, this nonlinearity was associated with strong gains in gross primary production in the FC simulation, driven by enhancements in the hydrological cycle and increased nutrient availability. We developed and applied a nonlinearity metric to rank model responses and driver variables. The climate-carbon cycle feedback gain at 2300 was 42% higher when estimated from climate-carbon sensitivities derived from the difference between FC and BGC than when derived from RAD. We re-analyzed other CMIP5 model results to quantify the effects of such nonlinearities on their projected climate-carbon cycle feedback gains.

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

PubMed

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.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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).

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

NASA Technical Reports Server (NTRS)

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).

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

NASA Technical Reports Server (NTRS)

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.

Physics or Technology--or Both?

ERIC Educational Resources Information Center

Nicholl, Brian

1982-01-01

Discusses aims of educational projects sponsored by British Petroleum Company (BPC) and British Gas Corporation (BGC). Includes rationale for including technology in school curricula and types of curriculum materials produced by BPC and BGC. (SK)

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

NASA Technical Reports Server (NTRS)

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.

[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].

PubMed

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.

Accounting for age Structure in Ponderosa Pine Ecosystem Analyses: Integrating Management, Disturbance Histories and Observations with the BIOME-BGC Model

NASA Astrophysics Data System (ADS)

Hibbard, K. A.; Law, B.; Thornton, P.

2003-12-01

Disturbance and management regimes in forested ecosystems have been recently highlighted as important factors contributing to quantification of carbon stocks and fluxes. Disturbance events, such as stand-replacing fires and current management regimes that emphasize understory and tree thinning are primary suspects influencing ecosystem processes, including net ecosystem productivity (NEP) in forests of the Pacific Northwest. Several recent analyses have compared simulated to measured component stocks and fluxes of carbon in Ponderosa Pine (Pinus ponderosa var. Laws) at 12 sites ranging from 9 to 300 years in central Oregon (Law et al. 2001, Law et al. 2003) using the BIOME-BGC model. Major emphases on ecosystem model developments include improving allocation logic, integrating ecosystem processes with disturbance such as fire and including nitrogen in biogeochemical cycling. In Law et al. (2001, 2003), field observations prompted BIOME-BGC improvements including dynamic allocation of carbon to fine root mass through the life of a stand. A sequence of simulations was also designed to represent both management and disturbance histories for each site, however, current age structure of each sites wasn't addressed. Age structure, or cohort management has largely been ignored by ecosystem models, however, some studies have sought to incorporate stand age with disturbance and management (e.g. Hibbard et al. 2003). In this analyses, we regressed tree ages against height (R2 = 0.67) to develop a proportional distribution of age structure for each site. To preserve the integrity of the comparison between Law et al. (2003) and this study, we maintained the same timing of harvest, however, based on the distribution of age structures, we manipulated the amount of removal. Harvest by Law et al. (2003) was set at stand-replacement (99%) levels to simulate clear-cutting and reflecting the average top 10% of the age in each plot. For the young sites, we set removal at 73%, 51% and 61% for sites averaging 9,16 and 23 years, respectively. It was assumed that changes in long-term pools (e.g. soil C) were negligible within these timeframes. In Law et al. (2003), the model performed well for old and mature sites, however, model simulations of the younger sites (9-50Y) were weak compared to NEP estimates from observations. Error for the young plots in Law et al. (2003) ranged from 150 - >400% of observed NEP. By accounting for the observed age structure through harvest removal, model error from this study ranged from 20-90% in young plots. This study is one of a few that have sought to account for age structure in simulating ecosystem dynamics and processes.

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).

PubMed

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 influences NPP. In TEM, the NPP response to doubled CO 2 is controlled by increased carboxylation which is modified by canopy conductance and the degree to which nitrogen constraints cause down-regulation of photosynthesis. The implementation of these different mechanisms has consequences for the spatial pattern of NPP responses, and represents, in part, conceptual uncertainty about controls over NPP responses. Progress in reducing these uncertainties requires research focused at the ecosystem level to understand how interactions between the carbon, nitrogen, and water cycles influence the response of NPP to elevated atmospheric CO 2 .

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)

USGS Publications Warehouse

Pan, Y.; Melillo, J.M.; McGuire, A.D.; Kicklighter, D.W.; Pitelka, Louis F.; Hibbard, K.; Pierce, L.L.; Running, S.W.; Ojima, D.S.; Parton, W.J.; Schimel, D.S.; Borchers, J.; Neilson, R.; Fisher, H.H.; Kittel, T.G.F.; Rossenbloom, N.A.; Fox, S.; Haxeltine, A.; Prentice, I.C.; Sitch, S.; Janetos, A.; McKeown, R.; Nemani, R.; Painter, T.; Rizzo, B.; Smith, T.; Woodward, F.I.

1998-01-01

Although there is a great deal of information concerning responses to increases in atmospheric CO2 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 CO2 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 CO2. In this study, we analyze the responses of net primary production (NPP) to doubled CO2 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 CO2 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 CO2 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 CO2 for all three models. In contrast, there are different relationships between temperature and the response of NPP to doubled CO2 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 CO2 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 CO2 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 influences NPP. In TEM, the NPP response to doubled CO2 is controlled by increased carboxylation which is modified by canopy conductance and the degree to which nitrogen constraints cause down-regulation of photosynthesis. The implementation of these different mechanisms has consequences for the spatial pattern of NPP responses, and represents, in part, conceptual uncertainty about controls over NPP responses. Progress in reducing these uncertainties requires research focused at the ecosystem level to understand how interactions between the carbon, nitrogen, and water cycles influence the response of NPP to elevated atmospheric CO2.

Comparative metagenomic analysis of microcosm structures and lignocellulolytic enzyme systems of symbiotic biomass-degrading consortia.

PubMed

Wongwilaiwalin, Sarunyou; Laothanachareon, Thanaporn; Mhuantong, Wuttichai; Tangphatsornruang, Sithichoke; Eurwilaichitr, Lily; Igarashi, Yasuo; Champreda, Verawat

2013-10-01

Decomposition of lignocelluloses by cooperative microbial actions is an essential process of carbon cycling in nature and provides a basis for biomass conversion to fuels and chemicals in biorefineries. In this study, structurally stable symbiotic aero-tolerant lignocellulose-degrading microbial consortia were obtained from biodiversified microflora present in industrial sugarcane bagasse pile (BGC-1), cow rumen fluid (CRC-1), and pulp mill activated sludge (ASC-1) by successive subcultivation on rice straw under facultative anoxic conditions. Tagged 16S rRNA gene pyrosequencing revealed that all isolated consortia originated from highly diverse environmental microflora shared similar composite phylum profiles comprising mainly Firmicutes, reflecting convergent adaptation of microcosm structures, however, with substantial differences at refined genus level. BGC-1 comprising cellulolytic Clostridium and Acetanaerobacterium in stable coexistence with ligninolytic Ureibacillus showed the highest capability on degradation of agricultural residues and industrial pulp waste with CMCase, xylanase, and β-glucanase activities in the supernatant. Shotgun pyrosequencing of the BGC-1 metagenome indicated a markedly high relative abundance of genes encoding for glycosyl hydrolases, particularly for lignocellulytic enzymes in 26 families. The enzyme system comprised a unique composition of main-chain degrading and side-chain processing hydrolases, dominated by GH2, 3, 5, 9, 10, and 43, reflecting adaptation of enzyme profiles to the specific substrate. Gene mapping showed metabolic potential of BGC-1 for conversion of biomass sugars to various fermentation products of industrial importance. The symbiotic consortium is a promising simplified model for study of multispecies mechanisms on consolidated bioprocessing and a platform for discovering efficient synergistic enzyme systems for biotechnological application.

Evolutionary Stasis in Cycad Plastomes and the First Case of Plastome GC-Biased Gene Conversion

PubMed Central

Wu, Chung-Shien; Chaw, Shu-Miaw

2015-01-01

In angiosperms, gene conversion has been known to reduce the mutational load of plastid genomes (the plastomes). Particularly, more frequent gene conversions in inverted repeat (IR) than in single copy (SC) regions result in contrasting substitution rates between these two regions. However, little has been known about the effect of gene conversion in the evolution of gymnosperm plastomes. Cycads (Cycadophyta) are the second largest gymnosperm group. Evolutionary study of their plastomes is limited to the basal cycad genus, Cycas. In this study, we addressed three questions. 1) Do the plastomes of other cycad genera evolve slowly as previously observed in the plastome of Cycas taitungensis? 2) Do substitution rates differ between their SC and IR regions? And 3) Does gene conversion occur in the cycad plastomes? If yes, is it AT-biased or GC-biased? Plastomes of eight species from other eight genera of cycads were sequenced. These plastomes are highly conserved in genome organization. Excluding ginkgo, cycad plastomes have significantly lower synonymous and nonsynonymous substitution rates than other gymnosperms, reflecting their evolutionary stasis in nucleotide mutations. In the IRs of cycad plastomes, the reduced substitution rates and GC-biased mutations are associated with a GC-biased gene conversion (gBGC) mechanism. Further investigations suggest that in cycads, gBGC is able to rectify plastome-wide mutations. Therefore, this study is the first to uncover the plastomic gBGC in seed plants. We also propose a gBGC model to interpret the dissimilar evolutionary patterns as well as the compositionally biased mutations in the SC and IR regions of cycad plastomes. PMID:26116919

The 1000 Brightest HIPASS Galaxies: H I Properties

NASA Astrophysics Data System (ADS)

Koribalski, B. S.; Staveley-Smith, L.; Kilborn, V. A.; Ryder, S. D.; Kraan-Korteweg, R. C.; Ryan-Weber, E. V.; Ekers, R. D.; Jerjen, H.; Henning, P. A.; Putman, M. E.; Zwaan, M. A.; de Blok, W. J. G.; Calabretta, M. R.; Disney, M. J.; Minchin, R. F.; Bhathal, R.; Boyce, P. J.; Drinkwater, M. J.; Freeman, K. C.; Gibson, B. K.; Green, A. J.; Haynes, R. F.; Juraszek, S.; Kesteven, M. J.; Knezek, P. M.; Mader, S.; Marquarding, M.; Meyer, M.; Mould, J. R.; Oosterloo, T.; O'Brien, J.; Price, R. M.; Sadler, E. M.; Schröder, A.; Stewart, I. M.; Stootman, F.; Waugh, M.; Warren, B. E.; Webster, R. L.; Wright, A. E.

2004-07-01

We present the HIPASS Bright Galaxy Catalog (BGC), which contains the 1000 H I brightest galaxies in the southern sky as obtained from the H I Parkes All-Sky Survey (HIPASS). The selection of the brightest sources is based on their H I peak flux density (Speak>~116 mJy) as measured from the spatially integrated HIPASS spectrum. The derived H I masses range from ~107 to 4×1010 Msolar. While the BGC (z<0.03) is complete in Speak, only a subset of ~500 sources can be considered complete in integrated H I flux density (FHI>~25 Jy km s-1). The HIPASS BGC contains a total of 158 new redshifts. These belong to 91 new sources for which no optical or infrared counterparts have previously been cataloged, an additional 51 galaxies for which no redshifts were previously known, and 16 galaxies for which the cataloged optical velocities disagree. Of the 91 newly cataloged BGC sources, only four are definite H I clouds: while three are likely Magellanic debris with velocities around 400 km s-1, one is a tidal cloud associated with the NGC 2442 galaxy group. The remaining 87 new BGC sources, the majority of which lie in the zone of avoidance, appear to be galaxies. We identified optical counterparts to all but one of the 30 new galaxies at Galactic latitudes |b|>10deg. Therefore, the BGC yields no evidence for a population of ``free-floating'' intergalactic H I clouds without associated optical counterparts. HIPASS provides a clear view of the local large-scale structure. The dominant features in the sky distribution of the BGC are the Supergalactic Plane and the Local Void. In addition, one can clearly see the Centaurus Wall, which connects via the Hydra and Antlia Clusters to the Puppis Filament. Some previously hardly noticable galaxy groups stand out quite distinctly in the H I sky distribution. Several new structures, including some not behind the Milky Way, are seen for the first time.

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

MacDonald, Lawrence R.; Wang, Carolyn L.; Eissa, Marna

2012-10-15

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 scoremore » 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.« less

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

PubMed

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.

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

NASA Astrophysics Data System (ADS)

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.

Ecophysiological parameters for Pacific Northwest trees.

Treesearch

Amy E. Hessl; Cristina Milesi; Michael A. White; David L. Peterson; Robert E. Keane

2004-01-01

We developed a species- and location-specific database of published ecophysiological variables typically used as input parameters for biogeochemical models of coniferous and deciduous forested ecosystems in the Western United States. Parameters are based on the requirements of Biome-BGC, a widely used biogeochemical model that was originally parameterized for the...

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

PubMed

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.

A BiomeBGC-based Evaluation of Dryness Stress of Central European Forests

NASA Astrophysics Data System (ADS)

Buddenbaum, H.; Hientgen, J.; Dotzler, S.; Werner, W.; Hill, J.

2015-04-01

Dryness stress is expected to become a more common problem in central European forests due to the predicted regional climate change. Forest management has to adapt to climate change in time and think ahead several decades in decisions on which tree species to plant at which locations. The summer of 2003 was the most severe dryness event in recent time, but more periods like this are expected. Since forests on different sites react quite differently to drought conditions, we used the process-based growth model BiomeBGC and climate time series from sites all over Germany to simulate the reaction of deciduous and coniferous tree stands in different characteristics of drought stress. Times with exceptionally high values of water vapour pressure deficit coincided with negative modelled values of net primary production (NPP). In addition, in these warmest periods the usually positive relationship between temperature and NPP was inversed, i.e., under stress conditions, more sunlight does not lead to more photosynthesis but to stomatal closure and reduced productivity. Thus we took negative NPP as an indicator for drought stress. In most regions, 2003 was the year with the most intense stress, but the results were quite variable regionally. We used the Modis MOD17 gross and net primary production product time series and MOD12 land cover classification to validate the spatial patterns observed in the model runs and found good agreement between modelled and observed behaviour. Thus, BiomeBGC simulations with realistic site parameterization and climate data in combination with species- and variety-specific ecophysiological constants can be used to assist in decisions on which trees to plant on a given site.

Geochemistry of Archean metasedimentary rocks of the Aravalli craton, NW India: Implications for provenance, paleoweathering and supercontinent reconstruction

NASA Astrophysics Data System (ADS)

Ahmad, Iftikhar; Mondal, M. E. A.; Satyanarayanan, M.

2016-08-01

Basement complex of the Aravalli craton (NW India) known as the Banded Gneissic Complex (BGC) is classified into two domains viz. Archean BGC-I and Proterozoic BGC-II. We present first comprehensive geochemical study of the Archean metasedimentary rocks occurring within the BGC-I. These rocks occur associated with intrusive amphibolites in a linear belt within the basement gneisses. The association is only concentrated on the western margin of the BGC-I. The samples are highly mature (MSm) to very immature (MSi), along with highly variable geochemistry. Their major (SiO2/Al2O3, Na2O/K2O and Al2O3/TiO2) and trace (Th/Sc, Cr/Th, Th/Co, La/Sc, Zr/Sc) element ratios, and rare earth element (REE) patterns are consistent with derivation of detritus from the basement gneisses and its mafic enclaves, with major contribution from the former. Variable mixing between the two end members and closed system recycling (cannibalism) resulted in the compositional heterogeneity. Chemical index of alteration (CIA) of the samples indicate low to moderate weathering of the source terrain in a sub-tropical environment. In A-CN-K ternary diagram, some samples deceptively appear to have undergone post-depositional K-metasomatism. Nevertheless, their petrography and geochemistry (low K2O and Rb) preclude the post-depositional alteration. We propose non-preferential leaching of elements during cannibalism as the cause of the deceptive K-metasomatism as well as enigmatic low CIA values of some highly mature samples. The Archean metasedimentary rocks were deposited on stable basement gneisses, making the BGC-I a plausible participant in the Archean Ur supercontinent.

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

NASA Astrophysics Data System (ADS)

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.

Evolutionary Stasis in Cycad Plastomes and the First Case of Plastome GC-Biased Gene Conversion.

PubMed

Wu, Chung-Shien; Chaw, Shu-Miaw

2015-06-27

In angiosperms, gene conversion has been known to reduce the mutational load of plastid genomes (the plastomes). Particularly, more frequent gene conversions in inverted repeat (IR) than in single copy (SC) regions result in contrasting substitution rates between these two regions. However, little has been known about the effect of gene conversion in the evolution of gymnosperm plastomes. Cycads (Cycadophyta) are the second largest gymnosperm group. Evolutionary study of their plastomes is limited to the basal cycad genus, Cycas. In this study, we addressed three questions. 1) Do the plastomes of other cycad genera evolve slowly as previously observed in the plastome of Cycas taitungensis? 2) Do substitution rates differ between their SC and IR regions? And 3) Does gene conversion occur in the cycad plastomes? If yes, is it AT-biased or GC-biased? Plastomes of eight species from other eight genera of cycads were sequenced. These plastomes are highly conserved in genome organization. Excluding ginkgo, cycad plastomes have significantly lower synonymous and nonsynonymous substitution rates than other gymnosperms, reflecting their evolutionary stasis in nucleotide mutations. In the IRs of cycad plastomes, the reduced substitution rates and GC-biased mutations are associated with a GC-biased gene conversion (gBGC) mechanism. Further investigations suggest that in cycads, gBGC is able to rectify plastome-wide mutations. Therefore, this study is the first to uncover the plastomic gBGC in seed plants. We also propose a gBGC model to interpret the dissimilar evolutionary patterns as well as the compositionally biased mutations in the SC and IR regions of cycad plastomes. © The Author(s) 2015. Published by Oxford University Press on behalf of the Society for Molecular Biology and Evolution.

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

NASA Astrophysics Data System (ADS)

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 model does not consider any vertical structure, and the extrapolation of leaf scale is the scale of the ecosystem, which is accomplished by using leaf area index to variable on a temporal resolution of a day. Carbon allocation is computed by complex interactions between multiples carbon pools. Therefore the results obtained in modeling, it was possible to verify the applicability of the two models 3PG and Biome-BGC in estimate of NPP to eucalyptus energy forest in a Brazilian cerrado region, having a strong correlation to the sixth year of forest growth between the two models. The study also revealed that have input parameters in models that need to be measured with a good accuracy, because in function of these parameters, the NPP variation is very large. Finally the study revealed the importance of confronting the data obtained by 3PG and Biome-BGC with experimental data to improve performance modeled-based estimation.

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

NASA Astrophysics Data System (ADS)

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).

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

NASA Astrophysics Data System (ADS)

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 will result in improved GPP predictions. Although there might be a room for improvements in our model outcomes through improved parameterization, our results suggest that such a methodology for running BIOME-BGC model based entirely on routinely available data can produce good predictions of GPP.

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

NASA Astrophysics Data System (ADS)

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.

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

Treesearch

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...

Developing Critical Loads of acidity for streams in the Great Smoky Mountains National Park, using PnET-BGC model

NASA Astrophysics Data System (ADS)

Fakhraei, H.

2015-12-01

Acid deposition has impaired acid-sensitive streams and reduced aquatic biotic integrity in Great Smoky Mountains National Park (GRSM) by decreasing pH and acid neutralizing capacity (ANC). Twelve streams in GRSM are listed by the state of Tennessee as impaired due to low stream pH (pH<6.0) under Section 303(d) of the Clean Water Act. A dynamic biogeochemical model, PnET-BGC, was used to evaluate past, current and potential future changes in soil and water chemistry of watersheds of GRSM in response to changes in acid deposition. Calibrating 30 stream-watersheds in GRSM (including 12 listed impaired streams) to the long-term stream chemistry observations, the model was parameterized for the Park. The calibrated model was used to evaluate the level of atmospheric deposition above which harmful effects occur, known as "critical loads", for individual study watersheds. Estimated critical loads and exceedances (levels of deposition above the critical load) of atmospheric sulfur and nitrogen deposition were depicted through geographic information system maps. Accuracy of model simulations in the presence of uncertainties in the estimated model parameters and inputs was assessed using three uncertainty and sensitivity techniques.

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

NASA Astrophysics Data System (ADS)

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 consideration of a unique input of water in the system in addition to the poor estimation of the water storage leading to a wrong assessment of the water fluxes in the páramo ecosystem. A further development of the BIOME-BGC is needed to be applicable in the spatio-temporal analysis of the páramo vegetation in the region that can potentially assess the changes in the terrestrial ecosystem due to variations in the climatic drivers.

Interleukin-23 promotes the migration and invasion of gastric cancer cells by inducing epithelial-to-mesenchymal transition via the STAT3 pathway.

PubMed

Xu, Xianhui; Yang, Changdong; Chen, Jun; Liu, Junyan; Li, Ping'ang; Shi, Yan; Yu, Peiwu

2018-05-05

Chronic inflammation is associated with all stages of cancer development. Moreover, a proinflammatory microenvironment resulted from chronic inflammation is considered to be an essential component of cancer. Interleukin-23 (IL-23) is a general proinflammatory factor; and is involved in tumor-associated inflammation in gastric cancer (GC). However, the direct effect of IL-23 on GC cells has been rarely reported. The aim of the study was to clarify the direct role of IL-23 in regulating GC progression, and to identify the underlying mechanism. In this study, Positive expression of IL-23R was observed in GC tissues and cell lines by using immunohistochemistry or immunofluorescence. In western blots, the expression of IL-23R was higher in GC tissues compared with adjacent normal tissues. Furthermore, IL-23R positive GC tissues were closely related with larger tumor size and worse T stage and clinical stage. By performing in vitro experiments, we found that IL-23 binding to its receptor promoted the migration and invasion of BGC-823 cells in vitro. Moreover, IL-23 induced the activation of STAT3 and epithelial-to-mesenchymal transition (EMT) in BGC-823 cells. Knocking down STAT3 in BGC-823 cells attenuated the effect of IL-23 on EMT and cell migration and invasion. Taken together, our study has firstly demonstrated the positive expression of IL-23R in human GC tissues and cell lines. IL-23 binding to its receptor promotes the migration and invasion of GC cells by inducing EMT through the STAT3 signaling pathway. This work provides a new mechanism for the oncogenic role of IL-23 on GC progression. Copyright © 2018. Published by Elsevier Inc.

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

NASA Astrophysics Data System (ADS)

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 (≤20yr). The WUE was also found directly proportional to the elevation. A positive correlation between annual outflow and the WUE could be shown. Yearly outflow predictions for the whole catchment for the years 1981-2005 showed no significant difference from the measurements. Key words: protection forests, outflow, flux dynamics, BGC-Modelling

Resilience landscapes for Congo basin rainforests vs. climate and management impacts

NASA Astrophysics Data System (ADS)

Pietsch, Stephan Alexander; Gautam, Sishir; Elias Bednar, Johannes; Stanzl, Patrick; Mosnier, Aline; Obersteiner, Michael

2015-04-01

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, and construct resilience landscapes for current day conditions vs. climate and management impacts.

Hysteresis in the Central African Rainforest

NASA Astrophysics Data System (ADS)

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.

Modeling carbon dynamics and social drivers of bioenergy agroecosystems

NASA Astrophysics Data System (ADS)

Hunt, Natalie D.

Meeting society's energy needs through bioenergy feedstock production presents a significant and urgent challenge, as it can aid in achieving energy independence goals and mitigating climate change. With federal biofuel production standards to be met within the next decade, and with no commercial scale production or markets currently in place, many questions regarding the sustainability and social feasibility of bioenergy still persist. Clarifying these uncertainties requires the incorporation of biogeochemical, biophysical, and socioeconomic modeling tools. Chapter 2 validated the biogeochemical cycling model AGRO-BGC by comparing model estimates with empirical observations from corn and perennial C4 grass systems across Wisconsin and Illinois. AGRO-BGC, in its first application to an annual cropping system, was found to be a robust model for simulating carbon dynamics of an annual cropping system. Chapter 3 investigated the long-term implications of bioenergy feedstock harvest on soil productivity and erosion in annual corn and perennial switchgrass agroecosystems using AGRO-BGC and the soil erosion model RUSLE2. Modeling environments included biophysical landscape characteristics and management practices of bioenergy feedstock production systems. This study found that intensifying aboveground residue harvest reduces soil productivity over time, and the magnitude of these losses is greater in corn than in switchgrass systems. Results of this study will aid in the design of sustainable bioenergy feedstock management practices. Chapter 4 provided evidence that combining biophysical crop canopy characteristics with satellite-derived vegetation indices offers suitable estimates of crop canopy phenology for corn and soybeans in Southwest Wisconsin farms. LANDSAT based vegetation indices, when combined with a light use efficiency model, provide yield estimates in agreement with farmer reports, providing an efficient and accurate means of estimating crop yields from satellite data. The most important stakeholder in bioenergy sustainability and feasibility research is the farmer. Chapter 5 identified and measured the influence of bioenergy feedstock choice drivers using logistic regression choice models constructed from survey and geospatial data. The strongest choice drivers among farmers willing to participate in a proposed bioenergy feedstock production program included socioeconomic, biophysical, and environmental attitudes. Outcomes of this research will be useful in designing further bioenergy policy and economic incentives.

Use of remote-sensing reflectance to constrain a data assimilating marine biogeochemical model of the Great Barrier Reef

NASA Astrophysics Data System (ADS)

Jones, Emlyn M.; Baird, Mark E.; Mongin, Mathieu; Parslow, John; Skerratt, Jenny; Lovell, Jenny; Margvelashvili, Nugzar; Matear, Richard J.; Wild-Allen, Karen; Robson, Barbara; Rizwi, Farhan; Oke, Peter; King, Edward; Schroeder, Thomas; Steven, Andy; Taylor, John

2016-12-01

Skillful marine biogeochemical (BGC) models are required to understand a range of coastal and global phenomena such as changes in nitrogen and carbon cycles. The refinement of BGC models through the assimilation of variables calculated from observed in-water inherent optical properties (IOPs), such as phytoplankton absorption, is problematic. Empirically derived relationships between IOPs and variables such as chlorophyll-a concentration (Chl a), total suspended solids (TSS) and coloured dissolved organic matter (CDOM) have been shown to have errors that can exceed 100 % of the observed quantity. These errors are greatest in shallow coastal regions, such as the Great Barrier Reef (GBR), due to the additional signal from bottom reflectance. Rather than assimilate quantities calculated using IOP algorithms, this study demonstrates the advantages of assimilating quantities calculated directly from the less error-prone satellite remote-sensing reflectance (RSR). To assimilate the observed RSR, we use an in-water optical model to produce an equivalent simulated RSR and calculate the mismatch between the observed and simulated quantities to constrain the BGC model with a deterministic ensemble Kalman filter (DEnKF). The traditional assumption that simulated surface Chl a is equivalent to the remotely sensed OC3M estimate of Chl a resulted in a forecast error of approximately 75 %. We show this error can be halved by instead using simulated RSR to constrain the model via the assimilation system. When the analysis and forecast fields from the RSR-based assimilation system are compared with the non-assimilating model, a comparison against independent in situ observations of Chl a, TSS and dissolved inorganic nutrients (NO3, NH4 and DIP) showed that errors are reduced by up to 90 %. In all cases, the assimilation system improves the simulation compared to the non-assimilating model. Our approach allows for the incorporation of vast quantities of remote-sensing observations that have in the past been discarded due to shallow water and/or artefacts introduced by terrestrially derived TSS and CDOM or the lack of a calibrated regional IOP algorithm.

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

NASA Astrophysics Data System (ADS)

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.

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

PubMed

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.

ASPEN simulation of a fixed-bed integrated gasification combined-cycle power plant

DOE Office of Scientific and Technical Information (OSTI.GOV)

Stone, K.R.

1986-03-01

A fixed-bed integrated gasification combined-cycle (IGCC) power plant has been modeled using the Advanced System for Process ENgineering (ASPEN). The ASPEN simulation is based on a conceptual design of a 509-MW IGCC power plant that uses British Gas Corporation (BGC)/Lurgi slagging gasifiers and the Lurgi acid gas removal process. The 39.3-percent thermal efficiency of the plant that was calculated by the simulation compares very favorably with the 39.4 percent that was reported by EPRI. The simulation addresses only thermal performance and does not calculate capital cost or process economics. Portions of the BGC-IGCC simulation flowsheet are based on the SLAGGERmore » fixed-bed gasifier model (Stefano May 1985), and the Kellogg-Rust-Westinghouse (KRW) iGCC, and the Texaco-IGCC simulations (Stone July 1985) that were developed at the Department of Energy (DOE), Morgantown Energy Technology Center (METC). The simulation runs in 32 minutes of Central Processing Unit (CPU) time on the VAX-11/780. The BGC-IGCC simulation was developed to give accurate mass and energy balances and to track coal tars and environmental species such as SO/sub x/ and NO/sub x/ for a fixed-bed, coal-to-electricity system. This simulation is the third in a series of three IGCC simulations that represent fluidized-bed, entrained-flow, and fixed-bed gasification processes. Alternate process configurations can be considered by adding, deleting, or rearranging unit operation blocks. The gasifier model is semipredictive; it can properly respond to a limited range of coal types and gasifier operating conditions. However, some models in the flowsheet are based on correlations that were derived from the EPRI study, and are therefore limited to coal types and operating conditions that are reasonably close to those given in the EPRI design. 4 refs., 7 figs., 2 tabs.« less

Simulating the Dependence of Aspen on Redistributed Snow

NASA Astrophysics Data System (ADS)

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 of drought stress occurring in stands located along a precipitation phase gradient. These results further emphasize the importance of redistributed snow in heterogeneous landscapes along with the need to account for temporal shifts in water resource availability when assessing ecosystem vulnerability to climate change.

Photoacoustic measurement for glucose solution concentration based on tunable pulsed laser induced ultrasound

NASA Astrophysics Data System (ADS)

Ren, Zhong; Liu, Guodong; Huang, Zhen; Zhao, Dengji

2012-12-01

Noninvasive measurement of blood glucose concentration (BGC) has become a research hotspot. BGC measurement based on photoacoustic spectroscopy (PAS) was employed to detect the photoacoustic (PA) signal of blood glucose due to the advantages of avoiding the disturbance of optical scattering. In this paper, a set of custom-built BGC measurement system based on tunable optical parametric oscillator (OPO) pulsed laser and ultrasonic transducer was established to test the PA response effect of the glucose solution. In the experiments, we successfully acquired the time resolved PA signals of distilled water and glucose aqueous solution, and the PA peak-to-peak values(PPV) were gotten under the condition of excitated pulsed laser with changed wavelength from 1340nm to 2200nm by increasing interval of 10nm, the optimal characteristic wavelengths of distilled water and glucose solution were determined. Finally, to get the concentration prediction error, we used the linear fitting of ordinary least square (OLS) algorithm to fit the PPV of 1510nm, and we got the predicted concentration error was about 0.69mmol/L via the fitted linear equation. So, this system and scheme have some values in the research of noninvasive BGC measurement.

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

NASA Technical Reports Server (NTRS)

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 studies should be used to guide the deployment pattern and schedule for inversion studies as well. Synthesis and integration of previously funded Arctic-Boreal projects (e.g., ABLE, BOREAS, ICESCAPE, ICEBRIDGE, ARCTAS) should also be undertaken. Such an effort would include the integration of multiple remotely sensed products from the EOS satellites and other resources.

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

Treesearch

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...

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

NASA Astrophysics Data System (ADS)

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).

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

PubMed

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.

Techno-economic assessment of the Mobil Two-Stage Slurry Fischer-Tropsch/ZSM-5 process

DOE Office of Scientific and Technical Information (OSTI.GOV)

El Sawy, A.; Gray, D.; Neuworth, M.

1984-11-01

A techno-economic assessment of the Mobil Two-Stage Slurry Fischer-Tropsch reactor system was carried out. Mobil bench-scale data were evaluated and scaled to a commercial plant design that produced specification high-octane gasoline and high-cetane diesel fuel. Comparisons were made with three reference plants - a SASOL (US) plant using dry ash Lurgi gasifiers and Synthol synthesis units, a modified SASOL plant with a British Gas Corporation slagging Lurgi gasifier (BGC/Synthol) and a BGC/slurry-phase process based on scaled data from the Koelbel Rheinpreussen-Koppers plant. A conceptual commercial version of the Mobil two-stage process shows a higher process efficiency than a SASOL (US)more » and a BGC/Synthol plant. The Mobil plant gave lower gasoline costs than obtained from the SASOL (US) and BGC/Synthol versions. Comparison with published data from a slurry-phase Fischer-Tropsch (Koelbel) unit indicated that product costs from the Mobil process were within 6% of the Koelbel values. A high-wax version of the Mobil process combined with wax hydrocracking could produce gasoline and diesel fuel at comparable cost to the lowest values achieved from prior published slurry-phase results. 27 references, 18 figures, 49 tables.« less

SIGMA: A Knowledge-Based Simulation Tool Applied to Ecosystem Modeling

NASA Technical Reports Server (NTRS)

Dungan, Jennifer L.; Keller, Richard; Lawless, James G. (Technical Monitor)

1994-01-01

The need for better technology to facilitate building, sharing and reusing models is generally recognized within the ecosystem modeling community. The Scientists' Intelligent Graphical Modelling Assistant (SIGMA) creates an environment for model building, sharing and reuse which provides an alternative to more conventional approaches which too often yield poorly documented, awkwardly structured model code. The SIGMA interface presents the user a list of model quantities which can be selected for computation. Equations to calculate the model quantities may be chosen from an existing library of ecosystem modeling equations, or built using a specialized equation editor. Inputs for dim equations may be supplied by data or by calculation from other equations. Each variable and equation is expressed using ecological terminology and scientific units, and is documented with explanatory descriptions and optional literature citations. Automatic scientific unit conversion is supported and only physically-consistent equations are accepted by the system. The system uses knowledge-based semantic conditions to decide which equations in its library make sense to apply in a given situation, and supplies these to the user for selection. "Me equations and variables are graphically represented as a flow diagram which provides a complete summary of the model. Forest-BGC, a stand-level model that simulates photosynthesis and evapo-transpiration for conifer canopies, was originally implemented in Fortran and subsequenty re-implemented using SIGMA. The SIGMA version reproduces daily results and also provides a knowledge base which greatly facilitates inspection, modification and extension of Forest-BGC.

A Spectral Evaluation of Models Performances in Mediterranean Oak Woodlands

NASA Astrophysics Data System (ADS)

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.

Influence of diazepam on blood glucose levels in nondiabetic and non-insulin-dependent diabetic subjects under dental treatment with local anesthesia.

PubMed Central

Schaira, Vanessa Rocha Lima; Ranali, José; Saad, Mário José Abdalla; de Oliveira, Patrícia Cristine; Ambrosano, Glaúcia Maria Bovi; Volpato, Maria Cristina

2004-01-01

The effect of diazepam on blood glucose concentration (BGC) was investigated in a double-blind cross-over study in 10 healthy and 10 non-insulin-dependent diabetic subjects taking oral hypoglycemic drugs. In the first session, fasting blood samples were taken for blood glucose and glycosylated hemoglobin estimation and at 60, 80, 95, 125, and 155 minutes thereafter for glucose estimation. In another 2 sessions, a venous sample was taken immediately before premedication (5 mg diazepam or placebo randomly given during breakfast). One hour later a blood sample was taken, and the volunteers were submitted to periodontal treatment after injection of 1.8 mL of 2% mepivacaine with 1:100,000 adrenaline. Venous blood samples were taken at 15, 30, 60, and 90 minutes after injection. The changes in BGC were analyzed using analysis of variance (ANOVA) for repeated measures; the means were compared using Tukey test (P = .05). Statistically significant differences in the BGC were observed between diabetic and nondiabetic groups (P = .00003). However, there were no significant differences among the sessions of the same group (P = .29). The results of this study show that a single dose of 5 mg diazepam before dental treatment does not influence BGC in nondiabetic and non-insulin-dependent diabetic subjects. PMID:15106685

The PRISM project

NASA Astrophysics Data System (ADS)

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

Phenology of forest-grassland transition zones in the Community Land Model

NASA Astrophysics Data System (ADS)

Dahlin, K.; Fisher, R. A.

2013-12-01

Forest-grassland transition zones (savannas, woodlands, wooded grasslands, and shrublands) are highly sensitive to climate and may already be changing due to warming, changes in precipitation patterns, and/or CO2 fertilization. Shifts between closed canopy forest and open grassland, as well as shifts in phenology, could have large impacts on the global carbon cycle, water balance, albedo, and on the humans and other animals that depend on these regions. From an earth system perspective these impacts may then feed back into the climate system and impact how, when, and where climate change occurs. Here we compare 29 years of monthly leaf area index (LAI) outputs from several offline versions of the Community Land Model (CLM), the land component of the Community Earth System Model, to LAI derived from the AVHRR NDVI3g product (LAI3g). Specifically, we focus on seasonal patterns in regions dominated by tropical broadleaved deciduous trees (T-BDT), broadleaved deciduous shrubs (BDS) and grasslands (C3 and C4) in CLM, all of which follow a 'stress deciduous' phenological algorithm. We consider and compare two versions of CLM (v. 4CN and v. 4.5BGC) to the satellite derived product. We found that both versions of CLM were able to capture seasonal variations in grasslands relatively well at the regional scale, but that the 'stress deciduous' phenology algorithm did not perform well in areas dominated by T-BDT or BDS. When we compared the performance of the models at single points we found slight improvements in CLM4.5BGC over CLM4CN, but generally that the magnitude of seasonality was too low in CLM as compared to the LAI3g satellite product. To explore the parameters within CLM that had the most leverage on seasonality of LAI, we used a Latin hypercube approach to vary values for critical soil water potential (threshold at which plants drop leaves), the critical number of days that soil water potential must be too low for leaves to drop, and the carbon allocation scheme. In single-point simulations we found that changing how carbon is allocated improved the 'flat-topped' nature of the CLM LAI during summer, which is not present in LAI3g, while adjustments to the soil water potential parameters allowed for less extreme and fewer switches between leaf-on and leaf-off. Future work will include applying a subset of the new parameter values to global runs of the model to assess whether the improvements to phenology at single points improve global phenological patterns and/or other components of the CLM carbon cycle.

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

PubMed Central

Ogawa, Diogo M. O.; Moriya, Shigeharu; Tsuboi, Yuuri; Date, Yasuhiro; Prieto-da-Silva, Álvaro R. B.; Rádis-Baptista, Gandhi; Yamane, Tetsuo; Kikuchi, Jun

2014-01-01

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 the BGC typing is a successful technique for elucidating the sub-systems of organismal communities with associated chemical profiles in complex ecosystems. PMID:25330259

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.

PubMed

Ogawa, Diogo M O; Moriya, Shigeharu; Tsuboi, Yuuri; Date, Yasuhiro; Prieto-da-Silva, Álvaro R B; Rádis-Baptista, Gandhi; Yamane, Tetsuo; Kikuchi, Jun

2014-01-01

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 the BGC typing is a successful technique for elucidating the sub-systems of organismal communities with associated chemical profiles in complex ecosystems.

Overexpression of Lin28 inhibits the proliferation, migration and cell cycle progression and induces apoptosis of BGC-823 gastric cancer cells.

PubMed

Song, Hu; Xu, Wei; Song, Jun; Liang, Yong; Fu, Wei; Zhu, Xiao-Cheng; Li, Chao; Peng, Jun-Sheng; Zheng, Jun-Nian

2015-02-01

Lin28 plays important roles in the development, maintenance of pluripotency and progression of various types of cancers. Lin28 represses the biogenesis of let-7 microRNAs and is implicated in both development and tumorigenesis. Oncogenic regulation of let-7 microRNAs has been demonstrated in several human malignancies, yet their correlation with Lin28 has not yet been studied in gastric cancer. Therefore, in the present study, we explored the possible mechanisms involved in the effects by Lin28 on the proliferation, migration, cell cycle arrest and apoptosis in gastric cancer cells via alteration of let-7 miRNA. The expression levels of Lin28 and let-7 were detected by real-time PCR in gastric cancer cell lines in vitro. Lin28 was overexpressed in the BGC-823 cells via lentiviral transfection, and let-7 expression was assessed. Cell proliferation and migration capabilities were investigated by MTT and Transwell assays, while cell cycle distribution and the apoptosis rate were detected using flow cytometry. The expression of Lin28 was moderately expressed in the GES cells while underexpressed in the BGC-823, SGC-7901 and HGC-27 cells. Let-7a miRNA was highly expressed in the GES, BGC-823, SGC-7901 and HGC-27 cells. Overexpression of Lin28 was inversely correlated with the downregulated expression of let-7a, and markedly suppressed the proliferation, migration, cell cycle progression and induced apoptosis in the BGC-823 cells. These findings demonstrated that overexpression of Lin28 can suppress the biological behavior of gastric cancer in vitro, and let-7 miRNA may play an important role in the process. We suggest that Lin28 may be a candidate predictor or an anticancer therapeutic target for gastric cancer patients.

FOREST-BGC, A general model of forest ecosystem processes for regional applications. II. Dynamic carbon allocation and nitrogen budgets.

PubMed

Running, Steven W.; Gower, Stith T.

1991-01-01

A new version of the ecosystem process model FOREST-BGC is presented that uses stand water and nitrogen limitations to alter the leaf/root/stem carbon allocation fraction dynamically at each annual iteration. Water deficit is defined by integrating a daily soil water deficit fraction annually. Current nitrogen limitation is defined relative to a hypothetical optimum foliar N pool, computed as maximum leaf area index multiplied by maximum leaf nitrogen concentration. Decreasing availability of water or nitrogen, or both, reduces the leaf/root carbon partitioning ratio. Leaf and root N concentrations, and maximum leaf photosynthetic capacity are also redefined annually as functions of nitrogen availability. Test simulations for hypothetical coniferous forests were performed for Madison, WI and Missoula, MT, and showed simulated leaf area index ranging from 4.5 for a control stand at Missoula, to 11 for a fertilized stand at Madison, with Year 50 stem carbon biomasses of 31 and 128 Mg ha(-1), respectively. Total nitrogen incorporated into new tissue ranged from 34 kg ha(-1) year(-1) for the unfertilized Missoula stand, to 109 kg ha(-1) year(-1) for the fertilized Madison stand. The model successfully showed dynamic annual carbon partitioning controlled by water and nitrogen limitations.

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

Treesearch

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...

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

Treesearch

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...

Basal Ganglia Calcification with Tetanic Seizure Suggest Mitochondrial Disorder.

PubMed

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.

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

PubMed

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.

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

Treesearch

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...

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

PubMed

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.

Comparison of Phenology Models for Predicting the Onset of Growing Season over the Northern Hemisphere

PubMed Central

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. PMID:25279567

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

The resilience and functional role of moss in boreal and arctic ecosystems

DOE Office of Scientific and Technical Information (OSTI.GOV)

Turetsky, Merritt; Bond-Lamberty, Benjamin; Euskirchen, Eugenie S.

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 influencingmore » 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.« less

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

PubMed

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 < 0.01). Astragaloside IV treatment strongly inhibited the proliferation-, migration- and invasion-promoting capacities of GCAFs ( P < 0.05 for 10 μmol/L, P < 0.01 for 20 μmol/L and 40 μmol/L). Compared with 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 promisingly a potent therapeutic agent regulating tumor microenvironment.

Astragaloside IV inhibits pathological functions of gastric cancer-associated fibroblasts

PubMed Central

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

2017-01-01

AIM To investigate the inhibitory effect of astragaloside IV on the pathological functions of cancer-associated fibroblasts, and to explore the underlying mechanism. METHODS 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. RESULTS GCAFs displayed higher capacities to induce BGC-823 cell proliferation, migration, and invasion than GNFs (P < 0.01). Astragaloside IV treatment strongly inhibited the proliferation-, migration- and invasion-promoting capacities of GCAFs (P < 0.05 for 10 μmol/L, P < 0.01 for 20 μmol/L and 40 μmol/L). Compared with 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. CONCLUSION Astragaloside IV can inhibit the pathological functions of GCAFs by correcting their dysregulation of microRNA expression, and it is promisingly a potent therapeutic agent regulating tumor microenvironment. PMID:29358859

Novel borate glass/chitosan composite as a delivery vehicle for teicoplanin in the treatment of chronic osteomyelitis.

PubMed

Jia, Wei-Tao; Zhang, Xin; Luo, Shi-Hua; Liu, Xin; Huang, Wen-Hai; Rahaman, Mohamed N; Day, Delbert E; Zhang, Chang-Qing; Xie, Zong-Ping; Wang, Jian-Qiang

2010-03-01

Composite materials composed of borate bioactive glass and chitosan (designated BGC) were investigated in vitro and in vivo as a new delivery system for teicoplanin in the treatment of chronic osteomyelitis induced by methicillin-resistant Staphylococcus aureus (MRSA). In vitro, the release of teicoplanin from BGC pellets into phosphate-buffered saline (PBS), as well as its antibacterial activity, were determined. The compressive strength of the pellets was measured after specific immersion times, and the structure of the pellets was characterized using scanning electron microscopy and X-ray diffraction. In vivo, the tibial cavity of New Zealand White rabbits was injected with MRSA strain to induce chronic osteomyelitis, treated by debridement after 4weeks, implanted with teicoplanin-loaded BGC pellets (designated TBGC) or BGC pellets, or injected intravenously with teicoplanin. After 12weeks' implantation, the efficacy of the TBGC pellets for treating osteomyelitis was evaluated using hematological, radiological, microbiological and histological techniques. When immersed in PBS, the TBGC pellets provided a sustained release of teicoplanin, while the surface of the pellets was converted to hydroxyapatite (HA). In vivo, the best therapeutic effect was observed in animals implanted with TBGC pellets, resulting in significantly lower radiological and histological scores, a lower positive rate of MRSA culture, and an excellent bone defect repair, without local or systemic side effects. The results indicate that TBGC pellets are effective in treating chronic osteomyelitis by providing a sustained release of teicoplanin, in addition to participating in bone regeneration. Copyright 2009 Acta Materialia Inc. Published by Elsevier Ltd. All rights reserved.

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

NASA Astrophysics Data System (ADS)

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.

Hydrological model uncertainty due to spatial evapotranspiration estimation methods

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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 in NEP, although the temporal pattern is different. The reductions in NEP from these major disturbances are similar to the variation in NEP caused by climatic conditions. When less favorable climatic conditions and these disturbances are co-occurring, forests switch from a carbon sink to a carbon source across the western US. This work increases understanding of the role of natural disturbances in the forest carbon budget of the western US.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

Development of Advanced Eco-hydrologic and Biogeochemical Coupling Model to Constrain Missing Role of Inland Waters on Boundless Biogeochemical Cycle

NASA Astrophysics Data System (ADS)

Nakayama, T.; Maksyutov, S. S.

2016-12-01

Inland waters including rivers, lakes, and groundwater are suggested to act as a transport pathway for water and dissolved substances, and play some role in continental biogeochemical cycling (Cole et al., 2007; Battin et al., 2009). The authors have developed process-based National Integrated Catchment-based Eco-hydrology (NICE) model (Nakayama, 2014, 2015, etc.), which includes feedback between hydrologic-geomorphic-ecological processes. In this study, NICE was further developed to couple with various biogeochemical cycle models in biosphere, those for water quality in aquatic ecosystems, and those for carbon weathering, etc. (NICE-BGC) (Nakayama, accepted). The new model incorporates connectivity of the biogeochemical cycle accompanied by hydrologic cycle between surface water and groundwater, hillslopes and river networks, and other intermediate regions. The model also includes reaction between inorganic and organic carbons, and its relation to nitrogen and phosphorus in terrestrial-aquatic continuum. The model results of CO2 evasion to the atmosphere, sediment storage, and carbon transport to the ocean (DOC, POC, and DIC flux) were reasonably in good agreement with previous compiled data. The model also showed carbon budget in major river basins and in each continent in global scale. In order to decrease uncertainty about carbon cycle, it became clear the previous empirical estimation by compiled data should be extended to this process-oriented model and higher resolution data to further clarify mechanistic interplay between inorganic and organic carbon and its relationship to nitrogen and phosphorus in terrestrial-aquatic linkages. NICE-BGC would play important role to re-evaluate greenhouse gas budget of the biosphere, and to bridge gap between top-down and bottom-up approaches (Battin et al., 2009; Regnier et al., 2013).

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

NASA Astrophysics Data System (ADS)

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. Bayesian inversion is then applied to assign scaling factors that align the surface fluxes with the CO2 time series. Our project demonstrates how bottom-up and top-down techniques can be reconciled to arrive at a more robust and balanced spatial carbon budget. We will show how to evaluate existing flux products through regionally representative atmospheric observations, i.e. how well the underlying model assumptions represent processes on the regional scale. Adapting process model parameterizations sets for e.g. sub-regions, disturbance regimes, or land cover classes, in order to optimize the agreement between surface fluxes and atmospheric observations can lead to improved understanding of the underlying flux mechanisms, and reduces uncertainties in the regional carbon budgets.

How much do different global GPP products agree in distribution and magnitude of GPP extremes?

NASA Astrophysics Data System (ADS)

Kim, S.; Ryu, Y.; Jiang, C.

2016-12-01

To evaluate uncertainty of global Gross Primary Productivity (GPP) extremes, we compare three global GPP datasets derived from different data processing methods (e.g. MPI-BGC: machine-learning, MODIS GPP (MOD17): semi-empirical, Breathing Earth System Simulator (BESS): process based). We preprocess the datasets following the method from Zscheischler et al., (2012) to detect GPP extremes which occur in less than 1% of the number of whole pixels, and to identify 3D-connected spatiotemporal GPP extremes. We firstly analyze global patterns and the magnitude of GPP extremes with MPI-BGC, MOD17, and BESS over 2001-2011. For consistent analysis in the three products, spatial and temporal resolution were set at 50 km and a monthly scale, respectively. Our results indicated that the global patterns of GPP extremes derived from MPI-BGC and BESS agreed with each other by showing hotspots in Northeastern Brazil and Eastern Texas. However, the extreme events detected from MOD17 were concentrated in tropical forests (e.g. Southeast Asia and South America). The amount of GPP reduction caused by climate extremes considerably differed across the products. For example, Russian heatwave in 2010 led to 100 Tg C uncertainty (198.7 Tg C in MPI-BGC, 305.6 Tg C in MOD17, and 237.8 Tg C in BESS). Moreover, the duration of extreme events differ among the three GPP datasets for the Russian heatwave (MPI-BGC: May-Sep, MOD17: Jun-Aug, and BESS: May-Aug). To test whether Sun induced Fluorescence (SiF), a proxy of GPP, can capture GPP extremes, we investigate global distribution of GPP extreme events in BESS, MOD17 and GOME-2 SiF between 2008 and 2014 when SiF data is available. We found that extreme GPP events in GOME-2 SiF and MOD17 appear in tropical forests whereas those in BESS emerged in Northeastern Brazil and Eastern Texas. The GPP extremes by severe 2011 US drought were detected by BESS and MODIS, but not by SiF. Our findings highlight that different GPP datasets could result in varying duration and intensity of GPP extremes and distribution of hotspots, and this study could contribute to quantifying uncertainties in GPP extremes.

Modeling Vegetation Growth Impact on Groundwater Recharge

NASA Astrophysics Data System (ADS)

Anurag, H.; Ng, G. H. C.; Tipping, R.

2017-12-01

Vegetation growth is affected by variability in climate and land-cover / land-use over a range of temporal and spatial scales. Vegetation also modifies water budget through interception and evapotranspiration and thus has a significant impact on groundwater recharge. Most groundwater recharge assessments represent vegetation using specified, static parameter, such as for leaf-area-index, but this neglects the effect of vegetation dynamics on recharge estimates. Our study addresses this gap by including vegetation growth in model simulations of recharge. We use NCAR's Community Land Model v4.5 with its BGC module (BGC is the new CLM4.5 biogeochemistry). It integrates prognostic vegetation growth with land-surface and subsurface hydrological processes and can thus capture the effect of vegetation on groundwater. A challenge, however, is the need to resolve uncertainties in model inputs ranging from vegetation growth parameters all the way down to the water table. We have compiled diverse data spanning meteorological inputs to subsurface geology and use these to implement ensemble model simulations to evaluate the possible effects of dynamic vegetation growth (versus specified, static vegetation parameterizations) on estimating groundwater recharge. We present preliminary results for select data-intensive test locations throughout the state of Minnesota (USA), which has a sharp east-west precipitation gradient that makes it an apt testbed for examining ecohydrologic relationships across different temperate climatic settings and ecosystems. Using the ensemble simulations, we examine the effect of seasonal to interannual variability of vegetation growth on recharge and water table depths, which has implications for predicting the combined impact of climate, vegetation, and geology on groundwater resources. Future work will include distributed model simulations over the entire state, as well as conditioning uncertain vegetation and subsurface parameters on remote sensing data and statewide water table records using data assimilation.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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 shows that terrestrial carbon and water cycle simulations in monsoon Asia were greatly improved, and the use of multiple satellite observations with this framework is an effective way for improving terrestrial biosphere models.

64Cu-PSMA-617: A novel PSMA-targeted radio-tracer for PET imaging in gastric adenocarcinoma xenografted mice model.

PubMed

Han, Xue-Di; Liu, Chen; Liu, Fei; Xie, Qing-Hua; Liu, Te-Li; Guo, Xiao-Yi; Xu, Xiao-Xia; Yang, Xing; Zhu, Hua; Yang, Zhi

2017-09-26

Here, we report that it's feasible for imaging gastric adenocarcinoma mice model with prostate-specific membrane antigen (PSMA) targeting imaging agents, which could potentially provide an alternate and readily translational tool for managing gastric adenocarcinoma. DKFZ-PSMA-617, a PSMA targeting ligand reported recently, was chosen to be radio-labeled with nuclide 64 Cu. 64 Cu-PSMA-617 was radio-synthesized in high radio-chemical yield and specific activity up to 19.3 GBq/µmol. It showed good stability in vitro . The specificity of 64 Cu-PSMA-617 was confirmed by cell uptake experiments in PSMA (+) LNCaP cell and PSMA (-) PC-3 and gastric adenocarcinoma BGC-823 cells. Micro-PET imaging in BGC-823 and PC-3 xenografts nude mice was evaluated ( n = 4). And the tumors were visualized and better tumor-to-background achieved till 24 h. Co-administration of N- [[[(1S)-1-Carboxy-3-methylbutyl]amino]-carbonyl]-L-glutamic acid (ZJ-43) can substantially block the uptake in those tumors. Dissected tumor tissues were analyzed by auto-radiography and immunohistochemistry, and these results confirmed the PSMA expression in neo-vasculature which explained the target molecular imaging of 64 Cu-PSMA-617. All those results suggested 64 Cu-PSMA-617 may serve as a novel radio-tracer for tumor imaging more than prostate cancer.

64Cu-PSMA-617: A novel PSMA-targeted radio-tracer for PET imaging in gastric adenocarcinoma xenografted mice model

PubMed Central

Han, Xue-Di; Liu, Chen; Liu, Fei; Xie, Qing-Hua; Liu, Te-Li; Guo, Xiao-Yi; Xu, Xiao-Xia; Yang, Xing; Zhu, Hua; Yang, Zhi

2017-01-01

Here, we report that it’s feasible for imaging gastric adenocarcinoma mice model with prostate-specific membrane antigen (PSMA) targeting imaging agents, which could potentially provide an alternate and readily translational tool for managing gastric adenocarcinoma. DKFZ-PSMA-617, a PSMA targeting ligand reported recently, was chosen to be radio-labeled with nuclide 64Cu. 64Cu-PSMA-617 was radio-synthesized in high radio-chemical yield and specific activity up to 19.3 GBq/µmol. It showed good stability in vitro. The specificity of 64Cu-PSMA-617 was confirmed by cell uptake experiments in PSMA (+) LNCaP cell and PSMA (-) PC-3 and gastric adenocarcinoma BGC-823 cells. Micro-PET imaging in BGC-823 and PC-3 xenografts nude mice was evaluated (n = 4). And the tumors were visualized and better tumor-to-background achieved till 24 h. Co-administration of N- [[[(1S)-1-Carboxy-3-methylbutyl]amino]-carbonyl]-L-glutamic acid (ZJ-43) can substantially block the uptake in those tumors. Dissected tumor tissues were analyzed by auto-radiography and immunohistochemistry, and these results confirmed the PSMA expression in neo-vasculature which explained the target molecular imaging of 64Cu-PSMA-617. All those results suggested 64Cu-PSMA-617 may serve as a novel radio-tracer for tumor imaging more than prostate cancer. PMID:29088775

Suppression of tumor growth by Pleurotus ferulae ethanol extract through induction of cell apoptosis, and inhibition of cell proliferation and migration.

PubMed

Wang, Weilan; Chen, Kaixu; Liu, Qing; Johnston, Nathan; Ma, Zhenghai; Zhang, Fuchun; Zheng, Xiufen

2014-01-01

Cancer is the second leading cause of death worldwide. Edible medicinal mushrooms have been used in traditional medicine as regimes for cancer patients. Recently anti-cancer bioactive components from some mushrooms have been isolated and their anti-cancer effects have been tested. Pleurotus ferulae, a typical edible medicinal mushroom in Xinjiang China, has also been used to treat cancer patients in folk medicine. However, little studies have been reported on the anti-cancer components of Pleurotus ferulae. This study aims to extract bioactive components from Pleurotus ferulae and to investigate the anti-cancer effects of the extracts. We used ethanol to extract anti-cancer bioactive components enriched with terpenoids from Pleurotus ferulae. We tested the anti-tumour effects of ethanol extracts on the melanoma cell line B16F10, the human gastric cancer cell line BGC 823 and the immortalized human gastric epithelial mucosa cell line GES-1 in vitro and a murine melanoma model in vivo. Cell toxicity and cell proliferation were measured by MTT assays. Cell cycle progression, apoptosis, caspase 3 activity, mitochondrial membrane potential (MMP), migration and gene expression were studied in vitro. PFEC suppressed tumor cell growth, inhibited cell proliferation, arrested cells at G0/G1 phases and was not toxic to non-cancer cells. PFEC also induced cell apoptosis and necrosis, increased caspase 3 activity, reduced the MMP, prevented cell invasion and changed the expression of genes associated with apoptosis and the cell cycle. PFEC delayed tumor formation and reduced tumor growth in vivo. In conclusion, ethanol extracted components from Pleurotus ferulae exert anti-cancer effects through direct suppression of tumor cell growth and invasion, demonstrating its therapeutic potential in cancer treatment.

A Model-based Approach to Scaling GPP and NPP in Support of MODIS Land Product Validation

NASA Astrophysics Data System (ADS)

Turner, D. P.; Cohen, W. B.; Gower, S. T.; Ritts, W. D.

2003-12-01

Global products from the Earth-orbiting MODIS sensor include land cover, leaf area index (LAI), FPAR, 8-day gross primary production (GPP), and annual net primary production (NPP) at the 1 km spatial resolution. The BigFoot Project was designed specifically to validate MODIS land products, and has initiated ground measurements at 9 sites representing a wide array of vegetation types. An ecosystem process model (Biome-BGC) is used to generate estimates of GPP and NPP for each 5 km x 5 km BigFoot site. Model inputs include land cover and LAI (from Landsat ETM+), daily meteorological data (from a centrally located eddy covariance flux tower), and soil characteristics. Model derived outputs are validated against field-measured NPP and flux tower-derived GPP. The resulting GPP and NPP estimates are then aggregated to the 1 km resolution for direct spatial comparison with corresponding MODIS products. At the high latitude sites (tundra and boreal forest), the MODIS GPP phenology closely tracks the BigFoot GPP, but there is a high bias in the MODIS GPP. In the temperate zone sites, problems with the timing and magnitude of the MODIS FPAR introduce differences in MODIS GPP compared to the validation data at some sites. However, the MODIS LAI/FPAR data are currently being reprocessed (=Collection 4) and new comparisons will be made for 2002. The BigFoot scaling approach permits precise overlap in spatial and temporal resolution between the MODIS products and BigFoot products, and thus permits the evaluation of specific components of the MODIS NPP algorithm. These components include meteorological inputs from the NASA Data Assimilation Office, LAI and FPAR from other MODIS algorithms, and biome-specific parameters for base respiration rate and light use efficiency.

Effects of fire on regional evapotranspiration in the central Canadian boreal forest

DOE Office of Scientific and Technical Information (OSTI.GOV)

Bond-Lamberty, Benjamin; Peckham, Scott D.; Gower, Stith T.

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; simulationmore » 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.« less

The application of an integrated biogeochemical model (PnET-BGC) to five forested watersheds in the Adirondack and Catskill regions of New York

USGS Publications Warehouse

LiJun, Chen; Driscoll, C.T.; Gbondo-Tugbawa, S.; Mitchell, M.J.; Murdoch, Peter S.

2004-01-01

PnET-BGC is an integrated biogeochemical model formulated to simulate the response of soil and surface waters in northern forest ecosystems to changes in atmospheric deposition and land disturbances. In this study, the model was applied to five intensive study sites in the Adirondack and Catskill regions of New York. Four were in the Adirondacks: Constable Pond, an acid-sensitive watershed; Arbutus Pond, a relatively insensitive watershed; West Pond, an acid-sensitive watershed with extensive wetland coverage; and Willy's Pond, an acid-sensitive watershed with a mature forest. The fifth was Catskills: Biscuit Brook, an acid-sensitive watershed. Results indicated model-simulated surface water chemistry generally agreed with the measured data at all five sites. Model-simulated internal fluxes of major elements at the Arbutus watershed compared well with previously published measured values. In addition, based on the simulated fluxes, element and acid neutralizing capacity (ANC) budgets were developed for each site. Sulphur budgets at each site indicated little retention of inputs of sulphur. The sites also showed considerable variability in retention of NO3-. Land-disturbance history and in-lake processes were found to be important in regulating the output of NO3- via surface waters. Deposition inputs of base cations were generally similar at these sites. Various rates of base cation outputs reflected differences in rates of base cation supply at these sites. Atmospheric deposition was found to be the largest source of acidity, and cation exchange, mineral weathering and in-lake processes served as sources of ANC. ?? 2004 John Wiley and Sons, Ltd.

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

Hoffman, Forest M.; Bochev, Pavel B.; Cameron-Smith, Philip J..

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.

Genome engineering for microbial natural product discovery.

PubMed

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.

Oscillatory rheology and creep behavior of barley β-D-glucan concentrate dough: effect of particle size, temperature, and water content.

PubMed

Ahmed, Jasim; Thomas, Linu; Al-Attar, Hasan

2015-01-01

Small amplitude oscillatory rheology and creep behavior of β-glucan concentrate (BGC) dough were studied as function of particle size (74, 105, 149, 297, and 595 μm), BGC particle-to-water ratio (1:4, 1:5, and 1:6), and temperature (25, 40, 55, 70, and 85 °C). The color intensity and protein content increased with decreasing particle size by creating more surface areas. The water holding capacity (WHC) and sediment volume fraction increased with increasing particle size from 74 to 595 μm, which directly influences the mechanical rigidity and viscoelasticity of the dough. The dough exhibited predominating solid-like behavior (elastic modulus, G' > viscous modulus, G″). A discrete retardation spectrum is employed to the creep data to obtain retardation time and compliance parameters, which varied significantly with particle size and the process temperature. Creep tests exhibited more pronounced effect on dough behavior compared to oscillatory measurement. The protein denaturation temperature was insignificantly increased with particle fractions from 107 to 110 °C. All those information could be helpful to identify the particle size range and WHC of BGC that could be useful to produce a β-d-glucan enriched designed food. © 2014 Institute of Food Technologists®

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

PubMed

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 < 0.05) decreased As concentrations in husk, straw, and root in soils added with 70 mg kg(-1) As. The present results suggest that AM fungi are able to mitigate the adverse effects with enhancing rice production when growing in As-contaminated soils.

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

PubMed Central

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

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

NASA Astrophysics Data System (ADS)

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

2001-12-01

The use of process-based models as a tool for scientific inquiry is becoming increasingly relevant in ecosystem studies. Process-based models are artificial constructs that simulate the system by mechanistically mimicking the functioning of its component processes. Structurally, a process-based model can be characterized, in terms of its processes and the relationships established among them. Each process comprises a set of functional relationships among several model components (e.g., state variables, parameters and input data). While not encoded explicitly, the dynamics of the model emerge from this set of components and interactions organized in terms of processes. It is the task of the modeler to guarantee that the dynamics generated are appropriate and semantically equivalent to the phenomena being modeled. Despite the availability of techniques to characterize and understand model behavior, they do not suffice to completely and easily understand how a complex process-based model operates. For example, sensitivity analysis studies model behavior by determining the rate of change in model output as parameters or input data are varied. One of the problems with this approach is that it considers the model as a "black box", and it focuses on explaining model behavior by analyzing the relationship input-output. Since, these models have a high degree of non-linearity, understanding how the input affects an output can be an extremely difficult task. Operationally, the application of this technique may constitute a challenging task because complex process-based models are generally characterized by a large parameter space. In order to overcome some of these difficulties, we propose a method of sensitivity analysis to be applicable to complex process-based models. This method focuses sensitivity analysis at the process level, and it aims to determine how sensitive the model output is to variations in the processes. Once the processes that exert the major influence in 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.

Simulating the effects of climatic variation on stem carbon accumulation of a ponderosa pine stand: comparison with annual growth increment data.

PubMed

Hunt, E R; Martin, F C; Running, S W

1991-01-01

Simulation models of ecosystem processes may be necessary to separate the long-term effects of climate change on forest productivity from the effects of year-to-year variations in climate. The objective of this study was to compare simulated annual stem growth with measured annual stem growth from 1930 to 1982 for a uniform stand of ponderosa pine (Pinus ponderosa Dougl.) in Montana, USA. The model, FOREST-BGC, was used to simulate growth assuming leaf area index (LAI) was either constant or increasing. The measured stem annual growth increased exponentially over time; the differences between the simulated and measured stem carbon accumulations were not large. Growth trends were removed from both the measured and simulated annual increments of stem carbon to enhance the year-to-year variations in growth resulting from climate. The detrended increments from the increasing LAI simulation fit the detrended increments of the stand data over time with an R(2) of 0.47; the R(2) increased to 0.65 when the previous year's simulated detrended increment was included with the current year's simulated increment to account for autocorrelation. Stepwise multiple linear regression of the detrended increments of the stand data versus monthly meteorological variables had an R(2) of 0.37, and the R(2) increased to 0.47 when the previous year's meteorological data were included to account for autocorrelation. Thus, FOREST-BGC was more sensitive to the effects of year-to-year climate variation on annual stem growth than were multiple linear regression models.

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

NASA Astrophysics Data System (ADS)

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 climate change in order to develop a realistic prediction for the two treatments. Results from objective 1 indicate that Biome-BGC can adequately simulate the study site: measured leaf area index (LAI) is not significantly different from maximum LAI predicted by the model. Results from objective 2 indicate that marine-derived nitrogen may increase NEE by up to eight times relative to no nutrient addition, whereas the continued loss of marine nitrogen may lead to a decrease in NEE relative to historical conditions. MDN may become even more important to maintaining a positive carbon balance under a climate warming scenario: model results show a decline in NEE with climate change, which is mitigated by the presence of the added marine nitrogen. Understanding the long-term impacts of marine-derived nutrients to inland Idaho watersheds will help inform forest management and nutrient-loss mitigation efforts.

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

NASA Astrophysics Data System (ADS)

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

2009-04-01

The current paper reports on the development and testing of a methodology capable of simulating the main terms of forest carbon budget (gross primary production, GPP, net primary production, NPP, and net ecosystem exchange, NEE) in the Mediterranean environment. The study area is Tuscany, a region of Central Italy which is covered by forests over about half of its surface. It is peculiar for its extremely heterogeneous morphological and climatic features which ranges from typically Mediterranean to temperate warm or cool according to the altitudinal and latitudinal gradients and the distance from the sea (Rapetti and Vittorini, 1995). The simulation of forest carbon budget is based on the preliminary collection of several data layers to characterize the eco-climatic and forest features of the region (i.e. maps of forest type and volume, daily meteorological data and monthly NDVI-derived FAPAR - fraction of absorbed photosynthetically active radiation - estimates for the years 1999-2003). In particular, the 1:250.000 forest type map describes the distribution of 18 forest classes and was obtained by the Regional Cartographic Service. The volume map, with a 30 m spatial resolution and a mean accuracy of about 90 m3/ha, was produced by combining the available regional forest inventory data and Landsat TM images (Maselli and Chiesi, 2006). Daily meteorological data (minimum and maximum air temperatures and precipitation) were extrapolated by the use of the DAYMET algorithm (Thornton et al., 1997) from measurements taken at existing whether stations for the years 1996-2003 (calibration plus application periods); solar radiation was then estimated by the model MT-CLIM (Thornton et al., 2000). Monthly NDVI-derived FAPAR estimates were obtained using the Spot-VEGETATION satellite sensor data for the whole study period (1999-2003). After the collection of these data layers, a simplified, remote sensing based parametric model (C-Fix), is applied for the production of a 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.

Basal ganglia calcification as a putative cause for cognitive decline.

PubMed

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.

Daucosterol inhibits cancer cell proliferation by inducing autophagy through reactive oxygen species-dependent manner.

PubMed

Zhao, Chuanke; She, Tiantian; Wang, Lixin; Su, Yahui; Qu, Like; Gao, Yujing; Xu, Shuo; Cai, Shaoqing; Shou, Chengchao

2015-09-15

This study aims to evaluate the anti-cancer effect of daucosterol and explore its possible mechanism. MTT and colony formation assay were performed to determine the effect of daucosterol on cancer cell proliferation in vitro. H22 allograft model was used for the assessment of its anti-cancer activity in vivo. Intracellular generation of reactive oxygen species (ROS) was measured using DCFH-DA probe with flow cytometry system and a laser scanning confocal microscope. LC3 (microtubule-associated protein 1 light chain 3)-II conversion was monitored with immunofluorescence and immunoblotting to demonstrate daucosterol-induced autophagy. We found that daucosterol inhibits the proliferation of human breast cancer cell line MCF-7 and gastric cancer cell lines MGC803, BGC823 and AGS in a dose-dependent manner. Furthermore, daucosterol inhibits murine hepatoma H22 cell growth in ICR mice. Daucosterol treatment induces intracellular ROS generation and autophagy, but not apoptotic cell death. Treatment with ROS scavenger GSH (reduced glutathione), NAC (N-acetyl-l-cysteine) or autophagy inhibitor 3-Methyladenine (3-MA) counteracted daucosterol-induced autophagy and growth inhibition in BGC823 and MCF-7 cancer cells. Daucosterol inhibits cancer cell proliferation by inducing autophagy through ROS-dependent manner and could be potentially developed as an anti-cancer agent. Copyright © 2015 Elsevier Inc. All rights reserved.

Target research on tumor biology characteristics of mir-155-5p regulation on gastric cancer cell.

PubMed

Feng, Jun-an

2016-03-01

After the mir-155-5p over expressed in gastric cancer cells, the expression profile chip was adopted to screen its target genes. Some of the intersection of target genes were selected based on the bioinformatics prediction, in order to study the mechanism of its function and role of research. Affymetrix eukaryotic gene expression spectrum was conducted to screen mir-155-5p regulated genetic experiment. Western blot technique was employed to detect and screen the protein expression of target genes. Mimics was transfected in BGC-823 of gastric cancer cells. Compared with mimics-nc group and mock group, the mRNA expression quantities of SMAD1, STAT1, CAB39, CXCR4 and CA9 were significantly lower. After the gastric cancer cells BGC-823 and MKN-45 had been transfected by mimics, compared with mimics-nc (MNC) group and mock (MOCK) group, it was decreased for the protein expression of SMAD1, STAT1 and CAB39 in mimics (MIMICS) group. The verification of qRT-PCR demonstrated that SMAD1, STAT1, CAB39, CXCR4 and CA9 were the predicted target genes and target proteins of mir-155-5p, the over expression of mir-155-5p could enable the decreasing of its expression level in gastric cancer cells MKN-45 and BGC-823.

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

NASA Astrophysics Data System (ADS)

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.

DOE Office of Scientific and Technical Information (OSTI.GOV)

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

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 thesemore » 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, reanalysis meteorology and various remote sensing products to generate statewide estimates of biosphere carbon exchange from the atmospheric point of view.« less

Interpreting Microbial Biosynthesis in the Genomic Age: Biological and Practical Considerations

PubMed Central

Miller, Ian J.; Chevrette, Marc G.; Kwan, Jason C.

2017-01-01

Genome mining has become an increasingly powerful, scalable, and economically accessible tool for the study of natural product biosynthesis and drug discovery. However, there remain important biological and practical problems that can complicate or obscure biosynthetic analysis in genomic and metagenomic sequencing projects. Here, we focus on limitations of available technology as well as computational and experimental strategies to overcome them. We review the unique challenges and approaches in the study of symbiotic and uncultured systems, as well as those associated with biosynthetic gene cluster (BGC) assembly and product prediction. Finally, to explore sequencing parameters that affect the recovery and contiguity of large and repetitive BGCs assembled de novo, we simulate Illumina and PacBio sequencing of the Salinispora tropica genome focusing on assembly of the salinilactam (slm) BGC. PMID:28587290

Soil Organic Carbon and Nitrogen in the 21st Century: Projections of the Responses of an Old-Growth Douglas-Fir Forest in the Pacific Northwest under RCP 4.5 and RCP 8.5 Climate Change Scenarios

NASA Astrophysics Data System (ADS)

Dong, Z.; Driscoll, C. T.; Hayhoe, K.; Pourmokhtarian, A.; Stoner, A. M. K.

2015-12-01

The biogeochemical model, PnET-BGC, was applied to Watershed 2 in H. J. Andrews Experimental Forest, Oregon, to project ecosystem carbon and nitrogen responses under different future climate change scenarios. Downscaled climate change inputs derived from two IPCC scenarios (RCP 4.5 and RCP 8.5) were interpreted by four Atmosphere-Ocean General Circulation Models (AOGCMs) at Andrews Forest. Model results showed decreases in foliar production under high temperature/CO2 scenarios due to increasing vapor pressure deficit. Projections by PnET-BGC suggest that under future climate changes in primary production coupled with an increasing rate of decomposition may result in decreases in litterfall carbon and nitrogen and soil organic carbon and nitrogen. Such changes in soil organic carbon and nitrogen may cause wide range of changes in ecosystem processing of nitrogen and carbon, such as nitrogen mineralization, plant NH4+ uptake, and stream NH4+ and dissolved organic carbon concentrations depending on climate change scenario considered. Under most high emission scenarios, net nitrogen mineralization and plant NH4+ uptake are projected to increase until the end of this century as result of increasing temperature and associated higher rates of decomposition. An accumulation of nitrogen in plant tissue due to decreasing litterfall decreases plant demand for nitrogen. Such changes in nitrogen mineralization and uptake will result in increase in stream NH4+ concentrations under high emission scenarios. Under low emission scenarios, net nitrogen mineralization and plant NH4+ uptake are projected to increase up to mid-century, then slightly decrease until the end of the century.

PGRMC1 participates in late events of bovine granulosa cells mitosis and oocyte meiosis.

PubMed

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.

Overexpression of Selenoprotein SelK in BGC-823 Cells Inhibits Cell Adhesion and Migration.

PubMed

Ben, S B; Peng, B; Wang, G C; Li, C; Gu, H F; Jiang, H; Meng, X L; Lee, B J; Chen, C L

2015-10-01

Effects of human selenoprotein SelK on the adhesion and migration ability of human gastric cancer BGC-823 cells using Matrigel adhesion and transwell migration assays, respectively, were investigated in this study. The Matrigel adhesion ability of BGC-823 cells that overexpressed SelK declined extremely significantly (p < 0.01) compared with that of the cells not expressing the protein. The migration ability of BGC-823 cells that overexpressed SelK also declined extremely significantly (p < 0.01). On the other hand, the Matrigel adhesion ability and migration ability of the cells that overexpressed C-terminally truncated SelK did not decline significantly. The Matrigel adhesion ability and migration ability of human embryonic kidney HEK-293 cells that overexpressed SelK did not show significant change (p > 0.05) with the cells that overexpressed the C-terminally truncated protein. In addition to the effect on Matrigel adhesion and migration, the overexpression of SelK also caused a loss in cell viability (as measured by 3-(4,5-dimethyl-2-thiazolyl)-2,5-diphenyl-2H tetrazolium bromide (MTT) colorimetric assay) and induced apoptosis as shown by confocal microscopy and flow cytometry. The cytosolic free Ca2+ level of these cells was significantly increased as detected by flow cytometry. But the overexpression of SelK in HEK-293 cells caused neither significant loss in cell viability nor apoptosis induction. Only the elevation of cytosolic free Ca2+ level in these cells was significant. Taken together, the results suggest that the overexpression of SelK can inhibit human cancer cell Matrigel adhesion and migration and cause both the loss in cell viability and induction of apoptosis. The release of intracellular Ca2+ from the endoplasmic reticulum might be a mechanism whereby the protein exerted its impact. Furthermore, only the full-length protein, but not C-terminally truncated form, was capable of producing such impact. The embryonic cells were not influenced by the elevation of free Ca2+ level in cytosol, probably due to their much greater tolerance to the variation.

Effects of gene silencing of CypB on gastric cancer cells.

PubMed

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 (P<0.05). Down-regulation of CypB resulted in slightly decreased percentage of S phase and increased percentage of G1 (P<0.05). These findings indicated that CypB 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.

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

NASA Astrophysics Data System (ADS)

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 improved the model performance, the uncertainties that remained in terms of the sensitivity to water conditions should be examined in ongoing and long-term observations.

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

NASA Astrophysics Data System (ADS)

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

2009-08-01

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, significantly 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 are positively correlated with the annual mean air temperature and annual total precipitation. On the other hand, the simulated carbon budget is partly explained by the stand disturbance history in addition to the climate. The sensitivity study indicates that spring warming enhances the carbon sink, whereas summer warming decreases it across the larch forests. The summer radiation is the most important factor that controls the carbon fluxes in the temperate site, but the VPD and water conditions are the limiting factors in the boreal sites. One model parameter, the allocation ratio of carbon between aboveground and belowground, is site-specific, and it is negatively correlated with the annual climate of annual mean air temperature and total precipitation. Although this study significantly improves the model performance, the uncertainties that remain in terms of the sensitivity to water conditions should be examined in ongoing and long-term observations.

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

PubMed Central

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

Development and Binding Mode Assessment of N-[4-[2-propyn-1-yl[(6S)-4,6,7,8-tetrahydro-2-(hydroxymethyl)-4-oxo-3H-cyclopenta[g]quinazolin-6-yl]amino]benzoyl]-L-γ-glutamyl-D-glutamic acid (BGC 945), a Novel Thymidylate Synthase Inhibitor that Targets Tumor Cells

PubMed Central

Tochowicz, Anna; Dalziel, Sean; Eidam, Oliv; O’Connell, Joseph D.; Griner, Sarah; Finer-Moore, Janet S.; Stroud, Robert M.

2013-01-01

N-[4-[2-propyn-1-yl[(6S)-4,6,7,8-tetrahydro-2-(hydroxymethyl)-4-oxo-3H-cyclopenta[g]quinazolin-6-yl]amino]benzoyl]-L-γ-glutamyl-D-glutamic acid 1 (BGC 945, now known as ONX 0801), is a small molecule thymidylate synthase (TS) inhibitor discovered at the Institute of Cancer Research in London. It is licensed by Onyx Pharmaceuticals and is in Phase 1 clinical studies. It is a novel antifolate drug resembling TS inhibitors plevitrexed and raltitrexed that combines enzymatic inhibition of thymidylate synthase with α-folate receptor-mediated targeting of tumor cells. Thus, it has potential for efficacy with lower toxicity due to selective intracellular accumulation through α-folate receptor (α-FR) transport. The α-FR, a cell-surface receptor glycoprotein, which is over expressed mainly in ovarian and lung cancer tumors, has an affinity for 1 similar to that for its natural ligand, folic acid. This study describes a novel synthesis of 1, an X-ray crystal structure of its complex with Escherichia coli TS and 2’-deoxyuridine-5’-monophosphate, and a model for a similar complex with human TS. PMID:23710599

Comparison of Different Muscle-Relaxant Anesthetics on Growth, Migration and Invasion of Gastric Cancer Cells.

PubMed

Jiang, Aihua; Zhao, Huishan; Liu, Xiaofei; Yu, Mingwei; Chen, Jian; Jiang, Wen G

2017-08-01

Muscle relaxants, also known as neuromuscular blocking agents, can block nerve impulses to the muscles and are always used in surgery for general anesthesia. However, the effect of muscle-relaxant anesthetics on cell activity in gastric cancer is currently unknown. The present study aimed to examine and compare the role of three different muscle-relaxant anesthetics in gastric cancer cells. Gastric cancer cells (SGC7901 and BGC 823) were treated with a different dose of muscle-relaxant anesthetics, Rocuronium bromide (Rb), Vecuronium bromide (Vb) and Cisatracurium Besilate (CB). Using in vitro models, the effects on gastric cancer cell invasion, growth and migration of various anesthetics were subsequently investigated. We found that Rb increased the growth, invasion and migration of gastric cancer cells SGC7901 and BGC823. However, Vb and CB, as relatively mitigative anesthetics, did not significantly affect gastric cancer cell malignant phenotype at their regular blood concentration. Our results are important in selecting the type and dose of anesthetic used for surgery of gastric cancer patients. An understanding of the effect of muscle-relaxant anesthetics and their impact on tumor metastasis is critical, since it provides insight into the appropriate anesthetic strategy that could improve long-term survival in some patients with gastric cancer. Copyright© 2017, International Institute of Anticancer Research (Dr. George J. Delinasios), All rights reserved.

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.

NASA Astrophysics Data System (ADS)

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.

Assessing management effects on Oak forests in Austria

NASA Astrophysics Data System (ADS)

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 production while consuming significantly less nitrogen compared to the high forests.

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

NASA Astrophysics Data System (ADS)

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 logging scenarios was estimated. Model simulations indicated nutrient losses were more sensitive to harvesting rotation length than intensity.

Modeling potential interactions of acid deposition and climate change at four watersheds in Shenandoah National Park, VA using the dynamic biogeochemical model PnET-BGC

NASA Astrophysics Data System (ADS)

Robison, A.; Scanlon, T. M.; Cosby, B. J.; Webb, J. R.; Hayhoe, K.; Galloway, J. N.

2013-12-01

The ecological threat imposed by acid deposition on watersheds in the eastern U.S. has, to a certain extent, been alleviated by the passage of the Clean Air Act and subsequent amendments. At the same time, as climate change continues to emerge as a global issue affecting temperature regimes and hydrological cycling among many other variables, new concerns are developing for these watershed ecosystems. Considering that climate change and acid deposition do not influence watersheds independently, there is an opportunity and need to examine both the potential interactions and the impacts of these two biogeochemical drivers. Long-term monitoring of four streams in Shenandoah National Park, VA has provided a favorable setting for analyzing this interaction. Deposition of both sulfur and nitrogen has significantly decreased over the past 30 years in the region. Meanwhile, all four streams have warmed significantly over the past 20-33 years at an average rate of 0.07 oC yr-1, a trend that is closely tied to atmospheric warming rather than changes in hydrology. We applied a dynamic biogeochemical model (PnET-BGC) to these four watersheds to a) investigate how climate change will affect watershed response to reduced acid deposition; b) identify the key processes through which this interaction will be manifested; and c) examine how differences in watershed characteristics (e.g. bedrock and soil properties) affect the response to these two biogeochemical drivers. Included in model application are statistically downscaled climate projections of temperature maximums and minimums, precipitation, and solar radiation. Results will be used to assess the relative impact of these climate variables in regulating stream acid-base status. This study will also provide insight into the future ecological health of these ecosystems, primarily through examination of aquatic habitat suitability based on temperature and acidity.

Evaluation of NASA's Carbon Monitoring System (CMS) Flux Pilot: Terrestrial CO2 Fluxes

NASA Astrophysics Data System (ADS)

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.

Learning about Moths.

ERIC Educational Resources Information Center

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)

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

PubMed

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.

Elution characteristics of teicoplanin-loaded biodegradable borate glass/chitosan composite.

PubMed

Jia, Wei-Tao; Zhang, Xin; Zhang, Chang-Qing; Liu, Xin; Huang, Wen-Hai; Rahaman, Mohamed N; Day, Delbert E

2010-03-15

Local antibiotic delivery system has an advantage over systemic antibiotic for osteomyelitis treatment due to the delivery of high local antibiotic concentration while avoiding potential systemic toxicity. Composite biomaterials with multifunctional roles, consisting of a controlled antibiotic release, a mechanical (load-bearing) function, and the ability to promote bone regeneration, gradually become the most active area of investigation and development of local antibiotic delivery vehicles. In the present study, a composite of borate glass and chitosan (designated BG/C) was developed as teicoplanin delivery vehicle. The in vitro elution kinetics and antibacterial activity of teicoplanin released from BG/C composite as a function of immersion time were determined. Moreover, the pH changes of eluents and the bioactivity of the composite were characterized using scanning electron microscopy coupled with energy-dispersive spectroscopy and X-ray diffraction analysis. 2009 Elsevier B.V. All rights reserved.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

Ecohydrologic process modeling of mountain block groundwater recharge.

PubMed

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.

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

PubMed Central

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 68415T). Furthermore, we present emended descriptions of the species Burkholderia sordidicola, Burkholderia zhejiangensis and Burkholderia grimmiae. The GenBank/EMBL/DDBJ accession numbers for the 16S rRNA and gyrB gene sequences determined in this study are LT158612-LT158624 and LT158625-LT158641, respectively. PMID:27375597

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

PubMed Central

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. PMID:22267001

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

NASA Astrophysics Data System (ADS)

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 several decades (e.g., land-use change, timber exploitation, and air pollution). However, regional evaluations that account for all of the local disturbances have been difficult. Data from field measurements play a pivotal role in comparing model simulations with observations.

TXNL1-XRCC1 pathway regulates cisplatin-induced cell death and contributes to resistance in human gastric cancer

PubMed Central

Xu, W; Wang, S; Chen, Q; Zhang, Y; Ni, P; Wu, X; Zhang, J; Qiang, F; Li, A; Røe, O D; Xu, S; Wang, M; Zhang, R; Zhou, J

2014-01-01

Cisplatin is a cytotoxic platinum compound that triggers DNA crosslinking induced cell death, and is one of the reference drugs used in the treatment of several types of human cancers including gastric cancer. However, intrinsic or acquired drug resistance to cisplatin is very common, and leading to treatment failure. We have recently shown that reduced expression of base excision repair protein XRCC1 (X-ray repair cross complementing group1) in gastric cancerous tissues correlates with a significant survival benefit from adjuvant first-line platinum-based chemotherapy. In this study, we demonstrated the role of XRCC1 in repair of cisplatin-induced DNA lesions and acquired cisplatin resistance in gastric cancer by using cisplatin-sensitive gastric cancer cell lines BGC823 and the cisplatin-resistant gastric cancer cell lines BGC823/cis-diamminedichloridoplatinum(II) (DDP). Our results indicated that the protein expression of XRCC1 was significantly increased in cisplatin-resistant cells and independently contributed to cisplatin resistance. Irinotecan, another chemotherapeutic agent to induce DNA damaging used to treat patients with advanced gastric cancer that progressed on cisplatin, was found to inhibit the expression of XRCC1 effectively, and leading to an increase in the sensitivity of resistant cells to cisplatin. Our proteomic studies further identified a cofactor of 26S proteasome, the thioredoxin-like protein 1 (TXNL1) that downregulated XRCC1 in BGC823/DDP cells via the ubiquitin-proteasome pathway. In conclusion, the TXNL1-XRCC1 is a novel regulatory pathway that has an independent role in cisplatin resistance, indicating a putative drug target for reversing cisplatin resistance in gastric cancer. PMID:24525731

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

PubMed

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.

BOREAS RSS-4 1994 Jack Pine Leaf Biochemistry and Modeled Spectra in the SSA

NASA Technical Reports Server (NTRS)

Hall, Forrest G. (Editor); Nickeson, Jaime (Editor); Plummer, Stephen; Lucas, Neil; Dawson, Terry

2000-01-01

The BOREAS RSS-4 team focused its efforts on deriving estimates of LAI and leaf chlorophyll and nitrogen concentrations from remotely sensed data for input into the Forest BGC model. This data set contains measurements of jack pine (Pinus banksiana) needle biochemistry from the BOREAS SSA in July and August 1994. The data contain measurements of current and year-1 needle chlorophyll, nitrogen, lignin, cellulose, and water content for the OJP flux tower and nearby auxiliary sites. The data have been used to test a needle reflectance and transmittance model, LIBERTY (Dawson et al., in press). The source code for the model and modeled needle spectra for each of the sampled tower and auxiliary sites are provided as part of this data set. The LIBERTY model was developed and the predicted spectral data generated to parameterize a canopy reflectance model (North, 1996) for comparison with AVIRIS, POLDER, and PARABOLA data. The data and model source code are stored in ASCII files.

Birding with Children: A Nest of Activities.

ERIC Educational Resources Information Center

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)

Normal Fibroblasts Induce E-Cadherin Loss and Increase Lymph Node Metastasis in Gastric Cancer

PubMed Central

Xu, Wen; Hu, Xinlei; Chen, Zhongting; Zheng, Xiaoping; Zhang, Chenjing; Wang, Gang; Chen, Yu; Zhou, Xinglu; Tang, Xiaoxiao; Luo, Laisheng; Xu, Xiang; Pan, Wensheng

2014-01-01

Background A tumor is considered a heterogeneous complex in a three-dimensional environment that is flush with pathophysiological and biomechanical signals. Cell-stroma interactions guide the development and generation of tumors. Here, we evaluate the contributions of normal fibroblasts to gastric cancer. Methodology/Principal Findings By coculturing normal fibroblasts in monolayers of BGC-823 gastric cancer cells, tumor cells sporadically developed short, spindle-like morphological characteristics and demonstrated enhanced proliferation and invasive potential. Furthermore, the transformed tumor cells demonstrated decreased tumor formation and increased lymphomatic and intestinal metastatic potential. Non-transformed BGC-823 cells, in contrast, demonstrated primary tumor formation and delayed intestinal and lymph node invasion. We also observed E-cadherin loss and the upregulation of vimentin expression in the transformed tumor cells, which suggested that the increase in metastasis was induced by epithelial-to-mesenchymal transition. Conclusion Collectively, our data indicated that normal fibroblasts sufficiently induce epithelial-to-mesenchymal transition in cancer cells, thereby leading to metastasis. PMID:24845259

Hummingbirds Visit the Playground.

ERIC Educational Resources Information Center

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)

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

NASA Astrophysics Data System (ADS)

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 textures and vegetative types. The simulated results showed that the presence of 50 cm of coarser graded sand overlying 50 cm of finer graded sand is the most effective reclaimed prescription to increase AWHC and forest productivity among the studied soil profiles.

Deriving forest fire ignition risk with biogeochemical process modelling.

PubMed

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.

Saying Hello.

ERIC Educational Resources Information Center

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)

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

Cohen, Warren

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 inmore » 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.« less

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

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 inmore » 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.« less

Long-term records of global radiation, carbon and water fluxes derived from multi-satellite data and a process-based model

NASA Astrophysics Data System (ADS)

Ryu, Youngryel; Jiang, Chongya

2016-04-01

To gain insights about the underlying impacts of global climate change on terrestrial ecosystem fluxes, we present a long-term (1982-2015) global radiation, carbon and water fluxes products by integrating multi-satellite data with a process-based model, the Breathing Earth System Simulator (BESS). BESS is a coupled processed model that integrates radiative transfer in the atmosphere and canopy, photosynthesis (GPP), and evapotranspiration (ET). BESS was designed most sensitive to the variables that can be quantified reliably, fully taking advantages of remote sensing atmospheric and land products. Originally, BESS entirely relied on MODIS as input variables to produce global GPP and ET during the MODIS era. This study extends the work to provide a series of long-term products from 1982 to 2015 by incorporating AVHRR data. In addition to GPP and ET, more land surface processes related datasets are mapped to facilitate the discovery of the ecological variations and changes. The CLARA-A1 cloud property datasets, the TOMS aerosol datasets, along with the GLASS land surface albedo datasets, were input to a look-up table derived from an atmospheric radiative transfer model to produce direct and diffuse components of visible and near infrared radiation datasets. Theses radiation components together with the LAI3g datasets and the GLASS land surface albedo datasets, were used to calculate absorbed radiation through a clumping corrected two-stream canopy radiative transfer model. ECMWF ERA interim air temperature data were downscaled by using ALP-II land surface temperature dataset and a region-dependent regression model. The spatial and seasonal variations of CO2 concentration were accounted by OCO-2 datasets, whereas NOAA's global CO2 growth rates data were used to describe interannual variations. All these remote sensing based datasets are used to run the BESS. Daily fluxes in 1/12 degree were computed and then aggregated to half-month interval to match with the spatial-temporal resolution of LAI3g dataset. The BESS GPP and ET products were compared to other independent datasets including MPI-BGC and CLM. Overall, the BESS products show good agreement with the other two datasets, indicating a compelling potential for bridging remote sensing and land surface models.

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

PubMed

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.

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

NASA Astrophysics Data System (ADS)

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.

Seasonality of semi-arid and savanna-type ecosystems in an Earth system model

NASA Astrophysics Data System (ADS)

Dahlin, K.; Swenson, S. C.; Lombardozzi, D.; Kamoske, A.

2016-12-01

Recent work has identified semi-arid and savanna-type (SAST) ecosystems as a critical component of interannual variability in the Earth system (Poulter et al. 2014, Ahlström et al. 2015), yet our understanding of the spatial and temporal patterns present in these systems remains limited. There are three major factors that contribute to the complex behavior of SAST ecosystems, globally. First is leaf phenology, the timing of the appearance, presence, and senescence of plant leaves. Plants grow and drop their leaves in response to a variety of cues, including soil moisture, rainfall, day length, and relative humidity, and alternative phenological strategies might often co-exist in the same location. The second major factor in savannas is soil moisture. The complex nature of soil behavior under extremely dry, then extremely wet conditions is critical to our understanding of how savannas function. The third factor is fire. Globally, virtually all savanna-type ecosystems operate with some non-zero fire return interval. Here we compare model output from the Community Land Model (CLM5-BGC) in SAST regions to remotely sensed data on these three variables - phenology (MODIS LAI), soil moisture (SMAP), and fire (GFED4) - assessing both annual spatial patterns and intra-annual variability, which is critical in these highly variable systems. We present new SAST-specific first- and second-order benchmarks, including numbers of annual LAI peaks (often >1 in SAST systems) and correlations between soil moisture, LAI, and fire. Developing a better understanding of how plants respond to seasonal patterns is a critical first step in understanding how SAST ecosystems will respond to and influence climate under future scenarios.

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

NASA Technical Reports Server (NTRS)

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.

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

NASA Astrophysics Data System (ADS)

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 and data collected along the ship track are available at https://doi.org/10.17882/51691.

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

NASA Astrophysics Data System (ADS)

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

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

NASA Astrophysics Data System (ADS)

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 field survey) were weighted for priority. We compared some gradient-based global optimization methods of Dakota starting with the default parameters of Biome-BGC. In the result of sensitive analysis, carbon allocation parameters between coarse root and leaf, between stem and leaf, and SLA had high contribution on both leaf and woody biomass changes. These parameters were selected to be optimized. The measured leaf, above- and below-ground woody biomass carbon density at the last year were 0.22, 1.81 and 0.86 kgC m-2, respectively, whereas those simulated in the non-optimized control case using all default parameters were 0.12, 2.26 and 0.52 kgC m-2, respectively. After optimizing the parameters, the simulated values were improved to 0.19, 1.81 and 0.86 kgC m-2, respectively. The coliny global optimization method gave the better fitness than efficient global and ncsu direct method. The optimized parameters showed the higher carbon allocation rates to coarse roots and leaves and the lower SLA than the default parameters, which were consistent to the general water physiological response in a dry climate. The simulation using the weighted object function resulted in the closer simulations to the measurements at the last year with the lower fitness during the previous years.

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

NASA Astrophysics Data System (ADS)

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

2017-12-01

Our understanding of ecosystem response to the extreme events is generally limited to rare observations from the natural historical events. However, investigating extreme events under controlled conditions can improve our understanding of these natural phenomena. A novel field experiment was conducted in a northern hardwood forest at the Hubbard Brook Experimental Forest in New Hampshire in the northeastern United States to quantify the influence of ice storms on the ecological processes. During subfreezing conditions in the winters of 2016 and 2017, water from a nearby stream was pumped and sprayed on the canopy of eight experimental plots to accrete ice to a targeted thickness on the canopy. The experiment was conducted at three levels of icing thickness (0.25, 0.5, 0.75 in.) in 2016 comparable to the naturally occurring 1998 ice storm and a second 0.5 in. treatment 2017 which were compared with reference plots. The most notable response of the icing treatments was a marked increase in fine and course litter fall which increased exponentially with increases in the icing thickness. Post-treatment openings in the canopy caused short-term increases in soil temperature in the ice-treatment plots compared to the reference plots. No response from the ice storm treatments were detected for soil moisture, net N mineralization, net nitrification, or denitrification after both natural and experimental ice storm. In contrast to the marked increase in the stream water nitrate after the natural occurring 1998 ice storm, we have not observed any significant change in soil solution N concentrations in the experimental ice storm treatments. Inconsistency in the response between the natural and experimental ice storm is likely due to differences in geophysical characteristics of the study sites including slope and lateral uptake of nutrient by the trees outside the experimental plots. In order to evaluate the long-term impacts of ice storms on northern hardwood forests, we used 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.

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

PubMed

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.

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

NASA Astrophysics Data System (ADS)

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 (p<0.01), a significant increment in temperature for both humid mangrove's categories (p<0.001), and a significant decrease in precipitation for ARsw (p<0.001). All mangrove 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 < 0.21). Our results have implications for better understanding mangrove's ecosystem function and environmental services, as well as their potential vulnerability to climate variability.

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

NASA Astrophysics Data System (ADS)

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.

Deriving forest fire ignition risk with biogeochemical process modelling☆

PubMed Central

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

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

PubMed

Berner, Logan T; Law, Beverly E

2016-01-19

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.

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

NASA Astrophysics Data System (ADS)

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.

Predicting acidification recovery at the Hubbard Brook Experimental Forest, New Hampshire: evaluation of four models.

PubMed

Tominaga, Koji; Aherne, Julian; Watmough, Shaun A; Alveteg, Mattias; Cosby, Bernard J; Driscoll, Charles T; Posch, Maximilian; Pourmokhtarian, Afshin

2010-12-01

The performance and prediction uncertainty (owing to parameter and structural uncertainties) of four dynamic watershed acidification models (MAGIC, PnET-BGC, SAFE, and VSD) were assessed by systematically applying them to data from the Hubbard Brook Experimental Forest (HBEF), New Hampshire, where long-term records of precipitation and stream chemistry were available. In order to facilitate systematic evaluation, Monte Carlo simulation was used to randomly generate common model input data sets (n = 10,000) from parameter distributions; input data were subsequently translated among models to retain consistency. The model simulations were objectively calibrated against observed data (streamwater: 1963-2004, soil: 1983). The ensemble of calibrated models was used to assess future response of soil and stream chemistry to reduced sulfur deposition at the HBEF. Although both hindcast (1850-1962) and forecast (2005-2100) predictions were qualitatively similar across the four models, the temporal pattern of key indicators of acidification recovery (stream acid neutralizing capacity and soil base saturation) differed substantially. The range in predictions resulted from differences in model structure and their associated posterior parameter distributions. These differences can be accommodated by employing multiple models (ensemble analysis) but have implications for individual model applications.

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

NASA Astrophysics Data System (ADS)

Kondo, M.; Ichii, K.

2012-12-01

Understanding the mechanism of the terrestrial carbon cycle is essential for assessing the impact of climate change. Quantification of both carbon exchange and storage is the key to the understanding, but it often associates with difficulties due to complex entanglement of environmental and physiological factors. Terrestrial ecosystem models have been the major tools to assess the terrestrial carbon budget for decades. Because of its strong association with climate change, carbon exchange has been more rigorously investigated by the terrestrial biosphere modeling community. Seeming success of model based assessment of carbon budge often accompanies with the ill effect, substantial misrepresentation of storage. In practice, a number of model based analyses have paid attention solely on terrestrial carbon fluxes and often neglected carbon storage such as forest biomass. Thus, resulting model parameters are inevitably oriented to carbon fluxes. This approach is insufficient to fully reduce uncertainties about future terrestrial carbon cycles and climate change because it does not take into account the role of biomass, which is equivalently important as carbon fluxes in the system of carbon cycle. To overcome this issue, a robust methodology for improving the global assessment of both carbon budget and storage is needed. One potentially effective approach to identify a suitable balance of carbon allocation proportions for each individual ecosystem. Carbon allocations can influence the plant growth by controlling the amount of investment acquired from photosynthesis, as well as carbon fluxes by controlling the carbon content of leaves and litter, both are active media for photosynthesis and decomposition. Considering those aspects, there may exist the suitable balance of allocation proportions enabling the simultaneous reproduction of carbon budget and storage. The present study explored the existence of such suitable balances of allocation proportions, and examines the 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.

An overview of chitin or chitosan/nano ceramic composite scaffolds for bone tissue engineering.

PubMed

Deepthi, S; Venkatesan, J; Kim, Se-Kwon; Bumgardner, Joel D; Jayakumar, R

2016-12-01

Chitin and chitosan based nanocomposite scaffolds have been widely used for bone tissue engineering. These chitin and chitosan based scaffolds were reinforced with nanocomponents viz Hydroxyapatite (HAp), Bioglass ceramic (BGC), Silicon dioxide (SiO 2 ), Titanium dioxide (TiO 2 ) and Zirconium oxide (ZrO 2 ) to develop nanocomposite scaffolds. Plenty of works have been reported on the applications and characteristics of the nanoceramic composites however, compiling the work done in this field and presenting it in a single article is a thrust area. This review is written with an aim to fill this gap and focus on the preparations and applications of chitin or chitosan/nHAp, chitin or chitosan/nBGC, chitin or chitosan/nSiO 2 , chitin or chitosan/nTiO 2 and chitin or chitosan/nZrO 2 in the field of bone tissue engineering in detail. Many reports so far exemplify the importance of ceramics in bone regeneration. The effect of nanoceramics over native ceramics in developing composites, its role in osteogenesis etc. are the gist of this review. Copyright © 2016 Elsevier B.V. All rights reserved.

EDA-containing fibronectin increases proliferation of embryonic stem cells.

PubMed

Losino, Noelia; Waisman, Ariel; Solari, Claudia; Luzzani, Carlos; Espinosa, Darío Fernández; Sassone, Alina; Muro, Andrés F; Miriuka, Santiago; Sevlever, Gustavo; Barañao, Lino; Guberman, Alejandra

2013-01-01

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.

EDA-Containing Fibronectin Increases Proliferation of Embryonic Stem Cells

PubMed Central

Losino, Noelia; Waisman, Ariel; Solari, Claudia; Luzzani, Carlos; Espinosa, Darío Fernández; Sassone, Alina; Muro, Andrés F.; Miriuka, Santiago; Sevlever, Gustavo; Barañao, Lino; Guberman, Alejandra

2013-01-01

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. PMID:24244705

Effects of optical clearing agents on noninvasive blood glucose monitoring with optical coherence tomography: a pilot study

NASA Astrophysics Data System (ADS)

He, Ruoyu; Wei, Huajiang; Gu, Huimin; Zhu, Zhengguo; Zhang, Yuqing; Guo, Xiao; Cai, Tiantian

2012-10-01

Recently, the capability of optical coherence tomography (OCT) has been demonstrated for noninvasive blood glucose monitoring. In this work, we investigate the administration of chemical agents onto human skin tissue to increase the transparency of the surface of the skin, as a means of improving the capability of OCT imaging for clinically relevant applications. Eight groups of experiments were proposed, in which different optical clearing agents (OCA) were used. The results indicate that, when properly used, some OCAs perform well in promoting the capability of OCT for noninvasive blood glucose monitoring. Among the four kinds of OCA we used, 50% v/v glycerol solute turns out to be the best enhancer. Compared with the results of the experiments in which no OCA was used, when 50% glycerol was applied onto the human skin topically, the correlation coefficient between the OCT signal slope (OCTSS) and blood glucose concentration (BGC) was improved by 7.1% on average, and the lag time between changes in the OCTSS and BGC was cut by 8 min on average. The results of 10 w/v mannitol were also good, but not as pronounced.

Crossovers are associated with mutation and biased gene conversion at recombination hotspots.

PubMed

Arbeithuber, Barbara; Betancourt, Andrea J; Ebner, Thomas; Tiemann-Boege, Irene

2015-02-17

Meiosis is a potentially important source of germline mutations, as sites of meiotic recombination experience recurrent double-strand breaks (DSBs). However, evidence for a local mutagenic effect of recombination from population sequence data has been equivocal, likely because mutation is only one of several forces shaping sequence variation. By sequencing large numbers of single crossover molecules obtained from human sperm for two recombination hotspots, we find direct evidence that recombination is mutagenic: Crossovers carry more de novo mutations than nonrecombinant DNA molecules analyzed for the same donors and hotspots. The observed mutations were primarily CG to TA transitions, with a higher frequency of transitions at CpG than non-CpGs sites. This enrichment of mutations at CpG sites at hotspots could predominate in methylated regions involving frequent single-stranded DNA processing as part of DSB repair. In addition, our data set provides evidence that GC alleles are preferentially transmitted during crossing over, opposing mutation, and shows that GC-biased gene conversion (gBGC) predominates over mutation in the sequence evolution of hotspots. These findings are consistent with the idea that gBGC could be an adaptation to counteract the mutational load of recombination.

Crossovers are associated with mutation and biased gene conversion at recombination hotspots

PubMed Central

Arbeithuber, Barbara; Betancourt, Andrea J.; Ebner, Thomas; Tiemann-Boege, Irene

2015-01-01

Meiosis is a potentially important source of germline mutations, as sites of meiotic recombination experience recurrent double-strand breaks (DSBs). However, evidence for a local mutagenic effect of recombination from population sequence data has been equivocal, likely because mutation is only one of several forces shaping sequence variation. By sequencing large numbers of single crossover molecules obtained from human sperm for two recombination hotspots, we find direct evidence that recombination is mutagenic: Crossovers carry more de novo mutations than nonrecombinant DNA molecules analyzed for the same donors and hotspots. The observed mutations were primarily CG to TA transitions, with a higher frequency of transitions at CpG than non-CpGs sites. This enrichment of mutations at CpG sites at hotspots could predominate in methylated regions involving frequent single-stranded DNA processing as part of DSB repair. In addition, our data set provides evidence that GC alleles are preferentially transmitted during crossing over, opposing mutation, and shows that GC-biased gene conversion (gBGC) predominates over mutation in the sequence evolution of hotspots. These findings are consistent with the idea that gBGC could be an adaptation to counteract the mutational load of recombination. PMID:25646453

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

NASA Astrophysics Data System (ADS)

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.

A simple method for estimating gross carbon budgets for vegetation in forest ecosystems.

PubMed

Ryan, Michael G.

1991-01-01

Gross carbon budgets for vegetation in forest ecosystems are difficult to construct because of problems in scaling flux measurements made on small samples over short periods of time and in determining belowground carbon allocation. Recently, empirical relationships have been developed to estimate total belowground carbon allocation from litterfall, and maintenance respiration from tissue nitrogen content. I outline a method for estimating gross carbon budgets using these empirical relationships together with data readily available from ecosystem studies (aboveground wood and canopy production, aboveground wood and canopy biomass, litterfall, and tissue nitrogen contents). Estimates generated with this method are compared with annual carbon fixation estimates from the Forest-BGC model for a lodgepole pine (Pinus contorta Dougl.) and a Pacific silver fir (Abies amabilis Dougl.) chronosequence.

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

NASA Technical Reports Server (NTRS)

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.

Biogeochemical Coupling between Ocean and Sea Ice

NASA Astrophysics Data System (ADS)

Wang, S.; Jeffery, N.; Maltrud, M. E.; Elliott, S.; Wolfe, J.

2016-12-01

Biogeochemical processes in ocean and sea ice are tightly coupled at high latitudes. Ongoing changes in Arctic and Antarctic sea ice domain likely influence the coupled system, not only through physical fields but also biogeochemical properties. Investigating the system and its changes requires representation of ocean and sea ice biogeochemical cycles, as well as their coupling in Earth System Models. Our work is based on ACME-HiLAT, a new offshoot of the Community Earth System Model (CESM), including a comprehensive representation of marine ecosystems in the form of the Biogeochemical Elemental Cycling Module (BEC). A full vertical column sea ice biogeochemical module has recently been incorporated into the sea ice component. We have further introduced code modifications to couple key growth-limiting nutrients (N, Si, Fe), dissolved and particulate organic matter, and phytoplankton classes that are important in polar regions between ocean and sea ice. The coupling of ocean and sea ice biology-chemistry will enable representation of key processes such as the release of important climate active constituents or seeding algae from melting sea ice into surface waters. Sensitivity tests suggest sea ice and ocean biogeochemical coupling influences phytoplankton competition, biological production, and the CO2 flux. Sea ice algal seeding plays an important role in determining phytoplankton composition of Arctic early spring blooms, since different groups show various responses to the seeding biomass. Iron coupling leads to increased phytoplankton biomass in the Southern Ocean, which also affects carbon uptake via the biological pump. The coupling of macronutrients and organic matter may have weaker influences on the marine ecosystem. Our developments will allow climate scientists to investigate the fully coupled responses of the sea ice-ocean BGC system to physical changes in polar climate.

Assessing in silico the recruitment and functional spectrum of bacterial enzymes from secondary metabolism.

PubMed

Veprinskiy, Valery; Heizinger, Leonhard; Plach, Maximilian G; Merkl, Rainer

2017-01-26

Microbes, plants, and fungi synthesize an enormous number of metabolites exhibiting rich chemical diversity. For a high-level classification, metabolism is subdivided into primary (PM) and secondary (SM) metabolism. SM products are often not essential for survival of the organism and it is generally assumed that SM enzymes stem from PM homologs. We wanted to assess evolutionary relationships and function of bona fide bacterial PM and SM enzymes. Thus, we analyzed the content of 1010 biosynthetic gene clusters (BGCs) from the MIBiG dataset; the encoded bacterial enzymes served as representatives of SM. The content of 15 bacterial genomes known not to harbor BGCs served as a representation of PM. Enzymes were categorized on their EC number and for these enzyme functions, frequencies were determined. The comparison of PM/SM frequencies indicates a certain preference for hydrolases (EC class 3) and ligases (EC class 6) in PM and of oxidoreductases (EC class 1) and lyases (EC class 4) in SM. Based on BLAST searches, we determined pairs of PM/SM homologs and their functional diversity. Oxidoreductases, transferases (EC class 2), lyases and isomerases (EC class 5) form a tightly interlinked network indicating that many protein folds can accommodate different functions in PM and SM. In contrast, the functional diversity of hydrolases and especially ligases is significantly limited in PM and SM. For the most direct comparison of PM/SM homologs, we restricted for each BGC the search to the content of the genome it comes from. For each homologous hit, the contribution of the genomic neighborhood to metabolic pathways was summarized in BGC-specific html-pages that are interlinked with KEGG; this dataset can be downloaded from https://www.bioinf.ur.de . Only few reaction chemistries are overrepresented in bacterial SM and at least 55% of the enzymatic functions present in BGCs possess PM homologs. Many SM enzymes arose in PM and Nature utilized the evolvability of enzymes similarly to establish novel functions both in PM and SM. Future work aimed at the elucidation of evolutionary routes that have interconverted a PM enzyme into an SM homolog can profit from our BGC-specific annotations.

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

NASA Astrophysics Data System (ADS)

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 of changes in local environmental factors, but also on site-specific conditions such as regional climate and soil depth.

Long non-coding RNA AK096174 promotes cell proliferation and invasion in gastric cancer by regulating WDR66 expression.

PubMed

Zhang, Yeqian; Yu, Site; Zhang, Zizhen; Zhao, Gang; Xu, Jia

2018-05-01

Gastric cancer is one of the major causes of cancer death worldwide; however, the mechanism of carcinogenesis is complex and poorly understood. Long noncoding RNA (lncRNA) have been reported to be involved in the development of multiple cancers. Here we identified a novel lncRNA, AK096174, which was upregulated and associated with tumorigenesis, tumor size, metastasis, and poor prognosis in gastric cancer. Our data showed that AK096174 was highly expressed in the gastric cancer tissues and cell lines (SGC-7901, AGS, BGC-823, MGC-803), and patients with higher AK096174 expression had a poorer prognosis and shorter overall survival. AK096174 knockdown inhibited the proliferation, migration and invasiveness in SGC-7901 and BGC-823 cells, whereas AK096174 overexpression had the promoting effects. Furthermore, mechanistic investigation showed that AK096174 positively correlated with the expression of WD repeat-containing protein 66 (WDR66) gene at the translational level. Knockdown of WRD66 attenuated the positive impact of AK096174 in gastric cancer cells. The findings of this study establish a function for AK096174 in gastric cancer progression and suggest it may serve as a potential target for gastric cancer therapy in the future. ©2018 The Author(s).

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

PubMed Central

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

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

DOE PAGES

Berner, Logan T.; Law, Beverly E.

2016-01-19

Plant trait measurements are needed for evaluating ecological responses to environmental conditions and for ecosystem process model development, parameterization, and testing. Here, 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 thanmore » 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.« less

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

DOE PAGES

Paudel, Rajendra; Mahowald, Natalie M.; Hess, Peter G. M.; ...

2016-03-10

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 ofmore » 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 changes in methane substrate production and the areal extent of wetlands. The detrended interannual variability of high-latitude methane emissions is explained by the variation in substrate production and wetland inundation extent, whereas the tropical emission variability is explained by both of those variables and precipitation.« less

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

Paudel, Rajendra; Mahowald, Natalie M.; Hess, Peter G. M.

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 ofmore » 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 changes in methane substrate production and the areal extent of wetlands. The detrended interannual variability of high-latitude methane emissions is explained by the variation in substrate production and wetland inundation extent, whereas the tropical emission variability is explained by both of those variables and precipitation.« less

YAP1 enhances cell proliferation, migration, and invasion of gastric cancer in vitro and in vivo.

PubMed

Sun, Dan; Li, Xiaoting; He, Yingjian; Li, Wenhui; Wang, Ying; Wang, Huan; Jiang, Shanshan; Xin, Yan

2016-12-06

Yes-associated protein 1 (YAP1) plays an important role in the development of carcinomas such as breast, colorectal, and gastric (GC) cancers, but the role of YAP1 in GC has not been investigated comprehensively. The present study strongly suggests that YAP1 and P62 were significantly up-regulated in GC specimens, compared with normal gastric mucosa. In addition, the YAP1high P62high expression was independently associated with poor prognosis in GC (hazard ratio: 1.334, 95% confidence interval: 1.045-1.704, P = 0.021). Stable YAP1 silencing inhibited the proliferation, migration, and invasion of BGC-823 GC cells in vitro and inhibited the growth of xenograft tumor and hematogenous metastasis of BGC-823 GC cells in vivo. The mechanism was associated with inhibited extracellular signal-regulated kinases (ERK)1/2 phosphorylation, elevated E-cadherin protein expression and decreased vimentin protein expression, down-regulated β-catenin protein expression and elevated α-catenin protein expression, and down-regulated long non-coding RNA (lncRNA) expressions including HOX transcript antisense RNA (HOTAIR), H19, metastasis-associated lung adenocarcinoma transcript 1 (MALAT1), human large tumor suppressor-2 (LATS2)-AS1-001, and LATS2. YAP1 over-expression promoted the proliferation, migration, and invasion of human immortalized normal gastric mucosa GES-1 cells in vitro by reversing the above signal molecules. Subcutaneous inoculation of GES-1 cells and YAP1-over-expressing GES-1 cells into nude mice did not generate tumors. We successfully established the xenograft tumor models using MKN-45 GC cells, but immunochemistry showed that there was no YAP1 expression in MKN-45 cells. These results suggest that YAP1 is not a direct factor affecting tumor formation, but could accelerate tumor growth and metastasis. Collectively, this study highlights an important role for YAP1 as a promoter of GC growth and metastasis, and suggests that YAP1 could possibly be a potential treatment target for GC.

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

NASA Astrophysics Data System (ADS)

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 spring. In order to obtain a more comprehensive estimate of the model uncertainty, a second CLM ensemble was set up, where initial conditions and atmospheric forcings were perturbed in addition to the parameter estimates. This resulted in very high standard deviations (STD) of the modeled annual NEE sums for C3-grass and C3-crop PFTs, ranging between 24.1 and 225.9 gC m-2 y-1, compared to STD = 0.1 - 3.4 gC m-2 y-1 (effect of parameter uncertainty only, without additional perturbation of initial states and atmospheric forcings). The higher spread of modeled NEE for the C3-crop and C3-grass indicated that the model uncertainty was notably higher for those PFTs compared to the forest-PFTs. Our findings highlight the potential of parameter and uncertainty estimation to support the understanding and further development of land surface models such as CLM.

Cross site analysis of forested watersheds in the northeastern U.S. to climate change and increasing CO2 over the 21st century using a dynamic biogeochemical model (PnET-BGC)

NASA Astrophysics Data System (ADS)

Pourmokhtarian, A.; Driscoll, C. T.; Campbell, J. L.; Hayhoe, K.

2011-12-01

Effects of global climate change will be manifested differently across land areas with differing biogeographic characteristics. Understanding the nuances of forest watershed response to future climate change and the characteristics that drive this varied response is critical to assessments of effects. To assess the impacts of climate change, a multi-faceted approach is required that is capable of resolving multiple climatic drivers and other anthropogenic stressors likely to simultaneously affect ecosystems over the coming decades. Dynamic hydrochemical models are useful tools to understand and predict the interactive effects of climate change, atmospheric CO2, and atmospheric deposition on the hydrology and water quality of forested watersheds. In this study, we used the biogeochemical model, PnET-BGC, to assess, compare and contrast the effects of potential future changes in temperature, precipitation, solar radiation and atmospheric CO2 on pools, concentrations, and fluxes of major elements at four forested watersheds in the northeastern U.S.; the Hubbard Brook Experimental Forest in New Hampshire, East Bear Brook in Maine, Sleepers River Watershed in Vermont, and Huntington Wildlife Forest in New York. Future emissions scenarios were developed from monthly output from three atmosphere-ocean general circulation models (HadCM3, GFDL, PCM) in conjunction with potential lower and upper bounds of projected atmospheric CO2 (550 and 970 ppm by 2099, respectively). These climate projections indicate that over the 21st century, average air temperature will increase at all sites with simultaneous increases in annual average precipitation. The modeling results suggest that under future climatic conditions peak discharge in spring will transition from April to March due to less snowmelt and an extended growing season. Higher temperature and a decrease in the ratio of snow to rain, regardless of overall increase in total precipitation, will minimize snowpack development. Over the summer period, higher rates of evapotranspiration are predicted to decrease streamflow. Model results show that under elevated temperature, net soil nitrogen mineralization and nitrification markedly increase, resulting in acidification of soil and streamwater, although the extent varies with site land disturbance history. The watershed responses of other major elements such as SO42- and Ca2+, and chemical characteristics such as pH and ANC varied based on future climate scenario and site characteristics. Also we assessed changes in seasonal patterns of concentrations of NO3-, SO42-, Ca2+, DOC, pH, and ANC under all climate change scenarios with and without CO2 effects on vegetation over the period of 2070-2100. These results suggest that even though climate change will likely alter the overall element concentrations and fluxes, the relative seasonal patterns will not be highly altered.

MATRIS Indexing and Retrieval Thesaurus (MIRT): Definitions of Indexing Terms

DTIC Science & Technology

1994-08-01

use strategies ; may include simple manual systems for personnel management. • Bgc Marginal manpower utilization The utilization of various types of...resources. Bgg Manpower management evaluation Evaluation process including manpower plans, strategies , methods of execution, and decision making with...specialties. I I I I I I I I I U I I I I 6 MANPOWER I I I RECRUITMENT I C RECRUITMENT Process involving developing requirements and strategies for

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

NASA Astrophysics Data System (ADS)

Pietsch, S.

2016-12-01

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 assess different growth traits of the mosaic cycle of natural forest dynamics.

Estimation of regional surface resistance to evapotranspiration from NDVI and thermal-IR AVHRR data. [Normalized Difference Vegetation Index

NASA Technical Reports Server (NTRS)

Nemani, Ramakrishna R.; Running, Steven W.

1989-01-01

Infrared surface temperatures from satellite sensors have been used to infer evaporation and soil moisture distribution over large areas. However, surface energy partitioning to latent versus sensible heat changes with surface vegetation cover and water availability. The hypothesis that the relationship between surface temperature and canopy density is sensitivite to seasonal changes in canopy resistance of conifer forests is presently tested. Surface temperature and canopy density were computed for a 20 x 25 km forested region in Montana, from the NOAA/AVHRR for 8 days during the summer of 1985. A forest ecosystem model, FOREST-BGC, simulated canopy resistance for the same period. For all eight days, surface temperatures had high association with canopy density, measured as Normalized Difference Vegetation Index, implying that latent heat exchange is the major cause of spatial variations in surface radiant tmeperatures.

Sex differences in the development of diabetes in mice with deleted wolframin (Wfs1) gene.

PubMed

Noormets, K; Kõks, S; Muldmaa, M; Mauring, L; Vasar, E; Tillmann, V

2011-05-01

Wolfram syndrome, caused by mutations in the wolframin (Wfs1) gene, is characterised by juvenile-onset diabetes mellitus, progressive optic atrophy, diabetes insipidus and deafness. Diabetes tend to start earlier in boys. This study investigated sex differences in longitudinal changes in blood glucose concentration (BGC) in wolframin-deficient mice (Wfs1KO) and compared their plasma proinsulin and insulin levels with those of wild-type (wt) mice. Non-fasting BGC was measured weekly in 42 (21 males) mice from both groups at nine weeks of age. An intraperitoneal glucose tolerance test (IPGTT) was conducted at the 30 (th) week and plasma insulin, c-peptide and proinsulin levels were measured at the 32 (nd) week. At the 32 (nd) week, Wfs1KO males had increased BGC compared to wt males (9.40±0.60 mmol/l vs. 7.91±0.20 mmol/l; p<0.05). The opposite tendency was seen in females. Both male and female Wfs1KO mice had impaired glucose tolerance on IPGTT. Wfs1KO males had significantly lower mean plasma insulin levels than wt males (57.78±1.80 ng/ml vs. 69.42±3.06 ng/ml; p<0.01) and Wfs1KO females (70.30±4.42 ng/ml; p<0.05). Wfs1KO males had a higher proinsulin/insulin ratio than wt males (0.09±0.02 vs. 0.05±0.01; p=0.05) and Wfs1KO females (0.04±0.01; p<0.05). Plasma c-peptide levels in males were lower in Wfs1KO males (mean 55.3±14.0 pg/ml vs. 112.7±21.9 pg/ml; p<0.05). Male Wfs1KO mice had a greater risk of developing diabetes than female Wfs1KO mice. Low plasma insulin concentration with an increased proinsulin/insulin ratio in Wfs1KO males indicates possible disturbances in converting proinsulin to insulin which in long-term may lead to insulin deficiency. Further investigation is needed to clarify the mechanism for the sex differences in the development of diabetes in Wolfram syndrome. © J. A. Barth Verlag in Georg Thieme Verlag KG Stuttgart · New York.

Estimating dissolved organic carbon concentration in turbid coastal waters using optical remote sensing observations

NASA Astrophysics Data System (ADS)

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.

Coal gasification systems engineering and analysis. Appendix D: Cost and economic studies

NASA Technical Reports Server (NTRS)

1980-01-01

The detailed cost estimate documentation for the designs prepared in this study are presented. The include: (1) Koppers-Totzek, (2) Texaco (3) Babcock and Wilcox, (4) BGC-Lurgi, and (5) Lurgi. The alternate product cost estimates include: (1) Koppers-Totzek and Texaco single product facilities (methane, methanol, gasoline, hydrogen), (2) Kopers-Totzek SNG and MBG, (3) Kopers-Totzek and Texaco SNG and MBG, and (4) Lurgi-methane and Lurgi-methane and methanol.

Tri-Layered Nanocomposite Hydrogel Scaffold for the Concurrent Regeneration of Cementum, Periodontal Ligament, and Alveolar Bone.

PubMed

Sowmya, S; Mony, Ullas; Jayachandran, P; Reshma, S; Kumar, R Arun; Arzate, H; Nair, Shantikumar V; Jayakumar, R

2017-04-01

A tri-layered scaffolding approach is adopted for the complete and concurrent regeneration of hard tissues-cementum and alveolar bone-and soft tissue-the periodontal ligament (PDL)-at a periodontal defect site. The porous tri-layered nanocomposite hydrogel scaffold is composed of chitin-poly(lactic-co-glycolic acid) (PLGA)/nanobioactive glass ceramic (nBGC)/cementum protein 1 as the cementum layer, chitin-PLGA/fibroblast growth factor 2 as the PDL layer, and chitin-PLGA/nBGC/platelet-rich plasma derived growth factors as the alveolar bone layer. The tri-layered nanocomposite hydrogel scaffold is cytocompatible and favored cementogenic, fibrogenic, and osteogenic differentiation of human dental follicle stem cells. In vivo, tri-layered nanocomposite hydrogel scaffold with/without growth factors is implanted into rabbit maxillary periodontal defects and compared with the controls at 1 and 3 months postoperatively. The tri-layered nanocomposite hydrogel scaffold with growth factors demonstrates complete defect closure and healing with new cancellous-like tissue formation on microcomputed tomography analysis. Histological and immunohistochemical analyses further confirm the formation of new cementum, fibrous PDL, and alveolar bone with well-defined bony trabeculae in comparison to the other three groups. In conclusion, the tri-layered nanocomposite hydrogel scaffold with growth factors can serve as an alternative regenerative approach to achieve simultaneous and complete periodontal regeneration. © 2017 WILEY-VCH Verlag GmbH & Co. KGaA, Weinheim.

Synthesis and anti-tumor evaluation of panaxadiol halogen-derivatives.

PubMed

Xiao, Shengnan; Chen, Shuai; Sun, Yuanyuan; Zhou, Wuxi; Piao, Huri; Zhao, Yuqing

2017-09-01

In the current work, 13 novel panaxadiol (PD) derivatives were synthesized by reacting with chloroacetyl chloride and bromoacetyl bromide. Their in vitro antitumor activities were evaluated on three human tumor cell lines (HCT-116, BGC-823, SW-480) and three normal cells (human gastric epithelial cell line-GES-1, hair follicle dermal papilla cell line-HHDPC and rat myocardial cell line-H9C2) by MTT assay. Compared with PD, the results demonstrated that compound 1e, 2d, 2e showed significant anti-tumor activity against three tumor cell lines, the IC50 value of compound 2d against HCT-116 was the lowest (3.836μM). The anti-tumor activity of open-ring compounds are significantly better than the compounds of C-25 cyclization. Compound 1f, 2f, 2g showed the strong anti-tumor activity. The IC50 value of compound 2g against BGC-823 and SW-480 were the lowest (0.6μM and 0.1μM, respectively). Combined with cytotoxicity test, the IC50 value of compound 1e, 2d, 2e are greater than 100. the open-ring compounds (1f, 2f, 2g) showed a strong toxicity. The toxicity of 1f is lower than 2f and 2g. These compounds may be useful for the development of novel antiproliferative agents. Copyright © 2017. Published by Elsevier Ltd.

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

NASA Astrophysics Data System (ADS)

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

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

Wang, Jie; Wang, Hao; Ning, Shaowei; Hiroshi, Ishidaira

2018-06-01

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.

Synthesis and cytotoxic activity of two steroids: icogenin aglycone analogs.

PubMed

Guan, Yu-Yao; Li, Shu-Zhen; Lei, Ping-Sheng

2017-05-01

During the process of icogenin analog research, we obtained two cytotoxic steroids: compound 4 and compound 6 casually. Their in vitro antitumor activities were tested by the standard MTT assay. The results disclosed that compound 4 (IC 50  = 3.65-6.90 μM) showed potential antitumor activities against HELA, KB cell lines and compound 6 (IC 50  = 2.40-9.05 μM) showed potential antitumor activities against HELA, BGC-823, KB, A549, HCT-8 cell lines.

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

NASA Astrophysics Data System (ADS)

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.

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

PubMed

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

PubMed Central

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

2015-01-01

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. PMID:25766381

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

NASA Astrophysics Data System (ADS)

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 snow. These results indicate that as snow water subsidies decrease, ecosystems may shift from tree and shrub dominated to grassland dominated. As climate change progresses, shifts in the precipitation regimes in semi-arid environments may lead to changes in species composition and carbon stores throughout the intermountain west.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

Mitchell, S. R.; Beven, K.; Freer, J. E.; Law, B. E.

2010-12-01

Semi-arid 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 (GLUE) 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 over-estimated ecosystem C accumulation (-NEE) 99% of the time. Among the simulations for the mature and old-growth stands, 100% and 99% of the simulations under-estimated 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, both autotrophic and heterotrophic, appeared to be fundamental causes of model-data mismatch.

Responses of 20 lake-watersheds in the Adirondack region of New York to historical and potential future acidic deposition.

PubMed

Zhou, Qingtao; Driscoll, Charles T; Sullivan, Timothy J

2015-04-01

Critical loads (CLs) and dynamic critical loads (DCLs) are important tools to guide the protection of ecosystems from air pollution. In order to quantify decreases in acidic deposition necessary to protect sensitive aquatic species, we calculated CLs and DCLs of sulfate (SO4(2-))+nitrate (NO3-) for 20 lake-watersheds from the Adirondack region of New York using the dynamic model, PnET-BGC. We evaluated lake water chemistry and fish and total zooplankton species richness in response to historical acidic deposition and under future deposition scenarios. The model performed well in simulating measured chemistry of Adirondack lakes. Current deposition of SO4(2-)+NO3-, calcium (Ca2+) weathering rate and lake acid neutralizing capacity (ANC) in 1850 were related to the extent of historical acidification (1850-2008). Changes in lake Al3+ concentrations since the onset of acidic deposition were also related to Ca2+ weathering rate and ANC in 1850. Lake ANC and fish and total zooplankton species richness were projected to increase under hypothetical decreases in future deposition. However, model projections suggest that lake ecosystems will not achieve complete chemical and biological recovery in the future. Copyright © 2014. Published by Elsevier B.V.

Stream nitrate responses to hydrological forcing and climate change in northern forests of the USA (Invited)

NASA Astrophysics Data System (ADS)

Sebestyen, S. D.; Campbell, J. L.; Shanley, J. B.; Pourmokhtarian, A.; Driscoll, C. T.; Boyer, E. W.

2009-12-01

There is a need to understand how climate variability and change affect nutrient delivery to surface waters. We analyzed long-term records of hydrochemical data to explore how the forms, concentrations, and loadings of nitrogen in forest streams throughout the northern USA vary with catchment wetness. We considered projected changes in growing season length and precipitation patterns to simulate future climate scenarios and to assess how stream nitrate loading responds to hydrological forcing under different climate change scenarios. At the Sleepers River Research Watershed in northeastern Vermont, model results suggest that stream nutrient loadings over the next century will respond to hydrological forcing during climate change that affects the amount of water that flows through the landscape. For example, growing season stream water yield (+20%) and nitrate loadings (+57%) increase in response to greater amounts of precipitation (+28%) during a warmer climate with a longer growing season (+43 days). We further explore these findings by presenting model results from a biogeochemical process model (PnET-BGC) to separate changes that are due to biogeochemical cycling and the effects of hydrological forcing. Our findings suggest that nitrogen cycling and transport will intensify during anthropogenic climate forcing, thereby affecting the timing and magnitude of annual stream nutrient loadings in northern forests of the USA.

Integration of ground and satellite data to model Mediterranean forest processes

NASA Astrophysics Data System (ADS)

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.

Meta-Modeling: A Knowledge-Based Approach to Facilitating Model Construction and Reuse

NASA Technical Reports Server (NTRS)

Keller, Richard M.; Dungan, Jennifer L.

1997-01-01

In this paper, we introduce a new modeling approach called meta-modeling and illustrate its practical applicability to the construction of physically-based ecosystem process models. As a critical adjunct to modeling codes meta-modeling requires explicit specification of certain background information related to the construction and conceptual underpinnings of a model. This information formalizes the heretofore tacit relationship between the mathematical modeling code and the underlying real-world phenomena being investigated, and gives insight into the process by which the model was constructed. We show how the explicit availability of such information can make models more understandable and reusable and less subject to misinterpretation. In particular, background information enables potential users to better interpret an implemented ecosystem model without direct assistance from the model author. Additionally, we show how the discipline involved in specifying background information leads to improved management of model complexity and fewer implementation errors. We illustrate the meta-modeling approach in the context of the Scientists' Intelligent Graphical Modeling Assistant (SIGMA) a new model construction environment. As the user constructs a model using SIGMA the system adds appropriate background information that ties the executable model to the underlying physical phenomena under investigation. Not only does this information improve the understandability of the final model it also serves to reduce the overall time and programming expertise necessary to initially build and subsequently modify models. Furthermore, SIGMA's use of background knowledge helps eliminate coding errors resulting from scientific and dimensional inconsistencies that are otherwise difficult to avoid when building complex models. As a. demonstration of SIGMA's utility, the system was used to reimplement and extend a well-known forest ecosystem dynamics model: Forest-BGC.

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

PubMed

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.

Gas processing handbook

DOE Office of Scientific and Technical Information (OSTI.GOV)

Not Available

1982-04-01

Brief details are given of processes including: BGC-Lurgi slagging gasification, COGAS, Exxon catalytic coal gasification, FW-Stoic 2-stage, GI two stage, HYGAS, Koppers-Totzek, Lurgi pressure gasification, Saarberg-Otto, Shell, Texaco, U-Gas, W-D.IGI, Wellman-Galusha, Westinghouse, and Winkler coal gasification processes; the Rectisol process; the Catacarb and the Benfield processes for removing CO/SUB/2, H/SUB/2s and COS from gases produced by the partial oxidation of coal; the selectamine DD, Selexol solvent, and Sulfinol gas cleaning processes; the sulphur-tolerant shift (SSK) process; and the Super-meth process for the production of high-Btu gas from synthesis gas.

Antimicrobial and cytotoxic constituents from native Cameroonian medicinal plant Hypericum riparium.

PubMed

Tala, Michel Feussi; Talontsi, Ferdinand Mouafo; Zeng, Guang-Zhi; Wabo, Hippolyte Kamdem; Tan, Ning-Hua; Spiteller, Michael; Tane, Pierre

2015-04-01

Bioassay guided fractionation of Hypericum riparium leaves extract has resulted in the isolation and characterization of three new compounds namely chipericumin E (1), hyperenone C (3), and hyperixanthone (5), together with twenty known compounds. Their structures were elucidated based on comprehensive interpretation of spectroscopic and spectrometric data. Compounds 1-4, and 6-8 displayed moderate antibacterial activity against methicillin-resistant Staphylococcus aureus (MRSA) and cytotoxic effects on the human gastric cell line BGC-823 with IC50 values ranging from 6.54 to 18.50μM. Copyright © 2015 Elsevier B.V. All rights reserved.

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

NASA Astrophysics Data System (ADS)

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).

Sensitivity of alpine watersheds to global change

NASA Astrophysics Data System (ADS)

Zierl, B.; Bugmann, H.

2003-04-01

Mountains provide society with a wide range of goods and services, so-called mountain ecosystem services. Besides many others, these services include the most precious element for life on earth: fresh water. Global change imposes significant environmental pressure on mountain watersheds. Climate change is predicted to modify water availability as well as shift its seasonality. In fact, the continued capacity of mountain regions to provide fresh water to society is threatened by the impact of environmental and social changes. We use RHESSys (Regional HydroEcological Simulation System) to analyse the impact of climate as well as land use change (e.g. afforestation or deforestation) on hydrological processes in mountain catchments using sophisticated climate and land use scenarios. RHESSys combines distributed flow modelling based on TOPMODEL with an ecophysiological canopy model based on BIOME-BGC and a climate interpolation scheme based on MTCLIM. It is a spatially distributed daily time step model designed to solve the coupled cycles of water, carbon, and nitrogen in mountain catchments. The model is applied to various mountain catchments in the alpine area. Dynamic hydrological and ecological properties such as river discharge, seasonality of discharge, peak flows, snow cover processes, soil moisture, and the feedback of a changing biosphere on hydrology are simulated under current as well as under changed environmental conditions. Results of these studies will be presented and discussed. This project is part of an over overarching EU-project called ATEAM (acronym for Advanced Terrestrial Ecosystem Analysis and Modelling) assessing the vulnerability of European ecosystem services.

Inhibitory effects of curcumin on gastric cancer cells: a proteomic study of molecular targets.

PubMed

Cai, X Z; Huang, W Y; Qiao, Y; Du, S Y; Chen, Y; Chen, D; Yu, S; Che, R C; Liu, N; Jiang, Y

2013-04-15

Curcumin, a natural anticancer agent, has been shown to inhibit cell growth in a number of tumor cell lines and animal models. We examined the inhibition of curcumin on cell viability and its induction of apoptosis using different gastric cancer cell lines (BGC-823, MKN-45 and SCG-7901). 3-(4,5-dimethyl-thiazol-2-yl)-2-5-diphenyltetrazolium-bromide (MTT) assay showed that curcumin inhibited cell growth in a dose- (1, 5, 10 and 30 μM) and time- (24, 48, 72 and 96 h) dependent manner; analysis of Annexin V binding showed that curcumin induced apoptosis at the dose of 10 and 30 μM when the cells were treated for 24 and 48 h. As cancers are caused by dysregulation of various proteins, we investigated target proteins associated with curcumin by two-dimensional gel electrophoresis (2-DE) and MALDI-TOF-TOF mass spectrometer. BGC-823 cells were treated with 30 μM curcumin for 24 h and total protein was extracted for the 2-DE. In the first dimension of the 2-DE, protein samples (800 μg) were applied to immobilized pH gradient (IPG) strips (24 cm, pH 3-10, NL) and the isoelectric focusing (IEF) was performed using a step-wise voltage ramp; the second dimension was performed using 12.5% SDS-PAGE gel at 1 W constant power per gel. In total, 75 proteins showed significant changes over 1.5-fold in curcumin-treated cells compared to control cells (Student's t-test, p<0.05). Among them, 33 proteins were upregulated and 42 proteins downregulated by curcumin as determined by spot densitometry. 52 proteins with significant mascot scores were identified and implicated in cancer development and progression. Their biological function included cell proliferation, cycle and apoptosis (20%), metabolism (16%), nucleic acid processing (15%), cytoskeleton organization and movement (11%), signal transduction (11%), protein folding, proteolysis and translation (20%), and immune response (2%). Furthermore, protein-protein interacting analysis demonstrated the interaction networks affected by curcumin in gastric cancer cells. These data provide some clues for explaining the anticancer mechanisms of curcumin and explore more potent molecular targets of the drug expected to be helpful for the development of new drugs. Copyright © 2013 Elsevier GmbH. All rights reserved.

Design and methods for a community-based intervention to reduce sugar-sweetened beverage consumption among youth: H2GO! study.

PubMed

Wang, Monica L; Lemon, Stephenie C; Clausen, Kristian; Whyte, Julie; Rosal, Milagros C

2016-11-09

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 H 2 GO! 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. Guided by the Social Cognitive Theory and the Social Ecological Model, the H 2 GO! 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 an estimated 20 % dropout rate, the study will have 80 % power to detect a group difference of 3.9 servings of SSBs per week. Community-based approaches hold potential for decreasing SSB consumption among youth and families, particularly among underserved populations who are at greater obesity risk. This article describes the design and methods of a community-based behavioral intervention designed to reduce SSB consumption among youth and parents/caregivers. ClinicalTrials.gov NCT02890056 . Date of Registration: August 31, 2016.

The Berkeley Instrumental Neutron Generator (BINGE) for 40Ar/39Ar geochronology

NASA Astrophysics Data System (ADS)

Renne, P. R.; Becker, T. A.; Bernstein, L.; Firestone, R. B.; Kirsch, L.; Leung, K. N.; Rogers, A.; Van Bibber, K.; Waltz, C.

2014-12-01

The Berkeley Instrumental Neutron Generator (BINGE) facility is the product of a consortium involving the Berkeley Geochronology Center (BGC), the U.C. Berkeley Nuclear Engineering Dept. (UCB/NE), and Lawrence Berkeley (LBNL) and Lawrence Livermore (LLNL) National Labs. BINGE was initially designed (and funded by NSF) for 40Ar/39Ar geochronology. BINGE uses a plasma-based deuteron ion source and a self-loading Ti-surfaced target to induce deuteron-deuterium (DD) fusion via the reaction 2H(d,n)3He, producing 2.45 MeV neutrons. The limited neutron energy spectrum is aimed at reducing recoil effects, interfering nuclear reactions, and unwanted radioactive byproducts, all of which are undesirable consequences of conventional irradiation with 235U fission spectrum neutrons. Minimization of interfering reactions such as 40Ca(n,na)36Ar greatly reduces penalties for over-irradiation, enabling improved signal/background measurement of e.g. 39Ar. BINGE will also be used for a variety of nuclear physics and engineering experiments that require a high flux of monoenergetic neutrons. Neutron energies lower than 2.45 MeV can be obtained via irradiation ports within and external to polyethylene shielding. Initial commissioning produced a neutron flux of 108 n/sec/cm2 at 1 mA source current and 100 kV anode voltage, as expected. When scaled up to the 1 A source current as planned, this indicates that BINGE will achieve the design objective neutron flux of 1011 n/sec/cm2. Further progress towards this goal will be reported. Supported by NSF (grant #EAR-0960138), BGC, UCB/NE, University of California Office of the President, and DOE through LLNL under contract #DE-AC52-07NA27344 and LBNL under contract #DE-AC02-05CH11231.

DOE Office of Scientific and Technical Information (OSTI.GOV)

Xue, Gang; Zou, Xi; Zhou, Jin-Yong

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 differentmore » 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.« less

MicroRNA-495 Inhibits Gastric Cancer Cell Migration and Invasion Possibly via Targeting High Mobility Group AT-Hook 2 (HMGA2).

PubMed

Wang, Huashe; Jiang, Zhipeng; Chen, Honglei; Wu, Xiaobin; Xiang, Jun; Peng, Junsheng

2017-02-04

BACKGROUND Gastric cancer is one of the most common malignancies, and has a high mortality rate. miR-495 acts as a suppressor in some cancers and HMGA2 (high mobility group AT-hook 2) is a facilitator for cell growth and epithelial-mesenchymal transition (EMT), but little is known about their effect in gastric cancer. This study aimed to investigate the role and mechanism of miR-495 in gastric cancer. MATERIAL AND METHODS miR-495 levels were quantitatively analyzed in gastric cancer tissue and GES-1, SGC-7901, BGC-823, and HGC-27 cell lines by qRT-PCR. Levels of miR-495 and HMGA2 were altered by cell transfection, after which cell migration and invasion were examined by Transwell and E-cadherin (CDH1); vimentin (VIM), and alpha smooth muscle actin (ACTA2) were detected by qRT-PCR and Western blotting. The interaction between miR-495 and HMGA2 was verified by dual-luciferase reporter assay. RESULTS miR-495 was significantly downregulated in cancer tissue and cell lines (p<0.05). Its overexpression inhibited cell migration and invasion, elevated CDH1, and inhibited VIM and ACTA2 levels in BGC-823 and HGC-27 cells. miR-495 directly inhibited HMGA2, which was upregulated in gastric cancer tissue, and promoted cell migration and invasion, inhibited CDH1, and elevated VIM and ACTA2. CONCLUSIONS miR-495 acts as a tumor suppressor in gastric cancer by inhibiting cell migration and invasion, which may be associated with its direct inhibition on HMGA2. These results suggest a promising therapeutic strategy for gastric cancer treatment.

Extreme Recombination Frequencies Shape Genome Variation and Evolution in the Honeybee, Apis mellifera

PubMed Central

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

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

PubMed

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%.

Remote sensing of a coupled carbon-water-energy-radiation balances from the Globe to plot scales

NASA Astrophysics Data System (ADS)

Ryu, Y.; Jiang, C.; Huang, Y.; Kim, J.; Hwang, Y.; Kimm, H.; Kim, S.

2016-12-01

Advancements in near-surface and satellite remote sensing technologies have enabled us to monitor the global terrestrial ecosystems at multiple spatial and temporal scales. An emergent challenge is how to formulate a coupled water, carbon, energy, radiation, and nitrogen cycles from remote sensing. Here, we report Breathing Earth System Simulator (BESS), which coupled radiation (shortwave, longwave, PAR, diffuse PAR), carbon (gross primary productivity, ecosystem respiration, net ecosystem exchange), water (evaporation), and energy (latent and sensible heat) balances across the global land at 1 km resolution, 8 daily between 2000 and 2015 using multiple satellite remote sensing. The performance of BESS was tested against field observations (FLUXNET, BSRN) and other independent products (MPI-BGC, MODIS, GLASS). We found that the coupled model, BESS showed on par with, or better performance than the other products which computed land surface fluxes individually. Lastly, we show one plot-level study conducted in a paddy rice to demonstrate how to couple radiation, carbon, water, nitrogen balances with a series of near-surface spectral sensors.

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

NASA Astrophysics Data System (ADS)

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.

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

NASA Astrophysics Data System (ADS)

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.

Comparative study of modeling the impacts of air pollution on carbon and water cycles in terrestrial ecosystems of China during 1980-2005

NASA Astrophysics Data System (ADS)

Ren, W.; Tian, H.; Liu, M.; Chen, G.; Lu, C.; Xu, X.; Zhang, C.; Pan, S.; Felzer, B. S.; Kicklighter, D. W.; Melillo, J. M.; Mu, Q.; Running, S.; Zhao, M.

2008-12-01

China has experienced one of the most rapid changes in the past three decades, which has resulted in and will raise lots of environment problems as undergoing further rapid development in the coming years. Severe air pollution combined with other changing environment factors such as climate variability, increasing CO2 and nitrogen deposition, land use cover and change including agronomic management, significantly have been the most serious environmental problems that have threatened the sustainability of China's ecosystems as well as its economy. We investigated the potential effects of elevated ozone (O3) along with other multiple stresses on net primary productivity (NPP) and evapotransporatioin (ET) in China's terrestrial ecosystems for the period 1980-2005, by using three process-based models including the Biom-BGC, Dynamic Land Ecosystem Model (DLEM) and Terrestrial Ecosystem Model (TEM) forced by the gridded data of historical tropospheric O3, climate and other environmental factors. The comparative study of the model simulations showed that elevated O3 could result in a reduction of decadal mean NPP up to 390 TgC, and a small temporal change in total ET nationwide from 1980 to 2005. However, changes in annual NPP and ET across China's terrestrial ecosystems show substantial spatial variation and the reduction rate of NPP up to 32% indicate varied sensitivity and vulnerability to elevated ozone pollution among different plant functional types. The comparative study indicates that there is an important need to test the simulated results and models' behavior against field experiments.

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

PubMed

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.

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

DOE Office of Scientific and Technical Information (OSTI.GOV)

Beverly Law; David Turner; Warren Cohen

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)more » 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)?« less

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

PubMed

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.

Nested Global Inversion for the Carbon Flux Distribution in Canada and USA from 1994 to 2003

NASA Astrophysics Data System (ADS)

Chen, J. M.; Deng, F.; Ishizawa, M.; Ju, W.; Mo, G.; Chan, D.; Higuchi, K.; Maksyutov, S.

2007-12-01

Based on TransCom inverse modeling for 22 global regions, we developed a nested global inversion system for estimating carbon fluxes of 30 regions in North America (2 of the 22 regions are divided into 30). Irregular boundaries of these 30 regions are delineated based on ecosystem types and provincial/state borders. Synthesis Bayesian inversion is conducted in monthly steps using CO2 concentration measurements at 88 coastal and continental stations of the globe for the 1994-2003 period (NOAA GlobalView database). Responses of these stations to carbon fluxes from the 50 regions are simulated using the transport model of National Institute for Environmental Studies of Japan and reanalysis wind fields of the National Centers for Environmental Prediction (NCEP). Terrestrial carbon flux fields modeled using BEPS and Biome-BGC driven by NCEP reanalysis meteorological data are used as two different a priori to constrain the inversion. The inversion (top- down) results are compared with remote sensing-based ecosystem modeling (bottom-up) results in Canada's forests and wetlands. There is a broad consistency in the spatial pattern of the carbon source and sink distributions obtained using these two independent methods. Both sets of results also indicate that Canada's forests and wetlands are carbon sinks in 1994-2003, but the top-down method produces consistently larger sinks than the bottom-up results. Reasons for this discrepancy may lie in both methods, and several issues are identified for further investigation.

Assessing Impacts of Selective Logging on Water, Energy, and Carbon Fluxes in Amazon Forests Using the Functionally Assembled Terrestrial Ecosystem Simulator (FATES)

NASA Astrophysics Data System (ADS)

Xu, Y.; Huang, M.; Keller, M. M.; Longo, M.; Knox, R. G.; Koven, C.; Fisher, R.

2016-12-01

As a key component in the climate system, old-growth tropical forests act as carbon sinks that remove CO2 from the atmosphere. However, these forests could be easily turned into C sources when disturbed. In fact, over half of tropical forests have been cleared or logged, and almost half of standing primary tropical forests are designated for timber production. Existing literature suggests that timber harvests alone could contribute up to 25% as much C losses as deforestation in Amazon. Yet, the spatial extent and recovery trajectory of disturbed forests in a changing climate are highly uncertain. This study constitutes our first attempt to quantify impacts of selective logging on water, energy, and carbon budgets in Amazon forests using the Functionally Assembled Terrestrial Ecosystem Simulator (FATES). The Community Land Model version 4.5 (CLM4.5), with and without FATES turned on, are configured to run at two flux towers established in the Large Scale Biosphere-Atmosphere Experiment in Amazonia (LBA). One tower is located at in an old-growth forest (i.e. KM67) and the other is located in a selectively logged site (i.e., KM83). The three CLM4.5 options, (1) Satellite Phenology (CLM4.5-SP), (2) Century-based biogeochemical cycling with prognostic phenology (CLM4.5-BGC), and (3) CLM4.5-FATES, are spun up to equilibrium by recycling the observed meteorology at the towers, respectively. The simulated fluxes (i.e., sensible heat, latent heat, and net ecosystem exchange) are then compared to observations at KM67 to evaluate the capability of the models in capturing water and carbon dynamics in old-growth tropical forests. Our results suggest that all three models perform reasonably well in capturing the fluxes but demographic features simulated by FATES, such as distributions of diameter at breast height (DBH) and stem density (SD), are skewed heavily toward extremely large trees (e.g., > 100 cm in DBH) when compared to site surveys at the forest plots. Efforts are underway to evaluate parametric sensitivity in FATES to improve simulations in old-growth forests, and to implement parameterization to represent pulse disturbance to carbon pools created by logging events at different intensities, and follow-up recovery closely related to gap-phase regeneration and competition for lights within the gaps.

Chlorophyll Fluorescence Is a Better Proxy for Sunlit Leaf Than Total Canopy Photosynthesis

NASA Astrophysics Data System (ADS)

Chen, J. M.; Wang, Z.; Zhang, F.; Mo, G.

2015-12-01

Chlorophyll fluorescence (CF) results from non-photochemical quenching during plant photosynthesis under excessive radiation. We explore the relationship between gross primary productivity (GPP) and CF using a process ecosystem model, which separates a vegetation canopy into sunlit and shaded leaf groups and simulates the total canopy GPP as the sum of sunlit and shaded leaf GPP. Using GOME-2 and GOSAT data acquired in 2010 over the global land surface, we found that measured CF signals gridded in 1 degree resolution are well correlated with simulated total GPP and its sunlit and shaded components, but the correlation coefficients (R) are largest for the sunlit GPP and smallest for shaded GPP. The seasonal R2 values vary from 0.57 to 0.74, 0.58 to 0.71, and 0.48 to 0.56 for sunlit, total and shaded GPP, respectively. The significance levels for these correlations are all greater than p<0.01. Averaged over the globe, the total simulated shaded GPP is 39% of the total GPP. Theoretically, CF from vegetation comes mostly from sunlit leaves. The significant correlation between measured canopy-level CF and the shaded GPP is likely due to the correlation between shaded and sunlit GPP as both increase with leaf area index. Our simulation confirms the validity of using canopy-level CF measurements to assess the total GPP as the first approximation, although these measurements are a consistently better indicator of sunlit GPP than total GPP. In previous studies, the R2 values for the correlation between CF and total GPP were found to range from 0.76 to 0.88, 0.56 to 0.78, and 0.57 to 0.77 for MPI-BGC, MODIS and CASA model results, respectively. These values are similar or larger than those for sunlit GPP simulated in our study, but are considerably larger than those for total GPP in our study because the correlation for total GPP is contaminated by the inclusion of shaded GPP. All these three models use canopy total light use efficiency without considering the differences between sunlit and shaded leaves, and therefore they mostly capture spatio-temporal variations in sunlit GPP. We therefore argue that solar-induced CF measured from vegetation is a better proxy of sunlit GPP than the total GPP, and the use of CF data for assessing the terrestrial carbon cycle can be improved when sunlit and shaded GPP are modelled separately.

Meroterpenoids and isoberkedienolactone from endophytic fungus Penicillium sp. associated with Dysosma versipellis.

PubMed

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).

Uncovering production of specialized metabolites by Streptomyces argillaceus: Activation of cryptic biosynthesis gene clusters using nutritional and genetic approaches.

PubMed

Becerril, Adriana; Álvarez, Susana; Braña, Alfredo F; Rico, Sergio; Díaz, Margarita; Santamaría, Ramón I; Salas, José A; Méndez, Carmen

2018-01-01

Sequencing of Streptomyces genomes has revealed they harbor a high number of biosynthesis gene cluster (BGC), which uncovered their enormous potentiality to encode specialized metabolites. However, these metabolites are not usually produced under standard laboratory conditions. In this manuscript we report the activation of BGCs for antimycins, carotenoids, germicidins and desferrioxamine compounds in Streptomyces argillaceus, and the identification of the encoded compounds. This was achieved by following different strategies, including changing the growth conditions, heterologous expression of the cluster and inactivating the adpAa or overexpressing the abrC3 global regulatory genes. In addition, three new carotenoid compounds have been identified.

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

NASA Astrophysics Data System (ADS)

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 network of CO2 observation stations, but had difficulty resolving regional fluxes such as that in the PNW given the still sparse nature of the CO2 measurement network.

Ecological risk assessment of ecosystem services in the Taihu Lake Basin of China from 1985 to 2020.

PubMed

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.

BRAF activated non-coding RNA (BANCR) promoting gastric cancer cells proliferation via regulation of NF-κB1

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhang, Zhi-Xin; Liu, Zhi-Qiang; Jiang, Biao

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 andmore » 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.« less

Rugged optical mirrors for the operation of Fourier-Transform Spectrometers in rough environments

NASA Astrophysics Data System (ADS)

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 would have been too challenging so far.

Quercetin Has Antimetastatic Effects on Gastric Cancer Cells via the Interruption of uPA/uPAR Function by Modulating NF-κb, PKC-δ, ERK1/2, and AMPKα.

PubMed

Li, Hai; Chen, Chen

2018-06-01

Gastric cancer (GC) is a malignancy with few effective treatment options after metastasis occurs. Quercetin (Qu) intake has been associated with reduced incidence and slow development of GC, probably due to its anti-proliferative and apoptotic effects, but it is unclear whether Qu can inhibit the metastatic activity. The urokinase plasminogen activator (uPA)/uPA receptor (uPAR) system plays an important role in cancer metastasis. In this study, we measured both uPA activity and uPAR expression in GC and pericarcinous tissues, and we investigated the correlation between uPAR expression and the migratory and invasive activities of various GC cell lines. GC BGC823 and AGS cells were subjected to treatment with 10 μM Qu for 72 hours and uPAR knockdown, alone or in combination, before evaluating cell metastasis. The results showed that uPA activity and uPAR expression were higher in GC tissues than in pericarcinous tissues. Migratory and invasive activities of GC cell lines positively correlated with uPAR expression. Qu treatment decreased BGC823 and AGS cell migration and invasion, accompanied by reduced uPA and uPAR protein expression. Both Qu treatment and uPAR knockdown decreased matrix metalloproteinase-2 and -9 activity and blocked Pak1-Limk1-cofilin signaling. Qu treatment was associated with inhibition of NF-κb, PKC-δ, and ERK1/2, and with AMPKα activation. Specific inhibitors of NF-κb, PKC, and ERK1/2, and an AMPKα activator suppressed uPA and uPAR expression in GC cells. Collectively, Qu showed an antimetastatic effect on GC cells via the interruption of uPA/uPAR function and modulation of NF-κb, PKC-δ, ERK1/2, and AMPKα. This suggests that Qu is a promising agent against GC metastasis.

Changes in terrestrial CO2 budget in Siberia in the past three decades

NASA Astrophysics Data System (ADS)

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.

Toward the assimilation of biogeochemical data in the CMEMS BIOMER coupled physical-biogeochemical operational system

NASA Astrophysics Data System (ADS)

Lamouroux, Julien; Testut, Charles-Emmanuel; Lellouche, Jean-Michel; Perruche, Coralie; Paul, Julien

2017-04-01

The operational production of data-assimilated biogeochemical state of the ocean is one of the challenging core projects of the Copernicus Marine Environment Monitoring Service. In that framework - and with the April 2018 CMEMS V4 release as a target - Mercator Ocean is in charge of improving the realism of its global ¼° BIOMER coupled physical-biogeochemical (NEMO/PISCES) simulations, analyses and re-analyses, and to develop an effective capacity to routinely estimate the biogeochemical state of the ocean, through the implementation of biogeochemical data assimilation. Primary objectives are to enhance the time representation of the seasonal cycle in the real time and reanalysis systems, and to provide a better control of the production in the equatorial regions. The assimilation of BGC data will rely on a simplified version of the SEEK filter, where the error statistics do not evolve with the model dynamics. The associated forecast error covariances are based on the statistics of a collection of 3D ocean state anomalies. The anomalies are computed from a multi-year numerical experiment (free run without assimilation) with respect to a running mean in order to estimate the 7-day scale error on the ocean state at a given period of the year. These forecast error covariances rely thus on a fixed-basis seasonally variable ensemble of anomalies. This methodology, which is currently implemented in the "blue" component of the CMEMS operational forecast system, is now under adaptation to be applied to the biogeochemical part of the operational system. Regarding observations - and as a first step - the system shall rely on the CMEMS GlobColour Global Ocean surface chlorophyll concentration products, delivered in NRT. The objective of this poster is to provide a detailed overview of the implementation of the aforementioned data assimilation methodology in the CMEMS BIOMER forecasting system. Focus shall be put on (1) the assessment of the capabilities of this data assimilation methodology to provide satisfying statistics of the model variability errors (through space-time analysis of dedicated representers of satellite surface Chla observations), (2) the dedicated features of the data assimilation configuration that have been implemented so far (e.g. log-transformation of the analysis state, multivariate Chlorophyll-Nutrient control vector, etc.) and (3) the assessment of the performances of this future operational data assimilation configuration.

[The macrophage disappearance reaction in guinea pigs sensitized with bovine gamma globulin or human scrum albumin (author's transl)].

PubMed

Schimke, R; Bernstein, B; Ambrosius, H

1977-01-01

The macrophage disappearance reaction (MDR) is a suitable test for detection of cell mediated immunity against bovine gamma globulin (BGG) and human serum albumin (HSA) in guinea pigs. The MDR is a technical simple, good manipulable, and quantifiable test. The optimal test conditions for the antigens BGC and HSA are the following: Peritoneal exudat cells (PEC) were stimulated with paraffin oil. On the 5th day after receiving oil the animals were injected with 80 microgram BGG or 30 microgram HSA i.p. 5 hours later the PEC were harvested and counted. With the MDR it is possible to detect differences with respect to degree of cell-mediated immunity. Supernatants of sensitized lymphocytes produces the MDR too.

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

USGS Publications Warehouse

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 challenge to water resource management in the northeastern United States. Our analyses suggest that dominant vegetation type and soil type are important attributes in determining future hydrological responses to climate change.

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

PubMed

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

2017-02-01

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 CO 2 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 CO 2 effects 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 challenge to water resource management in the northeastern United States. Our analyses suggest that dominant vegetation type and soil type are important attributes in determining future hydrological responses to climate change. © 2016 John Wiley & Sons Ltd.

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

NASA Astrophysics Data System (ADS)

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.

ALM-FATES: Using dynamic vegetation and demography to capture changes in forest carbon cycling and competition at the global scale

NASA Astrophysics Data System (ADS)

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.

Storm Effects on Net Ecosystem Productivity in Boreal Forests

NASA Astrophysics Data System (ADS)

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.

Investigation of injection dose and camera integration time on quantifying pharmacokinetics of a Cy5.5-GX1 probe with dynamic fluorescence imaging in vivo

NASA Astrophysics Data System (ADS)

Dai, Yunpeng; Chen, Xueli; Yin, Jipeng; Kang, Xiaoyu; Wang, Guodong; Zhang, Xianghan; Nie, Yongzhan; Wu, Kaichun; Liang, Jimin

2016-08-01

The aim of this article is to investigate the influence of a tracer injection dose (ID) and camera integration time (IT) on quantifying pharmacokinetics of Cy5.5-GX1 in gastric cancer BGC-823 cell xenografted mice. Based on three factors, including whether or not to inject free GX1, the ID of Cy5.5-GX1, and the camera IT, 32 mice were randomly divided into eight groups and received 60-min dynamic fluorescence imaging. Gurfinkel exponential model (GEXPM) and Lammertsma simplified reference tissue model (SRTM) combined with a singular value decomposition analysis were used to quantitatively analyze the acquired dynamic fluorescent images. The binding potential (Bp) and the sum of the pharmacokinetic rate constants (SKRC) of Cy5.5-GX1 were determined by the SRTM and EXPM, respectively. In the tumor region, the SKRC value exhibited an obvious trend with change in the tracer ID, but the Bp value was not sensitive to it. Both the Bp and SKRC values were independent of the camera IT. In addition, the ratio of the tumor-to-muscle region was correlated with the camera IT but was independent of the tracer ID. Dynamic fluorescence imaging in conjunction with a kinetic analysis may provide more quantitative information than static fluorescence imaging, especially for a priori information on the optimal ID of targeted probes for individual therapy.

A multi-scale comparison of modeled and observed seasonal methane emissions in northern wetlands

DOE PAGES

Xu, Xiyan; Riley, William J.; Koven, Charles D.; ...

2016-09-13

Wetlands are the largest global natural methane (CH 4) source, and emissions between 50 and 70° N latitude contribute 10-30 % to this source. Predictive capability of land models for northern wetland CH 4 emissions is still low due to limited site measurements, strong spatial and temporal variability in emissions, and complex hydrological and biogeochemical dynamics. To explore this issue, we compare wetland CH 4 emission predictions from the Community Land Model 4.5 (CLM4.5-BGC) with site- to regional-scale observations. A comparison of the CH 4 fluxes with eddy flux data highlighted needed changes to the model's estimate of aerenchyma area,more » which we implemented and tested. The model modification substantially reduced biases in CH 4 emissions when compared with CarbonTracker CH 4 predictions. CLM4.5 CH 4 emission predictions agree well with growing season (May–September) CarbonTracker Alaskan regional-level CH 4 predictions and site-level observations. However, CLM4.5 underestimated CH 4 emissions in the cold season (October–April). The monthly atmospheric CH 4 mole fraction enhancements due to wetland emissions are also assessed using the Weather Research and Forecasting-Stochastic Time-Inverted Lagrangian Transport (WRF-STILT) model coupled with daily emissions from CLM4.5 and compared with aircraft CH 4 mole fraction measurements from the Carbon in Arctic Reservoirs Vulnerability Experiment (CARVE) campaign. Both the tower and aircraft analyses confirm the underestimate of cold-season CH 4 emissions by CLM4.5. The greatest uncertainties in predicting the seasonal CH 4 cycle are from the wetland extent, cold-season CH 4 production and CH 4 transport processes. We recommend more cold-season experimental studies in high-latitude systems, which could improve the understanding and parameterization of ecosystem structure and function during this period. Predicted CH 4 emissions remain uncertain, but we show here that benchmarking against observations across spatial scales can inform model structural and parameter improvements.« less

Comparison of Modeling Approaches for Carbon Partitioning: Impact on Estimates of Global Net Primary Production and Equilibrium Biomass of Woody Vegetation from MODIS GPP

NASA Astrophysics Data System (ADS)

Ise, T.; Litton, C. M.; Giardina, C. P.; Ito, A.

2009-12-01

Plant partitioning of carbon (C) to above- vs. belowground, to growth vs. respiration, and to short vs. long lived tissues exerts a large influence on ecosystem structure and function with implications for the global C budget. Importantly, outcomes of process-based terrestrial vegetation models are likely to vary substantially with different C partitioning algorithms. However, controls on C partitioning patterns remain poorly quantified, and studies have yielded variable, and at times contradictory, results. A recent meta-analysis of forest studies suggests that the ratio of net primary production (NPP) and gross primary production (GPP) is fairly conservative across large scales. To illustrate the effect of this unique meta-analysis-based partitioning scheme (MPS), we compared an application of MPS to a terrestrial satellite-based (MODIS) GPP to estimate NPP vs. two global process-based vegetation models (Biome-BGC and VISIT) to examine the influence of C partitioning on C budgets of woody plants. Due to the temperature dependence of maintenance respiration, NPP/GPP predicted by the process-based models increased with latitude while the ratio remained constant with MPS. Overall, global NPP estimated with MPS was 17 and 27% lower than the process-based models for temperate and boreal biomes, respectively, with smaller differences in the tropics. Global equilibrium biomass of woody plants was then calculated from the NPP estimates and tissue turnover rates from VISIT. Since turnover rates differed greatly across tissue types (i.e., metabolically active vs. structural), global equilibrium biomass estimates were sensitive to the partitioning scheme employed. The MPS estimate of global woody biomass was 7-21% lower than that of the process-based models. In summary, we found that model output for NPP and equilibrium biomass was quite sensitive to the choice of C partitioning schemes. Carbon use efficiency (CUE; NPP/GPP) by forest biome and the globe. Values are means for 2001-2006.

A multi-scale comparison of modeled and observed seasonal methane emissions in northern wetlands

DOE Office of Scientific and Technical Information (OSTI.GOV)

Xu, Xiyan; Riley, William J.; Koven, Charles D.

Wetlands are the largest global natural methane (CH 4) source, and emissions between 50 and 70° N latitude contribute 10-30 % to this source. Predictive capability of land models for northern wetland CH 4 emissions is still low due to limited site measurements, strong spatial and temporal variability in emissions, and complex hydrological and biogeochemical dynamics. To explore this issue, we compare wetland CH 4 emission predictions from the Community Land Model 4.5 (CLM4.5-BGC) with site- to regional-scale observations. A comparison of the CH 4 fluxes with eddy flux data highlighted needed changes to the model's estimate of aerenchyma area,more » which we implemented and tested. The model modification substantially reduced biases in CH 4 emissions when compared with CarbonTracker CH 4 predictions. CLM4.5 CH 4 emission predictions agree well with growing season (May–September) CarbonTracker Alaskan regional-level CH 4 predictions and site-level observations. However, CLM4.5 underestimated CH 4 emissions in the cold season (October–April). The monthly atmospheric CH 4 mole fraction enhancements due to wetland emissions are also assessed using the Weather Research and Forecasting-Stochastic Time-Inverted Lagrangian Transport (WRF-STILT) model coupled with daily emissions from CLM4.5 and compared with aircraft CH 4 mole fraction measurements from the Carbon in Arctic Reservoirs Vulnerability Experiment (CARVE) campaign. Both the tower and aircraft analyses confirm the underestimate of cold-season CH 4 emissions by CLM4.5. The greatest uncertainties in predicting the seasonal CH 4 cycle are from the wetland extent, cold-season CH 4 production and CH 4 transport processes. We recommend more cold-season experimental studies in high-latitude systems, which could improve the understanding and parameterization of ecosystem structure and function during this period. Predicted CH 4 emissions remain uncertain, but we show here that benchmarking against observations across spatial scales can inform model structural and parameter improvements.« less

Glucan Binding Protein C of Streptococcus mutans Mediates both Sucrose-Independent and Sucrose-Dependent Adherence.

PubMed

Mieher, Joshua L; Larson, Matthew R; Schormann, Norbert; Purushotham, Sangeetha; Wu, Ren; Rajashankar, Kanagalaghatta R; Wu, Hui; Deivanayagam, Champion

2018-07-01

The high-resolution structure of glucan binding protein C (GbpC) at 1.14 Å, a sucrose-dependent virulence factor of the dental caries pathogen Streptococcus mutans , has been determined. GbpC shares not only structural similarities with the V regions of AgI/II and SspB but also functional adherence to salivary agglutinin (SAG) and its scavenger receptor cysteine-rich domains (SRCRs). This is not only a newly identified function for GbpC but also an additional fail-safe binding mechanism for S. mutans Despite the structural similarities with S. mutans antigen I/II (AgI/II) and SspB of Streptococcus gordonii , GbpC remains unique among these surface proteins in its propensity to adhere to dextran/glucans. The complex crystal structure of GbpC with dextrose (β-d-glucose; Protein Data Bank ligand BGC) highlights exclusive structural features that facilitate this interaction with dextran. Targeted deletion mutant studies on GbpC's divergent loop region in the vicinity of a highly conserved calcium binding site confirm its role in biofilm formation. Finally, we present a model for adherence to dextran. The structure of GbpC highlights how artfully microbes have engineered the lectin-like folds to broaden their functional adherence repertoire. Copyright © 2018 American Society for Microbiology.

[A 20-year prospective follow-up study to evaluate the development of retinopathy and nephropathy after the onset of type 1 diabetes mellitus: Contribution of glycemic control and metabolic memory].

PubMed

Bolotskaya, L L; Bessmertnaya, E G; Shestakova, M V; Shamkhalova, M Sh; Nikankina, L V; Ilyin, A V; Glek, I S; Zolotukhin, A V; Dedov, I I

To assess the time course of changes in the level of glycated hemoglobin (HbA1c) for 20 years after the onset of type 1 diabetes mellitus (T1DM) and to compare its correlation with the development of microvascular complications, such as diabetic retinopathy (DR) and diabetic nephropathy (DN). A total of 187 children with new-onset T1DM were registered in Moscow in 1994. During the 20-year follow-up study, these patients underwent regular check-ups at the Endocrinology Research Center, Ministry of Health of the Russian Federation, which included assessment of physical data, HbA1c 2-4 times a year, biochemical blood and albuminuria tests (once per year), and ophthalmologic examination (twice a year). A total of 155 people fully completed the 20-years follow-up study. During the 20-year follow-up period after the onset of T1DM, 86 of the 155 patients developed microvascular complications: DR and DN in 86 (55.5%) and 24 (15.5%) cases, respectively; while DR concurrent with DN were noted in 20 patients. By the time of their last visit, 69 (44.5%) patients had no evidence suggesting the presence of microvascular complications. The level of HbA1c at the onset of the disease in patients who later developed the complications was higher than in those without complications (10.2±0.6 and 8.5±0.2%, respectively (p = 0.003). The statistically significant differences in HbA1c levels between the groups persisted during subsequent 15 years of follow-up, averaging 9.2±1.5, 9.7±0.9, and 8.1±0.7% after 5, 10, and 15 years, respectively, in the complication group and 7.1±0.3, 8.1±0.4, and 7.2±0.2% in the non-complication group (p < 0.01). Over the last 5 years of the follow-up, the mean HbA1c level between the groups was not significantly different, which at the end of the 20-year follow-up period was 7.8±0.3 and 7.4±0.6%, respectively (p > 0.05). The mean duration of T1DM, in which DR developed, was 9.6±6.2, 11.0±2.0, and 13.6±4.6 years for the non-proliferative, pre-proliferative, and proliferative stages, respectively. That of T1DM, in which DN developed, was 11.8±0.6 years for microalbuminuria and 16.1±1.3 years for macroalbuminuria. The 20-year clinical follow-up of patients who had fallen ill with T1DM in childhood showed that diabetic microangiopathies developed with the long-term preservation of poor blood glucose control (BGC) starting at the onset of the disease. At the same time, the complications progressed to more severe stages, despite a clear trend toward better BGC. This may be suggestive of the negative metabolic memory phenomenon, which necessitates stable BGC, starting at the onset of the disease, for the prevention of microvascular complications.

Large-scale recumbent isoclinal folds in the footwall of the West Cycladic Detachment System (Greece)

NASA Astrophysics Data System (ADS)

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 quartz layers, only cropping out above the Flabouria Lithodeme south of Aghios Dimitrios, directly below the WCDS; (3) Mavrianou Lithodeme - mylonitic QCWM schists with lenses of BGC mylonites cropping out above the Flabouria Lithodeme along the west coast, 2.5-9 km N of Aghios Dimitrios. Thus, offshore in the 2.5 km north of Aghios Dimitrios, the Mavrianou Lithodeme is 'replaced' by the Rizou Lithodeme; these units are lithologically quite distinct. However, mylonitic outcrops of the Petroussa Lithodeme are very similar to the Mavrianou Lithodeme mylonites. A tentative structural solution is to argue that the Mavrianou Lithodeme is a large-scale isoclinal fold repetition of the Petroussa Lithodeme; southwards the fold amplitude decreases and dies out offshore north of Aghios Dimitrios; repetition of other lithodemes supports this solution. The origin of the fold is not known but the lithological repetition persists towards the central part of the island, where the transition from ENE-WSW trending Eocene exhumation deformation has not been fully overprinted by NNE-SSW trending Miocene deformation. Hence the fold may have formed as a large-scale structure during syn-orogenic Eocene exhumation of the Cycladic Blueschist Nappe and then been flattened and rotated during Miocene deformation in the footwall of the West Cycladic Detachment System.

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

USGS Publications Warehouse

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 study of the potential impacts of climate change.

Post-Neogene tectonism along the Aravalli Range, Rajasthan, India

NASA Astrophysics Data System (ADS)

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 sides of the major reactivated fault were possibly caused by a difference in the values of the flexural rigidity and the foundation modulus owing to a slight compositional difference of the constiuent rocks in the two sectors.

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

NASA Astrophysics Data System (ADS)

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.

Constraining Earth System Models in the Tropics with Multiple Satellite Observations

NASA Astrophysics Data System (ADS)

Shi, M.; Liu, J.; Saatchi, S. S.; Chan, S.; Yu, Y.; Zhao, M.

2016-12-01

Because of the impacts of cloud and atmospheric aerosol on spectral observations and the saturation of spectral observations over dense forests, the current spectral observations (e.g., Moderate Resolution Imaging Spectroradiometer) have large uncertainties in the tropics. Nevertheless, the backscatter observations from the SeaWinds Scatterometer onboard QuikSCAT (QSCAT) are sensitive to the variations of canopy water content and structure of forest canopy, and are not affected by clouds and atmospheric aerosols. In addition, the lack of sensitivity of the Soil Moisture Active Passive (SMAP) Level 1C brightness temperature (TB) to soil moisture under dense forest canopies (e.g., forests in tropics) makes the SMAP TB data a direct indicator of canopy properties. In this study, we use a variety of new satellite observations, including the QSCAT backscatter observations, the Gravity Recovery and Climate Experiment (GRACE) satellite's observed temporal gravity field variations, and the SMAP Level 1C TB, to constrain the carbon (C) cycle simulated by the Community Land Model version 4.5 BGC (CLM4.5) for the 2005 Amazonia drought and 2015 El Nino. Our results show that the leaf C pool size simulated by CLM4.5 decreases dramatically in southwest Amazonia in the 2005 drought, and recovers slowly afterward (after about 3 years). This result is consistent with the long-term C-recovery after the 2005 Amazonia drought observed by QSCAT. The slow C pool recovery is associated with large fire disturbance and the slow water storage recovery simulated by CLM4.5 and observed by GRACE. We will also discuss the impact of the 2015 El Nino on the tropical C dynamics constrained by SMAP Level 1C data. This study represents an innovative way of using satellite microwave observations to constrain C cycle in an Earth system model.

Multiple soil nutrient competition between plants, microbes, and mineral surfaces: model development, parameterization, and example applications in several tropical forests

DOE PAGES

Zhu, Q.; Riley, W. J.; Tang, J.; ...

2016-01-18

Soil is a complex system where biotic (e.g., plant roots, micro-organisms) and abiotic (e.g., mineral surfaces) consumers compete for resources necessary for life (e.g., nitrogen, phosphorus). This competition is ecologically significant, since it regulates the dynamics of soil nutrients and controls aboveground plant productivity. Here we develop, calibrate and test a nutrient competition model that accounts for multiple soil nutrients interacting with multiple biotic and abiotic consumers. As applied here for tropical forests, the Nutrient COMpetition model (N-COM) includes three primary soil nutrients (NH 4 +, NO 3 − and PO x; representing the sum of PO 4 3−, HPOmore » 4 2− and H 2PO 4 −) and five potential competitors (plant roots, decomposing microbes, nitrifiers, denitrifiers and mineral surfaces). The competition is formulated with a quasi-steady-state chemical equilibrium approximation to account for substrate (multiple substrates share one consumer) and consumer (multiple consumers compete for one substrate) effects. N-COM successfully reproduced observed soil heterotrophic respiration, N 2O emissions, free phosphorus, sorbed phosphorus and NH 4 + pools at a tropical forest site (Tapajos). The overall model uncertainty was moderately well constrained. Our sensitivity analysis revealed that soil nutrient competition was primarily regulated by consumer–substrate affinity rather than environmental factors such as soil temperature or soil moisture. Our results also imply that under strong nutrient limitation, relative competitiveness depends strongly on the competitor functional traits (affinity and nutrient carrier enzyme abundance). We then applied the N-COM model to analyze field nitrogen and phosphorus perturbation experiments in two tropical forest sites (in Hawaii and Puerto Rico) not used in model development or calibration. Under soil inorganic nitrogen and phosphorus elevated conditions, the model accurately replicated the experimentally observed competition among nutrient consumers. Although we used as many observations as we could obtain, more nutrient addition experiments in tropical systems would greatly benefit model testing and calibration. In summary, the N-COM model provides an ecologically consistent representation of nutrient competition appropriate for land BGC models integrated in Earth System Models.« less

The effects of climate downscaling technique and observational data set on modeled ecological responses.

PubMed

Pourmokhtarian, Afshin; Driscoll, Charles T; Campbell, John L; Hayhoe, Katharine; Stoner, Anne M K

2016-07-01

Assessments of future climate change impacts on ecosystems typically rely on multiple climate model projections, but often utilize only one downscaling approach trained on one set of observations. Here, we explore the extent to which modeled biogeochemical responses to changing climate are affected by the selection of the climate downscaling method and training observations used at the montane landscape of the Hubbard Brook Experimental Forest, New Hampshire, USA. We evaluated three downscaling methods: the delta method (or the change factor method), monthly quantile mapping (Bias Correction-Spatial Disaggregation, or BCSD), and daily quantile regression (Asynchronous Regional Regression Model, or ARRM). Additionally, we trained outputs from four atmosphere-ocean general circulation models (AOGCMs) (CCSM3, HadCM3, PCM, and GFDL-CM2.1) driven by higher (A1fi) and lower (B1) future emissions scenarios on two sets of observations (1/8º resolution grid vs. individual weather station) to generate the high-resolution climate input for the forest biogeochemical model PnET-BGC (eight ensembles of six runs).The choice of downscaling approach and spatial resolution of the observations used to train the downscaling model impacted modeled soil moisture and streamflow, which in turn affected forest growth, net N mineralization, net soil nitrification, and stream chemistry. All three downscaling methods were highly sensitive to the observations used, resulting in projections that were significantly different between station-based and grid-based observations. The choice of downscaling method also slightly affected the results, however not as much as the choice of observations. Using spatially smoothed gridded observations and/or methods that do not resolve sub-monthly shifts in the distribution of temperature and/or precipitation can produce biased results in model applications run at greater temporal and/or spatial resolutions. These results underscore the importance of carefully considering field observations used for training, as well as the downscaling method used to generate climate change projections, for smaller-scale modeling studies. Different sources of variability including selection of AOGCM, emissions scenario, downscaling technique, and data used for training downscaling models, result in a wide range of projected forest ecosystem responses to future climate change. © 2016 by the Ecological Society of America.

Multiple soil nutrient competition between plants, microbes, and mineral surfaces: model development, parameterization, and example applications in several tropical forests

DOE Office of Scientific and Technical Information (OSTI.GOV)

Zhu, Q.; Riley, W. J.; Tang, J.

Soil is a complex system where biotic (e.g., plant roots, micro-organisms) and abiotic (e.g., mineral surfaces) consumers compete for resources necessary for life (e.g., nitrogen, phosphorus). This competition is ecologically significant, since it regulates the dynamics of soil nutrients and controls aboveground plant productivity. Here we develop, calibrate and test a nutrient competition model that accounts for multiple soil nutrients interacting with multiple biotic and abiotic consumers. As applied here for tropical forests, the Nutrient COMpetition model (N-COM) includes three primary soil nutrients (NH 4 +, NO 3 − and PO x; representing the sum of PO 4 3−, HPOmore » 4 2− and H 2PO 4 −) and five potential competitors (plant roots, decomposing microbes, nitrifiers, denitrifiers and mineral surfaces). The competition is formulated with a quasi-steady-state chemical equilibrium approximation to account for substrate (multiple substrates share one consumer) and consumer (multiple consumers compete for one substrate) effects. N-COM successfully reproduced observed soil heterotrophic respiration, N 2O emissions, free phosphorus, sorbed phosphorus and NH 4 + pools at a tropical forest site (Tapajos). The overall model uncertainty was moderately well constrained. Our sensitivity analysis revealed that soil nutrient competition was primarily regulated by consumer–substrate affinity rather than environmental factors such as soil temperature or soil moisture. Our results also imply that under strong nutrient limitation, relative competitiveness depends strongly on the competitor functional traits (affinity and nutrient carrier enzyme abundance). We then applied the N-COM model to analyze field nitrogen and phosphorus perturbation experiments in two tropical forest sites (in Hawaii and Puerto Rico) not used in model development or calibration. Under soil inorganic nitrogen and phosphorus elevated conditions, the model accurately replicated the experimentally observed competition among nutrient consumers. Although we used as many observations as we could obtain, more nutrient addition experiments in tropical systems would greatly benefit model testing and calibration. In summary, the N-COM model provides an ecologically consistent representation of nutrient competition appropriate for land BGC models integrated in Earth System Models.« less

Multiple soil nutrient competition between plants, microbes, and mineral surfaces: model development, parameterization, and example applications in several tropical forests

NASA Astrophysics Data System (ADS)

Zhu, Q.; Riley, W. J.; Tang, J.; Koven, C. D.

2016-01-01

Soil is a complex system where biotic (e.g., plant roots, micro-organisms) and abiotic (e.g., mineral surfaces) consumers compete for resources necessary for life (e.g., nitrogen, phosphorus). This competition is ecologically significant, since it regulates the dynamics of soil nutrients and controls aboveground plant productivity. Here we develop, calibrate and test a nutrient competition model that accounts for multiple soil nutrients interacting with multiple biotic and abiotic consumers. As applied here for tropical forests, the Nutrient COMpetition model (N-COM) includes three primary soil nutrients (NH4+, NO3- and POx; representing the sum of PO43-, HPO42- and H2PO4-) and five potential competitors (plant roots, decomposing microbes, nitrifiers, denitrifiers and mineral surfaces). The competition is formulated with a quasi-steady-state chemical equilibrium approximation to account for substrate (multiple substrates share one consumer) and consumer (multiple consumers compete for one substrate) effects. N-COM successfully reproduced observed soil heterotrophic respiration, N2O emissions, free phosphorus, sorbed phosphorus and NH4+ pools at a tropical forest site (Tapajos). The overall model uncertainty was moderately well constrained. Our sensitivity analysis revealed that soil nutrient competition was primarily regulated by consumer-substrate affinity rather than environmental factors such as soil temperature or soil moisture. Our results also imply that under strong nutrient limitation, relative competitiveness depends strongly on the competitor functional traits (affinity and nutrient carrier enzyme abundance). We then applied the N-COM model to analyze field nitrogen and phosphorus perturbation experiments in two tropical forest sites (in Hawaii and Puerto Rico) not used in model development or calibration. Under soil inorganic nitrogen and phosphorus elevated conditions, the model accurately replicated the experimentally observed competition among nutrient consumers. Although we used as many observations as we could obtain, more nutrient addition experiments in tropical systems would greatly benefit model testing and calibration. In summary, the N-COM model provides an ecologically consistent representation of nutrient competition appropriate for land BGC models integrated in Earth System Models.