bluuebunny/crossref_metadata_2025_split huggingface dataset:
A coupled consolidation shear model for the process of formation of glaciated soils
Authors: Huang Bingquan , Sharma Jitendra S. 
Published: April 2008

It has been generally observed that the measured preconsolidation pressure values for glaciated soils are not compatible with the measured effective pressure values at the bed of the glacier if one-dimensional consolidation alone is considered as the formation process for these soils. In this paper, a new model for the process of formation of glaciated soil, termed the coupled consolidation shear (CCS) model, is developed using the frameworks of critical state soil mechanics and small-strain consolidation theory. The CCS model includes simultaneous shearing and consolidation of subglacial sediments and is able to simulate profiles of preconsolidation pressure versus depth that closely resemble those observed in glaciated soils. The CCS model is validated by successfully simulating the profile of preconsolidation pressure versus depth for an 80 m deep Battleford till layer in Birsay, Saskatchewan, Canada. The CCS model suggests the existence of anisotropic yield strength and stiffness in glaciated soils as a consequence of coupling subglacial shear and consolidation.
Analysis of the annual thermal response of an earth dam for the assessment of the hydraulic conductivity of its compacted till core
Authors: Smith M. , Konrad J.-M. 
Published: April 2008

Heat carried by the seepage water along hydraulic flow lines can serve as a natural tracer to help detect contrasting hydraulic conductivities in embankment dams. Thermal monitoring was realized on the 94.5 m high QA-01 embankment dam in northern Quebec to characterize the temperature distribution across its entire section. The analysis of the annual thermal response of the dam clearly showed a zone of higher seepage velocities in the compacted till core. Approximations concerning the increased hydraulic conductivity were made using a simple thermal model. Complementary numerical modelling provided a more rigorous quantitative assessment of the seepage patterns. The calculations have shown hydraulic conductivities that are 20 times larger than the expected values. Thermal monitoring can detect zones of increased seepage, which can be related to internal erosion or other factors, such as the variability of the soil properties due to construction practices. Temperature measurements alone are not adequate to determine the cause of a permeable zone in a dam or to predict its possible evolution.
Production and characterization of polyhydroxyalkanoates inPseudomonas aeruginosaATCC 9027 from glucose, an unrelated carbon source
Authors: Rojas-Rosas Oscar , Villafaña-Rojas Juan , López-Dellamary Fernando A. , Nungaray-Arellano Jesús , González-Reynoso Orfil 
Published: April 2008

The production and characterization of polyhydroxyalkanoic acids (PHAs) from glucose in Pseudomonas aeruginosa ATCC 9027 is described. We determined that the synthesis of PHAs was not due to a complete lack of nitrogen source, as previously reported for other microorganisms. The synthesis of PHAs was observed during exponential growth and it depended on the carbon/nitrogen ratio in the culture. More significantly, the specific PHA accumulation rate in this phase was higher than that observed in the storage phase. This phenomenon was a consequence of higher extracellular production rates of gluconate and 2-ketogluconate detected during the storage phase. Therefore, the production of those acids decreased the synthesis of PHAs in P. aeruginosa. The maximum percentage of PHA accumulation obtained was 10.8% of the cell dry matter when all the glucose was consumed. The monomer composition of this PHA consisted only of saturated 3-hydroxy fatty acids (octanoic, decanoic, and dodecanoic acids) as shown by gas chromatography – mass spectroscopy and nuclear magnetic resonance analyses, where 3-hydroxydecanoic acid was the main component because of the high affinity of its PhaC synthase for this monomer. The physical properties of this PHA were determined by differential scanning calorimetry and gel permeation chromatography.
Molecular and biochemical detection of fengycin- and bacillomycin D-producing Bacillus spp., antagonistic to fungal pathogens of canola and wheat
Authors: Ramarathnam Rajesh , Bo Shen , Chen Yu , Fernando W.G. Dilantha , Xuewen Gao , de Kievit Teresa 
Published: April 2008

Bacillus species are well known for their ability to control plant diseases through various mechanisms, including the production of secondary metabolites. Bacillus subtilis DFH08, an antagonist of Fusarium graminearum , and other Bacillus spp. that are antagonists of common fungal pathogens of canola were screened for peptide synthetase biosynthetic genes of fengycin and bacillomycin D. Specific polymerase chain reaction (PCR) primers identified B. subtilis strains DFH08 and 49 for the presence of the fenD gene of the fengycin operon. Bacillus cereus DFE4, Bacillus amyloliquefaciens strains DFE16 and BS6, and B. subtilis 49 were identified for the presence of the bamC gene of the bacillomycin D synthetase biosynthetic operon. Both fengycin and bacillomycin D were detected in the culture extract of strain Bs49, characterized through MALDI–TOF–MS (matrix-assisted laser desorption ionization – time of flight – mass spectrometry), and their antifungal activities demonstrated against F. graminearum and Sclerotinia sclerotiorum . This study designed and used specific PCR primers for the detection of potential fengycin- and bacillomycin D-producing bacterial antagonists and confirmed the molecular detection with the biochemical detection of the corresponding antibiotic produced. This is also the first report of a B. cereus strain (DFE4) to have bacillomycin D biosynthetic genes. Bacteria that synthesize these lipopeptides could act as natural genetic sources for genetic engineering of the peptide synthetases for production of novel peptides.
Factors that contribute to the immmunogenicity of therapeutic recombinant human proteins
Authors: Mukovozov Ilya , Sabljic Thomas , Hortelano Gonzalo , Ofosu Frederick 
Published: April 2008

SummaryUse of recombinant human proteins has revolutionized medicine by providing over 200 highly purified hormones and proteins that effectively treat many inherited and acquired peptide hormone and protein deficiencies. With the exception of therapeutic monoclonal antibodies, these biological medicines are synthesized by cultured cells using DNA sequences that would yield proteins with identical amino acid sequences as endogenous human proteins. Therefore, there was the broad expectation that recombinant human biological medicines would be non-immunogenic in patients capable of synthesizing even sub-optimal levels of these therapeutic proteins to which they are innately tolerant. However, the widespread clinical use of recombinant human proteins has demonstrated that nearly all of them are immunogenic. This observation suggests that factors additional to differences in amino acid sequences of endogenous and biotherapeutic proteins contribute to the immunogenicity of therapeutic proteins. The main aim of this review is to summarize some of the factors that are known to contribute to the immunogenicity of recombinant therapeutic proteins.
Polymorphisms in the IL6 gene in Asian Indian families with premature coronary artery disease – The Indian Atherosclerosis Research Study
Authors: Shanker Jayashree , Dash Debabrata , John Shibu , Sannappa Prathima , Rao Veena , Ramanna Jayakumar , Kakkar Vijay , Maitra Arindam 
Published: April 2008

SummaryInflammation plays a major role in coronary artery disease (CAD). We investigated the polymorphisms in the interleukin 6 (IL6) gene and their effect on the expression of acute-phase proteins in premature CAD in Asian Indian families. One hundred and ninety affected sibling pairs (ASPs) were genotyped for three tag single nucleotide polymorphisms (SNPs) in the IL6 gene for linkage analysis. We observed suggestive logarithm of odds (LOD) score for one SNP (rs2066992) in a subset of 62 ASPs with the age at onset less than 45 years (LOD score = 1.114, p = 0.011 in linkage analysis; pi = 0.55, p = 0.008 in identity by descent; LOD score = 1.06, p = 0.014 in quantitative trait locus for plasma levels of high sensitivity C-reactive protein, hsCRP). This was followed by sequencing of the promoter region and haplotype analysis in 46 probands and 40 controls. Five out of the eight previously reported promoter SNPs were found to be polymorphic (rs1800797, rs1800796, rs7802307, rs7802308, rs1800795). Two novel sequence variants were also found. One promoter haplotype (GGAAG) was detected with an odds ratio (OR) of 3.676 (p = 0.0017, 95% confidence interval [CI]: 1.68 – 8.045) and population attributable risk of 21.1% (95%CI: 9.2%-31.5%). The plasma levels of both hsCRP and fibrinogen exhibited significant association with these promoter SNP genotypes (p < 0.001). In conclusion, IL6 gene polymorphisms appear to be important genetic factors in premature CAD, and in the regulation of key atherogenic markers in Asian Indian families.
Heparin and low-molecular-weight heparin
Authors: Mulloy Barbara , Barrowcliffe Trevor , Gray Elaine 
Published: April 2008

SummaryHeparin is one of the oldest biological medicines, and has an established place in the prevention and treatment of venous thrombosis. Low-molecular-weight heparins (LMWH) have been developed by several manufacturers and have advantages in terms of pharmacokinetics and convenience of administration. They have been shown to be at least as effective and safe as unfractionated heparin and have replaced the latter in many indications. In this article the chemistry, mechanisms of action, measurement of anticoagulant activities, and clinical status of heparin and LMWH are reviewed.
Role of Retrospective Forecasts of GCMs Forced with Persisted SST Anomalies in Operational Streamflow Forecasts Development
Authors: Sankarasubramanian A. , Lall Upmanu , Espinueva Susan 
Published: April 2008

Abstract
Seasonal streamflow forecasts contingent on climate information are essential for water resources planning and management as well as for setting up contingency measures during extreme years. In this study, operational streamflow forecasts are developed for a reservoir system in the Philippines using ECHAM4.5 precipitation forecasts (EPF) obtained using persisted sea surface temperature (SST) scenarios. Diagnostic analyses on SST conditions show that the tropical SSTs influence the streamflow during extreme years, whereas the local SSTs (0°–25°N, 115°–130°E) account for streamflow variability during normal years. Given that the EPF, local, and tropical SST conditions are spatially correlated, principal components regression (PCR) is employed to downscale the GCM-predicted precipitation fields and SST anomalies to monthly streamflow forecasts and to update them every month within the season using the updated EPF and SST conditions. These updated forecasts improve the prediction of monthly streamflows within the season in comparison to the skill of the monthly streamflow forecasts issued at the beginning of the season. It is also shown that the streamflow forecasting model developed using EPF under persisted SST conditions performs well upon employing EPF obtained under predicted SSTs as predictor. This has potential implications in the development of operational streamflow forecasts and statistical downscaling, which requires adequate years of retrospective GCM forecasts for recalibration. Finally, the study also shows that predicting the seasonal streamflow using the monthly precipitation forecasts reproduces the observed seasonal total better than the conventional approach of using seasonal precipitation forecasts to predict the seasonal streamflow.
Rain versus Snow in the Sierra Nevada, California: Comparing Doppler Profiling Radar and Surface Observations of Melting Level
Authors: Lundquist Jessica D. , Neiman Paul J. , Martner Brooks , White Allen B. , Gottas Daniel J. , Ralph F. Martin 
Published: April 2008

Abstract
The maritime mountain ranges of western North America span a wide range of elevations and are extremely sensitive to flooding from warm winter storms, primarily because rain falls at higher elevations and over a much greater fraction of a basin’s contributing area than during a typical storm. Accurate predictions of this rain–snow line are crucial to hydrologic forecasting. This study examines how remotely sensed atmospheric snow levels measured upstream of a mountain range (specifically, the bright band measured above radar wind profilers) can be used to accurately portray the altitude of the surface transition from snow to rain along the mountain’s windward slopes, focusing on measurements in the Sierra Nevada, California, from 2001 to 2005. Snow accumulation varies with respect to surface temperature, diurnal cycles in solar radiation, and fluctuations in the free-tropospheric melting level. At 1.5°C, 50% of precipitation events fall as rain and 50% as snow, and on average, 50% of measured precipitation contributes to increases in snow water equivalent (SWE). Between 2.5° and 3°C, snow is equally likely to melt or accumulate, with most cases resulting in no change to SWE. Qualitatively, brightband heights (BBHs) detected by 915-MHz profiling radars up to 300 km away from the American River study basin agree well with surface melting patterns. Quantitatively, this agreement can be improved by adjusting the melting elevation based on the spatial location of the profiler relative to the basin: BBHs decrease with increasing latitude and decreasing distance to the windward slope of the Sierra Nevada. Because of diurnal heating and cooling by radiation at the mountain surface, BBHs should also be adjusted to higher surface elevations near midday and lower elevations near midnight.
Thailand Daily Rainfall and Comparison with TRMM Products
Authors: Chokngamwong Roongroj , Chiu Long S. 
Published: April 2008

Abstract
Daily rainfall data collected from more than 100 gauges over Thailand for the period 1993–2002 are used to study the climatology and spatial and temporal characteristics of Thailand rainfall variations. Comparison of the Thailand gauge (TG) data binned at 1° × 1° with the Global Precipitation Climatology Centre (GPCC) monitoring product shows a small bias (1.11%), and the differences can be reconciled in terms of the increased number of stations in the TG dataset. Comparison of daily TG with Tropical Rainfall Measuring Mission (TRMM) version 6 (V6) 3B42 rain estimates shows improvements over version 5 (V5) in terms of bias and mean absolute difference (MAD). The V5 is computed from the adjusted Geostationary Operational Environmental Satellite (GOES) precipitation index (AGPI) and V6 is computed using the TRMM Multisatellite Precipitation Analysis (TMPA) algorithm. The V6 histogram is much closer to that of TG than V5 in terms of rain fraction and conditional rain rates. Scatterplots show that both versions of the satellite products are deficient in capturing heavy rain events. In terms of detecting rain events, a critical success index (CSI) shows no difference between V6 and V5 3B42. The CSI for V6 is higher for the rainy season than the dry season. These results are generally insensitive to rain-rate threshold and averaging periods. The temporal and spatial autocorrelation of daily rain rates for TG, V6, and V5 3B42 are computed. Autocorrelation function analyses show improved temporal and spatial autocorrelations for V6 compared to TG over V5 with e-folding times of 1, 1, and 2 days, and isotropic spatial decorrelation distances of 1.14°, 1.87°, and 3.61° for TG, V6, and V5, respectively. Rain event statistics show that the V6 3B42 overestimates the rain event durations and underestimates the rain event separations and the event conditional rain rates when compared to TG. This study points to the need to further improve the 3B42 algorithm to lower the false detection rate and improve the estimation of heavy rainfall events.
Spatial Estimation of Reference Evapotranspiration in Andalusia, Spain
Authors: Vanderlinden Karl , Giráldez Juan Vicente , Van Meirvenne Marc 
Published: April 2008

AbstractKnowledge of the spatial and temporal distribution of reference crop evapotranspiration (ET0) is of interest for regional water resources management, especially in areas of the world where fine-tuning of agricultural water demands over large areas is required. This study provides a strategy for mapping ET0 in regions with low meteorological data availability. For Andalusia, Spain, it involves estimating ET0 from temperature data using a locally calibrated version of the Hargreaves equation and the application of geostatistical interpolation techniques that take into account elevation as secondary information. Average annual ET0 at 191 observatories (with elevation between 0 and 1260 m) ranged from 954 to 1460 mm, with an average of 1283 mm, a standard deviation of 99 mm, and a correlation coefficient with elevation of −0.86. Simple kriging with varying local means (SKlm) and kriging with an external drift (KED)—two methods that take into account elevation as secondary information—increased spatial model efficiency by 30% as compared to ordinary kriging. SKlm was used for mapping ET0 since it better reproduced the descriptive statistics of the point data and yielded slightly smaller root-mean-squared estimation errors than KED. The spatial correlation of annual and monthly ET0 was well structured and anisotropic. Short-range variability, for separation distances up to 20–40 km, showed a strong linear increase with distance while long-range variability, up to 130–250 km, increased more gently with distance. The results of this structural analysis are relevant for the spatial optimization of a recently installed automated ET0 observation network, while obtained maps constitute a valuable tool for regional water resources evaluation, planning, and management and contribute to optimizing water use in local irrigated agriculture.
Stommel’s Box Model of Thermohaline Circulation Revisited—The Role of Mechanical Energy Supporting Mixing and the Wind-Driven Gyration
Authors: Guan Yu Ping , Huang Rui Xin 
Published: April 2008

Abstract
The classical two-box model of Stommel is extended in two directions: replacing the buoyancy constraint with an energy constraint and including the wind-driven gyre. Stommel postulated a buoyancy constraint for the thermohaline circulation, and his basic idea has evolved into the dominating theory of thermohaline circulation; however, recently, it is argued that the thermohaline circulation is maintained by mechanical energy from wind stress and tides. The major difference between these two types of models is the bifurcation structure: the Stommel-like model has two thermal modes (one stable and another one unstable) and one stable haline mode, whereas the energy-constraint model has one stable thermal mode and two saline modes (one stable and another one unstable). Adding the wind-driven gyre changes the threshold value of thermohaline bifurcation greatly; thus, the inclusion of the wind-driven gyre is a vital step in completely modeling the physical processes related to thermohaline circulation.
Subtidal Salinity and Velocity in the Hudson River Estuary: Observations and Modeling
Authors: Ralston David K. , Geyer W. Rockwell , Lerczak James A. 
Published: April 2008

Abstract
A tidally and cross-sectionally averaged model based on the temporal evolution of the quasi-steady Hansen and Rattray equations is applied to simulate the salinity distribution and vertical exchange flow along the Hudson River estuary. The model achieves high skill at hindcasting salinity and residual velocity variation during a 110-day period in 2004 covering a wide range of river discharges and tidal forcing. The approach is based on an existing model framework that has been modified to improve model skill relative to observations. The external forcing has been modified to capture meteorological time-scale variability in salinity, stratification, and residual velocity due to sea level fluctuations at the open boundary and along-estuary wind stress. To reflect changes in vertical mixing due to stratification, the vertical mixing coefficients have been modified to use the bottom boundary layer height rather than the water depth as an effective mixing length scale. The boundary layer parameterization depends on the tidal amplitude and the local baroclinic pressure gradient through the longitudinal Richardson number, and improves the model response to spring–neap variability in tidal amplitude during periods of high river discharge. Finally, steady-state model solutions are evaluated for both the Hudson River and northern San Francisco Bay over a range of forcing conditions. Agreement between the model and scaling of equilibrium salinity intrusions lends confidence that the approach is transferable to other estuaries, despite significant differences in bathymetry. Discrepancies between the model results and observations at high river discharge are indicative of limits at which the formulation begins to fail, and where an alternative approach that captures two-layer dynamics would be more appropriate.
Interannual Variability and Trends of Extratropical Ozone. Part I: Northern Hemisphere
Authors: Jiang Xun , Pawson Steven , Camp Charles D. , Nielsen J. Eric , Shia Run-Lie , Liao Ting , Limpasuvan Varavut , Yung Yuk L. 
Published: April 2008

The authors apply principal component analysis (PCA) to the extratropical total column ozone from the combined merged ozone data product and the European Centre for Medium-Range Weather Forecasts assimilated ozone from January 1979 to August 2002. The interannual variability (IAV) of extratropical O3 in the Northern Hemisphere (NH) is characterized by four main modes. Attributable to dominant dynamical effects, these four modes account for nearly 60% of the total ozone variance in the NH. The patterns of variability are distinctly different from those derived for total O3 in the tropics. To relate the derived patterns of O3 to atmospheric dynamics, similar decompositions are performed for the 30–100-hPa geopotential thickness. The results reveal intimate connections between the IAV of total ozone and the atmospheric circulation. The first two leading modes are nearly zonally symmetric and represent the connections to the annular modes and the quasi-biennial oscillation. The other two modes exhibit in-quadrature, wavenumber-1 structures that, when combined, describe the displacement of the polar vortices in response to planetary waves. In the NH, the extrema of these combined modes have preferred locations that suggest fixed topographical and land–sea thermal forcing of the involved planetary waves. Similar spatial patterns and trends in extratropical column ozone are simulated by the Goddard Earth Observation System chemistry–climate model (GEOS-CCM). The decreasing O3 trend is captured in the first mode. The largest trend occurs at the North Pole, with values ∼−1 Dobson Unit (DU) yr−1. There is almost no trend in tropical O3. The trends derived from PCA are confirmed using a completely independent method, empirical mode decomposition, for zonally averaged O3 data. The O3 trend is also captured by mode 1 in the GEOS-CCM, but the decrease is substantially larger than that in the real atmosphere.