Long-Term Dynamic Modeling Approach to Quantifying Attached Algal Growth and Associated Impacts on Dissolved Oxygen in the Lower Truckee River, Nevada

Nutrient loads enter the lower Truckee River of western Nevada, affecting the growth of attached algae (periphyton) which causes depressed nighttime dissolved oxygen (DO) levels. The lower Truckee River is home to the endangered cui-ui and threatened Lahontan cut-throat trout, with DO standards being established to in part protect these species. Hydrodynamics, nutrient concentrations, periphyton biomass, and DO data spanning August 2000–December 2001 were used to calibrate and verify a modified version of the Water Quality Analysis Simulation Program Version 5 (WASP5). Under typical loading conditions the periphyton community is nitrogen limited, however nitrogen loading from an upstream wastewater treatment facility increased greatly during the analysis period due to approved site construction activities (discharge permit excursion) causing the periphyton community to temporarily become phosphorus limited. The developed modeling approach, with limited calibration, was able to accurately track dynamic system responses. Removing the impact of the noted discharge permit excursion resulted in a minimum computed DO value of 4.13?mg/L, occurring at the downstream end of the modeling domain on August 8, 2001. Additionally removing the impact of all nutrient loads from area agriculture resulted in a predicted minimum DO value of 4.54?mg/L, while also shifting its location significantly upstream and its timing to April 26, 2001. Meeting all prescribed DO standards required establishing a minimum in-stream flow value of 1.81?m3/s (64.0?ft3/s) downstream of Derby Dam.     

Adaptive decision-making frameworks for dynamic multi-agent organizational change

This article presents a capability called Adaptive Decision-Making Frameworks (ADMF) and shows that it can result in significantly improved system performance across run-time situation changes in a multi-agent system. Specifically, ADMF can result in improved and more robust performance compared to the use of a single static decision-making framework (DMF). The ADMF capability allows agents to dynamically adapt the DMF in which they participate to fit their run-time situation as it changes. A DMF identifies a set of agents and specifies the distribution of decision-making control and the authority to assign subtasks among these agents as they determine how a goal or set of goals should be achieved. The ADMF capability is a form of organizational adaptation and differs from previous approaches to organizational adaptation and dynamic coordination in that it is the first to allow dynamic and explicit manipulation of these DMF characteristics at run-time as variables controlling agent behavior. The approach proposed for selecting DMFs at run-time parameterizes all domain-specific knowledge as characteristics of the agents’ situation, so the approach is application-independent. The presented evaluation empirically shows that, for at least one multi-agent system, there is no one best DMF for multiple agents across run-time situational changes. Next, it motivates the further exploration of ADMF by showing that adapting DMFs to run-time variations in situation can result in improved overall system performance compared to static or random DMFs.     

Automated identification of amino acid sequence variations in proteins by HPLC/microspray tandem mass spectrometry

Amino acid sequence variations resulting from single-nucleotide polymorphisms (SNPs) were identified using a novel mass spectrometric method. This method obtains 99+% protein sequence coverage for human hemoglobin in a single LC-microspray tandem mass spectrometry (microLC-MS/MS) experiment. Tandem mass spectrometry data was analyzed using a modified version of the computer program SEQUEST to identify the sequence variations. Conditions of sample preparation, chromatographic separation, and data collection were optimized to correctly identify amino acid changes in six variants of human hemoglobin (Hb C, Hb E, Hb D-Los Angeles, Hb G-Philadelphia, Hb Hope, and Hb S). Hemoglobin proteins were isolated and purified, dehemed, (S)-carboxyami-domethylated, and then subjected to a combination proteolytic digestion to obtain a complex peptide mixture with multiple overlaps in sequence. Reversed-phase chromatographic separation of peptides was achieved on-line with MS utilizing a robust fritless microelectrospray interface. Tandem mass spectrometry was performed on an ion trap mass spectrometer using automated data-dependent MS/MS procedures. Tandem mass spectra were collected from the five most abundant ions in each scan using dynamic and isotopic exclusion to minimize redundancy. The spectra were analyzed by a version of the SEQUEST algorithm modified to identify amino acid substations resulting from SNPs.     

Proteome profiling-pitfalls and progress

In this review we examine the current state of analytical methods in proteomics. The conventional methodology using two-dimensional electrophoresis gels and mass spectrometry is discussed, with particular reference to the advantages and shortcomings thereof. Two recently published methods which offer an alternative approach are presented and discussed, with emphasis on how they can provide information not available via two-dimensional gel electrophoresis. These two methods are the isotope-coded affinity tags approach of Gygi et al. and the two-dimensional liquid chromatography-tandem mass spectrometry approach as presented by Link et al. We conclude that both of these new techniques represent significant advances in analytical methodology for proteome analysis. Furthermore, we believe that in the future biological research will continue to be enhanced by the continuation of such developments in proteomic analytical technology.     

Sex-and age-related differences in ceramide dihexosides of primary human brain tumors

Neutral glycolipids (NGL) are promising diagnostic markers of human gliomas, but differences in NGL with age and sex have not been examined. Previous work demonstrated that ceramide dihexosides (CDH) levels in mouse kidney are age- and sex-dependent, probably due to levels of sex hormones. We quantitated CDH in 181 human gliomas and found significant differences with sex and age, particularly menopause and male puberty. This emphasizes the importance of assessing results of studies on glycolipids in disease states with respect to age and sex in order to avoid erroneous conclusions concerning the relationship of glycolipid composition with diagnosis and pathogenesis.     

Influence of geotechnical factors on gas flow experienced in a UK longwall coal mine panel

Methane drainage has become an integral part of modern coal mining operations when gas emissions cannot be practically dealt with using conventional ventilation methods alone. Boreholes are often drilled above and below the caving zone and connected to a drainage range located along the return gate. This paper describes the construction and analysis of the results obtained from the two- and three- dimensional geomechanical and gas flow models experienced around an active deep UK longwall coal production panel. The models constructed using the commercial FLAC codes were undertaken to provide information to the ventilation engineers at the mine on the likely gas sources and gas flow paths into the face line areas and gate roads. This information allows for the correct design of the orientation, length and support of the boreholes to maximise gas capture. The paper describes the method adopted to derive the relevant rock mass parameters and the laboratory tests conducted to obtain the stress-dependent permeability of coal measure rock strata. A functional relationship is proposed whereby the intrinsic bulk permeability of a sheared coal measure rock may be predicted from the confining stress. A detailed discussion of the geomechanical modelling methodology and the derivation of the strata permeabilities and gas flow modelling adopted is presented. The output of the models is described and used to interpret the major potential gas sources and pathway into the workings.     

Characterization of ZnS grown by metal-organic chemical vapour deposition on GaAs(100) using t-butyl mercaptan and dimethylzinc

ZnS has been grown on GaAs(100) substrates by atmospheric pressure metal–organic chemical vapour deposition (MOCVD) using dimethylzinc (DMZn) and t-butyl mercaptan (t-BuSH). The effects of the reactant gas phase molar ratio and the growth temperature on the characteristics of the material grown have been investigated. The structural quality of the layer is demonstrated by X-ray rocking curve half-widths of less than 300 arcsec for the epilayers. There is little significant pre-reaction and the layers are of excellent surface morphology and layer uniformity.     

Enhancement of the transient-evoked otoacoustic emission produced by the addition of a pure tone in the guinea pig

Focal adhesion kinase (FAK) is a nonreceptor tyrosine kinase implicated in cell-matrix interaction and integrin signaling. It is well established that Tyr-397 is the FAK autophosphorylation site and Tyr-407, -576/577, -861, and -925 are the sites on murine FAK that are mediated by Src family kinases. To study how FAK is regulated by tyrosine phosphatase(s), cells overexpressing chicken FAK are treated with sodium vanadate. Both the phosphotyrosine content and the enzymatic activity of FAK are increased in response to vanadate. Interestingly, sustained FAK Tyr-576/577 and -863 phosphorylations are detected in vanadate-treated FAK overexpressors and are dependent on FAK autophosphorylation. Further analysis of sodium vanadate-treated FAK overexpressors reveals that the enhanced FAK kinase activity parallels its elevated Tyr-576/577 phosphorylation. Thus, we conclude that Src-mediated FAK phosphorylation is regulated by a tyrosine phosphatase(s) and may be of physioligical significance.     

Expandable metal stents for the treatment of colonic obstruction: techniques and outcomes

Modulation of CD8(+) T-cell responses specific for an exogenous antigen by epitope variants would be advantageous to develop a novel means of antigen-specific immune regulation. We have analyzed CD8(+) T-cell responses to single amino acid-substituted variants of a peptide corresponding to residues 142-149 (p142-149; LAYFYPEL) of alphas1-casein, a major milk allergen, which is a dominant determinant restricted by H-2Kb. An analog peptide L142I with a substitution of Ile for Leu at the nonanchor N-terminal residue induced more IFN-gamma secretion than p142-149 from specific CD8(+) T cells. Furthermore, L142I could prime CD8(+) T cells more efficiently in vivo, and these L142I-primed cells secreted more IFN-gamma than p142-149-primed CD8(+) T cells upon stimulation with p142-149 in vitro. These findings are mainly explained by the greater ability of L142I to form stable Kb-peptide complexes. These findings indicate that appropriate analog peptides may be useful as efficient inducers of CD8(+) T cells which recognize the parent peptide and secrete IFN-gamma, a potent inhibitor of Th2-dependent events, including IgE production.     

Image Enhancement of Conventional Transverse-Axial Tomograms

An image processing system for image enhancement of conventional transverse axial tomography (TAT) is described. Conventional TAT means a tomography system in which the X-ray source and X-ray film move in a circular arc about the long axis of the patient, which is a different technique from computerized tomography. In the image processing system described, the original X-ray tomograms are digitized, high-pass filtered, and displayed on a TV monitor. The results of processing several clinical tomograms are shown, and definite improvements in the observed information are noted. The basic technique should be equally applicable to other conventional tomography systems, e.g., linear tomography or hypocycloidal tomography.