Examination of diffusion versus advection dominated sediment suspension on the inner shelf under storm and swell conditions, Duck, North Carolina

[1] A benthic boundary layer tripod supporting six current meters and three profiling acoustic backscatter sensors (ABS) documented storm and swell conditions during the fall of 1996 at a depth of 13 m on the inner shelf off Duck, North Carolina. Sediment concentration was higher in the wave boundary layer (WBL) during storm conditions but higher similar to40 cm above the bed (cm ab) during swell conditions. To test the applicability of a diffusive balance during storm versus swell, ABS data were used to invert the vertical diffusion equation and solve for eddy diffusivity from 1 to 50 cm ab. During the storm period, diffusivity derived from the ABS up to similar to40 cm ab agreed well with viscosity derived above the WBL from observed current profiles and from the Grant-Madsen-Glenn (GMG) model. During the swell period, diffusivity derived from the ABS up to similar to40 cm ab did not agree with observed mean current shear above this level nor with the GMG model. Diffusivity did agree with viscosity derived from shear stress due to waves within the WBL extrapolated to a height greater than the modeled WBL. We speculate that during swell conditions, shedding vortices enhanced mass and momentum exchange, extending the eddy viscosity associated with waves above the predicted WBL; during storm conditions, strong currents prevented vortices from penetrating beyond the predicted WBL. Rouse diffusion models with two- and three-layered eddy diffusivity and combined diffusion-advection models with one and three-layer were applied to the observational data set. During the storm the two- and three-layered Rouse models including multiple grain sizes and bed armoring reproduced the observed concentration well. During swell (weak current conditions) all the models considered underpredicted the observed concentration if applied with a standard WBL thickness. To correct this, enhanced vertical exchange was represented by a thickened WBL whenever mean currents were weak relative to the estimated jet velocity associated with wave-induced vortex shedding. The two- layer Rouse model then reproduced the concentrations observed during swell remarkably well. This implies that mean sediment suspension dominated by wave-induced advection may still be approximated by a diffusion-like process under some circumstances

Cellulose synthase promoter and method for modifiying cellulose and lignin biosynthesis in plants

This invention relates to an isolated cellulose synthase promoter, methods for genetically altering cellulose and lignin biosynthesis, and to methods for improving strength properties of juvenile wood and fiber in trees. The invention further relates to methods for identifying regulatory elements in a cellulose synthase promoter and to methods for augmenting expression of polynucleotides operably linked to a cellulose synthase promoter.https://digitalcommons.mtu.edu/patents/1037/thumbnail.jp

Astroclimatic Characterization of Vallecitos: A candidate site for the Cherenkov Telescope Array at San Pedro Martir

We conducted an 18 month long study of the weather conditions of the Vallecitos, a proposed site in Mexico to harbor the northern array of the Cherenkov Telescope Array (CTA). It is located in Sierra de San Pedro Martir (SPM) a few kilometers away from Observatorio Astron\'omico Nacional. The study is based on data collected by the ATMOSCOPE, a multi-sensor instrument measuring the weather and sky conditions, which was commissioned and built by the CTA Consortium. Additionally, we compare the weather conditions of the optical observatory at SPM to the Vallecitos regarding temperature, humidity, and wind distributions. It appears that the excellent conditions at the optical observatory benefit from the presence of microclimate established in the Vallecitos.Comment: 16 pages, 16 figures, Publication of the Astronomical Society of the Pacific, accepte

Radiobiological Evaluation of Intensity Modulated Radiation Therapy Treatments of Patients with Head and Neck Cancer: A Dual-Institutional Study

In clinical practice, evaluation of clinical efficacy of treatment planning stems from the radiation oncologist\u27s experience in accurately targeting tumors, while keeping minimal toxicity to various organs at risk (OAR) involved. A more objective, quantitative method may be raised by using radiobiological models. The purpose of this work is to evaluate the potential correlation of OAR-related toxicities to its radiobiologically estimated parameters in simultaneously integrated boost (SIB) intensity modulated radiation therapy (IMRT) plans of patients with head and neck tumors at two institutions. Lyman model for normal tissue complication probability (NTCP) and the Poisson model for tumor control probability (TCP) models were used in the Histogram Analysis in Radiation Therapy (HART) analysis. In this study, 33 patients with oropharyngeal primaries in the head and neck region were used to establish the correlation between NTCP values of (a) bilateral parotids with clinically observed rates of xerostomia, (b) esophagus with dysphagia, and (c) larynx with dysphagia. The results of the study indicated a strong correlation between the severity of xerostomia and dysphagia with Lyman NTCP of bilateral parotids and esophagus, respectively, but not with the larynx. In patients without complications, NTCP values of these organs were negligible. Using appropriate radiobiological models, the presence of a moderate to strong correlation between the severities of complications with NTCP of selected OARs suggested that the clinical outcome could be estimated prior to treatment

A cyclic-di-GMP receptor required for bacterial exopolysaccharide production

Bis-(3′,5′)-cyclic-dimeric-guanosine monophosphate (c-di-GMP) has been shown to be a global regulatory molecule that modulates the reciprocal responses of bacteria to activate either virulence pathways or biofilm formation. The mechanism of c-di-GMP signal transduction, including recognition of c-di-GMP and subsequent phenotypic regulation, remain largely uncharacterized. The key components of these regulatory pathways are the various adaptor proteins (c-di-GMP receptors). There is compelling evidence suggesting that, in addition to PilZ domains, there are other unidentified c-di-GMP receptors. Here we show that the PelD protein of Pseudomonas aeruginosa is a novel c-di-GMP receptor that mediates c-di-GMP regulation of PEL polysaccharide biosynthesis. Analysis of PelD orthologues identified a number of conserved residues that are required for c-di-GMP binding as well as synthesis of the PEL polysaccharide. Secondary structure similarities of PelD to the inhibitory site of diguanylate cyclase suggest that a common fold can act as a platform to bind c-di-GMP. The combination of a c-di-GMP binding site with a variety of output signalling motifs within one protein domain provides an explanation for the specificity for different cellular responses to this regulatory dinucleotide

Literature-based discovery of diabetes- and ROS-related targets

Abstract Background Reactive oxygen species (ROS) are known mediators of cellular damage in multiple diseases including diabetic complications. Despite its importance, no comprehensive database is currently available for the genes associated with ROS. Methods We present ROS- and diabetes-related targets (genes/proteins) collected from the biomedical literature through a text mining technology. A web-based literature mining tool, SciMiner, was applied to 1,154 biomedical papers indexed with diabetes and ROS by PubMed to identify relevant targets. Over-represented targets in the ROS-diabetes literature were obtained through comparisons against randomly selected literature. The expression levels of nine genes, selected from the top ranked ROS-diabetes set, were measured in the dorsal root ganglia (DRG) of diabetic and non-diabetic DBA/2J mice in order to evaluate the biological relevance of literature-derived targets in the pathogenesis of diabetic neuropathy. Results SciMiner identified 1,026 ROS- and diabetes-related targets from the 1,154 biomedical papers (http://jdrf.neurology.med.umich.edu/ROSDiabetes/). Fifty-three targets were significantly over-represented in the ROS-diabetes literature compared to randomly selected literature. These over-represented targets included well-known members of the oxidative stress response including catalase, the NADPH oxidase family, and the superoxide dismutase family of proteins. Eight of the nine selected genes exhibited significant differential expression between diabetic and non-diabetic mice. For six genes, the direction of expression change in diabetes paralleled enhanced oxidative stress in the DRG. Conclusions Literature mining compiled ROS-diabetes related targets from the biomedical literature and led us to evaluate the biological relevance of selected targets in the pathogenesis of diabetic neuropathy.http://deepblue.lib.umich.edu/bitstream/2027.42/78315/1/1755-8794-3-49.xmlhttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/2/1755-8794-3-49-S7.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/3/1755-8794-3-49-S10.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/4/1755-8794-3-49-S8.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/5/1755-8794-3-49-S3.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/6/1755-8794-3-49-S1.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/7/1755-8794-3-49-S4.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/8/1755-8794-3-49-S2.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/9/1755-8794-3-49-S12.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/10/1755-8794-3-49-S11.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/11/1755-8794-3-49-S9.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/12/1755-8794-3-49-S5.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/13/1755-8794-3-49-S6.XLShttp://deepblue.lib.umich.edu/bitstream/2027.42/78315/14/1755-8794-3-49.pdfPeer Reviewe