Numerical modeling of larval settlement in turbulent bottom boundary layers

A time-dependent model of a tidal or wave bottom boundary layer has been developed to quantitatively evaluate the relative influences of vertical advection, turbulent mixing and shear, and near-bed behavior on settlement of planktonic larvae of benthic animals. The settlement behavior of larvae is modeled with a simple flux condition at the bed. This allows full time dependence to be included when determining settlement rates. For tidal oscillations, the model predicts that most settlement will occur at and near periods of slack water, whereas comparatively little settlement will occur during periods of stronger flow. In contrast, there should be little temporal variability in settlement rates associated with short-period wind waves. If larvae exhibit a relatively weak propensity to settle, then the settlement flux is small compared to the advective/turbulent flux of larvae supplied from higher in the water column to regions near the bed. In this case, a description of probability of settlement and a quasi-steady state suspension model fully describe the system. In contrast, when larvae exhibit a high settlement propensity, then the settlement flux is potentially larger than the advective/turbulent flux and the system is controlled by the hydrodynamic supply of larvae to the near-bed region. In this case, net settlement is governed primarily by larval fall velocity (a composite of gravitational sinking plus swimming) and turbulent shear stress. The ecological systems which are controlled by animal behavior or by physical processes may thus be identified by estimates of relatively simple parameters describing these fluxes

Larval Trophodynamics, Turbulence, and Drift on Georges Bank : A Sensitivity Analysis of Cod and Haddock

Using an individual-based model approach we consider trophodynamic effects on the growth and survival of larval cod (Gadus morhua) and haddock (Melanogrammus aeglefinus) on Georges Bank during late winter/early spring. These studies represent an extension of results described in Werner et al. (1996; Deep-Sea Res. II), wherein the effect of turbulence-enhanced larval-prey contact rates increased the effective prey concentration resulting in growth of cod larvae consistent with observed rates in the field. We reformulated the feeding of the larvae to include existing relationships between maximum prey-length and larval-length and we examined: (i) larval search behaviour and its effect on encounter with prey, (ii) the ability of larvae to pursue and capture prey in a turbulent environment, and (iii) the effect of turbulence on the dispersion of larvae in the vertical. We find that search behaviour, the effect of turbulence on pursuit and capture, and vertical dispersion decrease the predicted larval growth rates compared to those observed in the earlier study. These results suggest that larval feeding behaviour, and especially the ability of larvae to pursue encountered prey, could be an important input to larval growth and survival models. The inclusion of turbulence in determining the position of passive larvae in the water column allows the larvae to sample the entire water column, contributing to a decrease in the variance of the size of the larvae over time. The ability of larvae to swim and aggregate in the vertical will be necessary to reproduce distributions observed in the field

Population connectivity in marine systems : an overview

Author Posting. © Oceanography Society, 2007. This article is posted here by permission of Oceanography Society for personal use, not for redistribution. The definitive version was published in Oceanography 20, 3 (2007): 14-21.There is growing consensus that life within the world’s ocean is under considerable and increasing stress from human activities (Hutchings, 2000; Jackson et al., 2001). This unprecedented strain on both the structure and function of marine ecosystems has led to calls for new management approaches to counter anthropogenic impacts in the coastal ocean (Botsford et al., 1997; Browman and Stergiou, 2004: Pikitch et al., 2004). Spatial management, including Marine Protected Areas (MPAs), has been touted as a method for both conserving biodiversity and managing fisheries (Agardy, 1997). Continuing debates on the efficacy of MPAs have identified the need for models that capture the spatial dynamics of marine populations, especially with respect to larval dispersal (Willis et al., 2003; Sale et al., 2005). Theoretical studies suggest that population connectivity plays a fundamental role in local and metapopulation dynamics, community dynamics and structure, genetic diversity, and the resiliency of populations to human exploitation (Hastings and Harrison, 1994; Botsford et al., 2001). Modeling efforts have been hindered, however, by the paucity of empirical estimates of, and knowledge of the processes controlling, population connectivity in ocean ecosystems. While progress has been made with older life stages, the larval-dispersal component of connectivity remains unresolved for most marine populations. This lack of knowledge represents a fundamental obstacle to obtaining a comprehensive understanding of the population dynamics of marine organisms. Furthermore, a lack of spatial context that such information would provide has limited the ability of ecologists to evaluate the design and potential benefits of novel conservation and resource-management strategies.Over the years, we have each received support from a variety of agencies in support of research relevant to Population Connectivity; in addition to NSF, we acknowledge funding from the World Bank/GEF Coral Reef Targeted Research Program, University of Miami’s Maytag Chair in Ichthyology, the Oak Foundation, and the Woods Hole Oceanographic Institutio

Models : tools for synthesis in international oceanographic research programs

Author Posting. © Oceanography Society, 2010. This article is posted here by permission of Oceanography Society for personal use, not for redistribution. The definitive version was published in Oceanography 23, no. 3 (2010): 126-139, doi: 10.5670/oceanog.2010.28Through its promotion of coordinated international research programs, the Intergovernmental Oceanographic Commission (IOC) has facilitated major progress on some of the most challenging problems in oceanography. Issues of global significance—such as general ocean circulation, the carbon cycle, the structure and dynamics of ecosystems, and harmful algal blooms—are so large in scope that they require international collaboration to be addressed systematically. International collaborations are even more important when these issues are affected by anthropogenic processes— such as climate change, CO2 enhancement, ocean acidification, pollution, and eutrophication—whose impacts may differ greatly throughout the global ocean. These problems require an entire portfolio of research activities, including global surveys, regional process studies, time-series observations, laboratorybased investigations, and satellite remote sensing. Synthesis of this vast array of results presents its own set of challenges (Hofmann et al., 2010), and models offer an explicit framework for integration of the knowledge gained as well as detailed investigation of the underlying dynamics. Models help us to understand what happened in the past, and to make predictions of future changes—both of which support the development of sound policy and decision making. We review examples of how models have been used for this suite of purposes, focusing on areas where IOC played a key role in organizing and coordinating the research activities.Support from the National Science Foundation, National Aeronautics and Space Administration, National Oceanic and Atmospheric Administration, and National Institute of Environmental Health Sciences. DS acknowledges CLISAP (Integrated Climate System Analysis and Prediction) at the KlimaCampus of the University of Hamburg. PG acknowledges SCOR/ LOICZ Working Group 132

Relationship between Nanostructure and Deformation Behavior of Microphase-Separated Styrene/Butadiene Systems

The relationship between the morphology and the mechanical properties of nanostructured blends,comprising an asymmetric styrene/butadiene star block copolymer,exhibiting cocontinuous-like morphology and low molar mass homopolymers, was studied by electron microscopy, microindentation hardness, and tensile testing methods. Results show that the deformation behavior of these systems is significantly modified by the presence of unentangled homopolymer chains, leading partly to a decrease in mechanical properties. In contrast to common polymer blends, in which usually, the hardness values do not markedly deviate from the additivity law, the H-values in the system investigated show large deviations from the linear additivity behavior. The observed anomalous behavior is discussed in terms of the enhanced local flow processes induced by the phase-separated morphology at a nanometer scale.Peer reviewe

Cold event in the South Atlantic Bight during summer of 2003 : model simulations and implications

Author Posting. © American Geophysical Union, 2007. This article is posted here by permission of American Geophysical Union for personal use, not for redistribution. The definitive version was published in Journal of Geophysical Research 112 (2007): C05022, doi:10.1029/2006JC003903.A set of model simulations are used to determine the principal forcing mechanisms that resulted in anomalously cold water in the South Atlantic Bight (SAB) in the summer of 2003. Updated mass field and elevation boundary conditions from basin-scale Hybrid Coordinate Ocean Model (HYCOM) simulations are compared to climatological forcing to provide offshore and upstream influences in a one-way nesting sense. Model skill is evaluated by comparing model results with observations of velocity, water level, and surface and bottom temperature. Inclusion of realistic atmospheric forcing, river discharge, and improved model dynamics produced good skill on the inner shelf and midshelf. The intrusion of cold water onto the shelf occurred predominantly along the shelf-break associated with onshore flow in the southern part of the domain north of Cape Canaveral (29° to 31.5°). The atmospheric forcing (anomalously strong and persistent upwelling-favorable winds) was the principal mechanism driving the cold event. Elevated river discharge increased the level of stratification across the inner shelf and midshelf and contributed to additional input of cold water into the shelf. The resulting pool of anomalously cold water constituted more than 50% of the water on the shelf in late July and early August. The excess nutrient flux onto the shelf associated with the upwelling was approximated using published nitrate-temperature proxies, suggesting increased primary production during the summer over most of the SAB shelf.The preparation of this paper was primarily supported by the Southeast Atlantic Coastal Ocean Observing System (SEACOOS) and the South Atlantic Bight Limited Area Model (SABLAM). SEACOOS is a collaborative, regional program sponsored by the Office of Naval Research under award N00014-02-1-0972 and managed by the University of North Carolina-General Administration. SABLAM was sponsored by the National Ocean Partnership Program (award NAG 13-00041). Data from ship surveys were collected and processed with the support from NSF grant OCE-0099167 (J. R. Nelson), NSF grant OCE-9982133 (J. O. Blanton, SkIO), NASA grant NAG-10557 (J. R. Nelson), and SEACOOS. NOAA NDBC buoy data and NOS coastal water level records were obtained through NOAA-supported data archives and web portals. Moored instrument data from the Carolina Coastal Ocean Observation and Prediction System (Caro-COOPS) were acquired from the system’s website (http://www.carocoops.org). Caro-COOPS is sponsored by NOAA grant NA16RP2543

What is the role of sentinel lymph node biopsy in the management of oral cancer in 2010?

Item does not contain fulltext1 juni 201

Adiabatic invariants and Mixmaster catastrophes

We present a rigorous analysis of the role and uses of the adiabatic invariant in the Mixmaster dynamical system. We propose a new invariant for the global dynamics which in some respects has an improved behaviour over the commonly used one. We illustrate its behaviour in a number of numerical results. We also present a new formulation of the dynamics via Catastrophe Theory. We find that the change from one era to the next corresponds to a fold catastrophe, during the Kasner shifts the potential is an Implicit Function Form whereas, as the anisotropy dissipates, the Mixmaster potential must become a Morse 0--saddle. We compare and contrast our results to many known works on the Mixmaster problem and indicate how extensions could be achieved. Further exploitation of this formulation may lead to a clearer understanding of the global Mixmaster dynamics.Comment: 24 pages, LaTeX, 5 figures (which can be obtained by sending a message to the first author), submitted to Phys.Rev.

IS element IS16 as a molecular screening tool to identify hospital-associated strains of Enterococcus faecium

<p>Abstract</p> <p>Background</p> <p>Hospital strains of <it>Enterococcus faecium </it>could be characterized and typed by various molecular methods (MLST, AFLP, MLVA) and allocated to a distinct clonal complex known as MLST CC17. However, these techniques are laborious, time-consuming and cost-intensive. Our aim was to identify hospital <it>E. faecium </it>strains and differentiate them from colonizing and animal variants by a simple, inexpensive and reliable PCR-based screening assay. We describe here performance and predictive value of a single PCR detecting the insertion element, IS<it>16</it>, to identify hospital <it>E. faecium </it>isolates within a collection of 260 strains of hospital, animal and human commensal origins.</p> <p>Methods</p> <p>Specific primers were selected amplifying a 547-bp fragment of IS<it>16</it>. Presence of IS<it>16 </it>was determined by PCR screenings among the 260 <it>E. faecium </it>isolates. Distribution of IS<it>16 </it>was compared with a prevalence of commonly used markers for hospital strains, <it>esp </it>and <it>hyl</it>_<it>Efm</it>. All isolates were typed by MLST and partly by PFGE. Location of IS<it>16 </it>was analysed by Southern hybridization of plasmid and chromosomal DNA.</p> <p>Results</p> <p>IS<it>16 </it>was exclusively distributed only among 155 invasive strains belonging to the clonal complex of hospital-associated strains ("CC17"; 28 MLST types) and various vancomycin resistance genotypes (<it>van</it>A/B/negative). The five invasive IS<it>16</it>-negative strains did not belong to the clonal complex of hospital-associated strains (CC17). IS<it>16 </it>was absent in all but three isolates from 100 livestock, food-associated and human commensal strains ("non-CC17"; 64 MLST types). The three IS<it>16</it>-positive human commensal isolates revealed MLST types belonging to the clonal complex of hospital-associated strains (CC17). The values predicting a hospital-associated strain ("CC17") deduced from presence and absence of IS<it>16 </it>was 100% and thus superior to screening for the presence of <it>esp </it>(66%) and/or <it>hyl</it>_{<it>Efm </it>}(46%). Southern hybridizations revealed chromosomal as well as plasmid localization of IS<it>16</it>.</p> <p>Conclusions</p> <p>This simple screening assay for insertion element IS<it>16 </it>is capable of differentiating hospital-associated from human commensal, livestock- and food-associated <it>E. faecium </it>strains and thus allows predicting the epidemic strengths or supposed pathogenic potential of a given <it>E. faecium </it>isolate identified within the nosocomial setting.</p

IS element IS16 as a molecular screening tool to identify hospital-associated strains of Enterococcus faecium

<p>Abstract</p> <p>Background</p> <p>Hospital strains of <it>Enterococcus faecium </it>could be characterized and typed by various molecular methods (MLST, AFLP, MLVA) and allocated to a distinct clonal complex known as MLST CC17. However, these techniques are laborious, time-consuming and cost-intensive. Our aim was to identify hospital <it>E. faecium </it>strains and differentiate them from colonizing and animal variants by a simple, inexpensive and reliable PCR-based screening assay. We describe here performance and predictive value of a single PCR detecting the insertion element, IS<it>16</it>, to identify hospital <it>E. faecium </it>isolates within a collection of 260 strains of hospital, animal and human commensal origins.</p> <p>Methods</p> <p>Specific primers were selected amplifying a 547-bp fragment of IS<it>16</it>. Presence of IS<it>16 </it>was determined by PCR screenings among the 260 <it>E. faecium </it>isolates. Distribution of IS<it>16 </it>was compared with a prevalence of commonly used markers for hospital strains, <it>esp </it>and <it>hyl</it>_<it>Efm</it>. All isolates were typed by MLST and partly by PFGE. Location of IS<it>16 </it>was analysed by Southern hybridization of plasmid and chromosomal DNA.</p> <p>Results</p> <p>IS<it>16 </it>was exclusively distributed only among 155 invasive strains belonging to the clonal complex of hospital-associated strains ("CC17"; 28 MLST types) and various vancomycin resistance genotypes (<it>van</it>A/B/negative). The five invasive IS<it>16</it>-negative strains did not belong to the clonal complex of hospital-associated strains (CC17). IS<it>16 </it>was absent in all but three isolates from 100 livestock, food-associated and human commensal strains ("non-CC17"; 64 MLST types). The three IS<it>16</it>-positive human commensal isolates revealed MLST types belonging to the clonal complex of hospital-associated strains (CC17). The values predicting a hospital-associated strain ("CC17") deduced from presence and absence of IS<it>16 </it>was 100% and thus superior to screening for the presence of <it>esp </it>(66%) and/or <it>hyl</it>_{<it>Efm </it>}(46%). Southern hybridizations revealed chromosomal as well as plasmid localization of IS<it>16</it>.</p> <p>Conclusions</p> <p>This simple screening assay for insertion element IS<it>16 </it>is capable of differentiating hospital-associated from human commensal, livestock- and food-associated <it>E. faecium </it>strains and thus allows predicting the epidemic strengths or supposed pathogenic potential of a given <it>E. faecium </it>isolate identified within the nosocomial setting.</p