bluuebunny/crossref_metadata_2025_split huggingface dataset:
Evidence‐Based Medicine and Knowledge Dissemination, Translation, and Utilization: Challenges of Getting Evidence‐Based Treatments to Patient Care and Service Delivery
Authors: Soydan Haluk 
Published: August 2009

AbstractThe aim of this article is to explore challenges associated with effective utilization of best available scientific evidence on what works and what is potentially harmful in health, mental health, and social care. A gap exists between the production of high quality evidence on what has proven to be successful and the utilization of this evidence in human services. Patients and service users do not always receive interventions supported by the best available scientific evidence. Methods of evidence‐based medicine and evidence‐based practice have emerged as promising approaches to remedy this deficit. Furthermore, implementation and translational research, supported by multi‐disciplinary efforts, is emerging as another approach to bring best available evidence to service delivery settings. Although these approaches are promoted by diverse stakeholders in many countries, we are still waiting for rigorous evaluations of these approaches to understand their effectiveness in comparison to traditional ways of delivering interventions and other types of services in human services organizations.
The immunopathogenesis of periodontal disease
Authors: Ohlrich EJ , Cullinan MP , Seymour GJ 
Published: September 2009

AbstractTreatment planning in periodontics, as with any disease, must be based on an understanding of the aetiology and pathogenesis of the disease. In this context, it has slowly become recognized over the past three decades that while plaque is the cause of the disease, it is the innate susceptibility of the host that determines the ultimate outcome of the disease process. Innate susceptibility, in turn, is determined by the nature of the immune response to the specific periodontopathic complexes comprising the plaque biofilm. The aim of this review was to examine current understanding of the immunopathogenesis of chronic periodontitis with respect to its possible clinical implications in terms of treatment planning and risk assessment. Numerous studies have demonstrated that the periodontitis lesion itself involves predominantly B cells and plasma cells, while the gingivitis lesion is primarily a T cell mediated response. This led to the concept over 30 years ago that the development of periodontitis involves a switch from a T cell lesion to one involving large numbers of B cells and plasma cells. It is also well recognized that control of this shift is mediated by a balance between the so‐called Th1 and Th2 subsets of T cells, with chronic periodontitis being mediated by Th2 cells. More recently, T regulatory (Treg) and Th17 cells have been demonstrated in periodontal tissues, raising the possibility that these cells are also important in the immunoregulation of periodontal disease. The clinical implications of these observations can be seen in the fact that identification of Th1/Th2 and Treg/Th17 cytokine gene expression in the peripheral blood and salivary transcriptomes is now being trialled as a possible marker of disease susceptibility. If this proves to be the case, a chairside salivary diagnostic could be developed within the next five to 10 years.
Periodontal regeneration
Authors: Ivanovski S 
Published: September 2009

AbstractThe ultimate goal of periodontal therapy is the regeneration of the tissues destroyed as a result of periodontal disease. Currently, two clinical techniques, based on the principles of “guided tissue regeneration” (GTR) or utilization of the biologically active agent “enamel matrix derivative” (EMD), can be used for the regeneration of intrabony and Class II mandibular furcation periodontal defects. In cases where additional support and space‐making requirements are necessary, both of these procedures can be combined with a bone replacement graft. There is no evidence that the combined use of GTR and EMD results in superior clinical results compared to the use of each material in isolation. Great variability in clinical outcomes has been reported in relation to the use of both EMD and GTR, and these procedures can be generally considered to be unpredictable. Careful case selection and treatment planning, including consideration of patient, tooth, site and surgical factors, is required in order to optimize the outcomes of treatment. There are limited data available for the clinical effectiveness of other biologically active molecules, such as growth factors and platelet concentrates, and although promising results have been reported, further clinical trials are required in order to confirm their effectiveness. Current active areas of research are centred on tissue engineering and gene therapy strategies which may result in more predictable regenerative outcomes in the future.
High-Level Rifampin Resistance Correlates with Multiple Mutations in therpoBGene of Pulmonary Tuberculosis Isolates from the Afghanistan Border of Iran
Authors: Bahrmand Ahmad Reza , Titov Leonid P. , Tasbiti Alireza Hadizadeh , Yari Shamsi , Graviss Edward A. 
Published: August 2009

ABSTRACTThe aim of this study was to investigate the significance of multiple mutations in therpoBgene as well as predominant nucleotide changes and their correlation with high levels of resistance to rifampin (rifampicin) inMycobacterium tuberculosisisolates that were randomly collected from the sputa of 46 patients with primary and secondary cases of active pulmonary tuberculosis from the southern region (Afghanistan border) of Iran where tuberculosis is endemic. Drug susceptibility testing was performed using the CDC standard conventional proportional method. DNA extraction,rpoBgene amplification, and DNA sequencing analysis were performed. Thirty-five (76.09%) isolates were found to have multiple mutations (two to four) in therpoB(β-subunit) gene. Furthermore, we demonstrate that the combination of mutations with more prevalent nucleotide changes were observed in codons 523, 526, and 531, indicating higher frequencies of mutations among patients with secondary infection. In this study, 76.08% (n= 35) of all isolates found to have mutation combinations involving nucleotide changes in codons 523 (GGG→GCG), 531 (TCG→TTG or TTC), and 526 (CAC→CGC, TTC, AAC, or CAA) demonstrated an association with higher levels of resistance to rifampin (MIC, ≥100 μg/ml).
The Remarkable Frequency of Human Immunodeficiency Virus Type 1 Genetic Recombination
Authors: Onafuwa-Nuga Adewunmi , Telesnitsky Alice 
Published: August 2009

SUMMARY
The genetic diversity of human immunodeficiency virus type 1 (HIV-1) results from a combination of point mutations and genetic recombination, and rates of both processes are unusually high. This review focuses on the mechanisms and outcomes of HIV-1 genetic recombination and on the parameters that make recombination so remarkably frequent. Experimental work has demonstrated that the process that leads to recombination—a copy choice mechanism involving the migration of reverse transcriptase between viral RNA templates—occurs several times on average during every round of HIV-1 DNA synthesis. Key biological factors that lead to high recombination rates for all retroviruses are the recombination-prone nature of their reverse transcription machinery and their pseudodiploid RNA genomes. However, HIV-1 genes recombine even more frequently than do those of many other retroviruses. This reflects the way in which HIV-1 selects genomic RNAs for coencapsidation as well as cell-to-cell transmission properties that lead to unusually frequent associations between distinct viral genotypes. HIV-1 faces strong and changeable selective conditions during replication within patients. The mode of HIV-1 persistence as integrated proviruses and strong selection for defective proviruses in vivo provide conditions for archiving alleles, which can be resuscitated years after initial provirus establishment. Recombination can facilitate drug resistance and may allow superinfecting HIV-1 strains to evade preexisting immune responses, thus adding to challenges in vaccine development. These properties converge to provide HIV-1 with the means, motive, and opportunity to recombine its genetic material at an unprecedented high rate and to allow genetic recombination to serve as one of the highest barriers to HIV-1 eradication.
Mechanisms and Evolution of Control Logic in Prokaryotic Transcriptional Regulation
Authors: van Hijum Sacha A. F. T. , Medema Marnix H. , Kuipers Oscar P. 
Published: August 2009

SUMMARYA major part of organismal complexity and versatility of prokaryotes resides in their ability to fine-tune gene expression to adequately respond to internal and external stimuli. Evolution has been very innovative in creating intricate mechanisms by which different regulatory signals operate and interact at promoters to drive gene expression. The regulation of target gene expression by transcription factors (TFs) is governed by control logic brought about by the interaction of regulators with TF binding sites (TFBSs) incis-regulatory regions. A factor that in large part determines the strength of the response of a target to a given TF is motif stringency, the extent to which the TFBS fits the optimal TFBS sequence for a given TF. Advances in high-throughput technologies and computational genomics allow reconstruction of transcriptional regulatory networks in silico. To optimize the prediction of transcriptional regulatory networks, i.e., to separate direct regulation from indirect regulation, a thorough understanding of the control logic underlying the regulation of gene expression is required. This review summarizes the state of the art of the elements that determine the functionality of TFBSs by focusing on the molecular biological mechanisms and evolutionary origins ofcis-regulatory regions.
Geodynamic evolution of the 2.25-2.0 Ga Palaeoproterozoic magmatic rocks in the Man-Leo Shield of the West African Craton. A model of subsidence of an oceanic plateau
Authors: Lompo M. 
Published: September 2009

Abstract
The West African Craton is defined by the presence of Archaean and Palaeoproterozoic (Birimian) rocks. Since 1990, researchers have published several papers proposing various regional scale accretionary models for the evolution of the Birimian series and the Eburnean orogeny. The Birimian lithostratigraphic succession starts with a major sequence of tholeiitic pillow basalts with intercalations of sediments, overlain by detrital and carbonate sediments, associated with calc-alkaline volcanics and plutons. A global scheme for the geodynamical evolution can be reasonably constrained using the characteristics of early tholeiitic plutono-volcanic and granitoid rocks. Geochemical, geochronological and structural characteristics of Palaeoproterozoic magmatic rocks of the Man-Leo Shield distinguish three tholeiitic (PTH1, PTH2, PTH3) and two granitic (PAG, PBG) series and date three principal events that have characterized the 2250–2000 Ma period: (1) Event I (2250–2200 Ma) characterized by tholeiitic volcanism with a widespread first tholeiite generation (PTH1), interpreted as the eruption of a mantle plume in an oceanic basin floor; (2) Event II (2200–2150 Ma) marked by second (PTH2) and third (PTH3) tholeiite generations and a calc-alkaline magma setting; high granitization and amphibole-bearing (PAG) granitoid emplacement with greenstone belt deformation. This event has been favoured by a crustal subsidence in a broad synclinorium mega-structure followed by vertical tectonics; (3) Event III (2150–2000 Ma) characterized by main biotite±muscovite (without amphibole) bearing (PBG) granitoid emplacement in a context of transcurrent deformation. There are many similarities between West African Palaeoproterozoic rocks and Archaean formations and their crustal evolution also may be similar.
A General Iterative Method for Variational Inequality Problems, Mixed Equilibrium Problems, and Fixed Point Problems of Strictly Pseudocontractive Mappings in Hilbert Spaces
Authors: Wangkeeree Rattanaporn , Wangkeeree Rabian 
Published: August 2009

AbstractWe introduce an iterative scheme for finding a common element of the set of fixed points of a "Equation missing"-strictly pseudocontractive mapping, the set of solutions of the variational inequality for an inverse-strongly monotone mapping, and the set of solutions of the mixed equilibrium problem in a real Hilbert space. Under suitable conditions, some strong convergence theorems for approximating a common element of the above three sets are obtained. As applications, at the end of the paper we first apply our results to study the optimization problem and we next utilize our results to study the problem of finding a common element of the set of fixed points of two families of finitely "Equation missing"-strictly pseudocontractive mapping, the set of solutions of the variational inequality, and the set of solutions of the mixed equilibrium problem. The results presented in the paper improve some recent results of Kim and Xu (2005), Yao et al. (2008), Marino et al. (2009), Liu (2009), Plubtieng and Punpaeng (2007), and many others.
On Strong Convergence by the Hybrid Method for Equilibrium and Fixed Point Problems for an Inifnite Family of Asymptotically Nonexpansive Mappings
Authors: Cai Gang , Hu Changsong 
Published: August 2009

AbstractWe introduce two modifications of the Mann iteration, by using the hybrid methods, for equilibrium and fixed point problems for an infinite family of asymptotically nonexpansive mappings in a Hilbert space. Then, we prove that such two sequences converge strongly to a common element of the set of solutions of an equilibrium problem and the set of common fixed points of an infinite family of asymptotically nonexpansive mappings. Our results improve and extend the results announced by many others.
Dynamical Analysis of the Boundary Layer and Surface Wind Responses to Mesoscale SST Perturbations
Authors: O’Neill Larry W. , Esbensen Steven K. , Thum Nicolai , Samelson Roger M. , Chelton Dudley B. 
Published: August 2009

Abstract
The dynamical response of the marine atmospheric boundary layer (MABL) to mesoscale sea surface temperature (SST) perturbations is investigated over the Agulhas Return Current during winter from a 1-month, high-resolution, three-dimensional simulation using the Weather Research and Forecasting (WRF) mesoscale model. A steady lower boundary condition for July 2002 is obtained using SST measurements from the Advanced Microwave Scanning Radiometer on the Earth Observing System (EOS)–Aqua satellite (AMSR-E). The WRF models’ ability to accurately simulate the SST-induced surface wind response is demonstrated from a comparison with satellite surface wind observations from the SeaWinds scatterometer on the Quick Scatterometer (QuikSCAT) satellite. Relevant features of this simulation include a quasi-periodic distribution of mesoscale SST perturbations with spatial scales ∼200 km and strong winds that lead to a large surface sensible heat flux response, whose broad range of 80–100 W m−2 between warm and cool SST perturbations is much larger than seen in most previous simulations of mesoscale wind–SST coupling.
This simulation provides the first realistic example of vertical turbulent redistribution of momentum driven by the SST-induced surface heating perturbations acting in concert with the SST-induced pressure gradients to accelerate near-surface flow toward warm water and decelerate near-surface flow toward cool water. This simulation is also the first example of a near-surface wind speed response to mesoscale SST perturbations that differs qualitatively and substantially from the vertically averaged MABL wind response. In the vertically averaged MABL momentum budget, the surface wind stress acts as a drag on the SST-induced perturbation flow as it is being accelerated by SST-induced pressure gradients. However, only in the middle and upper reaches of the MABL does the turbulent stress divergence act as a drag on the SST-induced winds perturbations in this simulation.
These mesoscale SST perturbations are also shown to modify the wind direction within the MABL. Dynamically, this is accomplished through SST-induced perturbations to the crosswind components of the pressure gradient, turbulent stress divergence, and the Coriolis force.
The Role of Rossby Wave Breaking in Shaping the Equilibrium Atmospheric Circulation Response to North Atlantic Boundary Forcing
Authors: Strong Courtenay , Magnusdottir Gudrun 
Published: August 2009

Abstract
The role of Rossby wave breaking (RWB) is explored in the transient response of an atmospheric general circulation model to boundary forcing by sea ice anomalies related to the North Atlantic Oscillation (NAO). When the NCAR Community Climate Model, version 3, was forced by an exaggerated sea ice extent anomaly corresponding to one arising from a positive NAO, a localized baroclinic response developed and evolved into a larger-scale equivalent barotropic pattern resembling the negative polarity of the NAO. The initial baroclinic response shifted the phase speeds of the dominant eddies away from a critical value equal to the background zonal flow speed, resulting in significant changes in the spatial distribution of RWB. The forcing of the background zonal flow by the changes in RWB accounts for 88% of the temporal pattern of the response and 80% of the spatial pattern of the zonally averaged response. Although results here focus on one experiment, this “RWB critical line mechanism” appears to be relevant to understanding the equilibrium response in a broad class of boundary forcing experiments given increasingly clear connections among the northern annular mode, jet latitude shifts, and RWB.
The Source of the Midwinter Suppression in Storminess over the North Pacific
Authors: Penny Sandra , Roe Gerard H. , Battisti David S. 
Published: August 2009

Abstract
Feature-tracking techniques are employed to investigate why there is a relative minimum in storminess during winter within the Pacific storm track (the midwinter suppression). It is found that the frequency and amplitude of disturbances entering the Pacific storm track from midlatitude Asia are substantially reduced during winter relative to fall and spring and that the magnitude of this reduction is more than sufficient to account for the midwinter supression. Growth rates of individual disturbances are calculated and compared to expectations from linear theory for several regions of interest. Although there are discrepancies between linear expectations and observed growth rates over the Pacific, the growth of disturbances within the Pacific storm track cannot explain why the midwinter suppression exists. Furthermore, it is determined that the development of a wintertime reduction in storminess over midlatitude Asia is consistent with linear expectations, which predict a wintertime minimum in Eady growth rates in this region, mainly because of increased static stability. Several other mechanisms that may contribute to the initiation of the midwinter suppression over midlatitude Asia are discussed, including the interaction between upper-level waves and topography, the behavior of waves upwind of the Tibetan Plateau, and the initiation of lee cyclones.
On the Madden–Julian Oscillation–Atlantic Hurricane Relationship
Authors: Klotzbach Philip J. 
Published: August 2009

Abstract
The large-scale equatorial circulation known as the Madden–Julian oscillation (MJO) has been shown to impact tropical cyclone activity in several basins around the globe. In this paper, the author utilizes an MJO index created by Wheeler and Hendon to examine its impacts on tropical genesis and intensification in the Atlantic. Large differences in frequency and intensity of tropical cyclone activity are seen, both in the tropical Atlantic as well as in the northwest Caribbean and Gulf of Mexico depending on the MJO phase. Coherent changes in upper- and lower-level winds and relative humidity are likely responsible for these differences. Since the MJO shows potential predictability out to about two weeks, the relationships discussed in this paper may be useful for short-term predictions of the probability of tropical cyclone activity in the Atlantic as a complement to the already available longer-term seasonal predictions.
Simulation of Present-Day and Twenty-First-Century Energy Budgets of the Southern Oceans
Authors: Trenberth Kevin E. , Fasullo John T. 
Published: August 2009

Abstract
The energy budget of the modern-day Southern Hemisphere is poorly simulated in both state-of-the-art reanalyses and coupled global climate models. The ocean-dominated Southern Hemisphere has low surface reflectivity and therefore its albedo is particularly sensitive to cloud cover. In modern-day climates, mainly because of systematic deficiencies in cloud and albedo at mid- and high latitudes, too much solar radiation enters the ocean. Along with too little radiation absorbed at lower latitudes because of clouds that are too bright, unrealistically weak poleward transports of energy by both the ocean and atmosphere are generally simulated in the Southern Hemisphere. This implies too little baroclinic eddy development and deficient activity in storm tracks. However, projections into the future by coupled climate models indicate that the Southern Ocean features a robust and unique increase in albedo, related to clouds, in association with an intensification and poleward shift in storm tracks that is not observed at any other latitude. Such an increase in cloud may be untenable in nature, as it is likely precluded by the present-day ubiquitous cloud cover that models fail to capture. There is also a remarkably strong relationship between the projected changes in clouds and the simulated current-day cloud errors. The model equilibrium climate sensitivity is also significantly negatively correlated with the Southern Hemisphere energy errors, and only the more sensitive models are in the range of observations. As a result, questions loom large about how the Southern Hemisphere will actually change as global warming progresses, and a better simulation of the modern-day climate is an essential first step.