bluuebunny/crossref_metadata_2025_split huggingface dataset:
Geomorphic Responses to Interim Hydrology Following Phase I of the Kissimmee River Restoration Project, Florida
Authors: Anderson David H. 
Published: May 2014

AbstractChannelization of the Kissimmee River eliminated flow through the river channel, which allowed the formation of a largely organic deposition layer (ODL) on the river channel bed and stopped active sand transport needed to maintain point bars on meander bends. In 2001, completion of the first phase of dechannelization for the Kissimmee River Restoration Project (KRRP) reestablished flow to the river channel in the Phase I area. This study evaluated changes in the ODL and the number of meander bends with active point bar development (MBPB) following Phase I of dechannelization. Evaluations involved comparing interim measurements made after flow was reestablished to the river channel in the Phase I area but before full completion of KRRP with (a) baseline measurements made before dechannelization and (b) predicted changes based on reference measurements representing the pre‐channelization system. ODL thickness was measured in core samples on fixed transects perpendicular to the river channel. The ODL was thinner during the Interim Period than the Baseline Period and this decrease exceeded the expected change predicted from the reference condition. MBPB was assessed with aerial photography. MBPB increased from the baseline measurement of 0 bends to interim measurements of 27 bends in 2002 and 72 bends in 2009, approximating the increase predicted from the reference condition. The decrease in ODL thickness and the increase in MBPB to levels that meet or approximate the reference condition indicate that these aspects of the river channel are recovering following reestablishment of flow.
Streptococcus mutans Wall‐Associated Protein A Promotes TLR4‐Induced Dendritic Cell Maturation
Authors: Li H. , Wang D. 
Published: May 2014

AbstractDendritic cells orchestrate innate and adaptive immune responses, which are central to establishing efficient responses to vaccination. Wall‐associated protein A (WapA) of Streptococcus mutans was previously used as a vaccine in animal studies for immunization against dental caries. However, as a cell surface protein, whether WapA activates innate immune responses and the effects of WapA on DCs remain unclear. In this study, WapA was cloned into the GST fusion vector pEBG, which can be expressed efficiently in mammalian cells. We found that when added before stimulation with LPS, purified WapA‐GST protein increased TLR4‐induced NF‐κB and MAPK signalling pathway activation. Pretreatment with WapA‐GST also increased LPS‐induced proinflammatory cytokine production by DCs, including IL‐12, IL‐6 and TNF‐α. Furthermore, expression of the DC maturation markers CD80/86, CD40 and MHC II was also increased by WapA pretreatment. These data indicate that WapA is recognized by DCs and promotes DC maturation.
Red blood cell transfusion practices in two surgical intensive care units: a mixed methods assessment of barriers to evidence‐based practice
Authors: Murphy David J. , Pronovost Peter J. , Lehmann Christoph U. , Gurses Ayse P. , Whitman Glenn J.R. , Needham Dale M. , Berenholtz Sean M. 
Published: May 2014

BackgroundDespite evidence supporting restrictive red blood cell (RBC) transfusion thresholds and the associated clinical practice guidelines, clinical practice has been slow to change in the intensive care unit (ICU). Our aim was to identify barriers to conservative transfusion practice adherence.Study Design and MethodsA mixed‐methods study involving observation of prescriber (i.e., physicians, physician assistants, nurse practitioners) and bedside nurse daily bedside rounds, provider survey, and medical record abstraction was conducted in one cardiac surgical ICU (CSICU) and one surgical ICU (SICU) in an academic hospital in Baltimore, Maryland.ResultsOf 52 patient encounters observed during bedside rounds, 38 (73%) involved patients without evidence of active bleeding or cardiac ischemia. Surveys were completed by 52 (93%) of the 56 providers participating in rounds. Prescribers in the CSICU and SICU (87 and 90%, respectively) indicated the ideal pretransfusion hemoglobin (Hb) to be not more than 7 g/dL in nonbleeding and/or nonischemic patients compared to a minority of nurses (8% [p = 0.002] and 42% [p = 0.015], respectively). Prescribers and nurses in both ICUs overestimated the typical pretransfusion Hb in their units (CSICU, p < 0.001; SICU, p = 0.019). During rounds, providers infrequently explicitly discussed Hb monitoring or transfusion thresholds (33%) despite most (60%) reporting significant variation in transfusion thresholds between individual prescribers.ConclusionsOur study identified several provider and system barriers to evidence‐based transfusion practices including knowledge differences, overly optimistic estimates of current practice, and heterogeneous transfusion practice in each ICU. Further work is necessary to develop targeted interventions to improve evidence‐based RBC transfusion practices.
ANIMAL SUFFERING, EVOLUTION, AND THE ORIGINS OF EVIL: TOWARD A “FREE CREATURES” DEFENSE
Authors: Moritz Joshua M. 
Published: May 2014

AbstractDoes an affirmation of theistic evolution make the task of theodicy impossible? In this article, I will review a number of ancient and contemporary responses to the problem of evil as it concerns animal suffering and suggest a possible way forward which employs the ancient Jewish insight that evil—as resistance to God's will that results in suffering and alienation from God's purposes—precedes the arrival of human beings and already has a firm foothold in the nonhuman animal world long before humans are ever tempted to go astray. This theological intuition is conferred renewed relevance in light of the empirical reality of evolutionary gradualism and continuity and in view of the recent findings of cognitive ethology. Consequently, I suggest that taking biological evolution seriously entails understanding “moral evil” as a prehuman phenomenon that emerges gradually through the actions and intentions of “free creatures” which—as evolutionary history unfolded—increasingly possessed greater levels of freedom and degrees of moral culpability.
THE EMERGENCE OF CONSCIOUSNESS IN GENESIS 1–3: JUNG'S DEPTH PSYCHOLOGY AND THEOLOGICAL ANTHROPOLOGY
Authors: Stewart David James 
Published: May 2014

AbstractThe development of a robust, holistic theological anthropology will require that theology and biblical studies alike enter into genuine interdisciplinary conversations. Depth psychology in particular has the capacity to be an exceedingly fruitful conversation partner for theology because of its commitment to the totality of the human experience (both the conscious and unconscious aspects) as well as its unique ability to interpret archetypal symbols and mythological thinking. By arguing for a psycho‐theological hermeneutic that accounts for depth psychology's conviction that myths about the origin of the world are always simultaneously myths about the origin and emergence of human consciousness, I demonstrate that the presence of numerous Jungian archetypes in Genesis 1–3 suggests that the narrative can be read from a psychological perspective without diminishing or marginalizing the dominant theological themes of exile and return. Furthermore, such a reading fundamentally suggests that the narrative is not about how sin entered into creation, but rather how consciousness emerged in human community.
A SYSTEMS MODEL OF SPIRITUALITY
Authors: Rousseau David 
Published: May 2014

AbstractWithin the scientific study of spirituality there are substantial ambiguities and uncertainties about relevant concepts, terms, evidences, methods, and relationships. Different disciplinary approaches reveal or emphasize different aspects of spirituality, such as outcomes, behaviors, skills, ambitions, and beliefs. I argue that these aspects interdepend in a way that constitutes a “systems model of spirituality.” This model enables a more holistic understanding of the nature of spirituality, and suggests a new definition that disambiguates spirituality from related concepts such as religion, cultural sophistication, and prosocial behavior in animals. It also exposes important open questions about the nature of spirituality. To support the emerging scientific approach to the study of spirituality, I propose the development of a “philosophy of spirituality” that can clarify the conceptual terrain, identify important research directions, and facilitate a comprehensive and interdisciplinary investigation into the nature, validity, and implications of spirituality's conceptual and practical entailments.
MIRACLES AND TWO ACCOUNTS OF SCIENTIFIC LAWS
Authors: Horst Steven 
Published: May 2014

AbstractSince early modernity, it has often been assumed that miracles are incompatible with the existence of the natural laws utilized in the sciences. This paper argues that this assumption is largely an artifact of empiricist accounts of laws that should be rejected for reasons internal to philosophy of science, and that no such incompatibility arises on the most important alternative interpretations, which treat laws as expressions of forces, dispositions, or causal powers.
THE MYSTICAL STANCE: THE EXPERIENCE OF SELF‐LOSS AND DANIEL DENNETT'S “CENTER OF NARRATIVE GRAVITY”
Authors: Simpson William 
Published: May 2014

AbstractFor centuries, mystically inclined practitioners from various religious traditions have articulated anomalous and mystical experiences. One common aspect of these experiences is the feeling of the loss of the sense of self, referred to as “self‐loss.” The occurrence of “self‐loss” can be understood as the feeling of losing the subject/object distinction in one's phenomenal experience. In this article, the author attempts to incorporate these anomalous experiences into modern understandings of the mind and “self” from philosophy and psychology. Accounts of self‐loss from religious literature along with similar accounts from recent nonreligious writers, suggest that self‐loss accounts are potentially legitimate descriptions and not simply the result of religious apologetics. Specifically, I examine self‐loss through the lens of philosopher Daniel Dennett's theory of “self as the center of narrative gravity.” I argue that Dennett's understanding of the self, if correct, allows for the relegitimation of self‐loss experiences rooted in current views from the psychological literature, rather than rooted in metaphysical religious claims.
ASTROTHEOLOGY: A CONSTRUCTIVE PROPOSAL
Authors: Peters Ted 
Published: May 2014

AbstractAs we envision constructive undertakings in the field of religion and science for the next decade, the emerging agenda of astrotheology is opening up a new theater for enquiry. Astrotheology provides a critical theological response to the field of astrobiology while critically assessing exciting new research on life in our solar system and the discovery of exoplanets. This article proposes four tasks for the astrotheologian: deliberate on (1) the scope of creation: is God's creation Earth‐centric or does it include the entire cosmos? (2) the question whether a single divine incarnation on Earth suffices for the cosmos or whether multiple incarnations—one for each inhabited planet—is required; (3) whether astrobiologists and other space scientists are sticking to their science or smuggling in ideology; and (4) readying terrestrial life for contact with extraterrestrial life by enumerating issues to be taken up by astroethics.
REPRODUCTIVE TECHNOLOGY: A CRITICAL ANALYSIS OF THEOLOGICAL RESPONSES IN CHRISTIANITY AND ISLAM
Authors: Ishak Mohd. Shuhaimi Bin , Haneef Sayed Sikandar Shah 
Published: May 2014

AbstractReproductive medical technology has revolutionized the natural order of human procreation. Accordingly, some have celebrated its advent as a new and liberating determinant of kinship at the global level and advocate it as a right to reproductive health while others have frowned upon it as a vehicle for “guiltless exchange of sexual fluid” and commodification of human gametes. Religious voices from both Christianity and Islam range from unthinking adoption to restrictive use. While utilizing this technology to enable the married couple to have children through the use of their own sexual material is welcome, the use of third party, surrogacy, and reproductive cloning are not in keeping with the sacrosanct principles of kinship, procreation through licit sexual intercourse, and social cohesiveness for building a cohesive family as uphold by both Christianity and Islam. To examine such larger issues emanating from these new ways of human procreation, beyond the question of legality, is a point which legal scholars in both Christianity and Islam, when issuing religious decrees, have not anticipated sufficiently. The article proposes to be an attempt to that end through a qualitative critical content analysis of selected literature written on the subject.
Bioluminescence Resonance Energy Transfer System for Measuring Dynamic Protein-Protein Interactions in Bacteria
Authors: Cui Boyu , Wang Yao , Song Yunhong , Wang Tietao , Li Changfu , Wei Yahong , Luo Zhao-Qing , Shen Xihui 
Published: May 2014

ABSTRACT
Protein-protein interactions are important for virtually every biological process, and a number of elegant approaches have been designed to detect and evaluate such interactions. However, few of these methods allow the detection of dynamic and real-time protein-protein interactions in bacteria. Here we describe a bioluminescence resonance energy transfer (BRET) system based on the bacterial luciferase LuxAB. We found that enhanced yellow fluorescent protein (eYFP) accepts the emission from LuxAB and emits yellow fluorescence. Importantly, BRET occurred when LuxAB and eYFP were fused, respectively, to the interacting protein pair FlgM and FliA. Furthermore, we observed sirolimus (i.e., rapamycin)-inducible interactions between FRB and FKBP12 and a dose-dependent abolishment of such interactions by FK506, the ligand of FKBP12. Using this system, we showed that osmotic stress or low pH efficiently induced multimerization of the regulatory protein OmpR and that the multimerization induced by low pH can be reversed by a neutralizing agent, further indicating the usefulness of this system in the measurement of dynamic interactions. This method can be adapted to analyze dynamic protein-protein interactions and the importance of such interactions in bacterial processes such as development and pathogenicity.

IMPORTANCE
Real-time measurement of protein-protein interactions in prokaryotes is highly desirable for determining the roles of protein complex in the development or virulence of bacteria, but methods that allow such measurement are not available. Here we describe the development of a bioluminescence resonance energy transfer (BRET) technology that meets this need. The use of endogenous excitation light in this strategy circumvents the requirement for the sophisticated instrument demanded by standard fluorescence resonance energy transfer (FRET). Furthermore, because the LuxAB substrate decanal is membrane permeable, the assay can be performed without lysing the bacterial cells, thus allowing the detection of protein-protein interactions in live bacterial cells. This BRET system added another useful tool to address important questions in microbiological studies.
Pathogenic Influenza Viruses and Coronaviruses Utilize Similar and Contrasting Approaches To Control Interferon-Stimulated Gene Responses
Authors: Menachery Vineet D. , Eisfeld Amie J. , Schäfer Alexandra , Josset Laurence , Sims Amy C. , Proll Sean , Fan Shufang , Li Chengjun , Neumann Gabriele , Tilton Susan C. , Chang Jean , Gralinski Lisa E. , Long Casey , Green Richard , Williams Christopher M. , Weiss Jeffrey , Matzke Melissa M. , Webb-Robertson Bobbie-Jo , Schepmoes Athena A. , Shukla Anil K. , Metz Thomas O. , Smith Richard D. , Waters Katrina M. , Katze Michael G. , Kawaoka Yoshihiro , Baric Ralph S. 
Published: May 2014

ABSTRACT
The broad range and diversity of interferon-stimulated genes (ISGs) function to induce an antiviral state within the host, impeding viral pathogenesis. While successful respiratory viruses overcome individual ISG effectors, analysis of the global ISG response and subsequent viral antagonism has yet to be examined. Employing models of the human airway, transcriptomics and proteomics datasets were used to compare ISG response patterns following highly pathogenic H5N1 avian influenza (HPAI) A virus, 2009 pandemic H1N1, severe acute respiratory syndrome coronavirus (SARS-CoV), and Middle East respiratory syndrome CoV (MERS-CoV) infection. The results illustrated distinct approaches utilized by each virus to antagonize the global ISG response. In addition, the data revealed that highly virulent HPAI virus and MERS-CoV induce repressive histone modifications, which downregulate expression of ISG subsets. Notably, influenza A virus NS1 appears to play a central role in this histone-mediated downregulation in highly pathogenic influenza strains. Together, the work demonstrates the existence of unique and common viral strategies for controlling the global ISG response and provides a novel avenue for viral antagonism via altered histone modifications.

IMPORTANCE
This work combines systems biology and experimental validation to identify and confirm strategies used by viruses to control the immune response. Using a novel screening approach, specific comparison between highly pathogenic influenza viruses and coronaviruses revealed similarities and differences in strategies to control the interferon and innate immune response. These findings were subsequently confirmed and explored, revealing both a common pathway of antagonism via type I interferon (IFN) delay as well as a novel avenue for control by altered histone modification. Together, the data highlight how comparative systems biology analysis can be combined with experimental validation to derive novel insights into viral pathogenesis.
Teaching general practitioners and doctors-in-training to discuss advance care planning: evaluation of a brief multimodality education programme
Authors: Detering Karen , Silvester William , Corke Charlie , Milnes Sharyn , Fullam Rachael , Lewis Virginia , Renton Jodie 
Published: May 2014

ObjectiveTo develop and evaluate an interactive advance care planning (ACP) educational programme for general practitioners and doctors-in-training.DesignDevelopment of training materials was overseen by a committee; informed by literature and previous teaching experience. The evaluation assessed participant confidence, knowledge and attitude toward ACP before and after training.SettingTraining provided to metropolitan and rural settings in Victoria, Australia.Participants148 doctors participated in training. The majority were aged at least 40 years with more than 10 years work experience; 63% had not trained in Australia.InterventionThe programme included prereading, a DVD, interactive patient e-simulation workshop and a training manual. All educational materials followed an evidence-based stepwise approach to ACP: Introducing the topic, exploring concepts, introducing solutions and summarising the conversation.Main outcome measuresThe primary outcome was the change in doctors’ self-reported confidence to undertake ACP conversations. Secondary measures included pretest/post-test scores in patient ACP e-simulation, change in ACP knowledge and attitude, and satisfaction with programme materials.Results69 participants completed the preworkshop and postworkshop evaluation. Following education, there was a significant change in self-reported confidence in six of eight items (p=0.008 –0.08). There was a significant improvement (p<0.001) in median scores on the e-simulation (pre 7/80, post 60/80). There were no significant differences observed in ACP knowledge following training, and most participants were supportive of patient autonomy and ACP pretraining. Educational materials were rated highly.ConclusionsA short multimodal interactive education programme improves doctors’ confidence with ACP and performance on an ACP patient e-simulation.
Does palliative care education matter to medical students? The experience of attending an undergraduate course in palliative care
Authors: Centeno Carlos , Ballesteros Montse , Carrasco José Miguel , Arantzamendi María 
Published: May 2014

BackgroundPalliative care (PC) education has become a priority in many European countries where PC is quickly developing. There remains, however, a lack of information on acceptability and medical students’ experiences in PC education. This kind of information is important because it could encourage universities to adapt their curricula appropriately to the demographic and societal necessity.ObjectiveTo explore medical students’ reactions to an optional PC course using their reflective written comments.Methods316 medical students at the University of Navarra, over a period of 4 years, wrote evaluative comments regarding their experience and what they perceived as the course's contribution to their education. With these comments, a qualitative thematic analysis was carried out.ResultsWith a response ratio of 90%, five main themes were identified: (1) The course helped medical students to become and act as doctors, (2) The benefits of having a holistic view of the patient and taking the family into account, (3) PC opens up a new a field of knowledge, (4) The course makes students think and reflect on their personal development and encourages them to deepen humanistic aspects of their practice, (5) The practical aspect is essential in PC learning. In addition, significantly, students used vigorous and positive expressions when writing about their experiences.DiscussionThe subject of PC turns out to be very important to students, who almost unanimously evaluated their experience positively and highlighted the benefits of attending a PC course. Students especially reported being surprised by the humane and holistic features of the course, and they found that what they learned in the course is applicable to all patients and prepares them to work better as doctors. Participants recommend the course for all undergraduate students as a core component of the curricula.
Computational Algorithm-Driven Evaluation of Monocytic Myeloid-Derived Suppressor Cell Frequency for Prediction of Clinical Outcomes
Authors: Kitano Shigehisa , Postow Michael A. , Ziegler Carly G.K. , Kuk Deborah , Panageas Katherine S. , Cortez Czrina , Rasalan Teresa , Adamow Mathew , Yuan Jianda , Wong Philip , Altan-Bonnet Gregoire , Wolchok Jedd D. , Lesokhin Alexander M. 
Published: May 2014

Abstract
Evaluation of myeloid-derived suppressor cells (MDSC), a cell type implicated in T-cell suppression, may inform immune status. However, a uniform methodology is necessary for prospective testing as a biomarker. We report the use of a computational algorithm-driven analysis of whole blood and cryopreserved samples for monocytic MDSC (m-MDSC) quantity that removes variables related to blood processing and user definitions. Applying these methods to samples from patients with melanoma identifies differing frequency distribution of m-MDSC relative to that in healthy donors. Patients with a pretreatment m-MDSC frequency outside a preliminary definition of healthy donor range (&lt;14.9%) were significantly more likely to achieve prolonged overall survival following treatment with ipilimumab, an antibody that promotes T-cell activation and proliferation. m-MDSC frequencies were inversely correlated with peripheral CD8+ T-cell expansion following ipilimumab. Algorithm-driven analysis may enable not only development of a novel pretreatment biomarker for ipilimumab therapy, but also prospective validation of peripheral blood m-MDSCs as a biomarker in multiple disease settings. Cancer Immunol Res; 2(8); 812–21. ©2014 AACR.