bluuebunny/crossref_metadata_2025_split huggingface dataset:
Technique of the Buccal Fat Pad Flap as an Alternative for the Surgical Defect of Pleomorphic Adenoma
Authors: Oliveira Neto Jair Queiroz de , Cetira Filho Edson Luiz , Andrade Gabriel Silva , Silveira Daniel Ximenes da , Carvalho Abrahão Cavalcante Gomes de Souza 
Published: November 2018

Abstract
Pleomorphic adenoma (PA) is the most common benign salivary gland neoplasm, and its malignant transformation rarely occurs. Diagnosis is based on clinical features of local or regional malignancy or distant metastasis, and histological identification of invasion and cellular atypia. Buccal fat pad, also called Bichat fat pad, is an excellent option to create tissue coverage over surgically treated areas, providing great blood supply. Thus, this study aims to report a surgical treatment of a patient who reported to the Oral and Maxillofacial Surgery and Traumatology service of a hospital in the city of Fortaleza, presenting a large lesion in the right side of the palate. Clinical examination revealed a nodular volume increase with smooth surface, sessile insertion, firm to palpation and coloration similar to the mucosa, no pain complaints, and 2 years of evolution. Orthopantomographic examination did not reveal alterations in the adjacent anatomical structures. After clinical and radiographic evaluation, an incisional biopsy was performed and histopathological diagnosis was PA. Patient was submitted to surgery for tumor excision with narrow surgical margins, including oral lining mucosa to reduce recurrence chances. In the same surgical act, after the excision of the lesion, the right buccal fat pad pedicle flap was sutured onto the residual mucosa in order to act as a framework for re-epithelialization of the palatal mucosa, phenomenon of metaplasia, and reduction of patient's morbidity. Surgical piece obtained was sent to anatomopathological study, confirming initial diagnosis. After 12-month follow-up, patient is esthetically and functionally rehabilitated, and satisfied with clinical and surgical plans executed.
Interprofessional Healthcare Student Training in the Care of Sexual Assault Patients Utilizing Standardized Patient Methodology
Authors: Lee Wendy J. , Clark Lou , Wortmann Kathleen , Taylor Laura A. , Pock Arnyce R. 
Published: November 2018

Background
The medical assessment of sexual assault (SA) is challenging because SA patients are often hesitant to disclose their medical needs, which puts them at further physical and psychological risk, and because of provider unease in conducting SA examinations. This challenge is compounded by a lack of provider training.

Objectives
The study goals were to develop an interprofessional simulation event that would foster SA interview skills, foster effective communication with SA patients, and increase learner confidence in assessing SA patients.

Methods
Participants were senior-year school of medicine (n = 165) and advanced practice registered nursing (n = 30) students (N = 195) who were enrolled in a mandatory Military Sexual Assault Assessment and Treatment course, along with data provided by trained standardized patients (SPs, n = 16) who participated in the simulation event and in assessments of learners. Measures included the Sexual Assault Interview Skills Checklist, the Essential Elements of Communication, and the Confidence in SA Assessment scale. Data were analyzed using analysis of variance and t tests at the P < 0.05 threshold.

Results
Postsimulation Sexual Assault Interview Skills Checklist and Essential Elements of Communication scores demonstrated an acceptable level of competence according to both students and SPs. Confidence in SA assessment rose significantly from presimulation to postsimulation. Before simulation, medical students were significantly lower than nursing students, but the simulation event closed the confidence in SA assessment gap.

Conclusions
This interprofessional simulation event resulted in SA interview competence, communication skills competence, and improved confidence scores. Combined, these findings support the efficacy of simulation to train emerging healthcare providers to properly assess SA.
The Use of Statistical Process Control Charts to Evaluate Interprofessional Education Sessions Embedded Into a Pediatric Emergency In situ Resuscitation Program
Authors: Pirie Jonathan , Cardenas Sandra , Seleem Wail , Kljujic Dragan , Schneeweiss Suzan , Glanfield Carrie , Principi Tania 
Published: November 2018

Summary Statement
The rigorous evaluation of simulation in healthcare to improve resuscitations and team functioning can be challenging. Statistical process control (SPC) charts present a unique methodology to enable statistical rigor when evaluating simulation. This article presents a brief overview of SPC charts and its advantages over traditional before and after methodologies, followed by an exemplar using SPC to evaluate an in situ team training program with embedded interprofessional education sessions.
Patient reported distress can aid clinical decision making in idiopathic pulmonary fibrosis: analysis of the PROFILE cohort
Authors: Stewart Iain , McKeever Tricia , Braybrooke Rebecca , Oballa Eunice , Simpson Juliet K , Maher Toby M , Marshall Richard P , Lukey Pauline T , Fahy William A , Jenkins Gisli , Saini Gauri 
Published: November 2018

AbstractIdiopathic pulmonary fibrosis is a progressive and fatal interstitial lung disease. We aimed to determine if patient response to a palliative assessment survey could predict disease progression or death.We undertook a cross-sectional study in a UK clinical cohort of incident cases. Rasch-based methodology provided a disease distress value from an abridged 11 item model of the original 45 item survey. Distress values were compared with measures of lung function. Disease progression or mortality alone was predicted at twelve months from survey completion, with risk of death assessed at three, six and twelve months.Disease distress values were negatively correlated with lung function (r=-0.275 percent predicted DLCO). Expected survey scores computed from distress values could distinguish disease progression, 8.8 (p=0.004), and people who died, 10.2 (p=0.002), from those who did not progress, 6.9. Actual survey scores predicted disease progression and mortality with an area under the curve of 0.60 and 0.64, respectively. Each point increment in actual score increased risk of twelve-month mortality by 10%, almost 43% of people scoring above 18 did not survive beyond 105 days.We define a short questionnaire that can score disease distress and predict prognosis, assisting clinical decision making in progressive fibrosis.
Prenatal exposure to particulate matter (PM2.5) and low birth weight in a Sri Lankan birth cohort
Authors: Tipre Meghan , Wickremesinghe Rajitha , Nandasena Sumal , Kasturiratne Anuradhini , Larson Rodney , Meleth Sreelatha , Wimalasiri Udaya , Lungu Claudiu , Smith Tamika , Sathiakumar Nalini 
Published: November 2018

ABSTRACTBackgroundAbout 74% of the Sri Lankan population use biomass in the form of unprocessed wood as the primary cooking fuel. A growing body of evidence from meta-analyses and individual studies although limited by few prospective studies, report that prenatal exposure to particulate matter of size 2.5 µm (PM2.5) emissions from biomass fuel burning may be associated with low birth weight (LBW) (<2500 grams). We present results examining the association between PM2.5 and LBW in context of a birth cohort study in Sri Lanka.MethodsWe followed 545 pregnant women from their first trimester until delivery and assessed outcomes at birth. Exposure to household air pollution (HAP) from biomass smoke was assessed using detailed questionnaire about fuel type, kitchen characteristics and cooking practices; two-hour measurements of kitchen PM2.5 were collected in a subset of households (n=304, 56%). Data from questionnaires and measured PM2.5 were used to estimate two-hour kitchen PM2.5 concentrations in unmeasured households. Data on covariates related to household characteristics, socio-demographic, maternal health and lifestyle factors were collected from baseline interviews. We performed linear and logistic regression analysis to evaluate the association between HAP exposure, and birth weight and LBW.ResultsOf the total, 78% of the households used wood as primary or secondary fuel (n=425); households using wood had four-fold higher PM2.5 levels compared to those using LPG. In linear regression models, we found an inverse association between a 10-unit increase in PM2.5 and birth weight (β,-0.03; SE, 0.02; p, 0.06) adjusted for covariates. Similarly, categorical HAP exposure (>50% wood use) was significantly associated with birth weight as compared to LPG users (β, −0.13; SE, 0.06; p, 0.0331). In logistic regression models, a 10-unit increase in PM2.5 was associated with increased odds for LBW (OR, 1.26; 95%CI, 1.02-1.55; p, 0.0355), while the prevalence of LBW was highest among >50% wood users (OR, 2.82; 95%CI, 1.18-6.73; p, 0.0124), as compared to those using >50% LPG with wood and only LPG users. The association between HAP exposure and birth weight/LBW were consistent among term births (n=486).ConclusionsThe finding of a significant association between prenatal PM2.5 exposure and LBW in a low-middle income country (LMIC) setting where competing risk factors are minimal fills a gap in the body of evidence linking HAP from biomass smoke to LBW. These results underscore the crucial need to implement prevention and reduction of HAP exposure in LMICs where the HAP burden is high.
Particulate Matter fractions and kitchen characteristics in Sri Lankan households using solid fuel and LPG
Authors: Nandasena Sumal , Wickremasinghe Rajitha , Kasturiratne Anuradhani , Wimalasiri Udaya , Tipre Meghan , Larson Rodney , Levitan Emily , Sathiakumar Nalini 
Published: November 2018

AbstractIntroductionUse of solid fuel for cooking is a major source of household air pollution in developing countries. Of the many pollutants emitted during solid fuel combustion, Particulate Matter (PM)is considered to be one of the most hazardous pollutants. We monitored PM fractions emitted during solid fuel and Liquefied Petroleum Gas(LPG) combustion in kitchens of Sri Lankan households.MethodsHouseholds of children in a longitudinal study in Ragama, Sri Lanka was the study population. At the age of 36 months of children, a sample of households were visited and different aerodynamic diameters of PM (PM1, PM2.5, PM10) were monitored during the main cooking session for 3 hours. Basic characteristics of kitchen (e.g., availability of chimney, functionality of chimney, etc.) were assessed by a questionnaire. Cooking energy, other sources of household air pollution, size of open spaces in the kitchen (e.g., windows), etc. were assessed at the time of PM monitoring.ResultsQuestionnaire was administered for mothers in 426 households. Out of them, 245 (57.5%)and 116 (27.2%) households used LPG and wood as the primary cooking fuel respectively. During the cooking period, PM2.5 concentrations of households uses only wood fuel and cook inside the main housing building were 344.1 μg/m3(Inter Quartile Range(IQR) = 173.2-878.0μg/m3), 88.7 μg/m3(54.8- 179.2 μg/m3); 91.7 μg/m3 (56.0- 184.9 μg/m3) and 115.1 μg/m3(83.4 - 247.9 μg/m3) in kitchen, sleeping room, living room and immediate outdoor respectively. Immediate outdoor PM2.5 concentrations in wood burning households was higher among households not having chimney (n = 8)compare to those having a chimney (n = 8) (245.9μg/m3 (IQR = 72.5 – 641.7μg/m3)) VS. (105.7μg/m3 (83.4– 195.8μg/m3)).Fuel type and stove type, availability of a chimney and their functional status, ratio between open space and total space of kitchen, PM2.5 concentration at the non-cooking time (i.e., baseline PM2.5concentration) were the determinants of PM2.5 in wood using kitchens during cooking period.ConclusionsPM concentrations were higher in kitchen and other microenvironments of the households use wood for cooking as compared to LPG use for cooking. Immediate outdoor PM concentration was higher than the sleeping and living room PM concentrations. Several factors determine the PM2.5concentrationsduring the cooking including the fuel type.
The specificity of ParR binding determines the compatibility of conjugative plasmids inClostridium perfringens
Authors: Watts Thomas D. , Traore Daouda A.K. , Atkinson Sarah C. , Lao Carmen , Caltabiano Natalie , Rood Julian I. , Adams Vicki 
Published: November 2018

ABSTRACTPlasmids that encode the same replication machinery are generally unable to coexist in the same bacterial cell. However,Clostridium perfringensstrains often carry multiple conjugative toxin or antibiotic resistance plasmids that are closely related and encode similar Rep proteins. In many bacteria, plasmid partitioning upon cell division involves a ParMRC system and there are ~10 different ParMRC families inC. perfringens, with differences in amino acid sequences between each ParM family (15% − 54% identity). Since plasmids encoding genes belonging to the same ParMRC family are not observed in the same strain, these families appear to represent the basis for plasmid compatibility inC. perfringens. To understand this process, we examined the key recognition steps between ParR DNA-binding proteins and theirparCbinding sites. The ParR proteins bound to sequences within aparCsite from the same ParMRC family, but could not interact with aparCsite from a different ParMRC family. These data provide evidence that compatibility of the conjugative toxin plasmids ofC. perfringensis mediated by theirparMRC-like partitioning systems. This process provides a selective advantage by enabling the host bacterium to maintain separate plasmids that encode toxins that are specific for different host targets.
Long-distance dispersal, ice sheet dynamics, and mountaintop isolation underlie the genetic structure of glacier ice worms
Authors: Hotaling Scott , Shain Daniel H. , Lang Shirley A. , Bagley Robin K. , Tronstad Lusha M. , Weisrock David W. , Kelley Joanna L. 
Published: November 2018

AbstractDisentangling the contemporary and historical factors underlying the spatial distributions of species is a central goal of biogeography. For species with broad distributions but little capacity to actively disperse, disconnected geographic distributions highlight the potential influence of passive, long-distance dispersal (LDD) on their evolutionary histories. However, dispersal alone cannot completely account for the biogeography of any species, and other factors–e.g., habitat suitability, life history–must also be considered. North American ice worms (Mesenchytraeus solifugus) are ice-obligate annelids that inhabit coastal glaciers from Oregon to Alaska. Previous studies identified a complex biogeographic history for ice worms, with evidence for genetic isolation, unexpectedly close relationships among geographically disjunct lineages, and contemporary migration across large (> 1,500 km) areas of unsuitable habitat. In this study, we analyzed genome-scale sequence data for most of the known ice worm range. We found clear support for divergence between populations along the Pacific Coast and the inland flanks of the Coast Mountains (mean FST= 0.60), likely precipitated by episodic ice sheet expansion and contraction during the Pleistocene. We also found support for LDD of ice worms from Alaska to Vancouver Island, perhaps mediated by migrating birds. Our results highlight the power of genomic data for disentangling complex biogeographic patterns, including the presence of LDD.
Holobiont Evolution: Mathematical Model with Verticalvs.Horizontal Microbiome Transmission
Authors: Roughgarden Joan 
Published: November 2018

AbstractA holobiont is a composite organism consisting of a host together with its microbiome, such as a coral with its zooxanthellae. Hosts and their microbiomes are often intimately integrated in behavior, physiology, anatomy, and development. To explain this integration, some investigators contend that selection operates on holobionts as a unit and view the microbiome’s genes as extending the host’s nuclear genome to jointly comprise a hologenome. Holobiont selection then operates on holobionts with their hologenomes by analogy to how ordinary natural selection operates on individuals with their genes. Other investigators point out that vertical transmission of microbiomes is uncommon. They contend that holobiont selection cannot be effective because a holobiont’s microbiome is an acquired condition rather than an inherited trait. The disagreement between these positions invites a simple mathematical model to see how holobiont selection might operate and to assess its plausibility as an evolutionary force.Here I present two variants of such a model. In one variant, juvenile hosts obtain microbiomes from their parents (vertical transmission). In the other variant, microbiomes of juvenile hosts are assembled from source pools containing the combined microbiomes of all parents (horizontal transmission). According to both variants, holobiont selection indeed causes evolutionary change in holobiont traits. Therefore, holobiont selection is plausibly an effective evolutionary force with either mode of microbiome transmission.Furthermore, the modeling employs two distinct concepts of inheritance, depending on the mode of microbiome transmission: collective inheritance whereby juveniles inherit a sample of the collected genomes from all parents as contrasted with lineal inheritance whereby juveniles inherit the genomes from only their own parents. Collective inheritance may also apply to the evolution of soil and other microbes that feature large amounts of horizontal gene transfer and may underlie cultural evolution wherein each generation inherits a sample from the collected knowledge of the preceding generation. A distinction between collective and lineal inheritance also features in theories of multilevel selection.
Dynamic-parameter movement models reveal drivers of migratory pace in a soaring bird
Authors: Eisaguirre Joseph M. , Auger-Méthé Marie , Barger Christopher P. , Lewis Stephen B. , Booms Travis L. , Breed Greg A. 
Published: November 2018

AstractLong distance migration can increase lifetime fitness, but can be costly, incurring increased energetic expenses and higher mortality risks. Stopover and other en route behaviors allow animals to rest and replenish energy stores and avoid or mitigate other hazards during migration. Some animals, such as soaring birds, can subsidize the energetic costs of migration by extracting energy from flowing air. However, it is unclear how these energy sources affect or interact with behavioral processes and stopover in long-distance soaring migrants. To understand these behaviors and the effects of processes that might enhance use of flight subsidies, we developed a flexible mechanistic model to predict how flight subsidies drive migrant behavior and movement processes. The novel modelling framework incorporated time-varying parameters informed by environmental covariates to characterize a continuous range of behaviors during migration. This model framework was fit to GPS satellite telemetry data collected from a large soaring and opportunist foraging bird, the golden eagle (Aquila chrysaetos), during migration in western North America. Fitted dynamic model parameters revealed a clear circadian rhythm in eagle movement and behavior, which was directly related to thermal uplift. Behavioral budgets were complex, however, with evidence for a joint migrating/foraging behavior, resembling a slower paced fly-and-forage migration, which could facilitate efficient refueling while still ensuring migration progress. In previous work, ecological and foraging conditions are normally considered to be the key aspects of stopover location quality, but taxa that can tap energy sources from moving fluids to drive migratory locomotion, such as the golden eagle, may pace migration based on both foraging opportunities and available flight subsidies.
Structural basis of hypoxic gene regulation by the Rv0081 transcription factor ofMycobacterium tuberculosis
Authors: Kumar Ashwani , Phulera Swastik , Rizvi Arshad , Sonawane Parshuram , Panwar Hemendra Singh , Banerjee Sharmistha , Sahu Arvind , Mande Shekhar C. 
Published: November 2018

ABSTRACTThe transcription factor Rv0081 ofM. tuberculosiscontrols the hypoxic gene expression and acts as a regulatory hub in the latent phase of tuberculosis infection. We report here the crystal structure of Rv0081 at 3.3 Å resolution revealing that it belongs to the well-known ArsR/SmtB family proteins. ArsR/SmtB family transcriptional repressors exert gene regulation by reversible metal binding. Hypoxia in general is sensed by bacterial transcriptional regulators via metals or Cys-mediated thiol switches. Oxygen sensing typically leads to transcriptional repressor changing its conformational state with altered DNA-binding property under different oxygen levels. Surprisingly Rv0081 neither has a metal binding domain nor does it possess Cys residues suggesting an alternate mechanism of gene regulation. Our structural analysis identified Ser 48, Ser 49, Ser 52 and Gln 53 as potential residues of Rv0081 involved in DNA binding. We probed DNA-binding of Rv0081 with electrophoretic mobility shift assay (EMSA) as well as surface plasmon resonance (SPR), where the Alanine mutants of these residues showed diminished DNA binding. Similarly, Aspartate mutants of these Ser residues was shown to fail to bind to DNA. Since, phosphorylation of various regulatory proteins is one of the important controlling mechanisms, we expected the role of Ser-phosphorylation of Rv0081 in hypoxic condition. Probing Rv0081 with anti-phosphoserine antibodies inM. tuberculosiscell lysate showed marked enhancement in the phosphorylation of Rv0081 protein under hypoxia. Overall, our structural and biochemical analysis provides the molecular basis for the regulation of Rv0081 in the latent phase of tuberculosis infection.IMPORTANCETuberculosis is one of the deadliest infectious diseases caused by the bacteriumMycobacterium tuberculosis. In about 90% of the infected people,M. tuberculosisexists in a dormant or a latent stage which can be reactivated in favorable conditions. Hypoxia (low oxygen pressure) is one of causes of dormancy. Understanding hypoxic gene regulation inM. tuberculosisis therefore an important step to understand latency. Rv0081 is a transcriptional regulator of genes expressed during hypoxia. In order to understand the mechanism by which Rv00081 regulates gene expression during hypoxia, we have solved the crystal structure of Rv0081 and identified amino acid residues which are critical in its transcriptional regulator activity. The crystal structure is suggestive of mechanism of gene regulation under hypoxia.