bluuebunny/crossref_metadata_2025_split huggingface dataset:
Hedonic tone is associated with left supero-lateral medial forebrain bundle microstructure
Authors: Bracht T. , Doidge A. N. , Keedwell P. A. , Jones D. K. 
Published: August 2014

Background.The medial forebrain bundle (MFB) is an important pathway of the reward system. Two branches have been described using diffusion magnetic resonance imaging (MRI)-based tractography: the infero-medial MFB (imMFB) and the supero-lateral MFB (slMFB). Previous studies point to white-matter microstructural alterations of the slMFB in major depressive disorder (MDD) during acute episodes. To extend this finding, this study investigates whether white-matter microstructure is also altered in MDD patients that are in remission. Further, we explore associations between diffusion MRI-based metrics of white-matter microstructure of imMFB, slMFB and hedonic tone, the ability to derive pleasure.Method.Eighteen remitted depressed (RD) and 22 never depressed (ND) participants underwent high angular resolution diffusion-weighted imaging (HARDI) scans. To reconstruct the two pathways of the MFB (imMFB and slMFB) we used the damped Richardson–Lucy (dRL) algorithm. Mean fractional anisotropy (FA) was sampled along the tracts.Results.Mean FA of imMFB, slMFB and a comparison tract (the middle cerebellar peduncle) did not differ between ND and RD participants. Hedonic capacity correlated negatively with mean FA of the left slMFB, explaining 21% of the variance.Conclusions.Diffusion MRI-based metrics of white-matter microstructure of the MFB in RD do not differ from ND. Hedonic capacity is associated with altered white-matter microstructure of the slMFB.
From Housewives to Independent Earners: How the Tax System Can Help Women to Work in a Context of Strong Familialism
Authors: FIGARI FRANCESCO 
Published: August 2014

AbstractThe Southern European countries share a similar welfare system which does not perform well either in terms of equity or efficiency. Using EUROMOD, the EU-wide microsimulation model, this paper evaluates the enhancement of both the redistributive and the incentive effects of the Italian tax-benefit system by introducing either a family-based or an individual in-work benefit, financed through the abolition of the existing tax credit targeted at dependent adults. The results show an increase in the labour supply of women both in couples and lone mothers, in particular among the poorest, with important redistributive effects. The in-work benefits can contribute to the de-familialisation of the Mediterranean welfare states by reducing the reliance on the family and compensating the cost of services.
The sources of granitic melt in Deep Hot Zones
Authors: Annen Catherine , Blundy Jonathan D. , Sparks R. Stephen J. 
Published: August 2014

AbstractA Deep Hot Zone develops when numerous mafic sills are repeatedly injected at Moho depth or are scattered in the lower crust. The melt generation is numerically modelled for mafic sill emplacement geometries by overaccretion, underaccretion or random emplacement, and for intrusion rates of 2, 5 and 10mm/yr. After an incubation period, melts are generated by incomplete crystallisation of the mafic magma and by partial melting of the crust. The first melts generated are residual from the mafic magmas that have low solidi due to concentration of H20 in the residual liquids. Once the solidus of the crust is reached, the ratio of crustal partial melt to residual melt increases to a maximum. If wet mafic magma, typical of arc environments, is injected in an amphibolitic crust, the residual melt is dominant over the partial melt, which implies that the generation of I-type granites is dominated by the crystallisation of mafic magma originated from the mantle and not by the partial melting of earlier underplated material. High ratios of crustal partial melt over residual melt are reached when sills are scattered in a metasedimentary crust, allowing the generation of S-type granites. The partial melting of a refractory granulitic crust intruded by dry, high-T mafic magma is limited and subordinate to the production of larger amount of residual melt in the mafic sills. Thus the generation of A-type granites by partial melting of a refractory crust would require a mechanism of selective extraction of the A-type melt.
The chemical character of the Late Caledonian Donegal Granites, Ireland, with comments on their genesis
Authors: Ghani Azman A. , Atherton Michael P. 
Published: August 2014

ABSTRACTThe Late Caledonian granites of Donegal are all intruded into metasediments of the Dalradian Supergroup of Neoproterozoic age, which were metamorphosed and deformed during the Grampian Phase of the Caledonian orogeny at c. 470–460 m.y. They were intruded in a singular pulse well after the main tectonic event, apparently peaking at 407–402 m.y.; importantly after the strong collision of Laurentia with Baltica on closure of the Iapetus Ocean. The plutons are mainly made up of granodiorite and granite, and are all 'I' type, but different to Cordilleran ‘I’ types of the eastern Pacific margin. Major element chemistry indicates they are high-K calc-alkaline rocks with a large range in SiO2 content. However three of the plutons (Fanad, Thorr, Ardara), have very high Ba and Sr contents, even higher than Mainland Scotland counterparts; they are high Ba–Sr plutons. Three plutons (Barnesmore, Rosses, Trawenagh Bay) are evolved and are low-Ba–Sr types, while one (Main Donegal) has atypical, intermediate characteristics. The origin of the magmas is still much debated; here we suggest slab breakoffon Iapetus Ocean closure accounts for the special compositions of these magmas and the other major features of Late Caledonian granitic magmatism, including the singular intrusion peak and the associated appinite–lamprophyre suite.
Delirium screening anchored in child development: The Cornell Assessment for Pediatric Delirium
Authors: Silver Gabrielle , Kearney Julia , Traube Chani , Hertzig Margaret 
Published: August 2014

AbstractObjective:The recently validated Cornell Assessment for Pediatric Delirium (CAPD) is a new rapid bedside nursing screen for delirium in hospitalized children of all ages. The present manuscript provides a “developmental anchor points” reference chart, which helps ground clinicians' assessment of CAPD symptom domains in a developmental understanding of the presentation of delirium.Method:During the development of this CAPD screening tool, it became clear that clinicians need specific guidance and training to help them draw on their expertise in child development and pediatrics to improve the interpretative reliability of the tool and its accuracy in diagnosing delirium. The developmental anchor points chart was formulated and reviewed by a multidisciplinary panel of experts to evaluate content validity and include consideration of sick behaviors within a hospital setting.Results:The CAPD developmental anchor points for the key ages of newborn, 4 weeks, 6 weeks, 8 weeks, 28 weeks, 1 year, and 2 years served as the basis for training bedside nurses in scoring the CAPD for the validation trial and as a multifaceted bedside reference chart to be implemented within a clinical setting. In the current paper, we discuss the lessons learned during implementation, with particular emphasis on the importance of collaboration with the bedside nurse, the challenges of establishing a developmental baseline, and further questions about delirium diagnosis in children.Significance of Results:The CAPD with developmental anchor points provides a validated, structured, and developmentally informed approach to screening and assessment of delirium in children. With minimal training on the use of the tool, bedside nurses and other pediatric practitioners can reliably identify children at risk for delirium.
Search for Vigna species conferring resistance to Mungbean yellow mosaic virus in mungbean
Authors: Sudha M. , Karthikeyan A. , Shobhana V. G. , Nagarajan P. , Raveendran M. , Senthil N. , Pandiyan M. , Angappan K. , Balasubramanian P. , Rabindran R. , Bharathi M. 
Published: August 2014

Mungbean yellow mosaic virus (MYMV) is a disastrous pathogen of mungbean. It is widespread in most of southern India and no complete resistance has been identified among its commercial cultivars. Two isolates of MYMV, representing its diversity, were used to assess and characterize the susceptibility reaction of all the three species of Vigna. The seeds were agroinoculated with the virus and the presence of the viral DNA was confirmed after 12 d by reverse transcriptase-polymerase chain reaction (RT-PCR) analysis after which the plants were monitored for the expression of symptoms. All of the 20 accessions of Vigna radiata and ten accessions of Vigna mungo were systemically infected with MYMV, and they all produced typical symptoms. On the other hand, the 24 accessions of Vigna umbellata were found to be resistant to both the isolates. For additional affirmation, three representative accessions of V. radiata and V. mungo and all the accessions of V. umbellata were agroinoculated, and quantitative RT-PCR was performed for the quantitative detection of the MYMV. The mRNA transcripts of MYMV were detected in V. radiata and V. mungo plants but not in the V. umbellata plants. Researching the molecular basis of the resistance in V. umbellate against MYMV might definitely be very constructive for developing resistant varieties of mungbean on a commercial scale. This genetic quality offering resistance to MYMV could also be incorporated into V. radiata/V. mungo by means of interspecific crosses.
Exploring the Concepts of Abstinence and Recovery through the Experiences of Long-Term Opiate Substitution Clients
Authors: Notley Caitlin , Blyth Annie , Maskrey Vivienne , Pinto Hayley , Holland Richard 
Published: August 2014

Background This study aimed to explore the client experience of long-term opiate substitution treatment (OST). Methods A qualitative grounded theory study set in a UK rural community drug treatment service. Results Continuous OST enabled stability and a sense of “normality.” Participants expressed relief at moving away from previous chaotic lifestyles and freedom from the persistent fear of opiate withdrawal. However, for some, being on a script made them feel withdrawn, lethargic, and unable to fully participate in mainstream society. Intrapersonal barriers (motivation and fear) were perceived as key barriers to abstinence. Conclusions Participants experienced long-term OST as a transition between illicit drug use and recovery. Recovery was seen as a process rather than a fixed goal, confirming that there is a need for services to negotiate individualized recovery goals, spanning harm minimization and abstinence-oriented treatment approaches.
Measuring Behaviors of Individual Adolescents during Group-Based Substance Abuse Intervention
Authors: Stein L. A. R. , Clair Mary , Martin Rosemarie A. , Soenksen Shayna , Lebeau Rebecca , Rohsenow Damaris J. , Kahler Christopher W. , Hurlbut Warren , Monti Peter M. 
Published: August 2014

Background Group treatment is delivered in youth correctional facilities, yet groups may be iatrogenic. Few measures with demonstrated psychometric properties exist to track behaviors of individuals during groups. The authors assessed psychometrics for the Group Process—Individual Level measure (GP-IL) of group treatment. Methods N = 152 teens were randomized to 1 of 2 groups (10 sessions each). Adolescents, counselors, and observers rated teen behaviors at sessions 3 and 10. GP-IL assesses reinforcement for deviancy and positive behaviors, member rejection, and counselor connection and praise. Results Internal consistency and 1-month stability were demonstrated. Concurrent validity is supported by correlations with measures expected to be associated with group behavior (e.g., coping skills). Counselors and observers rated more deviancy during interactive skills-building groups versus didactic psychoeducational groups ( P ≤ .005). Scales evidenced incremental validity. Conclusions GP-IL offers a sound method of tracking adolescent behaviors for professionals working with groups. Counselors ratings were most reliable and valid overall.
Facilitators and Barriers to Implementing Screening, Brief Intervention, and Referral to Treatment (SBIRT) in Primary Care in Integrated Health Care Settings
Authors: Rahm Alanna Kulchak , Boggs Jennifer M. , Martin Carmen , Price David W. , Beck Arne , Backer Thomas E. , Dearing James W. 
Published: August 2014

Background Substance abuse in the United States is a serious public health concern impacting morbidity and mortality. However, systematic screening and intervention has not been widely adopted into routine practice by health care organizations and routine screening and intervention is not currently in place for primary care at Kaiser Permanente Colorado. Therefore, a formative evaluation was conducted to explore and enhance implementation of the Substance Abuse and Mental Health Services Administration (SAMHSA) screening, brief intervention, and referral to treatment (SBIRT) approach in the organization. Methods Key clinical stakeholders, including internal and family medicine physicians, primary care nurses, mental health therapists, chemical dependency clinicians, and clinic-based psychologists provided feedback. Two focus groups were also conducted with patient stakeholders: one in English and one in Spanish. Results All clinical stakeholders promoted clinic-based psychologists to conduct brief intervention and determine referral to treatment as the optimal implementation program. Inclusion of the patient perspective also highlighted the importance of considering this perspective in implementation. Both patient groups were generally supportive of SBIRT, especially the educational value of screening questions defining healthy drinking limits; however, English-speaking patients noted privacy concerns and Spanish-speaking patients noted frequently being asked about drug or alcohol use. Organizationally, systems exist to facilitate drug and alcohol use screening, intervention, and referral to treatment. However, physician time, alignment with other priorities, and lack of consistent communication were noted potential barriers to SBIRT implementation. Conclusions Clinicians expressed concerns about competing priorities and the need for organizational leadership involvement for successful SBIRT implementation. A unique suggestion for successful implementation is to utilize existing primary care clinic-based psychologists to conduct brief intervention and facilitate referral to treatment. Patient stakeholders supported universal screening, but cultural differences in opinions and current experience were noted, indicating the importance of including this perspective when evaluating implementation potential.
Comparison of saponin composition and content in wild soybean (Glycine soja Sieb. and Zucc.) before and after germination
Authors: Krishnamurthy Panneerselvam , Tsukamoto Chigen , Takahashi Yuya , Hongo Yuji , Singh Ram J , Lee Jeong Dong , Chung Gyuhwa 
Published: August 2014

Abstract
Eight wild soybean accessions with different saponin phenotypes were used to examine saponin composition and relative saponin quantity in various tissues of mature seeds and two-week-old seedlings by LC–PDA/MS/MS. Saponin composition and content were varied according to tissues and accessions. The average total saponin concentration in 1 g mature dry seeds of wild soybean was 16.08 ± 3.13 μmol. In two-week-old seedlings, produced from 1 g mature seeds, it was 27.94 ± 6.52 μmol. Group A saponins were highly concentrated in seed hypocotyl (4.04 ± 0.71 μmol). High concentration of DDMP saponins (7.37 ± 5.22 μmol) and Sg-6 saponins (2.19 ± 0.59 μmol) was found in cotyledonary leaf. In seedlings, the amounts of group A and Sg-6 saponins reduced 2.3- and 1.3-folds, respectively, while DDMP + B + E saponins increased 2.5-fold than those of mature seeds. Our findings show that the group A and Sg-6 saponins in mature seeds were degraded and/or translocated by germination whereas DDMP saponins were newly synthesized.
Hypermucoviscous Klebsiella Syndrome Without Liver Abscess in a Patient With Immunoglobulin G2 Immune Deficiency
Authors: Alsaedi Asim , Janower Amber , Wang Jin-Town , Nichol Kim , Karlowsky James , Orr Pamela , Keynan Yoav 
Published: August 2014

Abstract
Background.  Hypermucoviscous Klebsiellapneumoniae (HMVKP) emerged as a cause of invasive infections in South-East (SE) Asia. It has become the most common cause of liver abscess in that region, and it is a significant causative organism in endogenous endophthalmitis and meningitis. During the past decade, cases of this uniquely virulent organism have been reported outside of SE Asia, with a propensity to affect individuals of SE Asian descent. Cases have been reported from North America including Canada.
Methods.  We report a case of a patient of Filipino descent living in Canada who presented with recurrent HMVKP bacteremia in the absence of pyogenic liver abscess or other localized metastatic Klebsiella infection.
Results.  Investigations identified an immunoglobulin (Ig)G2 deficiency and low IgM indicating potential common variable immunodeficiency, and administration of intravenous immunoglobulins was associated with prevention of further recurrences.
Conclusions.  To our knowledge, this is the first report of HMVKP associated with predisposing antibody deficiency.
“More than Meets the Eye”: When the Neonatal Course May Impact Several Years Out
Authors: Dopwell Fadiyla , Maypole John , Sinha Bharati , Currier Heidi , DeBassio William , Augustyn Marilyn 
Published: August 2014

CASE: Nadia is a 7-year-old girl who you have followed since her discharge from the Neonatal Intensive Care Unit (NICU). Her parents are here today for an urgent visit with behavioral concerns, such as inattention, hyperactivity, and aggression.
Nadia is a former 40-weeker born through vacuum-assisted vaginal delivery at 9 pounds 7 ounces. Her delivery was complicated with shoulder dystocia, which resulted in resuscitation. Her Apgar scores were 1, 3, and 4 at 1, 5, and 10 minutes, respectively. After intubation and stabilization on mechanical ventilation, Nadia was transferred to the NICU. Her neonatal course included systemic hypothermia using “cool cap” for hypoxic-ischemic encephalopathy (HIE) for a duration of 72 hours. She was extubated on day of life 3. She had an occupational therapy consultation for poor suck/feeding, and it quickly improved. She was discharged on day of life 14. On discharge, Nadia was referred to early intervention (EI) and the NICU follow-up clinic. Nadia was followed by EI until 12 months of age and in the NICU follow-up clinic until 18 months of age, as there were no concerns meeting her developmental milestones or her neuromotor development.
At this urgent visit, Nadia's parents report that she attended a family child care from 1.5 to 3 years of age, Head Start from 3 to 5 years of age and the local public school from 5 years to present. Since starting child care, Nadia's teachers have reported that she requires a lot of redirection and refocusing, fidgets a lot in class, and can be aggressive toward her peers when unprovoked. Since her parents had not seen these behaviors at home, they thought it was a phase that she would grow out of. However, as they began to work with her to complete school assignments, they noticed that it was very difficult for Nadia to sit still and focus on work. They also struggled in the mornings to get her ready and off to school.
The parents bring in Conners scales completed by themselves and her lead teacher, and with these and our clinical observations, we diagnose her with attention-deficit/hyperactivity disorder (ADHD), combined type. We discuss risk factors and ADHD management with her parents. During our discussion, Nadia's father, who has done some reading on ADHD, remembers reading an article about HIE and NICU stay being risk factors for ADHD. He wonders if this affects the choice of management of her ADHD symptoms. How would you address his query?
A Distance Method to Reconstruct Species Trees In the Presence of Gene Flow
Authors: Cui Lingfei , Kubatko Laura S. 
Published: August 2014

AbstractOne of the central tasks in evolutionary biology is to reconstruct the evolutionary relationships among species from sequence data, particularly from multilocus data. In the last ten years, many methods have been proposed to use the variance in the gene histories to estimate species trees by explicitly modeling deep coalescence. However, gene flow, another process that may produce gene history variance, has been less studied. In this paper, we propose a simple yet innovative method for species trees estimation in the presence of gene flow. Our method, called STEST (Species Tree Estimation from Speciation Times), constructs species tree estimates from pairwise speciation time or species divergence time estimates. By using methods that estimate speciation times in the presence of gene flow, (for example, M1 (Yang 2010) or SIM3s (Zhu and Yang 2012)), STEST is able to estimate species trees from data subject to gene flow. We develop two methods, called STEST (M1) and STEST (SIM3s), for this purpose. Additionally, we consider the method STEST (M0), which instead uses the M0 method (Yang 2002), a coalescent-based method that does not assume gene flow, to estimate speciation times. It is therefore devised to estimate species trees in the absence of gene flow. Our simulation studies show that STEST (M0) outperforms STEST(M1), STEST (SIM3s) and STEM in terms of estimation accuracy and outperfroms *BEAST in terms of running time when the degree of gene flow is small. STEST (M1) outperforms STEST (M0), STEST (SIM3s), STEM and *BEAST in term of estimation accuracy when the degree of gene flow is large. An empirical data set analyzed by these methods gives species tree estimates that are consistent with the previous results.
RNA-Rocket: An RNA-Seq Analysis Resource for Infectious Disease Research
Authors: Warren Andrew S. , Aurrecoechea Cristina , Brunk Brian , Desai Prerak , Emrich Scott , Giraldo-Calderón Gloria I. , Harb Omar , Hix Deborah , Lawson Daniel , Machi Dustin , Mao Chunhong , McClelland Michael , Nordberg Eric , Shukla Maulik , Vosshall Leslie B. , Wattam Alice R. , Will Rebecca , Yoo Hyun Seung , Sobral Bruno 
Published: August 2014

ABSTRACTMotivation:RNA-Seq is a method for profiling transcription using high-throughput sequencing and is an important component of many research projects that wish to study transcript isoforms, condition specific expression, and transcriptional structure. The methods, tools, and technologies employed to perform RNA-Seq analysis continue to change, creating a bioinformatics challenge for researchers who wish to exploit these data. Resources that bring together genomic data, analysis tools, educational material, and computational infrastructure can minimize the overhead required of life science researchers.Results:RNA-Rocket is a free service that provides access to RNA-Seq and ChIP-Seq analysis tools for studying infectious diseases. The site makes available thousands of pre-indexed genomes, their annotations, and the ability to stream results to the bioinformatics resources VectorBase, EuPathDB, and PATRIC. The site also provides a combination of experimental data and metadata, examples of pre-computed analysis, step-by-step guides, and a user interface designed to enable both novice and experienced users of RNA-Seq data.Availability: RNA-Rocket can be found atrnaseq.pathogenportal.orgSource code for this project can be found atgithub.com/cidvbi/PathogenPortal