bluuebunny/crossref_metadata_2025_split huggingface dataset:
Using a trait-based approach to understand the efficiency of a selective device in a multispecific fishery
Authors: Mouchet Maud , Poirson Manon , Morandeau Fabien , Vogel Camille , Méhault Sonia , Kopp Dorothée 
Published: August 2019

AbstractImproving the selectivity of a fishing gear is one technical management measure to significantly reduce by-catch of non-commercial species or undersized individuals. The efficiency of selective device is mainly estimated by comparing species composition, the biomass and length spectrum of caught individuals and escapees while the functional traits of species are rarely accounted for. Using an innovative technical device to reduce catches of undersized individuals in a multispecific bottom trawl fishery in the Bay of Biscay, namely a T90 mesh cylinder, we measured functional traits on both caught and escaped individuals of 18 species. Using a Principal Component Analysis and K-means partitioning, we clustered species into 6 groups illustrating 6 different locomotion strategies. We identified functional traits related to body size, visual ability and locomotion, differing between caught individuals and escapees using Linear Mixed-effects Models. As expected, escapees were smaller on average but also tended to be more streamlined, with a high position of the eyes and fin features characteristic of manoeuvrability and propulsion. Here, we present how a trait-based approach can shed light on the biological characteristics influencing the efficiency of selective devices.
Distribution and diversity of bacterial endophytes from four Pinus species and their efficacy as biocontrol agents for devastating pine wood nematodes
Authors: Liu Yunran , Ponpandian Lakshmi Narayanan , Kim Hoki , Jeon Junhyun , Hwang Buyng Su , Lee Sun Keun , Park Soo-Chul , Bae Hanhong 
Published: August 2019

AbstractIn this study, we isolated a total of 238 culturable putative bacterial endophytes from four Pinus species (Pinus densiflora, P. koraiensis, P. rigida, and P. thunbergii) across 18 sampling sites in Korea. The samples were cultured in de Man Rogosa Sharpe and humic acid-vitamin agar media. These selective media were used to isolate lactic acid bacteria and Actinobacteria, respectively. Analysis using 16S ribosomal DNA sequencing grouped the isolated putative bacterial endophytes into 107 operational taxonomic units (OTUs) belonging to 48 genera. Gamma-proteobacteria were the most abundant bacteria in each sampling site and three tissues (needle, stem and root). The highest OTU richness and diversity indices were observed in the roots, followed by stem and needle tissues. Total metabolites extracted from three isolates (two isolates of Escherichia coli and Serratia marcescens) showed significant nematicidal activity against the pine wood nematode (Bursaphelenchus xylophilus). Our findings demonstrated the potential use of bacterial endophytes from pine trees as alternative biocontrol agents against pine wood nematodes.
A novel, dynein-independent mechanism focuses the endoplasmic reticulum around spindle poles in dividing Drosophila spermatocytes
Authors: Karabasheva Darya , Smyth Jeremy T. 
Published: August 2019

AbstractIn dividing animal cells the endoplasmic reticulum (ER) concentrates around the poles of the spindle apparatus by associating with astral microtubules (MTs), and this association is essential for proper ER partitioning to progeny cells. The mechanisms that associate the ER with astral MTs are unknown. Because astral MT minus-ends are anchored by centrosomes at spindle poles, we hypothesized that the MT minus-end motor dynein mediates ER concentration around spindle poles. Live in vivo imaging of Drosophila spermatocytes revealed that dynein is required for ER concentration around centrosomes during late interphase. In marked contrast, however, dynein suppression had no effect on ER association with astral MTs and concentration around spindle poles in early M-phase. In fact, there was a sudden onset of ER association with astral MTs in dynein RNAi cells, revealing activation of an M-phase specific mechanism of ER-MT association. ER redistribution to spindle poles also did not require non-claret disjunctional (ncd), the other known Drosophila MT minus-end motor, nor Klp61F, a MT plus-end motor that generates spindle poleward forces. Collectively, our results suggest that a novel, M-phase specific mechanism of ER-MT association that is independent of MT minus-end motors is required for proper ER partitioning in dividing cells.
Expression profiles of p53/p73, NME and GLI families in metastatic melanoma tissue and cell lines
Authors: Ozretić Petar , Hanžić Nikolina , Proust Bastien , Sabol Maja , Trnski Diana , Radić Martina , Musani Vesna , Ciribilli Yari , Milas Ivan , Puljiz Zvonimir , Bosnar Maja Herak , Levanat Sonja , Slade Neda 
Published: August 2019

AbstractUnlike other tumours, TP53 is rarely mutated in melanoma; however, it fails to function as a tumour suppressor. We assume that its functions might be altered through interactions with several families of proteins, including p53/p73, NME and GLI. To elucidate the potential interplay among these families we analysed the expression profiles of aforementioned genes and proteins in a panel of melanoma cell lines, metastatic melanoma specimens and healthy corresponding tissue. Using qPCR a higher level of NME1 gene expression and lower levels of Δ40p53β, ΔNp73, GLI1, GLI2 and PTCH1 were observed in tumour samples compared to healthy tissue. Protein expression of Δ133p53α, Δ160p53α and ΔNp73α isoforms, NME1 and NME2, and N′ΔGLI1, GLI1FL, GLI2ΔN isoforms was elevated in tumour tissue, whereas ∆Np73β was downregulated. The results in melanoma cell lines, in general, support these findings. In addition, we correlated expression profiles with clinical features and outcome. Higher Δ133p53β and p53α mRNA and both GLI1 mRNA and GLI3R protein expression had a negative impact on the overall survival. Shorter overall survival was also connected with lower p53β and NME1 gene expression levels. In conclusion, all examined genes may have implications in melanoma development and functional inactivity of TP53.
Retrospective analysis reveals significant association of hypoglycemia with tramadol and methadone in contrast to other opioids
Authors: Makunts Tigran , U Andrew , Atayee Rabia S. , Abagyan Ruben 
Published: August 2019

AbstractTramadol is one of the most commonly used analgesics worldwide, classified as having a low abuse potential by U.S. Drug Enforcement Agency, and often recommended in pain management guidelines. Its pain-relieving mechanism of action is attributed to mild μ-opioid receptor agonism, serotonin and norepinephrine mediated nociception modulation, and N-methyl-D-aspartate receptor, NMDAR, antagonism. However, recent case reports and case-control studies have shown an association between tramadol use and hypoglycemia. The growing concern over increasing tramadol use and unexpected side effects warranted a further comparative and quantitative analysis of tramadol adverse reactions. In this study we analyzed over twelve million reports from United States Food and Drug Administration Adverse Event Reporting System and provided evidence of increased propensity for hypoglycemia in patients taking tramadol when compared to patients taking other opioids, serotonin-norepinephrine reuptake inhibitors, and drugs affecting NMDAR activity. Additionally, we identified that only methadone from the opioid cohort behaves similarly to tramadol and has an association with hypoglycemia.
Test–Retest Reliability of Cervical and Ocular Vestibular Evoked Myogenic Potential With Simultaneous and Sequential Recording
Authors: E. Anupriya , Kumar Kaushlendra 
Published: August 2019

Purpose
Simultaneous recording of cervical (cVEMP) and ocular (oVEMP) vestibular evoked myogenic potentials aids in reducing the testing time when compared to conventional sequential recordings. The purpose of this study was to examine the test–retest reliability of sequential and simultaneous acquisitions of cVEMP and oVEMP.

Method
cVEMP and oVEMP were recorded in 35 normal-hearing individuals. The cVEMP and oVEMP were obtained using sequential and simultaneous methods. The VEMP recordings were performed across 3 sessions. The 1st 2 recording sessions were consecutive with a gap of 5 min between sessions. The 3rd recording session was after a gap of 3–5 days.

Results
Both simultaneous and sequential recordings showed fair-to-good test–retest reliability for latencies and amplitude of cVEMP and oVEMP.

Conclusion
Simultaneous cVEMP and oVEMP recordings can be used to obtain fast VEMP recording with test–retest reliability comparable with that of sequential recording.
The Effect of Fatigue on Working Memory and Auditory Perceptual Abilities in Trained Musicians
Authors: Jain Saransh , Nataraja Nuggehalli Puttareviyah 
Published: August 2019

PurposeMany perceptual processing processes, such as cognition, vision, sensation, and audition, are affected due to fatigue. Musicians are prone to fatigue because of long working hours and demanding profession. The research on assessing working memory abilities in musicians is heterogeneous, as none of the studies has controlled the effect of fatigue. This study was thus designed to assess the effect of fatigue on working memory and auditory perception in trained instrumental musicians.MethodTwenty-six trained instrumental musicians and 25 nonmusicians participated in this study. The effect of fatigue was assessed by administering the working memory and auditory perception tests in prefatigue and postfatigue conditions. The fatigue was assessed using a 100-point visual analog scale. The working memory was assessed using Operation Span, Reading Span, and Digit Span (Forward and Backward) tests (Knutson et al., 1991). Auditory perception was assessed using speech-perception-in-noise and temporal integration tests.ResultsWorking memory and speech perception were affected due to fatigue. Musicians, despite having better working memory abilities than nonmusicians, are equally prone to fatigue-related distress.ConclusionThe advantage of music training for the working memory abilities may be reduced due to fatigue; hence, measures to reduce fatigue should be employed by the musicians. Fatigue should also be treated as a variable in all future research related to assess cognitive processing in musicians.
Concrete repair challenges in the Middle East
Authors: Brueckner Rene 
Published: August 2019

The root cause analysis, determination of the extent of concrete defects and identification of an appropriate repair strategy can be straightforward, but it also often provides significant challenges to both contractors and engineers. The challenges can be due to a lack of QA/QC documentation, locally available investigation equipment, repair material and techniques and accepting actually feasible solutions.
The paper presents a case study of a bridge in the Middle East where the root cause analysis was found to be straightforward but the determination of the extent of non-visible defects and the implementation of a feasible repair strategy proved to be much more complicated. The root cause analysis of the defects was carried out by visual inspection, representative intrusive investigations and a comprehensive document review. The determination of the extent of the defects using GPR techniques proved to be challenging under the local conditions. Even more difficulties were encountered by implementing the developed repair strategies to address the various defects to ensure that the required 120 years design life in a very aggressive environment can be achieved. Several revisions to the repair strategy were necessary to identify the most appropriate solution and to accelerate the programme.
Endocuff Vision is safe to use for dysplasia surveillance in patients with ulcerative colitis: a feasibility study
Authors: Fang Wendy C. , Haridy James , Keung Charlotte , Van Langenberg Daniel , Saunders Brian P. , Garg Mayur 
Published: August 2019

Abstract
Background and study aims Endocuff Vision improves adenoma detection rates in patients without inflammatory bowel disease. This study aimed to investigate the safety and feasibility of Endocuff Vision-assisted high-definition white light endoscopy (HDWLE) with dye-spray chromoendoscopy for detection of dysplasia in patients with ulcerative colitis.
Patients and methods Patients with clinically inactive ulcerative colitis due for dysplasia surveillance were recruited. Procedural endpoints included safety, cecal intubation rate (CIR), terminal ileum intubation rate (TIR), withdrawal time, polyp detection rate, dysplasia detection rate (DDR), and sessile serrated lesion detection rate.
Results Twenty-five patients (9 female, median age 57 [range 28 – 82] years) were studied. Endocuff Vision-assisted HDWLE was completed in all participants, with a CIR of 100 %, in a median 4 minutes (range 2 – 16), and a TIR of 88% in a median of 6.5 minutes (range 3 – 19). Median withdrawal time was 18 minutes (range 10 – 55), including application of dye-spray, biopsies and polypectomy. The Mayo Endoscopic subscore was 0 in 11, 1 in 9, and 2 in 5 patients. The DDR was 24 % (6 patients had a total of 12 dysplastic lesions) and sessile serrated lesion detection rate was 12 % (3 patients had a total of 4 sessile serrated polyps). No serious adverse events occurred, with one patient developing clinically insignificant minor mucosal bleeding.
Conclusion Endocuff Vision-assisted HDWLE is feasible and safe in patients with ulcerative colitis undergoing dysplasia surveillance. Further studies are required to assess superiority of this technique compared with standard high-definition white light endoscopy with chromoendoscopy.
Analyse von Gesichtsasymmetrien bei Patienten mit Schiefnasen
Authors: Lindemann Jörg , Schmadl Anna , Scheithauer Marc Oliver , Hoffmann Thomas K. , Sommer Fabian , Grossi Anna-Sophia , Stupp Franziska 
Published: August 2019

Zusammenfassung
Hintergrund Das chirurgische Management der Schiefnase stellt selbst für erfahrene Rhinochirurgen eine Herausforderung dar, obwohl zahlreiche Techniken zur Korrektur beschrieben sind. Nicht selten besteht zusätzlich zur Schiefnase eine Asymmetrie des Gesichtes, die das ästhetische Ergebnis der Operation beeinflusst. In dieser Studie sollte festgestellt werden, wie häufig bei Patienten mit einer Schiefnase zusätzlich eine anthrometrische Asymmetrie des Gesichtes besteht.
Material und Methoden Hierzu wurden retrospektiv die Daten von Patienten mit Schiefnasen (n = 607, 304 Frauen, 303 Männer, mittleres Alter 30 Jahre) ausgewertet. Die präoperativen Fotos des Gesichtes wurden standardisiert anthrometrisch anhand von Winkelmessungen ausgewertet.
Ergebnisse 382 der 607 Patienten hatten eine C-förmige (63 %) und 225 eine I-förmige (37 %) Schiefnase. Mehr als Dreiviertel der Patienten wiesen eine Gesichtsasymmetrie bezüglich der Pupillenverbindungs-/Nasenbasislinie auf. 49 % der Patienten gaben ein Nasentrauma in der Vorgeschichte an, dieses hatte jedoch keinen relevanten Einfluss auf die Häufigkeit einer Gesichtsasymmetrie.
Schlussfolgerungen Eine vorbestehende Gesichtsasymmetrie ist sehr häufig und kann das ästhetische Operationsergebnis erheblich beeinträchtigen. Dies sollte im Rahmen der präoperativen Aufklärung angesprochen werden. Insbesondere sollte erwähnt werden, dass das Operationsergebnis bei Schiefnasen ästhetisch erheblich hinter den Erwartungen bleiben kann und nicht selten eine Revisionsoperation notwendig werden kann.
Multistate Models: Accurate and Dynamic Methods to Improve Predictions of Thrombotic Risk in Patients with Cancer
Authors: Carmona-Bayonas Alberto , Jimenez-Fonseca Paula , Garrido Marcelo , Custodio Ana , Hernandez Raquel , Lacalle Alejandra , Cano Juana María , Aguado Gema , Martínez de Castro Eva , Alvarez Manceñido Felipe , Macias Ismael , Visa Laura , Martín Richard Marta , Mangas Monserrat , Sánchez Cánovas Manuel , Longo Federico , Iglesias Rey Leticia , Martínez Lago Nieves , Martín Carnicero Alfonso , Sánchez Ana , Azkárate Aitor , Limón María Luisa , Hernández Pérez Carolina , Ramchandani Avinash , Pimentel Paola , Cerdá Paula , Serrano Raquel , Gil-Negrete Aitziber , Marín Miguel , Hurtado Alicia , Sánchez Bayona Rodrigo , Gallego Javier 
Published: August 2019

AbstractResearch into cancer-associated thrombosis (CAT) entails managing dynamic data that pose an analytical challenge. Thus, methods that assume proportional hazards to investigate prognosis entail a risk of misinterpreting or overlooking key traits or time-varying effects. We examined the AGAMENON registry, which collects data from 2,129 patients with advanced gastric cancer. An accelerated failure time (AFT) multistate model and flexible competing risks regression were used to scrutinize the time-varying effect of CAT, as well as to estimate how covariates dynamically predict cumulative incidence. The AFT model revealed that thrombosis shortened progression-free survival and overall survival with adjusted time ratios of 0.72 and 0.56, respectively. Nevertheless, its prognostic effect was nonproportional and disappeared over time if the subject managed to survive long enough. CAT that occurred later had a more pronounced prognostic effect. In the flexible competing risks model, multiple covariates were seen to have significant time-varying effects on the cumulative incidence of CAT (Khorana score, secondary thromboprophylaxis, high tumor burden, and cisplatin-containing regimen), whereas other predictors exerted a constant effect (signet ring cells and primary thromboprophylaxis). The model that assumes proportional hazards was incapable of capturing the effect of these covariates and predicted the cumulative incidence in a biased way. This study evinces that flexible and multistate models are a useful and innovative method to describe the dynamic effect of variables associated with CAT and should be more widely used.
A Novel Pathogenic Variant of the CFTR Gene in a Patient with Cystic Fibrosis Phenotype—c.4096A > T
Authors: Arslan Ahmet Burak , Zamani Ayşe Gül , Pekcan Sevgi , Yıldırım Mahmut Selman 
Published: August 2019

AbstractCystic fibrosis is a chronic multisystemic disease originating from functional alterations in CFTR (cystic fibrosis transmembrane conductance regulator) protein. To date, more than 300 pathogenic variants have been described in the literature. However, the diagnosis of CF, which was thought to become easier after the CFTR gene was identified, became more complicated due to the enormous amount of variations. In this study, we present a patient whose clinical findings were consistent with cystic fibrosis (CF) and showed a homozygous missense change that is not previously reported in the CFTR gene as pathogenic. In the next-generation sequencing analysis, homozygous c.4096A > T single-nucleotide exchange (I1366F [p.Ile1366Phe], missense) was shown in both alleles of the patient' CFTR gene. According to our database analysis, this variant has not yet been previously reported (VarSome, ClinVar, MutationTaster, Ensembl, dbSNP, PubMed). We do consider the change as pathogenic since the patient's findings were compatible with CF and the data analysis was in favor of pathogenicity. The most recent consensus report published in 2017 emphasized the importance of CFTR gene analysis, and this study emphasizes the difficulties of associating CFTR gene variations with a clinical picture and constitutes a new data on the genotype–phenotype correlation of CFTR variants. Also, considering the frequency of CF (according to World Health Organization data, every 1 out of 2,000–3,000 infants is born with CF in European Union countries and every 1 out of 3,500 in the United States) as well as the increasing rate of molecular studies performed on CF patients worldwide, reporting novel variation has an additional value.
Evaluation of a Training Program to Improve Organizational Capacity for Health Systems Analytics
Authors: Miller Steven D. , Stablein Phillip , Syed Jay , Smothers Valerie , Marx Emily , Greene Peter , Lehmann Harold , Nagy Paul G. 
Published: August 2019

Objective The Leadership in Analytics and Data Science (LEADS) course was evaluated for effectiveness. LEADS was a 6-month program for working biomedical and health informatics (BMHI) professionals designed to improve analytics skills, knowledge of enterprise applications, data stewardship, and to foster an analytics community of practice through lectures, hands-on skill building workshops, networking events, and small group projects.
Methods The effectiveness of the LEADS course was evaluated using the Kirkpatrick Model by assessing pre- and postcourse knowledge, analytics capabilities, goals, practice, class lecture reaction, and change in the size of participant professional networks. Differences in pre- and postcourse responses were analyzed with a Wilcoxon signed rank test to determine significance, and effect sizes were computed using a z-statistic.
Results Twenty-nine students completed the course with 96% of respondents reporting that they were “very” or “extremely” likely to recommend the course. Participants reported improvement in several analytics capabilities including Epic data warehousing (p = 0.017), institutional review board policy (p = 0.005), and data stewardship (p = 0.007). Changes in practice patterns mirrored those in self-reported capability. On average, the participant professional network doubled.
Conclusion LEADS was the first course targeted to working BMHI professional at a large academic medical center to have a formal effectiveness evaluation be published in the literature. The course achieved the goals of expansion of BMHI knowledge, skills, and professional networks. The LEADS course provides a template for continuing education of working BMHI professionals.
Patellar Bone–Tendon–Bone Autografts versus Quadriceps Tendon Allograft with Synthetic Augmentation in a Canine Model
Authors: Smith Patrick A. , Stannard James P. , Bozynski Chantelle C. , Kuroki Keiichi , Cook Cristi R. , Cook James L. 
Published: August 2019

AbstractPatellar bone–tendon–bone (pBTB) autografts are often considered the “gold standard” for complete anterior cruciate ligament (ACL) reconstruction and are also associated with significant complications and early-onset knee osteoarthritis (OA). A novel quadriceps tendon allograft with synthetic augmentation, or “internal brace” (QTIB), has been reported to have potential advantages for ACL reconstruction based on animal model data. In this preclinical canine comparison study, we hypothesized that QTIB allograft compared with pBTB autograft would provide superior durability for knee stability, function, and prevention of OA. Under approval from our Institutional Animal Care and Use Committee, adult purpose-bred research hounds (n = 10) underwent arthroscopic complete transection of the ACL followed by either an arthroscopic-assisted all-inside ACL reconstruction using the QTIB allograft (n = 5) or pBTB autograft (n = 5). Contralateral knees were used as nonoperated controls (n = 10). Radiographic and arthroscopic assessments were performed at 2 and 6 months, respectively, after surgery. Anterior drawer, internal rotation, lameness, kinetics, pain, effusion, and comfortable range of knee motion were measured at 2, 3, and 6 months. Biomechanical and histologic assessments were performed at 6 months. All reconstructed knees were stable and had intact ACL grafts 6 months after surgery. At 6 months, QTIB reconstructed knees had significantly less lameness, lower pain, less effusion, and increased range of motion when compared with BTB knees (p < 0.05). BTB knees had significantly higher radiographic OA scores than QTIB knees at 6 months (p < 0.05). Superior outcomes associated with QTIB allograft may be due to the lack of donor site morbidity, the use of a robust tendon graft, and/or protection of the graft from the synthetic augmentation. Robust tendon grafts combined with a synthetic internal brace and platelet-rich plasma (PRP) may allow for more rapid and robust tendon–bone healing and graft “ligamentization,” which protects the graft from early failure and rapid OA development that can plague commonly-used allografts.