bluuebunny/crossref_metadata_2025_split huggingface dataset:
Arabidopsis cell suspension culture and RNA sequencing reveal regulatory networks underlying plant‐programmed cell death
Authors: Burke Rory , McCabe Aideen , Sonawane Neetu Ramesh , Rathod Meet Hasmukh , Whelan Conor V. , McCabe Paul F. , Kacprzyk Joanna 
Published: August 2023

SUMMARYProgrammed cell death (PCD) facilitates selective, genetically controlled elimination of redundant, damaged, or infected cells. In plants, PCD is often an essential component of normal development and can mediate responses to abiotic and biotic stress stimuli. However, studying the transcriptional regulation of PCD is hindered by difficulties in sampling small groups of dying cells that are often buried within the bulk of living plant tissue. We addressed this challenge by using RNA sequencing and Arabidopsis thaliana suspension cells, a model system that allows precise monitoring of PCD rates. The use of three PCD‐inducing treatments (salicylic acid, heat, and critical dilution), in combination with three cell death modulators (3‐methyladenine, lanthanum chloride, and conditioned medium), enabled isolation of candidate core‐ and stimuli‐specific PCD genes, inference of underlying regulatory networks and identification of putative transcriptional regulators of PCD in plants. This analysis underscored a disturbance of the cell cycle and mitochondrial retrograde signaling, and repression of pro‐survival stress responses, as key elements of the PCD‐associated transcriptional signature. Further, phenotyping of Arabidopsis T‐DNA insertion mutants in selected candidate genes validated the potential of generated resources to identify novel genes involved in plant PCD pathways and/or stress tolerance.
Characterization of alkaline phosphatase cytochemistry in canine neoplastic and non‐neoplastic pulmonary mass aspirates
Authors: O'Day Jack , Seelig Davis , Emanuelli Mauren , Heinrich Daniel 
Published: August 2023

AbstractBackgroundDistinguishing primary and secondary pulmonary neoplasms can be challenging via cytology, and a rapid, inexpensive diagnostic tool to differentiate these neoplasms is unavailable. Alkaline phosphatase cytochemistry (ALP‐CC) has been used to identify primary pulmonary carcinomas in human patients, and we hypothesized it could be applied to canine lung aspirates.ObjectiveWe aimed to characterize ALP‐CC expression in fine‐needle aspirate (FNA) samples of canine pulmonary neoplastic and non‐neoplastic tumors.MethodsA retrospective case search was conducted to identify cases with contemporaneous cytology and histopathology reports from pulmonary lesions, including neoplastic and non‐neoplastic etiologies. Slides prepared from pulmonary aspirates were stained for ALP‐CC activity, and the percentage of ALP‐CC‐positive primary pulmonary epithelial tumors was determined. To characterize the ALP‐CC expression in non‐neoplastic cellular constituents of pulmonary FNA samples, mesothelial cells were also evaluated.ResultsForty‐eight canine cases met the inclusion criteria. ALP‐CC–positive cells were seen in both neoplastic and non‐neoplastic lesions. In non‐neoplastic lesions, pulmonary epithelial cells were ALP‐CC positive. Eighty‐nine percent of primary pulmonary epithelial neoplasms were ALP‐CC positive, and no ALP‐CC positivity was noted in mesothelial cells. ALP‐CC–positive neoplastic cells were seen in a metastatic amelanotic melanoma.ConclusionsPrimary pulmonary epithelial neoplasms are frequently ALP‐CC positive, but such positivity is not restricted to this tumor type. Non‐neoplastic pulmonary epithelial cells can be ALP‐CC positive, whereas mesothelial cells are negative.
Comparing 3 mm and 5 mm laparoscopic liver biopsy samples in dogs
Authors: Larose Philippe Chagnon , Brisson Brigitte A. , Foster Robert A. , Monteith Gabrielle 
Published: August 2023

AbstractObjectiveTo determine whether 3 mm cup biopsy forceps (CBF) provide equivalent diagnostic samples to 5 mm CBF for histopathologic diagnosis, bacterial culture, and copper quantification.Study designClinical prospective study.AnimalsTen client‐owned dogs, presenting for laparoscopic liver biopsy (LLB).MethodsDogs underwent LLB, and paired samples were collected using 3 and 5 mm CBF. Portal triad and hepatic lobule counts, crush and fragmentation artifacts, copper concentration, bacterial culture results, and agreement on histopathologic diagnosis were compared.ResultsBoth CBF sizes allowed for easy sample collection and resulted in minimal hemorrhage. An average of 12.13 (confidence limit (CL): 9.4–14.9) and 17.84 (CL: 15.1–20.6) portal triads were obtained using a 3 and 5 mm CBF, respectively (p = .0003). A portal triad count of 11 or more was achieved in 73.3% of the 3 mm and 93.3% of the 5 mm samples. Gwets AC1 coefficient showed a high level of agreement (0.8) for overall histopathologic diagnosis (p < .0001). The 3 mm CBF crush scores were higher (median of the differences: −1; range: −1 to 1) (p = .035). There was no difference in fragmentation scores (p = .935).ConclusionThe 3 mm CBF yielded smaller samples in terms of size and portal triad count compared with the 5 mm CBF. However, the portal triad count was sufficient in a majority of samples and histologic agreement with the 5 mm CBF was excellent.Clinical significanceIn dogs, a 3 mm CBF yields adequate samples for histopathologic interpretation, copper quantification, and bacterial culture.
Impact of secondary amenorrhea on cardiovascular disease risk in physically active women: a systematic review protocol
Authors: Tegg Nicole L. , Myburgh Caitlynd , Kennedy Megan , Norris Colleen M. 
Published: August 2023

Objective:
The objective of this review is to assess the association between secondary amenorrhea in physically active women and cardiovascular disease risk.

Introduction:
It is well established that a woman’s risk of cardiovascular disease greatly increases after menopause. The sharp decline in estrogen is seen as a causal factor. Exercise-induced secondary amenorrhea results in estrogen deficiency, which may lead to dysfunction in estrogen’s cardioprotective pathways. Further, estrogen may be essential in a woman’s endothelial adaptations to exercise. The impact of secondary amenorrhea on cardiovascular disease risk in premenopausal women is not well established.

Inclusion criteria:
This review will consider studies that include physically active women experiencing amenorrhea in any country. Only studies that present evidence of cardiovascular disease, alterations to cardiovascular physiology, or data on cardiovascular risk factors (eg, lipid profile changes) will be considered. The review will consider experimental or observational epidemiological study designs.

Methods:
Searches will be conducted in CINAHL (EBSCOhost), Cochrane Library, Embase (Ovid), MEDLINE (Ovid), SPORTDiscus (EBSCOhost), and Scopus from inception to present with no date or language limitations. Two independent reviewers will screen titles, abstracts, and full texts, appraise methodological quality, and extract data from studies. Where possible, studies will be pooled in a statistical meta-analysis in addition to subgroup analyses. Where pooling is not possible, the findings will be presented in narrative format. Certainty of the evidence will be assessed using the Grading of Recommendations Assessment, Development and Evaluation (GRADE) approach.

Systematic review registration number:
PROSPERO CRD42023360781
Public health interventions preventing adolescent vaping: a scoping review protocol
Authors: DiCasmirro Jamie , Tranmer Joan , Davison Colleen , Woo Kevin , Ross-White Amanda , Hubeny Michael , Goldie Catherine 
Published: August 2023

Objective:
The objective of the review is to systematically examine the emerging literature related to public health interventions aimed at preventing adolescent vaping.

Introduction:
The prevalence of vaping behaviors among adolescents is a rising concern worldwide. A thorough investigation of existing public health interventions to prevent vaping among adolescents is imperative to reduce serious and avoidable vaping-related health risks for this cohort. Many vaping-prevention interventions have been described in the literature, but their key components and outcomes have not been summarized.

Inclusion criteria:
All English literature related to public health interventions preventing adolescent (aged 10 to 18 years) vaping from all countries will be included.

Methods:
This scoping review will follow the JBI methodology for scoping reviews. A comprehensive search of academic and gray literature using MEDLINE (Ovid), CINAHL (EBSCO), Embase (Ovid), PubMed, PsycINFO (Ovid), ProQuest (Health and Medicine and Sociology Collections), and Web of Science Core Collection will be performed. Articles will be screened for inclusion by 2 independent reviewers. Results will be extracted using customized tools and summarized in a final report using narrative synthesis and presented in table format.
La responsabilidad civil como fundamento de la mediación en seguros
Authors: Sánchez García Mateo 
Published: August 2023

El presente texto tiene como finalidad el estudio de algunos aspectos del régimen de responsabilidad civil en accidentes de circulación con el objetivo de analizar algunos temas sobre la mediación en seguros tales como: ¿Quién puede solicitar la mediación?, la elección del Mediador, aspectos relacionados con la cuantificación del daño, la manera en que debe desarrollarse las sesiones de mediación, entre otras. Para tal finalidad se tendrá como fuentes jurídicas la normatividad comunitaria y en específico la legislación española.
Reticencia, omisión, información incorrecta y la eficacia del contrato de seguro
Authors: Arbache Henrique Pires 
Published: August 2023

En esta investigación, buscamos esbozar supuestos importantes para examinar el tratamiento legal adecuado de la información presentado por el asegurado, a favor de la eficiencia de los contratos de seguro.
Partiendo del examen de las principales características de los contratos de seguro, el mutualismo, los cálculos actuariales, su función social, llegamos a la importancia de la información proporcionada por el asegurado, para la adecuada y equilibrada tarificación del servicio.
En este escenario, buscamos evaluar las consecuencias atribuidas por los ordenamientos jurídicos argentino y brasileño, destacando los puntos positivos de cada uno y los que podrían sufrir aportes.
Behavioral Modeling of Collaborative Problem Solving in Multiplayer Virtual Reality Manufacturing Simulation Games
Authors: Kim Haedong , Hartleb Tyler , Bello Khalid , Aqlan Faisal , Zhao Richard , Yang Hui 
Published: August 2023

Abstract
Engineering is an inherently creative and collaborative endeavor to solve real-world problems, in which collaborative problem solving (CPS) is considered one of the most critical professional skills. Hands-on practices and assessment methods are essential to promote deeper learning and foster the development of professional skills. However, most existing approaches are based on out-of-process procedures such as surveys, tests, or interviews that measure the effectiveness of learning activity in an aggregated way. It is desirable to quantify CPS dynamics during the learning process. Advancements in virtual reality (VR) provide great opportunities to realize digital learning environments to facilitate a learning-by-doing curriculum. In addition, sensors in VR systems allow us to collect in-process user behavioral data. This paper presents a multiplayer VR manufacturing simulation game for virtual hands-on learning experiences, as well as a behavioral modeling method for monitoring the CPS skills of participants. First, we developed the Virtual Learning Factory, where users play simulation games of various manufacturing paradigms. Second, we collected action logs from a sample of participants and used the same pattern to generate more data. Third, the behavioral data are modeled as dynamic networks for each player. Last, network features are calculated, and a CPS scoring method is driven from them. Experimental results show that the proposed behavioral modeling successfully captures different patterns of CPS dynamics according to manufacturing paradigms and individuals. This detailed assessment contributes to the development of appropriate student-specific interventions to improve learning outcomes.
Manufacturing Multi-Matrix Composites: Out-of-Vacuum Bag Consolidation
Authors: Radhakrishnan Arjun , Georgillas Ioannis , Hamerton Ian , Shaffer Milo S. P. , Ivanov Dmitry S. 
Published: August 2023

Abstract
The formation of porosity is a major challenge in any composite manufacturing process, particularly in the absence of vacuum assistance. Highly localized injection of polymer matrix into regions of interest in a dry preform is a route to manufacturing multi-matrix fiber-reinforced composites with high filler concentrations, which are otherwise difficult to achieve. Unlike traditional composites, such multi-matrix fiber-reinforced composite systems, which combine multiple resins in continuous form, offer improved structural performance around stress concentrators and multifunctional capabilities. As the process lacks vacuum assistance, porosity becomes a primary issue to be addressed. This paper presents a rheo-kinetic coupled rapid consolidation procedure for optimizing the quality of localized matrix patches. The procedure involves manufacturing trials and analytical consolidation models to determine the best processing program for minimal voidage in the patch. The results provide a step toward an efficient manufacturing process for the optimal design of multi-matrix composites without the need for complex vacuum bag arrangements, thus reducing cost and time while opening avenues to improve overall composite performance.
Effects of lexical frequency on the post-exposure magnitude of recalibration in lexically guided perceptual learning: An explorative analysis
Authors: Koo Hahn , Kataoka Reiko , Swan Julia Thomas , Tzeng Christina Y. 
Published: August 2023

Abstract
Listeners use lexical information to guide the mapping between acoustic signals and representations of speech sound. This process is known as perceptual learning and results in recalibration of phonetic categories. The current work examines the effect of lexical frequency of exposure words on the magnitude of recalibration. Results showed comparable levels of perceptual learning for listeners exposed to high-frequency vs low-frequency critical words, in line with empirical findings that suggest that if frequency affects recalibration, such effects may be difficult to detect. These findings warrant further empirical probing and theoretical characterization of the role of lexical frequency in perceptual learning.
Predicting Gait Patterns of Children With Spasticity by Simulating Hyperreflexia
Authors: Veerkamp Kirsten , Carty Christopher P. , Waterval Niels F.J. , Geijtenbeek Thomas , Buizer Annemieke I. , Lloyd David G. , Harlaar Jaap , van der Krogt Marjolein M. 
Published: August 2023

Spasticity is a common impairment within pediatric neuromusculoskeletal disorders. How spasticity contributes to gait deviations is important for treatment selection. Our aim was to evaluate the pathophysiological mechanisms underlying gait deviations seen in children with spasticity, using predictive simulations. A cluster analysis was performed to extract distinct gait patterns from experimental gait data of 17 children with spasticity to be used as comparative validation data. A forward dynamic simulation framework was employed to predict gait with either velocity- or force-based hyperreflexia. This framework entailed a generic musculoskeletal model controlled by reflexes and supraspinal drive, governed by a multiobjective cost function. Hyperreflexia values were optimized to enable the simulated gait to best match experimental gait patterns. Three experimental gait patterns were extracted: (1) increased knee flexion, (2) increased ankle plantar flexion, and (3) increased knee flexion and ankle plantar flexion when compared with typical gait. Overall, velocity-based hyperreflexia outperformed force-based hyperreflexia. The first gait pattern could mostly be explained by rectus femoris and hamstrings velocity-based hyperreflexia, the second by gastrocnemius velocity-based hyperreflexia, and the third by gastrocnemius, soleus, and hamstrings velocity-based hyperreflexia. This study shows how velocity-based hyperreflexia from specific muscles contributes to different spastic gait patterns, which may help in providing targeted treatment.
The
Chlamydia
effector CpoS modulates the inclusion microenvironment and restricts the interferon response by acting on Rab35
Authors: Meier Karsten , Jachmann Lana H. , Türköz Gözde , Babu Sait Mohammed Rizwan , Pérez Lucía , Kepp Oliver , Valdivia Raphael H. , Kroemer Guido , Sixt Barbara S. 
Published: August 2023

ABSTRACT

The obligate intracellular bacterium
Chlamydia trachomatis
inserts a family of inclusion membrane (Inc) proteins into the membrane of its vacuole (the inclusion). The Inc CpoS is a critical suppressor of host cellular immune surveillance, but the underlying mechanism remained elusive. By complementing a
cpoS
mutant with various natural orthologs and variants of CpoS, we linked distinct molecular interactions of CpoS to distinct functions. Unexpectedly, we found CpoS to be essential for the formation of inclusion membrane microdomains that control the spatial organization of multiple Incs involved in signaling and modulation of the host cellular cytoskeleton. While the function of CpoS in microdomains was uncoupled from its role in the suppression of host cellular defenses, we found the ability of CpoS to interact with Rab GTPases to be required not only for the manipulation of membrane trafficking, such as to mediate transport of ceramide-derived lipids (sphingolipids) to the inclusion, but also for the inhibition of Stimulator of interferon genes (STING)-dependent type I interferon responses. Indeed, depletion of Rab35 phenocopied the exacerbated interferon responses observed during infection with CpoS-deficient mutants. Overall, our findings highlight the role of Inc–Inc interactions in shaping the inclusion microenvironment and the modulation of membrane trafficking as a pathogenic immune evasion strategy.

IMPORTANCE

Chlamydia trachomatis
is a prevalent bacterial pathogen that causes blinding ocular scarring and urogenital infections that can lead to infertility and pregnancy complications. Because
Chlamydia
can only grow within its host cell, boosting the intrinsic defenses of human cells may represent a novel strategy to fight pathogen replication and survival. Hence, CpoS, a
Chlamydia
protein known to block host cellular defenses, or processes regulated by CpoS, could provide new opportunities for therapeutic intervention. By revealing CpoS as a multifunctional virulence factor and by linking its ability to block host cellular immune signaling to the modulation of membrane trafficking, the present work may provide a foundation for such rationale targeting and advances our understanding of how intracellular bacteria can shape and protect their growth niche.
New reference genomes of honey bee-associated bacteria
Paenibacillus melissococcoides, Paenibacillus dendritiformis,
and
Paenibacillus thiaminolyticus
Authors: Dainat Benjamin , Oberhaensli Simone , Ory Florine , Dietemann Vincent 
Published: August 2023

ABSTRACT

We sequenced the genomes of recently discovered
Paenibacillus melissococcoides
(CCOS 2000) and of the type strains of closely related
P. thiaminolyticus
(DSM 7262) and
P. dendritiformis
(LMG 21716). The three genomes set the basis to unambiguous diagnostic of these honey bee associated
Paenibacillus
bacteria.
Magma mingling and ascent in the minutes to hours before an explosive eruption as recorded by banded pumice
Authors: Shamloo Hannah I. , Grunder Anita L. 
Published: August 2023

Abstract
High-threat explosive silicic eruptions commonly contain banded pumice, reflecting magma mingling in the conduit prior to or during eruption. Heterogeneities in tuffs have been attributed to the draw-up of compositionally distinct magmas, in which low-viscosity magmas ascend more quickly than high-viscosity magmas. The Rattlesnake Tuff of the High Lava Plains in Oregon (northwestern United States) represents a zoned magma reservoir where at least five different rhyolite compositions are preserved in banded pumice samples in variable mingled combinations. Geochemical gradients recorded across band boundaries in pumice were modeled using a Monte Carlo least-square minimization procedure to find the complementary error function that best fit observed Si and Ba diffusion profiles by iteratively varying the concentration of each plateau (i.e., the concentration on either side of the band boundary), the center and spacing of the diffusion profile, diffusion length scale, and temperature. Modeling indicates maximum time scales between mingling and conduit ascent from minutes to hours. Viscosity calculations for each rhyolite composition confirm that highly viscous rhyolites have longer ascent times than low-viscosity magmas, strongly supporting a model of sequential tapping of a zoned chamber controlled by viscosity.
Diabetic Retinopathy Screening at the Point of Care (DR SPOC): detecting undiagnosed and vision-threatening retinopathy by integrating portable technologies within existing services
Authors: Weerasinghe Lakni Shahanika , Dunn Hamish Paul , Fung Adrian T , Maberly Glen , Cheung Ngai Wah , Weerasinghe Daminda P , Liew Gerald , Do Helen , Hng Tien-Ming , Pryke Alison , Marks Samuel I , Nguyen Helen , Jayaballa Rajini , Gurung Seema , Ford Belinda , Bishay Ramy H , Girgis Christian M , Meyerowitz-Katz Gideon , Keay Lisa , White Andrew J 
Published: August 2023

IntroductionThe aim of this study was to determine the prevalence of diabetic retinopathy (DR) in a low socioeconomic region of a high-income country, as well as determine the diagnostic utility of point-of-care screening for high-risk populations in tertiary care settings.Research design and methodsThis was a cross-sectional study of patients with diabetes attending foot ulcer or integrated care diabetes clinics at two Western Sydney hospitals (n=273). DR was assessed using portable, two-field, non-mydriatic fundus photography and combined electroretinogram/ pupillometry (ERG). With mydriatic photographs used as the reference standard, sensitivity and specificity of the devices were determined. Prevalence of DR and vision-threatening diabetic retinopathy (VTDR) were reported, with multivariate logistic regression used to identify predictors of DR.ResultsAmong 273 patients, 39.6% had any DR, while 15.8% had VTDR, of whom 59.3% and 62.8% were previously undiagnosed, respectively. Non-mydriatic photography demonstrated 20.2% sensitivity and 99.5% specificity for any DR, with a 56.7% screening failure rate. Meanwhile, mydriatic photography produced high-quality images with a 7.6% failure rate. ERG demonstrated 72.5% sensitivity and 70.1% specificity, with a 15.0% failure rate. The RETeval ERG was noted to have an optimal DR cut-off score at 22. Multivariate logistic regression identified an eGFR of ≤29 mL/min/1.73 m2, HbA1c of ≥7.0%, pupil size of <4 mm diameter, diabetes duration of 5–24 years and RETeval score of ≥22 as strong predictors of DR.ConclusionThere is a high prevalence of vision-threatening and undiagnosed DR among patients attending high-risk tertiary clinics in Western Sydney. Point-of-care DR screening using portable, mydriatic photography demonstrates potential as a model of care which is easily accessible, targeted for high-risk populations and substantially enhances DR detection.