bluuebunny/crossref_metadata_2025_split huggingface dataset:
PREOPERATIVE CLINICAL PRACTICE GUIDELINES FOR ELECTIVE SURGERY. METHODOLOGICAL AND QUALITY APPRAISAL STUDY
Authors: Angel Gustavo , Trujillo Cristian , Mallama Mario , Alonso-Coello Pablo , Klimek Markus , Calvache Jose A. 
Published: July 2022

ABSTRACTBackgroundClinical practice guidelines (CPG) are statements that provide recommendations regarding the approach to different diseases and aim to increase quality while decrease the risk of complications in health care. Numerous guidelines in the field of perioperative care have been published in the previous decade but their methodological quality and transparency are relatively unknown.ObjectiveTo critically evaluate the transparency and methodological quality of published CPG in the preoperative assessment and management of adult patients undergoing elective surgery.DesignDescriptive methodological study and quality appraisal.Data sourcesWe searched for eligible CPG published in English or Spanish between January 1, 2010, and June 30, 2022, in MEDLINE, Embase, the Cochrane Library, as well as in representatives’ medical societies of Anaesthesiology and developers of CPG.Eligibility criteriaCPG dedicated on preoperative fasting, cardiac assessment for non-cardiac surgery, and the use of routine preoperative tests were included. Methodological quality and transparency of CPG were assessed by 3 evaluators using the 6 domains of the AGREE-II tool.ResultsWe included 20 CPG of which 14 were classified as recommended guidelines. The domain of “applicability” scored the lowest (44%), while the domains “scope and objective” and “editorial interdependence” received the highest median scores of 93% and 97% respectively. The remaining domains received scores ranging from 44% to 84%. The top mean scored CPG in preoperative fasting was ASA 2017 (93%); among cardiac evaluation, CPG for non-cardiac surgery were CCS 2017 (91%), ESC-ESA 2014 (90%), and AHA-ACC 2014 (89%); in preoperative testing ICSI 2020 (97%).ConclusionsIn the last ten years, most published CPG in the preoperative assessment or management of adult patients undergoing elective surgery focused on preoperative fasting, cardiac assessment for non-cardiac surgery, and use of routine preoperative tests, present moderate to high methodological quality and can be recommended for their use or adaptation. Applicability and stakeholder involvement domains must be improved in the development of future guidelines.
Scalable, high quality, whole genome sequencing from archived, newborn, dried blood spots
Authors: Ding Yan , Owen Mallory , Le Jennie , Batalov Sergey , Chau Kevin , Kwon Yong Hyun , Van Der Kraan Lucita , Bezares-Orin Zaira , Zhu Zhanyang , Veeraraghavan Narayanan , Nahas Shareef , Bainbridge Matthew , Gleeson Joe , Baer Rebecca J. , Bandoli Gretchen , Chambers Christina , Kingsmore Stephen F. 
Published: July 2022

ABSTRACTUniversal newborn screening (NBS) is an incredibly successful public health intervention. Archived dried bloodspots (DBS) collected for NBS represent a rich resource for population genomic studies. To fully harness this resource, DBS must yield high-quality genomic DNA (gDNA) for whole genome sequencing (WGS). In this pilot study, we hypothesized that gDNA of sufficient quality and quantity for WGS could be extracted from archived DBS up to 20 years old without PCR (Polymerase Chain Reaction) amplification. We describe simple methods for gDNA extraction and WGS library preparation from several types of DBS. We tested these methods in DBS from 25 individuals who had previously undergone diagnostic, clinical WGS and 29 randomly selected DBS cards collected for NBS from the California State Biobank. While gDNA from DBS had significantly less yield than from EDTA blood from the same individuals, it was of sufficient quality and quantity for WGS without PCR. All samples DBS yielded WGS that met quality control metrics for high-confidence variant calling. Twenty-eight variants of various types that had been reported clinically in 19 samples were recapitulated in WGS from DBS. There were no significant effects of age or paper type on WGS quality. Archived DBS appear to be a suitable sample type for WGS in population genomic studies.
Cardiac MRI measures as surrogate outcome for heart failure and atrial fibrillation: a Mendelian randomization analysis
Authors: Schmidt A F , Finan C , van Setten J , Puyol-Anton E , Ruijsink B , Bourfiss M , Alasiri A I , Velthuis B K , Asselbergs F W , te Riele A S J M 
Published: July 2022

AbstractBackgrounddrug development and disease prevention of heart failure (HF) and atrial fibrillation (AF) are impeded by a lack of robust early-stage surrogates. We determined to what extent cardiac magnetic resonance (CMR) measurements act as surrogates for the development of HF or AF in healthy individuals.MethodsGenetic data was sourced on the association with 22 atrial and ventricular CMR measurements. Mendelian randomization was used to determine CMR associations with atrial fibrillation (AF), heart failure (HF), non-ischemic cardiomyopathy (CMP), and dilated cardiomyopathy (DCM). Additionally, for the CMR surrogates of AF and HF, we explored their association with non-cardiac traits.ResultsIn total we found that 10 CMR measures were associated with the development of HF, 8 with development of non-ischemic CMP, 5 with DCM, and 11 with AF. Left-ventricular (LV) ejection fraction (EF), and LV end diastolic volume (EDV) were associated with all 4 cardiac outcomes. Increased LV-MVR (mass to volume ratio) affected HF (odds ratio (OR) 0.83, 95%CI 0.79; 0.88), DCM (OR 0.26, 95%CI 0.20; 0.34), non-ischemic CMP (OR 0.44 95%CI, 0.35; 0.57). We were able to identify 9 CMR surrogates for HF and AF (including LV-MVR, biventricular EDV, right-ventricular EF, and left-atrial maximum volume) which associated with non-cardiac traits such as blood pressure, cardioembolic stroke, diabetes, and late-onset Alzheimer’s disease.ConclusionCMR measurements may act as surrogate endpoints for the development of HF (including non-ischemic CMP and DCM) or AF. Additionally, we show that changes in cardiac function and structure measured through CMR, may affect diseases of other organs leading to diabetes and late-onset Alzheimer’s disease.
Lifestyle physical activity intensity and rapid-rate non-sustained ventricular tachycardia in arrhythmogenic cardiomyopathy
Authors: Ramos-Maqueda Javier , Migueles Jairo H. , Molina-Jiménez María , Ruiz-González David , Cabrera-Borrego Eva , Ruiz-Salas Amalio , Soriano-Maldonado Alberto , Jiménez-Jáimez Juan 
Published: July 2022

AbstractObjectivesThis study aimed to investigate the association of accelerometer-measured lifestyle physical activity with the incidence of rapid-rate non-sustained ventricular tachycardias (RR-NSVT) during a 30-day recording period in AC patients.MethodsThis multicenter, observational study enrolled 72 AC patients, including right, left-, and biventricular forms of the disease, with underlying desmosomal and non desmosomal mutations. Lifestyle physical activity was objectively monitored with accelerometers (i.e., movement sensors), and RR-NSVT were identified from a textile Holter electrocardiogram (ECG) for 30 days as those faster than 188 bpm and longer than 18 beats.ResultsSixty-three AC patients (38±17.6 years, 57% men) provided data on physical activity and ventricular tachycardias. A total of 17 patients experienced 1 ≥ RR-NSVTs, and a total of 35 events were recorded. Participants presenting RR-NSVTs during the 30-day measurement (n=17) did not perform more lifestyle physical activity (P=0.734), neither more activities of moderate-to-vigorous intensity (P=0.245) than their peers without RR-NSVTs in this period. Likewise, participants with RR-NSVTs did not increase their activity level, neither the activities of any intensity (−5 min/day on average) nor those of moderate-to-vigorous intensity (+2 min/day on average) in the days of RR-NSVTs occurrence. Finally, we observed that around half of the RR-NSVTs recorded in the 30 days occurred at rest (i.e., 19 RR-NSVTs), and the other half occurred after or during physical activity (i.e.,16 RR-NSVTs).ConclusionThese findings suggest that lifestyle physical activity, mainly of light and moderate intensity, does not increase the risk for RR-NSVTs in AC patients.Summary boxWhat is already knownArrhythmogenic cardiomyopathy (AC) is associated to sport-triggered sudden cardiac deathCompetitive sports and high-intensity exercise are contraindicated in AC patientsRapid-rate non-sustained ventricular arrhythmias (RR-NSVT) are a surrogate of sudden cardiac death in this populationWhat this study addsConscious investigation on the relationship between lifestyle physical activity of different intensities with ventricular arrhythmias in AC patientsAccelerometer-measured lifestyle physical activity, mainly of light and moderate intensity, seem not to be associated with the occurrence of RR-NSVTsHow this study might affect clinical practice in the futureThis study provides strong evidence for the promotion of lifestyle physical activity among AC patients to ensure they obtain the multiple benefits and risk reductions associated with physical activity
SpatialSort: A Bayesian Model for Clustering and Cell Population Annotation of Spatial Proteomics Data
Authors: Lee Eric , Chern Kevin , Nissen Michael , Wang Xuehai ,   IMAXT Consortium, Huang Chris , Gandhi Anita K. , Bouchard-Côté Alexandre , Weng Andrew P. , Roth Andrew 
Published: July 2022

AbstractEmerging spatial proteomics technologies have created new opportunities to move beyond quantifying the composition of cell types in tissue and begin probing spatial structure. However, current methods for analysing such data are designed for non-spatial data and ignore spatial information. We present SpatialSort, a spatially aware Bayesian clustering approach that allows for the incorporation of prior biological knowledge. SpatialSort clusters cells by accounting for affinities of cells of different types to neighbours in space. Additionally, by incorporating prior information about cell types, SpatialSort outperforms current methods and can perform automated annotation of clusters.
dRFEtools: Dynamic recursive feature elimination for omics
Authors: Benjamin Kynon JM , Katipalli Tarun , Paquola Apuã CM 
Published: July 2022

AbstractTechnology advances have generated larger omics datasets with applications for machine learning. Even so, in many datasets, the number of measured features greatly exceeds the number of observations or experimental samples. Dynamic recursive feature elimination (RFE) provides a flexible feature elimination framework to tackle this problem and to gain biological insight by selecting feature sets that are relevant for prediction. Here, we developed dRFEtools that implements dynamic RFE, and show that it reduces computational time with high accuracy compared to RFE. Given a prediction task on a dataset, dRFEtools identifies a minimal, non-redundant, set of features and a functionally redundant set of features leading to higher prediction accuracy compared to RFE. We demonstrate dRFEtools’ ability to identify biologically relevant information from genomic data using RNA-Seq and genotype data from the BrainSeq Consortium. dRFEtools provides an interpretable and flexible tool to gain biological insights from omics data using machine learning.
A learning experience elicits sex-dependent neurogenomic responses in Bicyclus anynana butterflies
Authors: Ernst David A. , Agcaoili Gabrielle A. , Merrill Abbigail N. , Westerman Erica L. 
Published: July 2022

AbstractSexually dimorphic behavior is pervasive across animals, with males and females exhibiting different mate selection, parental care, foraging, dispersal, and territorial strategies. However, the genetic underpinnings of sexually dimorphic behaviors are poorly understood. Here we investigate gene networks and expression patterns associated with sexually dimorphic imprinting-like learning in the butterfly Bicyclus anynana. In this species, both males and females learn visual preferences, but learn preferences for different traits and use different signals as salient, unconditioned cues. To identify genes and gene networks associated with this behavior, we examined gene expression profiles of the brains and eyes of male and female butterflies immediately post training and compared them to the same tissues of naïve individuals. We found more differentially expressed genes and a greater number of significant gene networks in the eye, indicating a role of the peripheral nervous system in visual imprinting-like learning. Females had higher chemoreceptor expression levels than males, supporting the hypothesized sexual dimorphic use of chemical cues during the learning process. In addition, genes that influence B. anynana wing patterns (sexual ornaments), such as invected, spalt, and apterous, were also differentially expressed in the brain and eye, suggesting that these genes may influence both sexual ornaments and the preferences for these ornaments. Our results indicate dynamic and sex-specific responses to social scenario in both the peripheral and central nervous systems and highlight the potential role of wing patterning genes in mate preference and learning across the Lepidoptera.
First experimental evidence for active farming in ambrosia beetles and strong heredity of garden microbiomes
Authors: Diehl Janina M.C. , Kowallik Vienna , Keller Alexander , Biedermann Peter H. W. 
Published: July 2022

AbstractFungal cultivation is a defining feature for advanced agriculture in attine ants and fungus-farming termites. In a third supposedly fungus-farming group, wood-colonizing ambrosia beetles (Curculionidae: Scolytinae and Platypodinae), an experimental proof for the effectiveness of beetle activity for selective promotion of their food fungi over others is lacking and farming has only been assumed based on observations of social and hygienic behaviors.Here, we experimentally removed mothers and their offspring from young nests of the fruit-tree pinhole borer,Xyleborinus saxesenii(Scolytinae). By amplicon sequencing of bacterial and fungal communities of nests with and without beetles we could show that beetles are indeed able to actively shift symbiont communities. Although being consumed, theRaffaeleafood fungi were more abundant when beetles were present while a weed fungus (Chaetomium sp.) as well as overall bacterial diversity were reduced in comparison to nests without beetles. Core symbiont communities were generally low diverse and there were strong signs for vertical transmission not only for the cultivars, but also for secondary symbionts. Our findings verify the existence of active farming, even though the exact mechanisms underlying the selective promotion and/or suppression of symbionts need further investigation.
BRAFV600E expression in thyrocytes causes recruitment of immunosuppressive STABILIN-1 macrophages
Authors: Spourquet C , Delcorte O , Lemoine P , Dauguet N , Loriot A , Achouri Y , Hollmén M , Jalkanen S , Huaux F , Lucas S , Van Meerbeeck P , Knauf JA , Fagin JA , Dessy C , Mourad M , Henriet P , Tyteca D , Marbaix E , Pierreux CE 
Published: July 2022

AbstractPapillary thyroid carcinoma (PTC) is the most frequent histological subtype of thyroid cancers (TC), and BRAFV600E genetic alteration is found in 60% of this endocrine cancer. This oncogene is associated with poor prognosis, resistance to radioiodine therapy and tumor progression. Histological follow-up by anatomo-pathologists reveals that 2/3 of surgically-removed thyroids do not present malignant lesions. Continued fundamental research into the molecular mechanisms of TC downstream of BRAFV600E remains thus central to better understand the clinical behavior of these tumors.To study PTC, we used a mouse model in which expression of BRAFV600E is specifically switched on in thyrocytes by doxycycline administration. Upon daily intraperitoneal doxycycline injection, thyroid tissue rapidly acquired histological features mimicking human PTC. Transcriptomic analysis revealed major changes in immune signaling pathways upon BRAFV600E induction. Multiplex immunofluorescence confirmed the abundant recruitment of macrophages, among which a population of LYVE-1+/CD206+/STABILIN-1+ was dramatically increased. By genetically inactivating the gene coding for the scavenger receptor STABILIN-1, we showed an increase of CD8+ T cells in this in situ BRAFV600E dependent TC. Finally, we demonstrated the presence of CD206+/STABILIN-1+ macrophages in human thyroid pathologies. Altogether, we revealed the recruitment of immunosuppressive STABILIN-1 macrophages a PTC mouse model and the relevance of these observations in human thyroid tissues.
Cardiolipin coordinates inflammatory metabolic reprogramming through regulation of Complex II assembly and stability
Authors: Reynolds Mack B. , Hong Hanna S. , Michmerhuizen Britton C , Lawrence Anna-Lisa E. , Zhang Li , Knight Jason S. , Lyssiotis Costas A. , Abuaita Basel H. , O’Riordan Mary X. 
Published: July 2022

AbstractMacrophage metabolic plasticity enables repurposing of electron transport from energy generation to inflammation and host defense. Altered Respiratory Complex II function has been implicated in cancer, diabetes and inflammation but regulatory mechanisms are incompletely understood. Here we show that macrophage inflammatory activation triggers Complex II disassembly and succinate dehydrogenase-B subunit loss through sequestration and mitophagy. Mitochondrial fission was required for lipopolysaccharide-stimulated succinate dehydrogenase-B degradation but not sequestration. We hypothesized that this Complex II regulatory mechanism might be coordinated by the mitochondrial phospholipid cardiolipin. Cardiolipin synthase knockdown prevented lipopolysaccharide-induced metabolic remodeling and Complex II disassembly, sequestration and degradation. Cardiolipin-depleted macrophages were defective in lipopolysaccharide-induced pro-inflammatory cytokine production, a phenotype partially rescued by Complex II inhibition. Thus, cardiolipin acts as a critical organizer of inflammatory metabolic remodeling.
The nervous system leverages the non-linear properties of the Achilles tendon to regulate ankle impedance during postural control
Authors: Jakubowski Kristen L. , Ludvig Daniel , Perrault Eric J. , Lee Sabrina S.M. 
Published: July 2022

ABSTRACTRegulating ankle impedance is essential for controlled interactions with the environment and rejecting unexpected disturbances. Ankle impedance in the sagittal plane depends strongly on the triceps surae and Achilles tendon, but their relative contributions remain unknown. It is commonly assumed that ankle impedance is controlled by changing muscle activation and, thereby, muscle impedance, but this ignores the fact that tendon impedance also changes with loading caused by increases in muscle activation. Thus, we sought to determine the relative contributions from the triceps surae and Achilles tendon during conditions relevant to postural control. We used a novel technique that combines B-mode ultrasound imaging with joint-level perturbations to quantify ankle, muscle, and tendon impedance simultaneously across activation levels from 0 – 30% of maximum voluntary contraction. We found that muscle and tendon stiffness, the static component of impedance, increased with voluntary plantarflexion contractions, but that muscle stiffness exceeded tendon stiffness at very low loads (21 ± 7 N). Above these loads, corresponding to 1.3% of maximal strength for an average participant in our study, ankle stiffness was determined predominately by Achilles tendon stiffness. Hence, the nervous system leverages the non-linear properties of the Achilles tendon to increase ankle stiffness during postural conditions.
Spatial frequency representation in V2 and V4 of macaque monkey
Authors: Zhang Ying , Schriver Kenneth E. , Hu Jia Ming , Roe Anna Wang 
Published: July 2022

AbstractSpatial frequency (SF) is an important attribute in the visual scene and is a defining feature of visual processing channels. However there remains many unsolved questions about how primate visual cortex, in particular extrastriate areas V2 and V4, codes this fundamental information. Here, using intrinsic signal optical imaging in visual cortex of Macaque monkeys, we quantify the relationship between spatial frequency maps and (1) visual topography, (2) color and orientation maps, and (3) across visual areas V1, V2, and V4. We find that in orientation regions, low to high spatial frequency is mapped orthogonally to orientation; however, in color regions, which is reported to contain orthogonal axes of color and lightness, only low spatial frequencies are represented without a gradient of SF representation. This produces the first observation of a population spatial frequency fluctuation related to the repeating color/orientation organizations. These findings support a generalized hypercolumn model across cortical areas, comprised of two orthogonal parameters with additional parameters.
High intraspecific growth variability despite strong evolutionary heritage in a neotropical forest
Authors: Schmitt Sylvain , Hérault Bruno , Derroire Géraldine 
Published: July 2022

AbstractIndividual tree growth is a key determinant of species performance and a driver of forest dynamics and composition. Previous studies on tree growth unravelled the variation in species growth as a function of demographic trade-offs that are partially predicted using functional traits. They have explored the environmental determinants of species growth potential and the variation of intraspecific growth over space and time due to environment and biotic factors. However, variation in individual growth within species remains underexplored for a whole community and the relative role of species’ evolutionary heritage and of local environments remains unquantified. Here, based on 36 years of diameter records for thousands of mapped individuals belonging to 138 species, we assessed individual tree growth potential in a local neotropical forest community in the Amazon basin. We further related variation in individual growth potential with taxonomic levels, local topography, and neighbourhood crowding, before exploring species growth potential link to functional traits and distribution along the phylogeny. We found that most of the variation in growth potential was individual, and that taxonomic structure explained a third of the observed variation. Species growth potential was phylogenetically conserved with positive conservatism up to the genus level in the vast majority of species. Functional traits of roots, wood and leaves together predicted species growth potential. Phylogeny suggested joint selection of species’ growth strategies and associated functional traits during convergent evolutions. Finally, neighbourhood crowding had a significant effect on individual growth potential, although much of this inter-individual variation remains largely unexplained and the underlying ecological and evolutionary factors are still little explored. The high intraspecific variation observed could allow individuals in these hyperdiverse ecosystems to respond to the variable light and competitive conditions offered by successional niches during forest gap dynamics.