bluuebunny/crossref_metadata_2025_split huggingface dataset:
A multi-registry analysis of military and civilian penetrating cervical carotid artery injury
Authors: Ronaldi Alley E. , Polcz Jeanette E. , Robertson Henry T. , Walker Patrick F. , Bozzay Joseph D. , Dubose Joseph J. , White Paul W. , Rasmussen Todd E. , White Joseph M. 
Published: May 2021

INTRODUCTION
Penetrating cervical carotid artery injury is an uncommon but high-stake scenario associated with stroke and death. The objective of this study was to characterize and compare penetrating carotid injury in the military and civilian setting, as well as provide considerations for management.

METHODS
Cohorts with penetrating cervical carotid artery injury from the Department of Defense Trauma Registry (2002–2015) and the American Association for the Surgery of Trauma Prospective Observation Vascular Injury Treatment Registry (2012–2018) were analyzed. A least absolute shrinkage and selection operator multivariate analysis using random forest-based imputation was performed to identify risk factors affecting stroke and mortality.

RESULTS
There were a total of 157 patients included in the study, of which 56 (35.7%) were military and 101 (64.3%) were civilian. The military cohort was more likely to have been managed with open surgery (87.5% vs. 44.6%, p < 0.001) and to have had any procedure to restore or maintain flow to the brain (71.4% vs. 35.6%, p < 0.001), while the civilian cohort was more likely to undergo nonoperative management (45.5% vs. 12.5%, p < 0.001). Stroke rate was higher within the military cohort (41.1% vs. 13.9%, p < 0.001); however, mortality did not differ between the groups (12.5% vs. 17.8%, p = 0.52). On multivariate analysis, predictors for stroke were presence of a battle injury (log odds, 2.1; p < 0.001) and internal or common carotid artery ligation (log odds 1.5, p = 0.009). For mortality outcome, protective factors included a high Glasgow Coma Scale on admission (log odds, −0.21 per point; p < 0.001). Increased admission Injury Severity Score was a predictor of mortality (log odds, 0.05 per point; p = 0.005).

CONCLUSION
The stroke rate was higher in the military cohort, possibly reflecting complexity of injury; however, there was no difference in mortality between military and civilian patients. For significant injuries, concerted efforts should be made at carotid reconstruction to reduce the occurrence of stroke.

LEVEL OF EVIDENCE
Retrospective cohort analysis, level III.
Covid-19 and Mental Health of Individuals with Different Personalities
Authors: Proto Eugenio , Zhang Anwen 
Published: May 2021

AbstractSeveral studies have been devoted to establishing the effects of the Covid-19 pandemic on mental health across gender, age and ethnicity. However, much less attention has been paid to the differential effect of lockdown according to different personalities. We do this using the UKHLS longitudinal dataset, representative of the UK population. The UKHLS dataset allows us to assess the mental health of the same respondent during the Covid-19 period and the year before based on their personality “Big Five” traits and cognitive skills. We find that during the Covid-19 period individuals who have more Extrovert and Open personality report a higher mental health deterioration, while the ones scoring higher in Agreeableness are less affected. The effect of Openness is particularly strong: one more standard deviation predict one more symptom on the GHQ12 test for about 1 respondent over 4. In female respondents, Cognitive Skills and Openness are particularly strong predictors of deterioration. Neuroticism seems to predict more mental health deterioration, as it is normal to expect, but this effect is not significant in the main specifications of the estimated model. The study’s results are robust to the inclusion of potential confounding variables such as changes in: physical health, household income and job status (like unemployed or furloughed).
PROMIS scales for assessment of the impact of post-COVID syndrome: A Cross Sectional Study
Authors: Ganesh Ravindra , Ghosh Aditya K , Nyman Mark A , Croghan Ivana T , Grach Stephanie L , Anstine Christopher V , Hurt Ryan T 
Published: May 2021

AbstractThe post-COVID syndrome is estimated to occur in up to 10% of patients who have had COVID-19. This condition manifests as lingering symptoms which persist for weeks to months after resolution of the acute illness. The syndrome is poorly understood and efforts are just beginning to appropriately characterize the symptoms expressed by this population. We present a population of patients with persistent symptoms as measured by a select number of PROMIS surveys (i.e. fatigue, sleep, pain, physical functioning, and social roles). We believe this to be the first use of the PROMIS survey data collected in this population and one of the first to attempt to measure social dysfunction secondary to the post-COVID syndrome. Our patient population is notably younger (30.9% were between 40-59 years of age), with a majority being female (60.5%). They also reported deficits in social roles (34.5%), and greater fatigue (14.7%), and pain (15.9%); along with a variety of disease severity ranging from asymptomatic to requiring admission. Despite this increased heterogeneity of population, the symptomatology of the post-COVID syndrome is preserved. These findings differ significantly from previously published data that demonstrated that outpatients can have duration of post-COVID syndrome similar to those who were hospitalized.
Convolutional neural networks trained with a developmental sequence of blurry to clear images reveal core differences between face and object processing
Authors: Jang Hojin , Tong Frank 
Published: May 2021

AbstractAlthough convolutional neural networks (CNNs) provide a promising model for understanding human vision, most CNNs lack robustness to challenging viewing conditions such as image blur, whereas human vision is much more reliable. Might robustness to blur be attributable to vision during infancy, given that acuity is initially poor but improves considerably over the first several months of life? Here, we evaluated the potential consequences of such early experiences by training CNN models on face and object recognition tasks while gradually reducing the amount of blur applied to the training images. For CNNs trained on blurry to clear faces, we observed sustained robustness to blur, consistent with a recent report by Vogelsang and colleagues (2018). By contrast, CNNs trained with blurry to clear objects failed to retain robustness to blur. Further analyses revealed that the spatial frequency tuning of the two CNNs was profoundly different. The blurry to clear face-trained network successfully retained a preference for low spatial frequencies, whereas the blurry to clear object-trained CNN exhibited a progressive shift toward higher spatial frequencies. Our findings provide novel computational evidence showing how face recognition, unlike object recognition, allows for more holistic processing. Moreover, our results suggest that blurry vision during infancy is insufficient to account for the robustness of adult vision to blurry objects.
Midfrontal theta tACS facilitates motor coordination in dyadic human-avatar motor interactions
Authors: Boukarras Sarah , Özkan Duru Gun , Era Vanessa , Moreau Quentin , Tieri Gaetano , Candidi Matteo 
Published: May 2021

SummarySynchronous interpersonal motor interactions require moment-to-moment predictions and proactive monitoring of the partner’s actions. Neurophysiologically, this is highlighted by an enhancement of midfrontal theta activity. In the present study we explored the causal role of midfrontal theta for interpersonal motor interactions employing transcranial alternating current stimulation (tACS). We implemented a realistic human-avatar interaction task in immersive virtual reality (IVR) where participants controlled a virtual arm and hand to press a button synchronously with a virtual partner. Participants completed the task while receiving theta (Experiment 1) or beta (control frequency, Experiment 2) EEG-informed tACS over the frontal midline, as well as sham stimulation as a control. Results showed that frontal theta tACS significantly improved behavioural performance (by reducing interpersonal asynchrony) and participants’ motor strategies (by increasing movement times and reducing reaction times), while beta tACS had no effect on these measures. These results suggest that theta tACS over frontal areas facilitates action monitoring and motor abilities supporting interpersonal interactions.
Genome-wide evolutionary response of European oaks since the Little Ice Age
Authors: Saleh Dounia , Chen Jun , Leplé Jean-Charles , Leroy Thibault , Truffaut Laura , Dencausse Benjamin , Lalanne Céline , Labadie Karine , Lesur Isabelle , Bert Didier , Lagane Frédéric , Morneau François , Aury Jean-Marc , Plomion Christophe , Lascoux Martin , Kremer Antoine 
Published: May 2021

ABSTRACTThe pace of tree microevolution during Anthropocene warming is largely unknown. We used a retrospective approach to monitor genomic changes in oak trees since the Little Ice Age (LIA). Allelic frequency changes were assessed from whole-genome pooled sequences for four age-structured cohorts of sessile oak (Quercus petraea) dating back to 1680, in each of three different oak forests in France. The genetic covariances of allelic frequency changes increased between successive time periods, highlighting genome-wide effects of linked selection. We found imprints of convergent linked selection in the three forests during the late LIA, and a shift of selection during more recent time periods. The changes in allelic covariances within and between forests mirrored the documented changes in the occurrence of extreme events (droughts and frosts) over the last three hundred years. The genomic regions with the highest covariances were enriched in genes involved in plant responses to pathogens and abiotic stresses (temperature and drought). These responses are consistent with the reported sequence of frost (or drought) and disease damage ultimately leading to the oak dieback after extreme events. Our results therefore provide evidence of selection operating on long-lived species during recent climatic changes.
Towards increased shading potential: a combined phenotypic and genetic analysis of rice shoot architecture
Authors: Huber Martina , Julkowska Magdalena M. , Snoek Basten L. , van Veen Hans , Toulotte Justine , Kumar Virender , Kajala Kaisa , Sasidharan Rashmi , Pierik Ronald 
Published: May 2021

AbstractRice feeds more than half of the world’s human population. In modern rice farming, a major constraint for productivity is weed proliferation and the ecological impact of herbicide application. Increased weed competitiveness of commercial rice varieties requires enhanced shade casting to limit growth of shade-sensitive weeds and the need for herbicide. We aimed to identify traits that enhance rice shading capacity based on the canopy architecture and the underlying genetic components. We performed a phenotypic screen of a rice diversity panel comprised of 344 varieties, examining 13 canopy architecture traits linked with shading capacity in 4-week-old plants. The analysis revealed a vast range of phenotypic variation across the diversity panel. We used trait correlation and clustering to identify core traits that define shading capacity to be shoot area, number of leaves, culm and solidity (the compactness of the shoot). To simplify the complex canopy architecture, these traits were combined into a Shading Rank metric that is indicative of a plant’s ability to cast shade. Genome wide association study (GWAS) revealed genetic loci underlying canopy architecture traits, out of which five loci were substantially contributing to shading potential. Subsequent haplotype analysis further explored allelic variation and identified seven haplotypes associated with increased shading. Identification of traits contributing to shading capacity and underlying allelic variation presented in this study will serve future genomic assisted breeding programmes. The investigated diversity panel, including widely grown varieties, shows that there is big potential and genetic resources for improvement of elite breeding lines. Implementing increased shading in rice breeding will make its farming less dependent on herbicides and contribute towards more environmentally sustainable agriculture.One sentence summaryThrough screening a rice diversity panel for variation in shoot architecture, we identified traits corresponding to plant shading potential and their genetic constituents.
Extraordinarily Precise Nematode Sex Ratios: Adaptive Responses to Vanishingly Rare Mating Options
Authors: Van Goor Justin , Herre Edward Allen , Gómez Adalberto , Nason John D. 
Published: May 2021

AbstractSex ratio theory predicts both mean sex ratio and variance under a range of population structures. Here, we compare two genera of phoretic nematodes (Parasitodiplogaster and Ficophagus spp.) associated with twelve fig-pollinating wasp species in Panama. The host wasps exhibit classic Local Mate Competition: only inseminated females disperse from natal figs, and their offspring form mating pools that consist of scores of the adult offspring contributed by one or a few foundress mothers. In contrast, in both nematode genera, only sexually undifferentiated juveniles disperse, and their mating pools routinely consist of eight or fewer adults. Across all mating pool sizes, the sex ratios observed in both nematode genera are consistently female-biased (~0.34 males), which is markedly less female-biased than is often observed in the host wasps (~0.10 males). In further contrast with their hosts, variances in nematode sex ratios are also consistently precise (significantly less than binomial). The constraints associated with predictably small mating pools within highly subdivided populations appear to select for precise sex ratios that contribute both to the reproductive success of individual nematodes, and to the evolutionary persistence of nematode species. We suggest that some form of environmental sex determination underlies these precise sex ratios.
Uncovering Interpretable Fine-Grained Phenotypes of Subcellular Dynamics through Unsupervised Self-Training of Deep Neural Networks
Authors: Wang Chuangqi , Choi Hee June , Woodbury Lucy , Lee Kwonmoo 
Published: May 2021

AbstractLive cell imaging provides unparallel insights into dynamic cellular processes across spatiotemporal scales. Despite its potential, the inherent spatiotemporal heterogeneity within live cell imaging data often obscures critical mechanical details underlying cellular dynamics. Uncovering fine-grained phenotypes of live cell dynamics is pivotal for precise understandings of the heterogeneity of physiological and pathological processes. However, this endeavor introduces formidable technical challenges to unsupervised machine learning, demanding the extraction of features that can faithfully preserve heterogeneity, effectively discriminate between different molecularly perturbed states, and provide interpretability. While deep learning shows promise in extracting useful features from large datasets, it often falls short in producing such high-fidelity features, especially in unsupervised learning settings. To tackle these challenges, we present DeepHACX (Deep phenotyping of Heterogeneous Activities of Cellular dynamics with eXplanations), a self-training deep learning framework designed for fine-grained and interpretable phenotyping. This framework seamlessly integrates an unsupervised teacher model with interpretable features to facilitate feature learning in a student deep neural network (DNN). Significantly, it incorporates an autoencoder-based regularizer, termed SENSER (SENSitivity-enhancing autoEncoding Regularizer), designed to prompt the student DNN to maximize the heterogeneity associated with molecular perturbations. This approach enables the acquisition of features that not only discriminate between different molecularly perturbed states but also faithfully preserve the heterogeneity linked to these perturbations. In our study, DeepHACX successfully delineated fine-grained phenotypes within the heterogeneous protrusion dynamics of migrating epithelial cells, uncovering specific responses to pharmacological perturbations. Remarkably, DeepHACX adeptly captured a minimal number of highly interpretable features uniquely linked to these fine-grained phenotypes, each corresponding to specific temporal intervals crucial for their manifestation. This unique capability positions DeepHACX as a valuable tool for investigating diverse cellular dynamics and comprehensively studying their heterogeneity.
Longitudinal immune dynamics of mild COVID-19 define signatures of recovery and persistence
Authors: Talla Aarthi , Vasaikar Suhas V. , Lemos Maria P. , Moodie Zoe , Lee Pebworth Mark-Phillip , Henderson Kathy E. , Cohen Kristen W. , Czartoski Julie L. , Lai Lilin , Suthar Mehul S. , Heubeck Alexander T , Genge Palak C. , Roll Charles R. , Weiss Morgan , Reading Julian , Kondza Nina , MacMillan Hugh , Fong Olivia C. , Thomson Zachary James , Graybuck Lucas T. , Okada Lauren Y. , Newell Evan W. , Coffey Ernest M. , Meijer Paul , Becker Lynne A. , De Rosa Stephen C. , Skene Peter J. , Torgerson Troy R. , Li Xiao-jun , Szeto Gregory Lee , McElrath M. Juliana , Bumol Thomas F. 
Published: May 2021

SummarySARS-CoV-2 has infected over 200 million and caused more than 4 million deaths to date. Most individuals (>80%) have mild symptoms and recover in the outpatient setting, but detailed studies of immune responses have focused primarily on moderate to severe COVID-19. We deeply profiled the longitudinal immune response in individuals with mild COVID-19 beginning with early time points post-infection (1-15 days) and proceeding through convalescence to >100 days after symptom onset. We correlated data from single cell analyses of peripheral blood cells, serum proteomics, virus-specific cellular and humoral immune responses, and clinical metadata. Acute infection was characterized by vigorous coordinated innate and adaptive immune activation that differed in character by age (young vs. old). We then characterized signals associated with recovery and convalescence to define and validate a new signature of inflammatory cytokines, gene expression, and chromatin accessibility that persists in individuals with post-acute sequelae of SARS-CoV-2 infection (PASC).
How do symbiotic associations in lecideoid lichens respond to different environmental conditions along the Transantarctic Mountains, Ross Sea region, Antarctica?
Authors: Wagner Monika , Brunauer Georg , Bathke Arne C. , Cary S. Craig , Fuchs Roman , Sancho Leopoldo G. , Türk Roman , Ruprecht Ulrike 
Published: May 2021

AbstractLecideoid lichens as dominant vegetation-forming organisms in the climatically harsh areas of the southern part of continental Antarctica show clear preferences in relation to environmental conditions (i.e. macroclimate). 306 lichen samples were included in the study, collected along the Ross Sea coast (78°S–85.5°S) at six climatically different sites. The species compositions as well as the associations of their two dominant symbiotic partners (myco- and photobiont) were set in context with environmental conditions along the latitudinal gradient. Diversity values were nonlinear with respect to latitude, with the highest alpha diversity in the milder areas of the McMurdo Dry Valleys (78°S) and the most southern areas (Durham Point, 85.5°S; Garden Spur, 84.5°S), and lowest in the especially arid and cold Darwin Area (~79.8°S). Furthermore, the specificity of mycobiont species towards their photobionts decreased under more severe climate conditions. The generalist lichen speciesLecanora fuscobrunneaandLecidea cancriformiswere present in almost all habitats, but were dominant in climatically extreme areas.Carbonea vorticosa, Lecidella greeniiandRhizoplaca macleaniiwere confined to milder areas.In summary, the macroclimate is considered to be the main driver of species distribution, making certain species useful as bioindicators of climate conditions and, consequently, for detecting climate change.
Systemic infection with highly pathogenic H5N8 of avian origin produces encephalitis and mortality in wild mammals at a UK rehabilitation centre
Authors: Floyd Tobias , Banyard Ashley C. , Lean Fabian Z. X. , Byrne Alexander M. P. , Fullick Edward , Whittard Elliot , Mollett Benjamin C. , Bexton Steve , Swinson Vanessa , Macrelli Michele , Lewis Nicola S. , Reid Scott M. , Núñez Alejandro , Duff J. Paul , Hansen Rowena , Brown Ian H. 
Published: May 2021

AbstractEurope has experienced extensive outbreaks of highly pathogenic avian influenza (HPAI) during the autumn/winter 2020/21 season. These avian influenza A viruses are highly transmissible and have infected over 1000 commercial and backyard poultry premises in Europe in this period causing high mortality. The impact on wild bird populations has also been significant, with over 400 detections in at least 47 different species reported across Europe as being positive with the H5N8 virus. Although different H5Nx combinations within the H5 clade 2.3.4.4b have been detected, the H5N8 subtype has predominated both in wild birds and domestic poultry outbreaks. In the UK there have been 22 outbreaks of H5N8 in domestic poultry and captive birds and more than 300 wild bird detections involving H5N8 over the autumn/winter 2020/21 period to April 2021. Here we detail the series of events surrounding the detection of an H5N8 influenza A virus of avian origin in five swans, a fox and three seals in a wildlife rehabilitation centre.
Fibronectin meshwork controls epithelial stem cell fate
Authors: Estrach Soline , Tosello Lionel , Tissot Floriane S. , Cailleteau Laurence , Cervera Ludovic , Jensen Kim B , Féral Chloé C. 
Published: May 2021

ABSTRACTAdult stem cell fate is tightly balanced by the local microenvironment called niche and sustain tissue regeneration1–4. How niche signals are integrated and regulate regeneration remains largely unexplored. The extracellular matrix and integrin ligand fibronectin is a crucial and well-characterized wound healing actor that has never been involved in skin regeneration. Here, we show that fibronectin displays a highly specific enrichment in hair follicle stem cells (HFSC) at the onset of regeneration. Conditional deletion of fibronectin in HFSC compartment (Lrig1, K19) leads to hair regeneration blockade, impaired stem cell location and fate. Dermal injection of exogenous fibronectin rescues these phenotypes. To elucidate molecular mechanism underlying fibronectin function, we used conditional deletion models of SLC3A2, the main integrin coreceptor. We show that, via its role in integrin-dependent assembly of fibronectin matrix, SLC3A2 acts as molecular relay of niche signals. Thus, fibronectin-integrin-SLC3A2 cascade finely tunes HFSC fate and tissue regenerative power.