bluuebunny/crossref_metadata_2025_split huggingface dataset:
Seroprevalence of SARS-CoV-2 antibodies in over 6000 healthcare workers in Spain
Authors: Varona Jose F , Madurga Rodrigo , Peñalver Francisco , Abarca Elena , Almirall Cristina , Cruz Marta , Ramos Enrique , Castellano Vázquez Jose María 
Published: December 2020

Abstract

Background
Spain has one of the highest incidences of coronavirus disease 2019 (COVID-19) worldwide, so Spanish health care workers (HCW) are at high risk of exposure. Our objective was to determine severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) antibody seroprevalence amongst HCW and factors associated with seropositivity.

Methods
A cross-sectional study evaluating 6190 workers (97.8% of the total workforce of a healthcare-system of 17 hospitals across four regions in Spain) was carried out between April and June 2020, by measuring immunoglobulin G (IgG)-SARS-CoV-2 antibody titres and related clinical data. Exposure risk was categorized as high (clinical environment; prolonged/direct contact with patients), moderate (clinical environment; non-intense/no patient contact) and low (non-clinical environment).

Results
A total of 6038 employees (mean age 43.8 years; 71% female) were included in the final analysis. A total of 662 (11.0%) were seropositive for IgG against SARS-CoV-2 (39.4% asymptomatic). Adding available PCR-testing, 713 (11.8%) employees showed evidence of previous SARS-CoV-2 infection. However, before antibody testing, 482 of them (67%) had no previous diagnosis of SARS-CoV-2-infection. Seroprevalence was higher in high- and moderate-risk exposure (12.1 and 11.4%, respectively) compared with low-grade risk subjects (7.2%), and in Madrid (13.8%) compared with Barcelona (7.6%) and Coruña (2.0%). High-risk [odds ratio (OR): 2.06; 95% confidence interval (CI): 1.63–2.62] and moderate-risk (OR: 1.77; 95% CI: 1.32–2.37) exposures were associated with positive IgG-SARS-CoV-2 antibodies after adjusting for region, age and sex. Higher antibody titres were observed in moderate–severe disease (median antibody-titre: 13.7 AU/mL) compared with mild (6.4 AU/mL) and asymptomatic (5.1 AU/mL) infection, and also in older (&gt;60 years: 11.8 AU/mL) compared with younger (&lt;30 years: 4.2 AU/mL) people.

Conclusions
Seroprevalence of IgG-SARS-CoV-2 antibodies in HCW is a little higher than in the general population and varies depending on regional COVID-19 incidence. The high rates of subclinical and previously undiagnosed infection observed in this study reinforce the utility of antibody screening. An occupational risk for SARS-CoV-2 infection related to working in a clinical environment was demonstrated in this HCW cohort.
The Burden of and Trends in Pelvic Inflammatory Disease in the United States, 2006–2016
Authors: Kreisel Kristen M , Llata Eloisa , Haderxhanaj Laura , Pearson William S , Tao Guoyu , Wiesenfeld Harold C , Torrone Elizabeth A 
Published: December 2020

Abstract

Background
Pelvic inflammatory disease (PID) is an infection of the upper genital tract that has important reproductive consequences to women. We describe the burden of and trends in PID among reproductive-aged women in the United States during 2006–2016.

Methods
We used data from 2 nationally representative probability surveys collecting self-reported PID history (National Health and Nutrition Examination Survey, National Survey of Family Growth); 5 datasets containing International Classification of Diseases, Ninth/Tenth Revision codes indicating diagnosed PID (Healthcare Utilization Project; National Hospital Ambulatory Medical Care Survey, emergency department component; National Ambulatory Medical Care Survey; National Disease Therapeutic Index; MarketScan); and data from a network of sexually transmitted infection (STI) clinics (Sexually Transmitted Disease Surveillance Network). Trends during 2006–2016 were estimated overall, by age group and, if available, race/ethnicity, region, and prior STIs.

Results
An estimated 2 million reproductive-aged women self-reported a history of PID. Three of 4 nationally representative data sources showed overall declines in a self-reported PID history, and PID emergency department and physician office visits, with small increases observed in nearly all data sources starting around 2015.

Conclusions
The burden of PID in the United States is high. Despite declines in burden over time, there is evidence of an increase in recent years.
Risk for Clostridioides difficile Infection Among Hospitalized Patients Associated With Multiple Healthcare Exposures Prior to Admission
Authors: Miller Aaron C , Sewell Daniel K , Segre Alberto M , Pemmaraju Sriram V , Polgreen Philip M 
Published: December 2020

Abstract

Background
Clostridioides difficile infection (CDI) is a common healthcare-associated infection and is often used as an indicator of hospital safety or quality. However, healthcare exposures occurring prior to hospitalization may increase risk for CDI. We conducted a case-control study comparing hospitalized patients with and without CDI to determine if healthcare exposures prior to hospitalization (ie, clinic visits, antibiotics, family members with CDI) were associated with increased risk for hospital-onset CDI, and how risk varied with time between exposure and hospitalization.

Methods
Records were collected from a large insurance-claims database from 2001 to 2017 for hospitalized adult patients. Prior healthcare exposures were identified using inpatient, outpatient, emergency department, and prescription drug claims; results were compared between various CDI case definitions.

Results
Hospitalized patients with CDI had significantly more frequent healthcare exposures prior to admission. Healthcare visits, antibiotic use, and family exposures were associated with greater likelihood of CDI during hospitalization. The degree of association diminished with time between exposure and hospitalization. Results were consistent across CDI case definitions.

Conclusions
Many different prior healthcare exposures appear to increase risk for CDI presenting during hospitalization. Moreover, patients with CDI typically have multiple exposures prior to admission, confounding the ability to attribute cases to a particular stay.
Patient and clinician experience with a rapidly implemented large-scale video consultation program during COVID-19
Authors: BARKAI Galia , GADOT Moran , AMIR Hadar , MENASHE Michal , SHVIMER-ROTHSCHILD Lilach , ZIMLICHMAN Eyal 
Published: December 2020

Abstract

Background
The coronavirus disease 2019 (COVID-19) pandemic has forced health-care providers to find creative ways to allow continuity of care in times of lockdown. Telemedicine enables provision of care when in-person visits are not possible. Sheba Medical Center made a rapid transition of outpatient clinics to video consultations (VC) during the first wave of COVID-19 in Israel.

Objective
Results of a survey of patient and clinician user experience with VC are reported.

Methods
Satisfaction surveys were sent by text messages to patients, clinicians who practice VC (users) and clinicians who do not practice VC (non-users). Questions referred to general satisfaction, ease of use, technical issues and medical and communication quality. Questions and scales were based on surveys used regularly in outpatient clinics of Sheba Medical Center.

Results
More than 1200 clinicians (physicians, psychologists, nurses, social workers, dietitians, speech therapists, genetic consultants and others) provided VC during the study period. Five hundred and forty patients, 162 clinicians who were users and 50 clinicians who were non-users completed the survey. High level of satisfaction was reported by 89.8% of patients and 37.7% of clinician users. Technical problems were experienced by 21% of patients and 80% of clinician users. Almost 70% of patients but only 23.5% of clinicians found the platform very simple to use. Over 90% of patients were very satisfied with clinician’s courtesy, expressed a high sense of trust, thought that clinician’s explanations and recommendations were clear and estimated that the clinician understood their problems and 86.5% of them would recommend VC to family and friends. Eighty-seven percent of clinician users recognize the benefit of VC for patients during the COVID-19 pandemic but only 68% supported continuation of the service after the pandemic.

Conclusion
Our study reports high levels of patient satisfaction from outpatient clinics VC during the COVID-19 pandemic. Lower levels of clinician satisfaction can mostly be attributed to technical and administrative challenges related to the newly implemented telemedicine platform. Our findings support the continued future use of VC as a means of providing patient-centered care. Future steps need to be taken to continuously improve the clinical and administrative application of telemedicine services.
Burkitt’s lymphoma: an unexpected cause of dental pain
Authors: Parker William D , Jones Keith 
Published: December 2020

Abstract
We would like to describe a case of Burkitt’s lymphoma in a 37-year-old lady, who initially presented to her General Dental Practitioner (GDP) complaining of pain and episodic numbness in the right lip and chin. The initial diagnosis was irreversible pulpitis of the lower right second molar (LR7) and despite having an extraction of the affected tooth her problems persisted. The patient also developed pain in the spine and limbs, accompanied by lethargy and weakness.
After seeing multiple different practitioners, she was referred to her local Oral and Maxillofacial Surgery department. Cross-sectional imaging was requested and demonstrated disseminated malignancy. Histology following open trans-oral biopsy revealed a diagnosis of Burkitt’s lymphoma prompting an urgent haematology referral, and she successfully completed a chemotherapy regimen. This case highlights the importance of a thorough diagnostic process in the presence of persistent and/or atypical symptoms.
Leaf elongation response to blue light is mediated by stomatal-induced variations in transpiration in Festuca arundinacea
Authors: Barillot Romain , De Swaef Tom , Combes Didier , Durand Jean-Louis , Escobar-Gutiérrez Abraham J , Martre Pierre , Perrot Cédric , Roy Eric , Frak Elzbieta 
Published: December 2020

Abstract
Reduced blue light irradiance is known to enhance leaf elongation rate (LER) in grasses, but the mechanisms involved have not yet been elucidated. We investigated whether leaf elongation response to reduced blue light could be mediated by stomata-induced variations of plant transpiration. Two experiments were carried out on tall fescue in order to monitor LER and transpiration under reduced blue light irradiance. Additionally, LER dynamics were compared with those observed in the response to vapour pressure deficit (VPD)-induced variations of transpiration. Finally, we developed a model of water flow within a tiller to simulate the observed short-term response of LER to various transpiration regimes. LER dramatically increased in response to blue light reduction and then reached new steady states, which remained higher than the control. Reduced blue light triggered a simultaneous stomatal closure which induced an immediate decrease of leaf transpiration. The hydraulic model of leaf elongation accurately predicted the LER response to blue light and VPD, resulting from an increase in the growth-induced water potential gradient in the leaf growth zone. Our results suggest that the blue light signal is sensed by stomata of expanded leaves and transduced to the leaf growth zone through the hydraulic architecture of the tiller.
Inverse energy transfer in decaying, three-dimensional, non-helical magnetic turbulence due to magnetic reconnection
Authors: Bhat Pallavi , Zhou Muni , Loureiro Nuno F 
Published: December 2020

ABSTRACT
It has been recently shown numerically that there exists an inverse transfer of magnetic energy in decaying, non-helical, magnetically dominated, magnetohydrodynamic turbulence in three dimensions (3D). We suggest that magnetic reconnection is the underlying physical mechanism responsible for this inverse transfer. In the two-dimensional (2D) case, the inverse transfer is easily inferred to be due to smaller magnetic islands merging to form larger ones via reconnection. We find that the scaling behaviour is similar between the 2D and 3D cases, i.e. the magnetic energy evolves as t−1, and the magnetic power spectrum follows a slope of k−2. We show that on normalizing time by the magnetic reconnection time-scale, the evolution curves of the magnetic field in systems with different Lundquist numbers collapse on to one another. Furthermore, transfer function plots show signatures of magnetic reconnection driving the inverse transfer. We also discuss the conserved quantities in the system and show that the behaviour of these quantities is similar between the 2D and 3D simulations, thus making the case that the dynamics in 3D could be approximately explained by what we understand in 2D. Lastly, we also conduct simulations where the magnetic field is subdominant to the flow. Here, too, we find an inverse transfer of magnetic energy in 3D. In these simulations, the magnetic energy evolves as t−1.4 and, interestingly, a dynamo effect is observed.
Effective temperatures of red supergiants estimated from line-depth ratios of iron lines in the YJ bands, 0.97-1.32μm
Authors: Taniguchi Daisuke , Matsunaga Noriyuki , Jian Mingjie , Kobayashi Naoto , Fukue Kei , Hamano Satoshi , Ikeda Yuji , Kawakita Hideyo , Kondo Sohei , Otsubo Shogo , Sameshima Hiroaki , Takenaka Keiichi , Yasui Chikako 
Published: December 2020

ABSTRACT
Determining the effective temperatures (Teff) of red supergiants (RSGs) observationally is important in many fields of stellar physics and galactic astronomy, yet some significant difficulties remain as a result of the model uncertainty, which originates mainly in the extended atmospheres of RSGs. Here we propose a line-depth ratio (LDR) method in which we use only Fe i lines. As opposed to the conventional LDR method, in which lines of multiple species are involved, this LDR method is insensitive to surface gravity effects and is expected to circumvent the uncertainty originating in the upper atmosphere of RSGs. Therefore, the LDR–Teff relationships that we calibrated empirically with red giants can be directly applied to RSGs, although various differences between the two groups of objects, for example caused by 3D non-local thermodynamic equilibrium (non-LTE) effects, need to be kept in mind. Using the near-infrared YJ-band spectra of nine well-known solar-metallicity red giants observed with the WINERED high-resolution spectrograph, we selected 12 pairs of Fe i lines that were the least contaminated with other lines. After applying their LDR–Teff relation to 10 nearby RSGs, the resulting Teff with an internal precision of $30\!-\!70\, \mathrm{K}$ shows good agreement with previous observational results assuming 1D LTE and with the Geneva stellar evolution model. We found no evidence of significant systematic bias caused by various differences, including those in the size of the non-LTE effects, between red giants and RSGs, except for one line pair that we rejected because the non-LTE effects may be as large as $\sim \! 250\, \mathrm{K}$. Nevertheless, it is difficult to evaluate the systematic bias, and further study is required, for example including the 3D non-LTE calculations of all the lines involved.
Using Optical Spectroscopy to Map the Geometry and Structure of the Irradiated Accretion Discs in Low-mass X-ray Binaries: The Pilot-Study of MAXI J0637−430
Authors: Tetarenko B E , Shaw A W , Manrow E R , Charles P A , Miller J M , Russell T D , Tetarenko A J 
Published: December 2020

Abstract
The recurring transient outbursts in low-mass X-ray binaries (LMXBs) provide us with strong test-beds for constraining the poorly understood accretion process. While impossible to image directly, phase-resolved spectroscopy can provide a powerful diagnostic to study their highly complex, time-dependent accretion discs. We present an 8-month long multi-wavelength (UV, optical, X-ray) monitoring campaign of the new candidate black hole LMXB MAXI J0637−430 throughout its 2019/2020 outburst, using the Neil Gehrels Swift Observatory, as well as three quasi-simultaneous epochs of Gemini/GMOS optical spectroscopy. We find evidence for the existence of a correlation between the X-ray irradiation heating the accretion disc and the evolution of the He ii 4686 Å emission line profiles detected in the optical spectra. Our results demonstrate a connection between the line emitting regions and physical properties of the X-ray irradiation heating the discs during outburst cycles of LMXBs. Further, we are able to show that changes in the physical properties of the irradiation heating the disc in outburst can be imprinted within the H/He emission line profiles themselves in these systems.
Like Wings of a Bird: Functional Divergence and Complementarity between HLA-A and HLA-B Molecules
Authors: Di Da , Nunes Jose Manuel , Jiang Wei , Sanchez-Mazas Alicia 
Published: December 2020

AbstractHuman leukocyte antigen (HLA) genes are among the most polymorphic of our genome, as a likely consequence of balancing selection related to their central role in adaptive immunity. HLA-A and HLA-B genes were recently suggested to evolve through a model of joint divergent asymmetric selection conferring all human populations, including those with severe loss of diversity, an equivalent immune potential. However, the mechanisms by which these two genes might undergo joint evolution while displaying very distinct allelic profiles in populations are still unknown. To address this issue, we carried out extensive data analyses (among which factorial correspondence analysis and linear modeling) on 2,909 common and rare HLA-A, HLA-B, and HLA-C alleles and 200,000 simulated pathogenic peptides by taking into account sequence variation, predicted peptide-binding affinity and HLA allele frequencies in 123 populations worldwide. Our results show that HLA-A and HLA-B (but not HLA-C) molecules maintain considerable functional divergence in almost all populations, which likely plays an instrumental role in their immune defense. We also provide robust evidence of functional complementarity between HLA-A and HLA-B molecules, which display asymmetric relationships in terms of amino acid diversity at both inter- and intraprotein levels and in terms of promiscuous or fastidious peptide-binding specificities. Like two wings of a flying bird, the functional complementarity of HLA-A and HLA-B is a perfect example, in our genome, of duplicated genes sharing their capacity of assuming common vital functions while being submitted to complex and sometimes distinct environmental pressures.
A supernumerary designer chromosome for modular in vivo pathway assembly in Saccharomyces cerevisiae
Authors: Postma Eline D , Dashko Sofia , van Breemen Lars , Taylor Parkins Shannara K , van den Broek Marcel , Daran Jean-Marc , Daran-Lapujade Pascale 
Published: December 2020

Abstract
The construction of microbial cell factories for sustainable production of chemicals and pharmaceuticals requires extensive genome engineering. Using Saccharomyces cerevisiae, this study proposes synthetic neochromosomes as orthogonal expression platforms for rewiring native cellular processes and implementing new functionalities. Capitalizing the powerful homologous recombination capability of S. cerevisiae, modular neochromosomes of 50 and 100 kb were fully assembled de novo from up to 44 transcriptional-unit-sized fragments in a single transformation. These assemblies were remarkably efficient and faithful to their in silico design. Neochromosomes made of non-coding DNA were stably replicated and segregated irrespective of their size without affecting the physiology of their host. These non-coding neochromosomes were successfully used as landing pad and as exclusive expression platform for the essential glycolytic pathway. This work pushes the limit of DNA assembly in S. cerevisiae and paves the way for de novo designer chromosomes as modular genome engineering platforms in S. cerevisiae.
Arabidopsis mTERF9 protein promotes chloroplast ribosomal assembly and translation by establishing ribonucleoprotein interactions in vivo
Authors: Méteignier Louis-Valentin , Ghandour Rabea , Zimmerman Aude , Kuhn Lauriane , Meurer Jörg , Zoschke Reimo , Hammani Kamel 
Published: December 2020

Abstract
The mitochondrial transcription termination factor proteins are nuclear-encoded nucleic acid binders defined by degenerate tandem helical-repeats of ∼30 amino acids. They are found in metazoans and plants where they localize in organelles. In higher plants, the mTERF family comprises ∼30 members and several of these have been linked to plant development and response to abiotic stress. However, knowledge of the molecular basis underlying these physiological effects is scarce. We show that the Arabidopsis mTERF9 protein promotes the accumulation of the 16S and 23S rRNAs in chloroplasts, and interacts predominantly with the 16S rRNA in vivo and in vitro. Furthermore, mTERF9 is found in large complexes containing ribosomes and polysomes in chloroplasts. The comprehensive analysis of mTERF9 in vivo protein interactome identified many subunits of the 70S ribosome whose assembly is compromised in the null mterf9 mutant, putative ribosome biogenesis factors and CPN60 chaperonins. Protein interaction assays in yeast revealed that mTERF9 directly interact with these proteins. Our data demonstrate that mTERF9 integrates protein-protein and protein-RNA interactions to promote chloroplast ribosomal assembly and translation. Besides extending our knowledge of mTERF functional repertoire in plants, these findings provide an important insight into the chloroplast ribosome biogenesis.
Clinical features of acute kidney injury in patients receiving dabrafenib and trametinib
Authors: Seethapathy Harish , Lee Meghan D , Strohbehn Ian A , Efe Orhan , Rusibamayila Nifasha , Chute Donald F , Colvin Robert B , Rosales Ivy A , Fadden Riley M , Reynolds Kerry L , Sullivan Ryan J , Kaufman Howard L , Jhaveri Kenar D , Sise Meghan E 
Published: December 2020

Abstract

Background
Our objective was to characterize the incidence, risk factors and clinical features of acute kidney injury (AKI) in patients receiving dabrafenib and trametinib.

Methods
We performed a retrospective cohort study examining the kidney outcomes of patients in a large healthcare system who received dabrafenib/trametinib between 2010 and 2019. The primary outcome was AKI, defined as a 1.5-fold increase in serum creatinine from baseline within a 12-month study period. AKI severity and etiology was determined for each case by chart review. Logistic regression was used to evaluate baseline predictors of AKI.

Results
A total of 199 patients who received dabrafenib in our healthcare system from 2010 to 2019 were included in the analysis. Forty-two patients (21%) experienced AKI within 12 months; 10 patients (5% of the total cohort, 24% of AKI patients) experienced AKI occurring during a dabrafenib/trametinib-induced febrile syndrome characterized by fever, chills, gastrointestinal symptoms and elevated liver enzymes. Preexisting liver disease was the only significant predictor of AKI in the cohort. One patient had biopsy-proven granulomatous acute interstitial nephritis that resolved with corticosteroids.

Conclusions
Oncologists and nephrologists should be aware that AKI is common after dabrafenib/trametinib and a substantial number of cases occur in the setting of treatment-induced pyrexia.
Prosthetic Finger Joint Infection Due to Aspergillus terreus
Authors: Kobayashi Takaaki , Lawler Ericka , Samra Hasan , Ford Bradley , Sekar Poorani 
Published: December 2020

Abstract
Fungal periprosthetic joint infections (PJIs) are rare but associated with significant mortality. We report a case of a finger PJI secondary to Aspergillus terreus in an immunocompetent patient with soil exposure, successfully treated with surgical debridement and voriconazole. Identification of A terreus is important because of intrinsic amphotericin B resistance.