bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effects of Pregnancy and Isoniazid Preventive Therapy onMycobacterium tuberculosisInterferon Gamma Response Assays in Women With HIV
Authors: Weinberg Adriana , Aaron Lisa , Montepiedra Grace , Sterling Timothy R , Browning Renee , Mmbaga Blandina , Vhembo Tichaona , Naik Shilpa , Kabugho Enid , Masheto Gaerolwe , Pahwa Savita , Mathad Jyoti S , LaCourse Sylvia M , McCarthy Katie , Bradford Sarah , Theron Gerhard , Costello Diane , Zimmer Bonnie , Pierre Marie F , Gausi Kamunkhwala , Denti Paolo , Haas David W , Gupta Amita ,   IMPAACT P1078 study team, Shao Alisa , Nyati Mandisa , Louw Jeanne , Kakhu Tebogo J , Chipato Tsungai , Stranix-Chibanda Lynda , Suryavanshi Nishi , Tongprasert Fuanglada , de Vaal Celeste 
Published: July 2020

AbstractBackgroundPregnancy is accompanied by immune suppression. We hypothesized that Mycobacterium tuberculosis-specific inflammatory responses used to identify latent tuberculosis infection (LTBI) lose positivity during pregnancy. We also hypothesized that isoniazid preventive therapy (IPT) may revert LTBI diagnoses because of its sterilizing activity.Methods944 women with human immunodeficiency virus infection (HIV) participating in a randomized, double-blind, placebo-controlled study comparing 28 weeks of IPT antepartum versus postpartum, were tested by QuantiFERON-gold-in-tube (QGIT) antepartum and by QGIT and tuberculin skin test (TST) at delivery and postpartum. Serial QGIT positivity was assessed by logistic regression using generalized estimating equations.ResultsFrom entry to delivery, 68 (24%) of 284 QGIT-positive women reverted to QGIT-negative or indeterminate. Of these, 42 (62%) recovered QGIT positivity postpartum. The loss of QGIT positivity during pregnancy was explained by decreased interferon gamma (IFNγ) production in response to TB antigen and/or mitogen. At delivery, LTBI was identified by QGIT in 205 women and by TST in 113 women. Corresponding numbers postpartum were 229 and 122 women. QGIT and TST kappa agreement coefficients were 0.4 and 0.5, respectively. Among QGIT-positive women antepartum or at delivery, 34 (12%) reverted to QGIT-negative after IPT. There were no differences between women who initiated IPT antepartum or postpartum.ConclusionsDecreased IFNγ responses in pregnancy reduced QGIT positivity, suggesting that this test cannot reliably rule out LTBI during pregnancy. TST was less affected by pregnancy, but had lower positivity compared to QGIT at all time points. IPT was associated with loss of QGIT positivity, the potential clinical consequences of which need to be investigated.
Relationship Between Serum Severe Acute Respiratory Syndrome Coronavirus 2 Nucleic Acid and Organ Damage in Coronavirus 2019 Patients: A Cohort Study
Authors: Xu Dan , Zhou Fuling , Sun Wenbo , Chen Liangjun , Lan Lan , Li Huan , Xiao Feng , Li Ying , Kolachalama Vijaya B , Li Yirong , Wang Xinghuan , Xu Haibo 
Published: July 2020

AbstractBackgroundSevere acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has spread worldwide and has the ability to damage multiple organs. However, information on serum SARS-CoV-2 nucleic acid (RNAemia) in patients affected by coronavirus disease 2019 (COVID-19) is limited.MethodsPatients who were admitted to Zhongnan Hospital of Wuhan University with laboratory-confirmed COVID-19 were tested for SARS-COV-2 RNA in serum from 28 January 2020 to 9 February 2020. Demographic data, laboratory and radiological findings, comorbidities, and outcomes data were collected and analyzed.ResultsEighty-five patients were included in the analysis. The viral load of throat swabs was significantly higher than of serum samples. The highest detection of SARS-CoV-2 RNA in serum samples was between 11 and 15 days after symptom onset. Analysis to compare patients with and without RNAemia provided evidence that computed tomography and some laboratory biomarkers (total protein, blood urea nitrogen, lactate dehydrogenase, hypersensitive troponin I, and D-dimer) were abnormal and that the extent of these abnormalities was generally higher in patients with RNAemia than in patients without RNAemia. Organ damage (respiratory failure, cardiac damage, renal damage, and coagulopathy) was more common in patients with RNAemia than in patients without RNAemia. Patients with vs without RNAemia had shorter durations from serum testing SARS-CoV-2 RNA. The mortality rate was higher among patients with vs without RNAemia.ConclusionsIn this study, we provide evidence to support that SARS-CoV-2 may have an important role in multiple organ damage. Our evidence suggests that RNAemia has a significant association with higher risk of in-hospital mortality.
Adult zebrafish ventricular electrical gradients as tissue mechanisms of ECG patterns under baseline vs. oxidative stress
Authors: Zhao Yali , James Nicholas A , Beshay Ashraf R , Chang Eileen E , Lin Andrew , Bashar Faiza , Wassily Abram , Nguyen Binh , Nguyen Thao P 
Published: July 2020

AbstractAimsIn mammalian ventricles, electrical gradients establish electrical heterogeneities as essential tissue mechanisms to optimize mechanical efficiency and safeguard electrical stability. Electrical gradients shape mammalian electrocardiographic patterns; disturbance of electrical gradients is proarrhythmic. The zebrafish heart is a popular surrogate model for human cardiac electrophysiology thanks to its remarkable recapitulation of human electrocardiogram and ventricular action potential features. Yet, zebrafish ventricular electrical gradients are largely unexplored. The goal of this study is to define the zebrafish ventricular electrical gradients that shape the QRS complex and T wave patterns at baseline and under oxidative stress.Methods and resultsWe performed in vivo electrocardiography and ex vivo voltage-sensitive fluorescent epicardial and transmural optical mapping of adult zebrafish hearts at baseline and during acute H2O2 exposure. At baseline, apicobasal activation and basoapical repolarization gradients accounted for the polarity concordance between the QRS complex and T wave. During H2O2 exposure, differential regional impairment of activation and repolarization at the apex and base disrupted prior to baseline electrical gradients, resulting in either reversal or loss of polarity concordance between the QRS complex and T wave. KN-93, a specific calcium/calmodulin-dependent protein kinase II inhibitor (CaMKII), protected zebrafish hearts from H2O2 disruption of electrical gradients. The protection was complete if administered prior to oxidative stress exposure.ConclusionsDespite remarkable apparent similarities, zebrafish and human ventricular electrocardiographic patterns are mirror images supported by opposite electrical gradients. Like mammalian ventricles, zebrafish ventricles are also susceptible to H2O2 proarrhythmic perturbation via CaMKII activation. Our findings suggest that the adult zebrafish heart may constitute a clinically relevant model to investigate ventricular arrhythmias induced by oxidative stress. However, the fundamental ventricular activation and repolarization differences between the two species that we demonstrated in this study highlight the potential limitations when extrapolating results from zebrafish experiments to human cardiac electrophysiology, arrhythmias, and drug toxicities.
Perception of pain in Class II malocclusion children treated with cervical headgear: a randomized controlled trial
Authors: Antonarakis Gregory S , Ameur Sofian , Giannopoulou Catherine , Kiliaridis Stavros 
Published: July 2020

SummaryObjectivesThe aims of this study were: 1. to evaluate the experience of pain perceived by children during separator placement and headgear wear; 2. to find possible associations between the perceived intensity of pain and the levels of Substance P (SP) and interleukin-1 beta (IL-1β) in the gingival crevicular fluid (GCF) during these procedures; 3. to identify other factors, such as previous pain experience, which could be associated to the patients’ perceived discomfort or pain during treatment.Trial designNine-month parallel-group randomized controlled trial.MethodsForty Class II malocclusion children (8–12 years) were included, half of which received a cervical headgear while the other half did not receive any treatment during the study period. Baseline pain data were recorded including previous experience to general and dental pain, Corah’s Dental Anxiety Scale, and baseline pain using a visual analogue scale (VAS). Elastic separators were placed in children for 1 week, followed by molar band and cervical headgear placement. Children were seen at various time points throughout the 9-month period where at each appointment, a VAS assessment of pain as well as GCF sampling was carried out to quantify the levels of SP and IL-1β. Multiple regression analysis was performed to ascertain the influence of factors including sex, age, time, headgear wear, and baseline pain data on pain severity.ResultsPain severity and SP and IL-1β levels in the GCF follow a similar pattern, with peaks being observed 1 day after orthodontic elastic separator placement. Pain was more severe after the placement of orthodontic separators than following cervical headgear wear. With regard to pain predictors, pain is more severe in older children, those with a worse previous general pain experience, and those with higher levels of IL-1β, particularly after elastic separator placement.ConclusionsOrthodontic pain and discomfort following orthodontic separator placement and cervical headgear wear depends on factors including age, previous pain experience, and the level of IL-1β in the GCF.
Improved stand structure characterization from nested plot designs in the Spanish National Forest Inventory
Authors: Moreno-Fernández Daniel , Cañellas Isabel , Alberdi Iciar , Montes Fernando 
Published: July 2020

AbstractNational forest inventories, in which trees are often mapped within the plots, provide a tool for the quantification of large-scale forest structure since they cover all forest areas. Many National Forest Inventories follow a nested design in order to reduce the sampling effort for smaller trees. We propose and test a methodology that allows the spatial pattern of trees, species mingling and size differentiation to be characterized using the nearest neighbour indices and second-order moment functions from nested plot data. The nearest neighbour indices and second-order moment functions for the actual distribution are compared with simulations of the appropriate null model: spatial randomness for spatial pattern characterization or spatial independence for species mingling and size differentiation. The proposed method consists of constraining the null model to fit the nested plot design. For the purposes of the study, we simulated 120 plots and used 26 real plots located in pure and mixed stands in Central Spain, for which a complete census with detailed information about trees was available. The nested design used in the Spanish National Forest Inventory (SNFI) plots was simulated to test the performance, taking the complete census as reference. Despite of the limited accuracy for some structural measures, the proposed method based on nested design data performed better for most of the nearest neighbour indices and second-order moment functions than the strategy currently used in the SNFI for structure assessment in a subsample of SNFI plots, consisting of mapping the 20 trees closest to the plot centre. Nearest neighbour indices provided greater accuracy for species mingling assessment than second-order moment functions, whereas the opposite occurred when describing spatial pattern and size differentiation. The methodology proposed provides the first insight into the characterization of forest structure in nested designs although more evaluations are required for different forest types.
A Repertory of Rearrangements and the Loss of an Inverted Repeat Region in Passiflora Chloroplast Genomes
Authors: Cauz-Santos Luiz Augusto , da Costa Zirlane Portugal , Callot Caroline , Cauet Stéphane , Zucchi Maria Imaculada , Bergès Hélène , van den Berg Cássio , Vieira Maria Lucia Carneiro 
Published: July 2020

AbstractChloroplast genomes (cpDNA) in angiosperms are usually highly conserved. Although rearrangements have been observed in some lineages, such as Passiflora, the mechanisms that lead to rearrangements are still poorly elucidated. In the present study, we obtained 20 new chloroplast genomes (18 species from the genus Passiflora, and Dilkea retusa and Mitostemma brevifilis from the family Passifloraceae) in order to investigate cpDNA evolutionary history in this group. Passiflora cpDNAs vary in size considerably, with ∼50 kb between shortest and longest. Large inverted repeat (IR) expansions were identified, and at the extreme opposite, the loss of an IR was detected for the first time in Passiflora, a rare event in angiosperms. The loss of an IR region was detected in Passiflora capsularis and Passiflora costaricensis, a species in which occasional biparental chloroplast inheritance has previously been reported. A repertory of rearrangements such as inversions and gene losses were detected, making Passiflora one of the few groups with complex chloroplast genome evolution. We also performed a phylogenomic study based on all the available cp genomes and our analysis implies that there is a need to reconsider the taxonomic classifications of some species in the group.
A New Look at Cohort Trend and Underlying Mechanisms in Cognitive Functioning
Authors: Zheng Hui 
Published: July 2020

Abstract

Objectives
The prevalence of dementia in the United States seems to have declined over the last few decades. We investigate trends and their underlying mechanisms in cognitive functioning (CF) across 7 decades of birth cohorts from the Greatest Generation to Baby Boomers.

Methods
Data come from 30,191 participants of the 1996–2014 Health and Retirement Study. CF is measured as a summary score on a 35-point cognitive battery of items. We use generalized linear models to examine the trends in CF and explanatory variables across birth cohorts. Then, Karlson–Holm–Breen decomposition method is used to evaluate the contribution of each explanatory variable to the trend of CF.

Results
CF has been improving from the Greatest Generation to Late Children of Depression and War Babies, but then significantly declines since the Early-Baby Boomers and continues into Mid-Baby Boomers. This pattern is observed universally across genders, race/ethnicities, education groups, occupations, income, and wealth quartiles. The worsening CF among Baby Boomers does not originate from childhood conditions, adult education, or occupation. It can be attributed to lower household wealth, lower likelihood of marriage, higher levels of loneliness, depression and psychiatric problems, and more cardiovascular risk factors (e.g., obesity, physical inactivity, hypertension, stroke, diabetes, and heart disease).

Discussion
The worsening CF among Baby Boomers may potentially reverse past favorable trends in dementia as they reach older ages and cognitive impairment becomes more common if no effective interventions and policy responses are in place.
Sensitivity of InSAR and teleseismic observations to earthquake rupture segmentation
Authors: Steinberg Andreas , Sudhaus Henriette , Heimann Sebastian , Krüger Frank 
Published: July 2020

SUMMARYEarthquakes often rupture across more than one fault segment. If such rupture segmentation occurs on a significant scale, a simple point-source or one-fault model may not represent the rupture process well. As a consequence earthquake characteristics inferred, based on one-source assumptions, may become systematically wrong. This might have effects on follow-up analyses, for example regional stress field inversions and seismic hazard assessments. While rupture segmentation is evident for most Mw &gt; 7 earthquakes, also smaller ones with 5.5 &lt; Mw &lt; 7 can be segmented. We investigate the sensitivity of globally available data sets to rupture segmentation and their resolution to reliably estimate the mechanisms in presence of segmentation. We focus on the sensitivity of InSAR (Interferometric Synthetic Aperture Radar) data in the static near-field and seismic waveforms in the far-field of the rupture and carry out non-linear and Bayesian optimizations of single-source and two-sources kinematic models (double-couple point sources and finite, rectangular sources) using InSAR and teleseismic waveforms separately. Our case studies comprises of four Mw 6–7 earthquakes: the 2009 L’Aquila and 2016 Amatrice (Italy) and the 2005 and 2008 Zhongba (Tibet) earthquakes. We contrast the data misfits of different source complexity by using the Akaike informational criterion (AIC). We find that the AIC method is well suited for data-driven inferences on significant rupture segmentation for the given data sets. This is based on our observation that an AIC-stated significant improvement of data fit for two-segment models over one-segment models correlates with significantly different mechanisms of the two source segments and their average compared to the single-segment mechanism. We attribute these modelled differences to a sufficient sensitivity of the data to resolve rupture segmentation. Our results show that near-field data are generally more sensitive to rupture segmentation of shallow earthquakes than far-field data but that also teleseismic data can resolve rupture segmentation in the studied magnitude range. We further conclude that a significant difference in the modelled source mechanisms for different segmentations shows that an appropriate choice of model segmentation matters for a robust estimation of source mechanisms. It reduces systematic biases and trade-off and thereby improves the knowledge on the rupture. Our study presents a strategy and method to detect significant rupture segmentation such that an appropriate model complexity can be used in the source mechanism inference. A similar, systematic investigation of earthquakes in the range of Mw 5.5–7 could provide important hazard-relevant statistics on rupture segmentation. In these cases single-source models introduce a systematic bias. Consideration of rupture segmentation therefore matters for a robust estimation of source mechanisms of the studied earthquakes.
Detachment in capillary adhesion: the relative roles of tilting and separation
Authors: Butler Matthew D , Vella Dominic 
Published: July 2020

Abstract
We study the dynamics of detachment in 2D capillary adhesion by considering a plate that is initially attached to a flat, rigid substrate via the surface tension of a bridging liquid droplet. In particular, we focus on the effect of allowing the plate to tilt freely during its subsequent motion. A linear stability analysis shows that small perturbations from equilibrium decouple into two modes: one in which the plate separates from the substrate, remaining parallel, and another in which it tilts, simultaneously causing the bridging droplet to migrate. If the initial tilt perturbation is of a similar magnitude to (or bigger than) the separation perturbation, then the presence of this second tilting mode can significantly alter the dynamics. Indeed, this tilting mechanism changes the ultimate fate of the plate: depending on the size of the plate and the initial perturbation, the plate may anomalously detach. We discuss this observation in relation to previous experiments on a 3D system that showed a qualitatively similar anomalous detachment.
Adaptive quarkonial domain decomposition methods for elliptic partial differential equations
Authors: Dahlke Stephan , Friedrich Ulrich , Keding Philipp , Sieber Alexander , Raasch Thorsten 
Published: July 2020

Abstract
This paper is concerned with new discretization methods for the numerical treatment of elliptic partial differential equations. We derive an adaptive approximation scheme that is based on frames of quarkonial type, which can be interpreted as a wavelet version of $hp$ finite element dictionaries. These new frames are constructed from a finite set of functions via translation, dilation and multiplication by monomials. By using nonoverlapping domain decomposition ideas, we establish quarkonial frames on domains that can be decomposed into the union of parametric images of unit cubes. We also show that these new representation systems are stable in a certain range of Sobolev spaces. The construction is performed in such a way that, similar to the wavelet setting, the frame elements, the so-called quarklets, possess a certain number of vanishing moments. This enables us to generalize the basic building blocks of adaptive wavelet algorithms to the quarklet case. The applicability of the new approach is demonstrated by numerical experiments for the Poisson equation on $L$-shaped domains.
Differences in Antibody Kinetics and Functionality Between Severe and Mild Severe Acute Respiratory Syndrome Coronavirus 2 Infections
Authors: Rijkers Ger , Murk Jean-Luc , Wintermans Bas , van Looy Bieke , van den Berge Marcel , Veenemans Jacobien , Stohr Joep , Reusken Chantal , van der Pol Pieter , Reimerink Johan 
Published: July 2020

Abstract
We determined and compared the humoral immune response in patients with severe (hospitalized) and mild (nonhospitalized) coronavirus disease 2019 (COVID-19). Patients with severe disease (n = 38) develop a robust antibody response to severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2), including immunoglobulin G and immunoglobulin A antibodies. The geometric mean 50% virus neutralization titer is 1:240. SARS-CoV-2 infection was found in hospital personnel (n = 24), who developed mild symptoms necessitating leave of absence and self-isolation, but not hospitalization; 75% developed antibodies, but with low/absent virus neutralization (60% with titers &lt;1:20). While severe COVID-19 patients develop a strong antibody response, mild SARS-CoV-2 infections induce a modest antibody response. Long-term monitoring will show whether these responses predict protection against future infections.
Peptidylarginine Deiminases 2 Mediates Caspase-1-Associated Lethality inPseudomonas aeruginosaPneumonia-Induced Sepsis
Authors: Wu Zhenyu , Tian Yuzi , Alam Hasan B , Li Patrick , Duan Xiuzhen , Williams Aaron M , Liu Baoling , Ma Jianjie , Li Yongqing 
Published: July 2020

AbstractBackgroundPseudomonas aeruginosa (PA) is a pathogenic bacterium that causes severe pneumonia in critically ill and immunocompromised patients. Peptidylarginine deiminase (PAD) 2, PAD4, and caspase-1 are important enzymes in mediating host response to infection. The goal of this study was to determine the interplay between PAD2, PAD4, and caspase-1 in PA pneumonia-induced sepsis.MethodsPneumonia was produced in wild-type, Pad2−/−, and Pad4−/− mice by intranasal inoculation of PA (2.5 × 106 colony-forming units per mouse), and survival (n = 15/group) was monitored for 10 days. Bone marrow-derived macrophages (BMDMs) were isolated for in vitro studies. Samples were collected at specific timepoints for Western blot, bacterial load determination, and flow cytometry analysis.ResultsCaspase-1-dependent inflammation was diminished in PA-inoculated Pad2−/− mice, contributing to reduced macrophage death and enhanced bacterial clearance. In addition, Pad2−/− mice exhibited improved survival and attenuated acute lung injury after PA infection. In contrast, Pad4−/− mice did not display diminished caspase-1 activation, altered bacterial loads, or improved survival.ConclusionsPeptidylarginine deiminase 2 plays an essential role in the pathogenesis of pulmonary sepsis by mediating caspase-1 activation. This goes against previous findings of PAD4 in sepsis. Our study suggests that PAD2 is a potential therapeutic target of PA pneumonia-induced sepsis.