bluuebunny/crossref_metadata_2025 huggingface dataset:
Variation of virulence of five Aspergillus fumigatus isolates in four different infection models
Authors: Keizer E. M. , Valdes I. D. , Forn-Cuni G. , Klijn E. , Meijer A. H. , Hillman F. , Wösten H. A. B. , de Cock H.
Published: July 2021

Conidia of Aspergillus fumigatus are inhaled by humans on daily basis. As a consequence, these conidia can cause infections that differ in severity ranging from allergic bronchopulmonary aspergillosis to invasive aspergillosis. In this study we compared virulence of five A. fumigatus isolates in four different infection models to address the predictive value of different model systems. Two of the A. fumigatus strains were isolated from dogs with a non-invasive sino-nasal aspergillosis (DTO271-B5 and DTO303-F3), while three strains were isolated from human patients with invasive aspergillosis (Af293, ATCC46645 and CEA10). Infection models used encompassed cultured type II A549 lung epithelial cells, Protostelium aurantium amoeba, Galleria melonella larvae and zebrafish embryos. No major differences in virulence between these five strains were observed in the lung epithelial cell model. In contrast, strain ATCC46645 was most virulent in the amoeba and zebrafish model, whereas it was much less virulent in the Galleria infection model. DTO303-F3 was most virulent in the latter model. In general, reference strain Af293 was less virulent as compared to the other strains. Genome sequence analysis showed that this latter strain differed from the other four strains in 136 SNPs in virulence-related genes. Together, our results show that virulence of individual A. fumigatus strains show significant differences between infection models. We conclude that the predictive value of different model systems varies since the relative virulence across fungal strains does not hold up across different infection model systems.
Racial differences in the systemic inflammatory response to prostate cancer
Authors: Rundle Andrew G. , Sadasivan Sudha M. , Chitale Dhananjay A. , Gupta Nilesh S. , Williamson Sean R. , Kryvenko Oleksandr N. , Chen Yalei , Bobbitt Kevin , Tang Deliang , Rybicki Benjamin A.
Published: July 2021

Systemic inflammation may increase risk for prostate cancer progression, but the role it plays in prostate cancer susceptibility is unknown. From a cohort of over 10,000 men who had either a prostate biopsy or transurethral resection that yielded a benign finding, we analyzed 517 incident prostate cancer cases identified during follow-up and 373 controls with one or more white blood cell tests during a follow-up period between one and 18 years. Multilevel, multivariable longitudinal models were fit to two measures of systemic inflammation, neutrophil-to-lymphocyte ratio (NLR) and monocyte-to-lymphocyte ratio (MLR), to determine NLR and MLR trajectories associated with increased risk for prostate cancer. For both measures, we found no significant differences in the trajectories by case/control status, however in modeling NLR trajectories there was a significant interaction between race (white or Black and case-control status. In race specific models, NLR and MLR values were consistently higher over time among white controls than white cases while case-control differences in NLR and MLR trajectories were not apparent among Black men. When cases were classified as aggressive as compared to non-aggressive, the case-control differences in NLR and MLR values over time among white men were most apparent for non-aggressive cases. For NLR among white men, significant case-control differences were observed for the entire duration of observation for men who had inflammation in their initial prostate specimen. It is possible that, among white men, monitoring of NLR and MLR trajectories after an initial negative biopsy may be useful in monitoring prostate cancer risk.
Gender-sensitive school environment and bullying victimization among adolescent girls: A multilevel study in Nepal
Authors: Bergenfeld Irina , Clark Cari Jo , Khan Zara , Jackson Emma C. , Yount Kathryn M.
Published: July 2021

Background

Bullying is an understudied global social problem. While school-level factors are a recognized influence on bullying victimization, the elements of a ‘girl-friendly’ school that may reduce the risk of bullying victimization among girls and prevent dropout is understudied in lower- and middle-income countries (LMICs). This study used baseline data from the evaluation of the Room-to-Read (RtR) Girls’ Education Program (GEP) in Nepal to assess the relationship of a conceptually grounded gender-equitable school (GES) index with girls’ risk of direct and relational bullying victimization, adjusted for potential confounders at the individual and school levels.

Methods

The school sample included all 24 RtR GEP schools and 25 community schools attended by girls in a comparison cohort, representing 729 grade six girls with complete outcome data. We employed multilevel negative binomial regression to assess the relationship between the GES score (higher scores indicate greater support for girls), and girls’ risk of peer victimization, controlling for individual- and school-level covariates.

Results

On average, girls reported 2.84 direct victimizations and 0.27 relational victimizations in the prior week. The first component of the GES index, a generalized measure of school-level support for girls, showed a significant negative relationship with weekly relational bullying victimization in models with all school- and individual-level covariates. In the full model, a one-point higher score on the generalized GES component accounted for a 26% lower risk of relational bullying victimization in the prior week.

Conclusion

School-level policies, practices, and pedagogy designed to support girls may reduce their exposure to relational aggression, a form of bullying that girls most often perpetrate. In LMICs, the school may be an ideal place to raise awareness about the types and effects of peer bullying and to promote prosocial bystander behavior. Further research is needed to identify factors related to other forms of bullying.
Enhancing monitoring of rewilding progress through wildlife tracking and remote sensing
Authors: Mata Julia Carolina , Buitenwerf Robert , Svenning Jens-Christian
Published: July 2021

Defaunation is a global threat to biodiversity that can be counteracted through trophic rewilding, a restoration strategy that promotes self-regulating ecosystems through active reintroductions or passive management. In order to estimate success in restoration initiatives, progress of the rewilding projects is measured and monitored. However, a spatially explicit understanding of rewilding and rewilding potential in a rewilding site has been absent so far. We present a novel approach for monitoring rewilding progress that focuses on a spatially explicit estimate of progress and ecological integrity within rewilding initiatives. This framework uses habitat classification of the site and tracking data of the reintroduced animals, to model their habitat selection. Through this we measure and map realized and potential rewilding. We operationalize the framework in an ongoing rewilding project in the Iberá Wetlands, Corrientes, Argentina. The majority of areas (76%) predicted to be occupied by reintroduced fauna were only predicted to be selected by one species. Of the four species in the rewilding project, only the giant anteater (Myrmecophaga tridactyla) filled the majority of its potential distribution, whereas pampas deer (Ozotoceros bezoarticus), collared peccary (Pecari tajacu) and lowland tapir (Tapirus terrestris) filled less than 23% of theirs. After rewilding we found a 10% increase in the proportion of the study area with high ecological integrity. Through this case study, we showed that this framework can be used to assess the spatial progress of a rewilding site. By incorporating wildlife tracking and satellite-based remote sensing, we are integrating a spatial component to monitoring of rewilding projects that should lead to more detailed understanding of the progress of rewilding. Applying this framework would facilitate decision-making for practitioners and inform species management plans.
Antirheumatic treatment is associated with reduced serum Syndecan-1 in Rheumatoid Arthritis
Authors: Deyab Gia , Reine Trine Marita , Vuong Tram Thu , Jenssen Trond , Hjeltnes Gunnbjørg , Agewall Stefan , Mikkelsen Knut , Førre Øystein , Fagerland Morten Wang , Kolset Svein Olav , Hollan Ivana
Published: July 2021

The endothelial glycocalyx (EG) is essential for proper function of the endothelium and for vascular integrity, but its role in premature atherogenesis in rheumatoid arthritis (RA) has not been studied yet. EG impairment can play a role in pathogenesis of vascular disease, and one of its characteristics is shedding of syndecan-1 from endothelial cells. Syndecan-1 shedding is mediated by matrix metalloproteinase-9 (MMP-9) and counteracted by tissue inhibitor of metalloproteinases (TIMP)-1. Cardiovascular disease risk in RA is reversible by disease modifying antirheumatic drugs (DMARDs), but the exact modes of action are still unclear. Therefore, we examined effects of DMARDs on syndecan-1, MMP-9 and TIMP-1 in RA patients, and searched for associations between these parameters and inflammatory activity. From the observational PSARA study, we examined 39 patients starting with methotrexate (MTX) monotherapy (in MTX naïve patients, n = 19) or tumor necrosis factor inhibitors (TNFi) in combination with MTX (in MTX non-responders, n = 20) due to active RA. Serum syndecan-1, MMP-9 and TIMP-1 were measured at baseline and after six weeks of treatment. Serum syndecan-1 (p = 0.008) and TIMP-1 (p<0.001) levels decreased after six weeks of anti-rheumatic treatment. Levels of MMP-9 also decreased, but the difference was not statistically significant. The improvement in syndecan-1 levels were independent of changes in inflammatory activity. There was no significant difference in changes in syndecan-1 levels from baseline to 6 weeks between the MTX and TNFi groups, however the change was significant within the MTX group. Six weeks of antirheumatic treatment was associated with reduction in serum levels of syndecan-1, which might reflect reduced syndecan-1 shedding from EG. Thus, it is possible that EG-preserving properties of DMARDs might contribute to their cardioprotective effects. These effects may be at least partly independent of their anti-inflammatory actions. Our findings do not support the notion that syndecan-1 shedding in RA is mediated mainly by increased MMP-9 or decreased TIMP-9 serum concentration.
Exposure to low-dose ambient fine particulate matter PM2.5 and Alzheimer’s disease, non-Alzheimer’s dementia, and Parkinson’s disease in North Carolina
Authors: Rhew Sung Han , Kravchenko Julia , Lyerly H. Kim
Published: July 2021

Alzheimer’s disease (AD), non-AD dementia, and Parkinson’s disease (PD) are increasingly common in older adults, yet all risk factors for their onset are not fully understood. Consequently, environmental exposures, including air pollution, have been hypothesized to contribute to the etiology of neurodegeneration. Because persistently elevated rates of AD mortality in the southern Piedmont area of North Carolina (NC) have been documented, we studied mortality and hospital admissions for AD, non-AD dementia, and PD in residential populations aged 65+ with long-term exposures to elevated levels of ambient air particulate matter 2.5 (PM2.5) exceeding the World Health Organization (WHO) air quality standards (≥10μg/m3). Health data were obtained from the State Center for Health Statistics and the Healthcare Cost and Utilization Project. PM2.5 levels were obtained from the MODIS/MISR and SeaWiFS datafiles. Residents in the Study group of elevated air particulate matter (87 zip codes with PM2.5≥10μg/m3) were compared to the residents in the Control group with low levels of air particulate matter (81 zip codes with PM2.5≤7.61μg/m3), and were found to have higher age-adjusted rates of mortality and hospital admissions for AD, non-AD dementia, and PD, including a most pronounced increase in AD mortality (323/100,000 vs. 257/100,000, respectively). After adjustment for multiple co-factors, the risk of death (odds ratio, or OR) from AD in the Study group (OR = 1.35, 95%CI[1.24–1.48]) was significantly higher than ORs of non-AD dementia or PD (OR = 0.97, 95%CI[0.90–1.04] and OR = 1.13, 95%CI[0.92–1.31]). The OR of hospital admissions was significantly increased only for AD as a primary case of hospitalization (OR = 1.54, 95%CI[1.31–1.82]). Conclusion: NC residents aged 65+ with long-term exposures to ambient PM2.5 levels exceeding the WHO standard had significantly increased risks of death and hospital admissions for AD. The effects for non-AD dementia and PD were less pronounced.
Predicting road quality using high resolution satellite imagery: A transfer learning approach
Authors: Brewer Ethan , Lin Jason , Kemper Peter , Hennin John , Runfola Dan
Published: July 2021

Recognizing the importance of road infrastructure to promote human health and economic development, actors around the globe are regularly investing in both new roads and road improvements. However, in many contexts there is a sparsity—or complete lack—of accurate information regarding existing road infrastructure, challenging the effective identification of where investments should be made. Previous literature has focused on overcoming this gap through the use of satellite imagery to detect and map roads. In this piece, we extend this literature by leveraging satellite imagery to estimate road quality and concomitant information about travel speed. We adopt a transfer learning approach in which a convolutional neural network architecture is first trained on data collected in the United States (where data is readily available), and then “fine-tuned” on an independent, smaller dataset collected from Nigeria. We test and compare eight different convolutional neural network architectures using a dataset of 53,686 images of 2,400 kilometers of roads in the United States, in which each road segment is measured as “low”, “middle”, or “high” quality using an open, cellphone-based measuring platform. Using satellite imagery to estimate these classes, we achieve an accuracy of 80.0%, with 99.4% of predictions falling within the actual or an adjacent class. The highest performing base model was applied to a preliminary case study in Nigeria, using a dataset of 1,000 images of paved and unpaved roads. By tailoring our US-model on the basis of this Nigeria-specific data, we were able to achieve an accuracy of 94.0% in predicting the quality of Nigerian roads. A continuous case estimate also showed the ability, on average, to predict road quality to within 0.32 on a 0 to 3 scale (with higher values indicating higher levels of quality).
The short- and long-term temporal relation between falls and concern about falling in older adults without a recent history of falling
Authors: Weijer Roel H. A. , Hoozemans Marco J. M. , Meijer Onno G. , van Dieën Jaap H. , Pijnappels Mirjam
Published: July 2021

Background and aim

The reciprocal relation between falling and concern about falling is complex and not well understood. We aimed to determine whether concern about falling increases after a fall and whether concern about falling increases the odds of future falls in community-dwelling older adults without a recent fall history.

Methods

We selected 118 community-dwelling older adults (mean age: 71.4 (SD: 5.3) years) without a self-reported history of falling, one year prior to baseline assessment, from the one-year VIBE cohort for analyses. On a monthly basis, we recorded concern about falling (using the Falls Efficacy Scale-International, FES-I), as well as the occurrence of falls (through questionnaires and telephone calls). We determined 1) whether falling predicts an increase in concern about falling and 2) whether a high concern about falling is predictive of falling. Standard linear (fixed-effects) regression and mixed effects regression analyses were performed over long-term, i.e. one year, and short-term, i.e. one-month, intervals, respectively and were adjusted for gender, age and physical activity (quantified as the average total walking duration per day). Analyses were performed separately for all reported falls and for injurious falls only.

Results

High concern about falling at baseline did not predict falls over the course of one year, nor over the course of one month. Furthermore, falls in between baseline assessment and one year thereafter did not predict increased concern about falling from baseline to one year later, independent of whether all falls or only injurious falls were considered. However, falls, either all or injurious only, happening somewhere over the course of a one-month interval, significantly predicted small increases in concern about falling (1.49 FES-I points, 95% CI [0.74, 2.25], p<0.001 for all falls; 2.60 FES-I points, 95% CI [1.55, 3.64], p<0.001 for injurious falls) from the start to the end of that one-month interval.

Conclusion

Older adults without a recent history of falling seem to be resilient against developing concern about falling after having fallen, resulting in a short-term temporary effect of falling on concern about falling. Furthermore, we found no evidence that a high concern about falling predicts future falls over a one-month or a one-year follow-up period, suggesting that concern is not a primary cause for falls in older adults without a recent history of falling.
Association between respiratory hospital admissions and air quality in Portugal: A count time series approach
Authors: Martins Ana , Scotto Manuel , Deus Ricardo , Monteiro Alexandra , Gouveia Sónia
Published: July 2021

Although regulatory improvements for air quality in the European Union have been made, air pollution is still a pressing problem and, its impact on health, both mortality and morbidity, is a topic of intense research nowadays. The main goal of this work is to assess the impact of the exposure to air pollutants on the number of daily hospital admissions due to respiratory causes in 58 spatial locations of Portugal mainland, during the period 2005-2017. To this end, INteger Generalised AutoRegressive Conditional Heteroskedastic (INGARCH)-based models are extensively used. This family of models has proven to be very useful in the analysis of serially dependent count data. Such models include information on the past history of the time series, as well as the effect of external covariates. In particular, daily hospitalisation counts, air quality and temperature data are endowed within INGARCH models of optimal orders, where the automatic inclusion of the most significant covariates is carried out through a new block-forward procedure. The INGARCH approach is adequate to model the outcome variable (respiratory hospital admissions) and the covariates, which advocates for the use of count time series approaches in this setting. Results show that the past history of the count process carries very relevant information and that temperature is the most determinant covariate, among the analysed, for daily hospital respiratory admissions. It is important to stress that, despite the small variability explained by air quality, all models include on average, approximately two air pollutants covariates besides temperature. Further analysis shows that the one-step-ahead forecasts distributions are well separated into two clusters: one cluster includes locations exclusively in the Lisbon area (exhibiting higher number of one-step-ahead hospital admissions forecasts), while the other contains the remaining locations. This results highlights that special attention must be given to air quality in Lisbon metropolitan area in order to decrease the number of hospital admissions.
Dissection of a rice OsMac1 mRNA 5’ UTR to uncover regulatory elements that are responsible for its efficient translation
Authors: Mutsuro-Aoki Hiromi , Teramura Hiroshi , Tamukai Ryoko , Fukui Miho , Kusano Hiroaki , Schepetilnikov Mikhail , Ryabova Lyubov A. , Shimada Hiroaki
Published: July 2021

The untranslated regions (UTRs) of mRNAs are involved in many posttranscriptional regulatory pathways. The rice OsMac1 mRNA has three splicing variants of the 5’ UTR (UTRa, UTRb, and UTRc), which include a CU-rich region and three upstream open reading frames (uORFs). UTRc contains an additional 38-nt sequence, termed sp38, which acts as a strong translational enhancer of the downstream ORF; reporter analysis revealed translational efficiencies >15-fold higher with UTRc than with the other splice variants. Mutation analysis of UTRc demonstrated that an optimal sequence length of sp38, rather than its nucleotide sequence is essential for UTRc to promote efficient translation. In addition, the 5’ 100 nucleotides of CU-rich region contribute to UTRc translational enhancement. Strikingly, three uORFs did not reveal their inhibitory potential within the full-length leader, whereas deletion of the 5’ leader fragment preceding the leader region with uORFs nearly abolished translation. Computational prediction of UTRc structural motifs revealed stem-loop structures, termed SL1-SL4, and two regions, A and B, involved in putative intramolecular interactions. Our data suggest that SL4 binding to Region-A and base pairing between Region-B and the UTRc 3’end are critically required for translational enhancement. Since UTRc is not capable of internal initiation, we presume that the three-dimensional leader structures can allow translation of the leader downstream ORF, likely allowing the bypass of uORFs.
A tool for assessing alignment of biomedical data repositories with open, FAIR, citation and trustworthy principles
Authors: Murphy Fiona , Bar-Sinai Michael , Martone Maryann E.
Published: July 2021

Increasing attention is being paid to the operation of biomedical data repositories in light of efforts to improve how scientific data is handled and made available for the long term. Multiple groups have produced recommendations for functions that biomedical repositories should support, with many using requirements of the FAIR data principles as guidelines. However, FAIR is but one set of principles that has arisen out of the open science community. They are joined by principles governing open science, data citation and trustworthiness, all of which are important aspects for biomedical data repositories to support. Together, these define a framework for data repositories that we call OFCT: Open, FAIR, Citable and Trustworthy. Here we developed an instrument using the open source PolicyModels toolkit that attempts to operationalize key aspects of OFCT principles and piloted the instrument by evaluating eight biomedical community repositories listed by the NIDDK Information Network (dkNET.org). Repositories included both specialist repositories that focused on a particular data type or domain, in this case diabetes and metabolomics, and generalist repositories that accept all data types and domains. The goal of this work was both to obtain a sense of how much the design of current biomedical data repositories align with these principles and to augment the dkNET listing with additional information that may be important to investigators trying to choose a repository, e.g., does the repository fully support data citation? The evaluation was performed from March to November 2020 through inspection of documentation and interaction with the sites by the authors. Overall, although there was little explicit acknowledgement of any of the OFCT principles in our sample, the majority of repositories provided at least some support for their tenets.
Geographical variation and factors associated with gastric cancer in Manitoba
Authors: Fakanye Oluwagbenga , Singh Harminder , Desautels Danielle , Torabi Mahmoud
Published: July 2021

Objectives

We investigated the spatial disparities and factors associated with gastric cancer (GC) Incidence in Manitoba.

Methods

We combined information from Manitoba Cancer registry and Census data to obtain an age-sex adjusted relative risk (IRR) of GC incidence. We geocoded the IRR to the 96 regional health authority districts (RHADs) using the postal code conversion file (PCCF). Bayesian spatial and spatio-temporal Poisson regression models were used for the analysis.

Results

Adjusting for the effect of socio-economic score index (SESI), Indigenous, and immigrant population, 25 districts with high overall GC risk were identified. One unit increase in SESI was associated with reduced risk of cardia GC (CGC) by 14% (IRR = 0.859; 95% CI: 0.780–0.947) and the risk of non-cardia GC (NCGC) by approximately 10% (IRR = 0.898; 95% CI: 0.812–0.995); 1% increase in regional Indigenous population proportion reduced the risk of CGC by 1.4% (IRR = 0.986; 95% CI: 0.978–0.994). In the analysis stratified by sex, one unit increase in SESI reduced the risk of CGC among women by 26.2% (IRR = 0.738; 95% CI: 0.618–0.879), and a 1% increase in Indigenous population proportion reduced the risk of CGC among women by 1.9% (IRR = 0.981; 95% CI: 0.966–0.996).

Conclusion

Our results support a significant association between SESI and NCGC. We report regional variation of GC IRR and a varying temporal pattern across the RHADs. These results could be used to prioritize interventions for regions with high and progressive risk of GC.
Impact of axisymmetric deformation on MR elastography of a nonlinear tissue-mimicking material and implications in peri-tumour stiffness quantification
Authors: Fiorito Marco , Fovargue Daniel , Capilnasiu Adela , Hadjicharalambous Myrianthi , Nordsletten David , Sinkus Ralph , Lee Jack
Published: July 2021

Solid tumour growth is often associated with the accumulation of mechanical stresses acting on the surrounding host tissue. Due to tissue nonlinearity, the shear modulus of the peri-tumoural region inherits a signature from the tumour expansion which depends on multiple factors, including the soft tissue constitutive behaviour and its stress/strain state. Shear waves used in MR-elastography (MRE) sense the apparent change in shear modulus along their propagation direction, thereby probing the anisotropic stiffness field around the tumour. We developed an analytical framework for a heterogeneous shear modulus distribution using a thick-shelled sphere approximation of the tumour and soft tissue ensemble. A hyperelastic material (plastisol) was identified to validate the proposed theory in a phantom setting. A balloon-catheter connected to a pressure sensor was used to replicate the stress generated from tumour pressure and growth while MRE data were acquired. The shear modulus anisotropy retrieved from the reconstructed elastography data confirmed the analytically predicted patterns at various levels of inflation. An alternative measure, combining the generated deformation and the local wave direction and independent of the reconstruction strategy, was also proposed to correlate the analytical findings with the stretch probed by the waves. Overall, this work demonstrates that MRE in combination with non-linear mechanics, is able to identify the apparent shear modulus variation arising from the strain generated by a growth within tissue, such as an idealised model of tumour. Investigation in real tissue represents the next step to further investigate the implications of endogenous forces in tissue characterisation through MRE.
Comparisons of plasma aldosterone and renin data between an automated chemiluminescent immunoanalyzer and conventional radioimmunoassays in the screening and diagnosis of primary aldosteronism
Authors: Tamura Naohisa , Watanabe Erika , Shirakawa Rumi , Nakatani Eiji , Yamada Kanako , Hatakeyama Hiroshi , Torii-Hanakita Mizuki , Kyo Chika , Kosugi Rieko , Ogawa Tatsuo , Kotani Masato , Usui Takeshi , Inoue Tatsuhide
Published: July 2021

Determining values of plasma renin activity (PRA) or plasma active renin concentration (ARC), plasma aldosterone concentration (PAC), and aldosterone-to-renin ratio (ARR) is essential to diagnose primary aldosteronism (PA), but it takes several days with conventional radioimmunoassays (RIAs). Chemiluminescent enzyme immunoassays for PAC and ARC using the Accuraseed® immunoanalyzer facilitated the determination, but relations between Accuraseed® immunoanalyzer-based and RIA-based values in samples of PA confirmatory tests and adrenal venous sampling remained to be elucidated. We addressed this issue in the present study. This is a prospective, cross-sectional study. ARC and PAC values were measured by the Accuraseed® immunoanalyzer in samples, in which PRA and PAC values had been measured by the PRA-FR® RIA and SPAC®-S Aldosterone kits, respectively. The relations between Accuraseed® immunoanalyzer-based and RIA-based values were investigated with regression analyses. The optimal cutoff of Accuraseed® immunoanalyzer-based ARR for PA screening was determined by the receiver operating characteristic analysis. After log-log transformations, linear relations with high coefficients of determination were observed between Accuraseed® immunoanalyzer-based and RIA-based data of renin and aldosterone. Following the PA guidelines of Japan Endocrine Society, Accuraseed® immunoanalyzer-based cutoffs were calculated from the regression equations: the basal PAC for PA screening >12 ng/dL, PAC for the saline infusion test >8.2 ng/dL, ARC for the furosemide-upright test <15 pg/mL, and ARR for the captopril challenge test >3.09 ng/dL per pg/mL. The optimal cutoff of Accuraseed® immunoanalyzer-based ARR for PA screening was >2.43 ng/dL over pg/mL not to overlook bilateral PA patients. The present study provided conversion formulas between Accuraseed® immunoanalyzer-based and RIA-based values of renin, aldosterone, and ARR, not only in basal samples but also in samples of PA confirmatory tests and adrenal venous sampling. Although validation studies are awaited, the present study will become priming water of harmonization of renin and aldosterone immunoassays.
Value of one additional injection at the root of the limb in the lymphoscintigraphic evaluation and management of primary and secondary lower-limb lymphedemas
Authors: Bourgeois Pierre , Leduc Olivier
Published: July 2021

Introduction

The classical lymphoscintigraphic investigations of lower-limb lymphatic edema [LLLE] sometimes reveal either no or few lymph nodes [LNs] at the root of the limb[s] and/or in the abdomen. The aim of the present paper is to report the results of performing one additional injection at the root of the edematous limb[s] to force the visualization of the LNs and/or to demonstrate the collateral lymphatic pathways in such patients.

Methods and findings

We retrospectively reviewed our database and found 99 patients [44 primary LLLE with 47 limbs injected and 55 with LLLE secondary to treatments for cancer with 64 limbs injected] where such an additional injection had been performed.

In the 43 LLLE patients where no LNs were seen at the end of the classical exam [15 primary LLLE and 28 secondary LLLE], the extra injection showed lymphatic drainage toward LN[s] in all except 3 and when at least one LN was seen, the injection showed lymphatic drainage in every case toward the same ipsilateral [inguinal and/or iliac] LNs [as shown by the classical injection] and/or toward additional LNs.

In 40.7% of patients, we observed one or more additional lymphatic pathways: prepubic superficial lymphatic vessels [LV] crossing the midline anteriorly toward contralateral inguinal LNs in 21 [18.9%], “posterior” LV [toward contralateral inguinal LNs and/or ipsi- or contralateral lumbo-aortic and/or para-renal LNs] in 14 [12.6%], but deep LV toward the ipsilateral common iliac LNs passing between the gluteal muscles in 32 [28.8%].

Conclusion

Our work pinpoints one limitation of classical bipedal radionuclide lymphangiography. In patients with primary and secondary LLLE where inguinal and/or iliac LNs cannot be seen on bipedal radionuclide lymphangiography, this additional injection reveals the true lympho-nodal status and shows unexpected collateral lymphatic pathways in 40% of cases. Such information is of the utmost importance in LLLE management and its acquisition is consequently recommended in these patients.
Characteristics of SARS-CoV-2 testing for rapid diagnosis of COVID-19 during the initial stages of a global pandemic
Authors: Guthrie Jennifer L. , Chen Allison J. , Budhram Dalton R. , Cronin Kirby , Peci Adriana , Nelson Paul , Mallo Gustavo V. , Broukhanski George , Murti Michelle , Majury Anna , Mazzulli Tony , Allen Vanessa G. , Patel Samir N. , Kus Julianne V. , Tran Vanessa , Gubbay Jonathan B.
Published: July 2021

Accurate SARS-CoV-2 diagnosis is essential to guide prevention and control of COVID-19. Here we examine SARS-CoV-2 molecular-based test performance characteristics and summarize case-level data related to COVID-19 diagnosis. From January 11 through April 22, 2020, Public Health Ontario conducted SARS-CoV-2 testing of 86,942 specimens collected from 80,354 individuals, primarily using real-time reverse-transcription polymerase chain reaction (rRT-PCR) methods. We analyzed test results across specimen types and for individuals with multiple same-day and multi-day collected specimens. Nasopharyngeal compared to throat swabs had a higher positivity (8.8% vs. 4.8%) and an adjusted estimate 2.9 Ctlower (SE = 0.5,p<0.001). Same-day specimens showed high concordance (98.8%), and the median Ctof multi-day specimens increased over time. Symptomatic cases had rRT-PCR results with an adjusted estimate 3.0 Ct(SE = 0.5,p<0.001) lower than asymptomatic/pre-symptomatic cases. Overall test sensitivity was 84.6%, with a negative predictive value of 95.5%. Molecular testing is the mainstay of SARS-CoV-2 diagnosis and testing protocols will continue to be dynamic and iteratively modified as more is learned about this emerging pathogen.
Epidemiology and disease burden of sickle cell disease in France: A descriptive study based on a French nationwide claim database
Authors: Leleu Henri , Arlet Jean Benoit , Habibi Anoosha , Etienne-Julan Maryse , Khellaf Mehdi , Adjibi Yolande , Pirenne France , Pitel Marine , Granghaud Anna , Sinniah Cynthia , De Montalembert Mariane , Galacteros Frédéric
Published: July 2021

Context

Sickle cell disease (SCD) is a severe hematological disorder. The most common acute complication of SCD is vaso-occlusive crisis (VOC), but SCD is a systemic disease potentially involving all organs. SCD prevalence estimates rely mostly on extrapolations from incidence-based newborn screening programs, although recent improvements in survival may have led to an increase in prevalence, and immigration could account for a substantial number of prevalent patients in Europe. The primary objective of this study was to estimate SCD prevalence in France.

Methods

A cross-sectional observational study was conducted using a representative sample of national health insurance data. SCD patients followed up in France between 2006 and 2011 were captured through hydroxyurea reimbursement and with the International Classification of Diseases (ICD-10) SCD specific code D570.1.2, excluding code D573 (which corresponds to sickle cell trait (SCT)). Nevertheless, we assumed that ICD-10 diagnosis coding for inpatient stays could be imperfect, with the possibility of SCT being miscoded as SCD. Therefore, prevalence was analyzed in two groups of patients [with at leastone (G1) or two (G2) inpatient stay] based on the number of SCD-related inpatient stays in the six-year study period, assuming that SCT patients are rarely rehospitalized compared to SCD. The prevalence of SCD in the sample, which was considered to be representative of the French population, was then extrapolated to the general population. The rate of vaso-occlusive crisis (VOC) events was estimated based on hospitalizations, emergencies, opioid reimbursements, transfusions, and sick leave.

Results

Based on the number of patients identified for G1 and G2, the 2016 French prevalence was estimated to be between 48.6 per 100,000 (G1) or 32,400 patients and 29.7 per 100,000 (G2) or 19,800 patients. An average of 1.51 VOC events per year were identified, with an increase frequency of 15 to 24 years of age. The average annual number of hospitalizations was between 0.70 (G1) and 1.11 (G2) per patient. Intensive care was observed in 7.6% of VOC-related hospitalizations. Fewer than 34% of SCD patients in our sample received hydroxyurea at any point in their follow-up. The annual average cost of SCD care is €5,528.70 (G1) to €6,643.80 (G2), with most costs arising from hospitalization and lab testing.

Conclusion

Our study estimates SCD prevalence in France at between 19,800 and 32,400 patients in 2016, higher than previously published. This study highlights the significant disease burden associated with vaso-occlusive events.
Labor prior to cesarean delivery associated with higher post-discharge opioid consumption
Authors: Ende Holly B. , Landau Ruth , Cole Naida M. , Burns Sara M. , Bateman Brian T. , Bauer Melissa E. , Booth Jessica L. , Flood Pamela , Leffert Lisa R. , Houle Timothy T. , Tsen Lawrence C.
Published: July 2021

Background

Severe acute post-cesarean delivery (CD) pain has been associated with an increased risk for persistent pain and postpartum depression. Identification of women at increased risk for pain can be used to optimize post-cesarean analgesia. The impact of labor prior to CD (intrapartum CD) on acute post-operative pain and opioid use is unclear. We hypothesized that intrapartum CD, which has been associated with both increased inflammation and affective distress related to an unexpected surgical procedure, would result in higher postoperative pain scores and increased opioid intake.

Methods

This is a secondary analysis of a prospective cohort study examining opioid use up to 2 weeks following CD. Women undergoing CD at six academic medical centers in the United States 9/2014-3/2016 were contacted by phone two weeks following discharge. Participants completed a structured interview that included questions about postoperative pain scores and opioid utilization. They were asked to retrospectively estimate their maximal pain score on an 11-point numeric rating scale at multiple time points, including day of surgery, during hospitalization, immediately after discharge, 1st week, and 2nd week following discharge.

Pain scores over time were assessed utilizing a generalized linear mixed-effects model with the patient identifier being a random effect, adjusting for an a priori defined set of confounders. A multivariate negative binomial model was utilized to assess the association between intrapartum CD and opioid utilization after discharge, also adjusting for the same confounders. In the context of non-random prescription distribution, this model was constructed with an offset for the number of tablets dispensed.

Results

A total of 720 women were enrolled, 392 with and 328 without labor prior to CD. Patients with intrapartum CD were younger, less likely to undergo repeat CD or additional surgical procedures, and more likely to experience a complication of CD.

Women with intrapartum CD consumed more opioid tablets following discharge than women without labor (median 20, IQR 10–30 versus 17, IQR 6–30; p = 0.005). This association persisted after adjustment for confounders (incidence rate ratio 1.16, 95% CI 1.05–1.29; p = 0.004). Pain scores on the day of surgery were higher in women with intrapartum CD (difference 0.91, 95% CI 0.52–1.30; adj. p = <0.001) even after adjustment for confounders. Pain scores at other time points were not meaningfully different between the two groups.

Conclusion

Intrapartum CD is associated with worse pain on the day of surgery but not other time points. Opioid requirements following discharge were modestly increased following intrapartum CD.
Multiple configurations and fluctuating trophic control in the Barents Sea food-web
Authors: Sivel Elliot , Planque Benjamin , Lindstrøm Ulf , Yoccoz Nigel G.
Published: July 2021

The Barents Sea is a subarctic shelf sea which has experienced major changes during the past decades. From ecological time-series, three different food-web configurations, reflecting successive shifts of dominance of pelagic fish, demersal fish, and zooplankton, as well as varying trophic control have been identified in the last decades. This covers a relatively short time-period as available ecological time-series are often relatively short. As we lack information for prior time-periods, we use a chance and necessity model to investigate if there are other possible configurations of the Barents Sea food-web than those observed in the ecological time-series, and if this food-web is characterized by a persistent trophic control. We perform food-web simulations using the Non-Deterministic Network Dynamic model (NDND) for the Barents Sea, identify food-web configurations and compare those to historical reconstructions of food-web dynamics. Biomass configurations fall into four major types and three trophic pathways. Reconstructed data match one of the major biomass configurations but is characterized by a different trophic pathway than most of the simulated configurations. The simulated biomass displays fluctuations between bottom-up and top-down trophic control over time rather than persistent trophic control. Our results show that the configurations we have reconstructed are strongly overlapping with our simulated configurations, though they represent only a subset of the possible configurations of the Barents Sea food-web.
Structure and driving factors of the soil microbial community associated with Alhagi sparsifolia in an arid desert
Authors: Li Wenjing , Jiang Lamei , Zhang Yang , Teng Dexiong , Wang Hengfang , Wang Jinlong , Lv Guanghui
Published: July 2021

Environmental properties are important factors in structuring soil microbial communities. The primary driving factors vary in different ecosystems. In the present work, we analyzed the microbial communities of rhizosphere and bulk soils associated with the halophyteAlhagi sparsifoliaacross three salt/water gradients in the desert area around Ebinur Lake Basin, China, using high-throughput sequencing technology. We found that there were significant differences in soil water content (SWC), soil salinity (SAL), total nitrogen (TN), and total phosphorus (TP) contents between the three water/salt gradients. In the L (low water and salt) plot, Actinobacteria was the most abundant bacterial phylum while Ascomycota was the dominant fungal phylum. The relative abundance of Actinobacteria was negatively correlated with soil pH, soil organic carbon (SOC), TP, and available phosphorus (AP). The abundance of Bacteroidetes was significantly positively correlated with soil SOC, SWC, SAL, pH, TN, and TP (P< 0.05). The abundance of fungal phylum Chytridiomycota was significantly positively correlated with pH (P< 0.01), SWC, AP, and sulfate ion (P< 0.05). SOC and nitrate nitrogen were the main factors impacting the bacterial community, while ammonium nitrogen (NH4+) and TP were the main driving forces for the fungal community. Soil nutrients were the main contributors to the dissimilarities in the bacterial and fungal communities, explaining 48.06% and 44.45% of the variation. SWC, SAL, and pH explained only a small percentage of the microbial community dissimilarity. In conclusion, soil microbial community structure was affected by SWC, SAL, pH, and soil nutrients, with soil nutrients as the main driving factors. Nitrogen has a differential effect on the different microbial communities: bacterial communities ofAlhagi sparsifoliawere mainly affected by nitrate nitrogen, while fungal communities were mainly driven by ammonium nitrogen.
Male gender is a predictor of higher mortality in hospitalized adults with COVID-19
Authors: Nguyen Ninh T. , Chinn Justine , De Ferrante Morgan , Kirby Katharine A. , Hohmann Samuel F. , Amin Alpesh
Published: July 2021

Introduction

The coronavirus disease 2019 (COVID-19) pandemic continues to be a global threat, with tremendous resources invested into identifying risk factors for severe COVID-19 illness. The objective of this study was to analyze the characteristics and outcomes of male compared to female adults with COVID-19 who required hospitalization within US academic centers.

Methods

Using the Vizient clinical database, discharge records of adults with a diagnosis of COVID-19 between March 1, 2020 and November 30, 2020 were reviewed. Outcome measures included demographics, characteristics, length of hospital stay, rate of respiratory intubation and mechanical ventilation, and rate of in-hospital mortality of male vs female according to age, race/ethnicity, and presence of preexisting comorbidities.

Results

Among adults with COVID-19, 161,206 were male while 146,804 were female. Adult males with COVID-19 were more likely to have hypertension (62.1% vs 59.6%, p <0.001%), diabetes (39.2% vs 36.0%, p <0.001%), renal failure (22.3% vs 18.1%, p <0.001%), congestive heart failure (15.3% vs 14.6%, p <0.001%), and liver disease (5.9% vs 4.5%, p <0.001%). Adult females with COVID-19 were more likely to be obese (32.3% vs 25.7%, p<0.001) and have chronic pulmonary disease (23.7% vs 18.1%, p <0.001). Gender was significantly different among races (p<0.001), and there was a lower proportion of males versus females in African American patients with COVID-19. Comparison in outcomes of male vs. female adults with COVID-19 is depicted in Table 2. Compared to females, males with COVID-19 had a higher rate of in-hospital mortality (13.8% vs 10.2%, respectively, p <0.001); a higher rate of respiratory intubation (21.4% vs 14.6%, p <0.001); and a longer length of hospital stay (9.5 ± 12.5 days vs. 7.8 ± 9.8 days, p<0.001). In-hospital mortality analyzed according to age groups, race/ethnicity, payers, and presence of preexisting comorbidities consistently showed higher death rate among males compared to females (Table 2). Adult males with COVID-19 were associated with higher odds of mortality compared to their female counterparts across all age groups, with the effect being most pronounced in the 18–30 age group (OR, 3.02 [95% CI, 2.41–3.78]).

Conclusion

This large analysis of 308,010 COVID-19 adults hospitalized at US academic centers showed that males have a higher rate of respiratory intubation and longer length of hospital stay compared to females and have a higher death rate even when compared across age groups, race/ethnicity, payers, and comorbidity.
Mapping the discursive dimensions of the reproducibility crisis: A mixed methods analysis
Authors: Nelson Nicole C. , Ichikawa Kelsey , Chung Julie , Malik Momin M.
Published: July 2021

To those involved in discussions about rigor, reproducibility, and replication in science, conversation about the “reproducibility crisis” appear ill-structured. Seemingly very different issues concerning the purity of reagents, accessibility of computational code, or misaligned incentives in academic research writ large are all collected up under this label. Prior work has attempted to address this problem by creating analytical definitions of reproducibility. We take a novel empirical, mixed methods approach to understanding variation in reproducibility discussions, using a combination of grounded theory and correspondence analysis to examine how a variety of authors narrate the story of the reproducibility crisis. Contrary to expectations, this analysis demonstrates that there is a clear thematic core to reproducibility discussions, centered on the incentive structure of science, the transparency of methods and data, and the need to reform academic publishing. However, we also identify three clusters of discussion that are distinct from the main body of articles: one focused on reagents, another on statistical methods, and a final cluster focused on the heterogeneity of the natural world. Although there are discursive differences between scientific and popular articles, we find no strong differences in how scientists and journalists write about the reproducibility crisis. Our findings demonstrate the value of using qualitative methods to identify the bounds and features of reproducibility discourse, and identify distinct vocabularies and constituencies that reformers should engage with to promote change.