bluuebunny/crossref_metadata_2025 huggingface dataset:
Policy-aware data lakes: a flexible approach to achieve legal interoperability for global research collaborations
Authors: Thorogood Adrian
Published: August 2020

A popular model for global scientific repositories is the data commons, which pools or connects many datasets alongside supporting infrastructure. A data commons must establish legally interoperability between datasets to ensure researchers can aggregate and reuse them. This is usually achieved by establishing a shared governance structure. Unfortunately, governance often takes years to negotiate and involves a trade-off between data inclusion and data availability. It can also be difficult for repositories to modify governance structures in response to changing scientific priorities, data sharing practices, or legal frameworks. This problem has been laid bare by the sudden shock of the COVID-19 pandemic. This paper proposes a rapid and flexible strategy for scientific repositories to achieve legal interoperability: the policy-aware data lake. This strategy draws on technical concepts of modularity, metadata, and data lakes. Datasets are treated as independent modules, which can be subject to distinctive legal requirements. Each module must, however, be described using standard legal metadata. This allows legally compatible datasets to be rapidly combined and made available on a just-in-time basis to certain researchers for certain purposes. Global scientific repositories increasingly need such flexibility to manage scientific, organizational, and legal complexity, and to improve their responsiveness to global pandemics.
Changes in recreational behaviors of outdoor enthusiasts during the COVID-19 pandemic: analysis across urban and rural communities
Authors: Rice William L , Mateer Timothy J , Reigner Nathan , Newman Peter , Lawhon Ben , Taff B Derrick
Published: August 2020

The COVID-19 pandemic presents not only a global health crisis but has also disrupted the daily lives of people around the world. From a leisure perspective, urban outdoor enthusiasts are one group particularly impacted by the pandemic and the subsequent institutional response. Stay-at-home orders and physical distancing recommendations serve as potential inhibitors to outdoor recreation activities central to the lifestyles and wellbeing of outdoor enthusiasts. In urban areas, where these orders and recommendations are most restrictive, the potential impacts on recreation behavior are most consequential. This study provides an empirical analysis of the COVID-19 pandemic’s impact on the recreational behaviors of outdoor enthusiasts across urban and rural communities. Results suggest that the frequency of outdoor recreation participation, distance travelled to participate in outdoor recreation and distance travelled beyond roads during outdoor recreation have declined significantly more among outdoor enthusiasts residing in urban areas than urban clusters or rural areas.
NRT1.1-centered nitrate signaling in plants
Authors: Maghiaoui Amel , Gojon Alain , Bach Liên
Published: August 2020

Plants need efficient nitrate (NO3–) sensing systems and sophisticated signaling pathways to develop a wide range of adaptive responses to external fluctuations of NO3– supply. In Arabidopsis thaliana, numerous molecular regulators have been identified to participate in signaling pathways that respond specifically to NO3–. In contrast, only a single NO3– sensing system has been described to date, relying on the NRT1.1 (NPF6.3/CHL1) NO3– transceptor. NRT1.1 governs a wide range of responses to NO3–, from fast reprogramming of genome expression (the primary nitrate response) to longer-term developmental changes (effects on lateral root development). NRT1.1 appears to be at the center of a complex network of signaling pathways, involving numerous molecular players acting downstream and/or upstream of it. Interestingly, some of these regulators are involved in crosstalk with the signaling pathways of other nutrients, such as inorganic phosphate or potassium. Although NRT1.1-mediated NO3– sensing and signaling has mostly been documented in Arabidopsis, recent evidence indicates that similar mechanisms involving NRT1.1 orthologues are operative in rice. This review aims to delineate how the NRT1.1 sensing system and the downstream/upstream transduction cascades are integrated to control both the expression of NO3–-responsive genes and the induced plasticity of root development.
The SEDIGISM survey: First Data Release and overview of the Galactic structure
Authors: Schuller F , Urquhart J S , Csengeri T , Colombo D , Duarte-Cabral A , Mattern M , Ginsburg A , Pettitt A R , Wyrowski F , Anderson L , Azagra F , Barnes P , Beltran M , Beuther H , Billington S , Bronfman L , Cesaroni R , Dobbs C , Eden D , Lee M-Y , Medina S-N X , Menten K M , Moore T , Montenegro-Montes F M , Ragan S , Rigby A , Riener M , Russeil D , Schisano E , Sanchez-Monge A , Traficante A , Zavagno A , Agurto C , Bontemps S , Finger R , Giannetti A , Gonzalez E , Hernandez A K , Henning T , Kainulainen J , Kauffmann J , Leurini S , Lopez S , Mac-Auliffe F , Mazumdar P , Molinari S , Motte F , Muller E , Nguyen-Luong Q , Parra R , Perez-Beaupuits J-P , Schilke P , Schneider N , Suri S , Testi L , Torstensson K , Veena V S , Venegas P , Wang K , Wienen M
Published: August 2020

The SEDIGISM (Structure, Excitation and Dynamics of the Inner Galactic Interstellar Medium) survey used the APEX telescope to map 84 deg2 of the Galactic plane between ℓ = −60° and +31° in several molecular transitions, including 13CO (2 – 1) and C18O (2 – 1), thus probing the moderately dense (∼103 cm−3) component of the interstellar medium. With an angular resolution of 30 arcsec and a typical 1σ sensitivity of 0.8–1.0 K at 0.25 km s−1 velocity resolution, it gives access to a wide range of structures, from individual star-forming clumps to giant molecular clouds and complexes. The coverage includes a good fraction of the first and fourth Galactic quadrants, allowing us to constrain the large-scale distribution of cold molecular gas in the inner Galaxy. In this paper, we provide an updated overview of the full survey and the data reduction procedures used. We also assess the quality of these data and describe the data products that are being made publicly available as part of this First Data Release (DR1). We present integrated maps and position–velocity maps of the molecular gas and use these to investigate the correlation between the molecular gas and the large-scale structural features of the Milky Way such as the spiral arms, Galactic bar and Galactic Centre. We find that approximately 60 per cent of the molecular gas is associated with the spiral arms and these appear as strong intensity peaks in the derived Galactocentric distribution. We also find strong peaks in intensity at specific longitudes that correspond to the Galactic Centre and well-known star-forming complexes, revealing that the 13CO emission is concentrated in a small number of complexes rather than evenly distributed along spiral arms.
Chemical evolution of the Milky Way: constraints on the formation of the thick and thin discs
Authors: Palla M , Matteucci F , Spitoni E , Vincenzo F , Grisoni V
Published: August 2020

We study the evolution of Milky Way thick and thin discs in the light of the most recent observational data. In particular, we analyse abundance gradients of O, N, Fe, and Mg along the thin disc as well as the [Mg/Fe] versus [Fe/H] relations and the metallicity distribution functions at different Galactocentric distances. We run several models starting from the two-infall paradigm, assuming that the thick and thin discs formed by means of two different infall episodes, and we explore several physical parameters, such as radial gas flows, variable efficiency of star formation, different times for the maximum infall on to the disc, different distributions of the total surface mass density of the thick disc, and enriched gas infall. Our best model suggests that radial gas flows and variable efficiency of star formation should be acting together with the inside-out mechanism for the thin disc formation. The time-scale for maximum infall on to the thin disc, which determines the gap between the formation of the two discs, should be tmax ≃ 3.25 Gyr. The thick disc should have an exponential, small-scale length density profile and gas infall on the inner thin disc should be enriched. We also compute the evolution of Gaia–Enceladus system and study the effects of possible interactions with the thick and thin discs. We conclude that the gas lost by Enceladus or even part of it could have been responsible for the formation of the thick disc but not the thin disc.
The host galaxies of 106 rapidly evolving transients discovered by the Dark Energy Survey
Authors: Wiseman P , Pursiainen M , Childress M , Swann E , Smith M , Galbany L , Lidman C , Davis T M , Gutiérrez C P , Möller A , Thomas B P , Frohmaier C , Foley R J , Hinton S R , Kelsey L , Kessler R , Lewis G F , Sako M , Scolnic D , Sullivan M , Vincenzi M , Abbott T M C , Aguena M , Allam S , Annis J , Bertin E , Bhargava S , Brooks D , Burke D L , Carnero Rosell A , Carollo D , Carrasco Kind M , Carretero J , Costanzi M , da Costa L N , Diehl H T , Doel P , Everett S , Fosalba P , Frieman J , García-Bellido J , Gaztanaga E , Glazebrook K , Gruen D , Gruendl R A , Gschwend J , Gutierrez G , Hollowood D L , Honscheid K , James D J , Kuehn K , Kuropatkin N , Lima M , Maia M A G , Marshall J L , Martini P , Menanteau F , Miquel R , Palmese A , Paz-Chinchón F , Plazas A A , Romer A K , Sanchez E , Scarpine V , Schubnell M , Serrano S , Sevilla-Noarbe I , Sommer N E , Suchyta E , Swanson M E C , Tarle G , Tucker B E , Tucker D L , Varga T N , Walker A R ,   (DES Collaboration)
Published: August 2020

Rapidly evolving transients (RETs), also termed fast blue optical transients, are a recently discovered group of astrophysical events that display rapid luminosity evolution. RETs typically rise to peak in less than 10 d and fade within 30, a time-scale unlikely to be compatible with the decay of Nickel-56 that drives conventional supernovae (SNe). Their peak luminosity spans a range of −15 < Mg < −22.5, with some events observed at redshifts greater than 1. Their evolution on fast time-scales has hindered high-quality follow-up observations, and thus their origin and explosion/emission mechanism remains unexplained. In this paper, we present the largest sample of RETs to date, comprising 106 objects discovered by the Dark Energy Survey, and perform the most comprehensive analysis of RET host galaxies. Using deep-stacked photometry and emission lines from OzDES spectroscopy, we derive stellar masses and star formation rates (SFRs) for 49 host galaxies, and metallicities ([O/H]) for 37. We find that RETs explode exclusively in star-forming galaxies and are thus likely associated with massive stars. Comparing RET hosts to samples of host galaxies of other explosive transients as well as field galaxies, we find that RETs prefer galaxies with high specific SFRs (〈log (sSFR)〉 ∼ −9.6), indicating a link to young stellar populations, similar to stripped-envelope SNe. RET hosts appear to show a lack of chemical enrichment, their metallicities akin to long-duration gamma-ray bursts and superluminous SN host galaxies (〈12 + log (O/H)〉 ∼ 9.4). There are no clear relationships between mass or SFR of the host galaxies and the peak magnitudes or decline rates of the transients themselves.
A census of ultraluminous X-ray sources in the local Universe
Authors: Kovlakas K , Zezas A , Andrews J J , Basu-Zych A , Fragos T , Hornschemeier A , Lehmer B , Ptak A
Published: August 2020

Using the Chandra Source Catalog 2.0 and a newly compiled catalogue of galaxies in the local Universe, we deliver a census of ultraluminous X-ray source (ULX) populations in nearby galaxies. We find 629 ULX candidates in 309 galaxies with distance smaller than 40 Mpc. The foreground/background contamination is $\sim \! 20{{\ \rm per\ cent}}$. The ULX populations in bona fide star-forming galaxies scale on average with star formation rate and stellar mass (M⋆) such that the number of ULXs per galaxy is $0.45^{+0.06}_{-0.09}\times \frac{\rm SFR}{\rm M_\odot \, yr^{-1}}{+}3.3^{+3.8}_{-3.2}\times \frac{M_\star }{\rm M_\odot }$. The scaling depends strongly on the morphological type. This analysis shows that early spiral galaxies contain an additional population of ULXs that scales with M⋆. We also confirm the strong anticorrelation of the ULX rate with the host galaxy’s metallicity. In the case of early-type galaxies, we find that there is a non-linear dependence of the number of ULXs with M⋆, which is interpreted as the result of star formation history differences. Taking into account age and metallicity effects, we find that the predictions from X-ray binary population synthesis models are consistent with the observed ULX rates in early-type galaxies, as well as spiral/irregular galaxies.
Limitation of symmetry breaking by gravitational collapse: the revisit of Lin–Mestel–Shu instability
Authors: Worrakitpoonpon Tirawut
Published: August 2020

We revisit the topic of shape evolution during the spherical collapse of an N-body system. Our main objective is to investigate the critical particle number below which, during a gravitational collapse, the amplification of triaxiality from initial fluctuations is effective, and above which it is ineffective. To this aim, we develop the Lin–Mestel–Shu theory for a system of particles initially with isotropic velocity dispersion and with a simple power-law density profile. We first determine, for an unstable cloud, two radii corresponding to the balance of two opposing forces and their fluctuations: such radii fix the sizes of the non-collapsing region and the triaxial seed from density fluctuations. We hypothesize that the triaxial degree of the final state depends on which radius is dominant prior to the collapse phase leading to a different scheme of the self-consistent shape evolution of the core and the rest of the system. The condition where the two radii are equal therefore identifies the critical particle number, which can be expressed as the function of the parameters of initial state. In numerical work, we can pinpoint such a critical number by comparing the virialized flattening with the initial flattening. The difference between these two quantities agrees with the theoretical predictions only for the power-law density profiles with an exponent in the range [0, 0.25]. For higher exponents, results suggest that the critical number is above the range of simulated N. We speculate that there is an additional mechanism, related to strong density gradients that increases further the flattening, requiring higher N to further weaken the initial fluctuations.
Systematic screening of CTCF binding partners identifies that BHLHE40 regulates CTCF genome-wide distribution and long-range chromatin interactions
Authors: Hu Gongcheng , Dong Xiaotao , Gong Shixin , Song Yawei , Hutchins Andrew P , Yao Hongjie
Published: August 2020

CTCF plays a pivotal role in mediating chromatin interactions, but it does not do so alone. A number of factors have been reported to co-localize with CTCF and regulate CTCF loops, but no comprehensive analysis of binding partners has been performed. This prompted us to identify CTCF loop participants and regulators by co-localization analysis with CTCF. We screened all factors that had ChIP-seq data in humans by co-localization analysis with human super conserved CTCF (hscCTCF) binding sites, and identified many new factors that overlapped with hscCTCF binding sites. Combined with CTCF loop information, we observed that clustered factors could promote CTCF loops. After in-depth mining of each factor, we found that many factors might have the potential to promote CTCF loops. Our data further demonstrated that BHLHE40 affected CTCF loops by regulating CTCF binding. Together, this study revealed that many factors have the potential to participate in or regulate CTCF loops, and discovered a new role for BHLHE40 in modulating CTCF loop formation.
Identification and analysis of RNA structural disruptions induced by single nucleotide variants using Riprap and RiboSNitchDB
Authors: Lin Jianan , Chen Yang , Zhang Yuping , Ouyang Zhengqing
Published: August 2020

RNA conformational alteration has significant impacts on cellular processes and phenotypic variations. An emerging genetic factor of RNA conformational alteration is a new class of single nucleotide variant (SNV) named riboSNitch. RiboSNitches have been demonstrated to be involved in many genetic diseases. However, identifying riboSNitches is notably difficult as the signals of RNA structural disruption are often subtle. Here, we introduce a novel computational framework–RIboSNitch Predictor based on Robust Analysis of Pairing probabilities (Riprap). Riprap identifies structurally disrupted regions around any given SNVs based on robust analysis of local structural configurations between wild-type and mutant RNA sequences. Compared to previous approaches, Riprap shows higher accuracy when assessed on hundreds of known riboSNitches captured by various experimental RNA structure probing methods including the parallel analysis of RNA structure (PARS) and the selective 2′-hydroxyl acylation analyzed by primer extension (SHAPE). Further, Riprap detects the experimentally validated riboSNitch that regulates human catechol-O-methyltransferase haplotypes and outputs structurally disrupted regions precisely at base resolution. Riprap provides a new approach to interpreting disease-related genetic variants. In addition, we construct a database (RiboSNitchDB) that includes the annotation and visualization of all presented riboSNitches in this study as well as 24 629 predicted riboSNitches from human expression quantitative trait loci.
Experimental and computational technologies to dissect the kidney at the single-cell level
Authors: Kuppe Christoph , Perales-Patón Javier , Saez-Rodriguez Julio , Kramann Rafael
Published: August 2020

The field of single-cell technologies, in particular single-cell genomics with transcriptomics and epigenomics, and most recently single-cell proteomics, is rapidly growing and holds promise to advance our understanding of organ homoeostasis and disease, and facilitate the identification of novel therapeutic targets and biomarkers. This review offers an introduction to these technologies. In addition, as the size and complexity of the data require sophisticated computational methods for analysis and interpretation, we will also provide an overview of these methods and summarize the single-cell literature specifically pertaining to the kidney.
A novel fully automated MRI-based deep-learning method for classification of 1p/19q co-deletion status in brain gliomas
Authors: Yogananda Chandan Ganesh Bangalore , Shah Bhavya R , Yu Frank F , Pinho Marco C , Nalawade Sahil S , Murugesan Gowtham K , Wagner Benjamin C , Mickey Bruce , Patel Toral R , Fei Baowei , Madhuranthakam Ananth J , Maldjian Joseph A
Published: August 2020

Background

One of the most important recent discoveries in brain glioma biology has been the identification of the isocitrate dehydrogenase (IDH) mutation and 1p/19q co-deletion status as markers for therapy and prognosis. 1p/19q co-deletion is the defining genomic marker for oligodendrogliomas and confers a better prognosis and treatment response than gliomas without it. Our group has previously developed a highly accurate deep-learning network for determining IDH mutation status using T2-weighted (T2w) MRI only. The purpose of this study was to develop a similar 1p/19q deep-learning classification network.

Methods

Multiparametric brain MRI and corresponding genomic information were obtained for 368 subjects from The Cancer Imaging Archive and The Cancer Genome Atlas. 1p/19 co-deletions were present in 130 subjects. Two-hundred and thirty-eight subjects were non-co-deleted. A T2w image-only network (1p/19q-net) was developed to perform 1p/19q co-deletion status classification and simultaneous single-label tumor segmentation using 3D-Dense-UNets. Three-fold cross-validation was performed to generalize the network performance. Receiver operating characteristic analysis was also performed. Dice scores were computed to determine tumor segmentation accuracy.

Results

1p/19q-net demonstrated a mean cross-validation accuracy of 93.46% across the 3 folds (93.4%, 94.35%, and 92.62%, SD = 0.8) in predicting 1p/19q co-deletion status with a sensitivity and specificity of 0.90 ± 0.003 and 0.95 ± 0.01, respectively and a mean area under the curve of 0.95 ± 0.01. The whole tumor segmentation mean Dice score was 0.80 ± 0.007.

Conclusion

We demonstrate high 1p/19q co-deletion classification accuracy using only T2w MR images. This represents an important milestone toward using MRI to predict glioma histology, prognosis, and response to treatment.
Hierarchically structured porous materials: synthesis strategies and applications in energy storage
Authors: Wu Liang , Li Yu , Fu Zhengyi , Su Bao-Lian
Published: August 2020

To address the growing energy demands of sustainable development, it is crucial to develop new materials that can improve the efficiency of energy storage systems. Hierarchically structured porous materials have shown their great potential for energy storage applications owing to their large accessible space, high surface area, low density, excellent accommodation capability with volume and thermal variation, variable chemical compositions and well controlled and interconnected hierarchical porosity at different length scales. Porous hierarchy benefits electron and ion transport, and mass diffusion and exchange. The electrochemical behavior of hierarchically structured porous materials varies with different pore parameters. Understanding their relationship can lead to the defined and accurate design of highly efficient hierarchically structured porous materials to enhance further their energy storage performance. In this review, we take the characteristic parameters of the hierarchical pores as the survey object to summarize the recent progress on hierarchically structured porous materials for energy storage. This is the first of this kind exclusively to survey the performance of hierarchically structured porous materials from different porous characteristics. For those who are not familiar with hierarchically structured porous materials, a series of very significant synthesis strategies of hierarchically structured porous materials are firstly and briefly reviewed. This will be beneficial for those who want to quickly obtain useful reference information about the synthesis strategies of new hierarchically structured porous materials to improve their performance in energy storage. The effect of different organizational, structural and geometric parameters of porous hierarchy on their electrochemical behavior is then deeply discussed. We outline the existing problems and development challenges of hierarchically structured porous materials that need to be addressed in renewable energy applications. We hope that this review can stimulate strong intuition into the design and application of new hierarchically structured porous materials in energy storage and other fields.
Clinical and Patient-Reported Outcomes of Direct-Acting Antivirals for the Treatment of Chronic Hepatitis C Among Patients on Opioid Agonist Treatment: A Real-world Prospective Cohort Study
Authors: Schulte Bernd , Schmidt Christiane S , Manthey Jakob , Strada Lisa , Christensen Stefan , Cimander Konrad , Görne Herbert , Khaykin Pavel , Scherbaum Norbert , Walcher Stefan , Mauss Stefan , Schäfer Ingo , Verthein Uwe , Rehm Jürgen , Reimer Jens
Published: August 2020

Background

Patient-reported outcomes (PROs) can help to reduce uncertainties about hepatitis C virus (HCV) treatment with direct-acting antivirals (DAAs) among people who inject drugs and increase treatment uptake in this high-risk group. Besides clinical data, this study analyzed for the first time PROs in a real-world sample of patients on opioid agonist treatment (OAT) and HCV treatment with DAAs.

Methods

HCV treatment data including virological response, adherence, safety, and PROs of 328 German patients on OAT were analyzed in a pragmatic prospective cohort study conducted from 2016 to 2018. Clinical effectiveness was defined as sustained virological response (SVR) at week 12 after end of treatment and calculated in per-protocol (PP) and intention-to-treat (ITT) analyses. Changes over time in PROs on health-related quality of life, physical and mental health, functioning, medication tolerability, fatigue, concentration, and memory were analyzed by repeated-measures analyses of variances (ANOVAs).

Results

We found high adherence and treatment completion rates, a low number of mainly mild adverse events, and high SVR rates (PP: 97.5% [n = 285]; ITT: 84.5% [n = 328]). Missing SVR data in the ITT sample were mainly caused by patients lost to follow-up after treatment completion. Most PROs showed statistically significant but modest improvements over time, with more pronounced improvements in highly impaired patients.

Conclusions

This real-world study confirms that DAA treatment among OAT patients is feasible, safe, and effective. PROs show that all patients, but particularly those with higher somatic, mental, and social burden, benefit from DAA treatment.
Clinical Characteristics and Outcomes Based on Race of Hospitalized Patients With COVID-19 in a New Orleans Cohort
Authors: Silver Victoria , Chapple Andrew G , Feibus Allison H , Beckford Jeremy , Halapin Natalie A , Barua Delphi , Gordon Angellica , Baumgartner Will , Vignes Seth , Clark Cullen , Kamboj Sanjay , Lim Stephen C , Mackey Scott P , Seal Paula S , Kanter Joseph M , Bell Caryn , Clement Meredith E
Published: August 2020

Background

In Louisiana, deaths related to COVID-19 have disproportionately occurred in Black persons. Granular data are needed to better understand inequities and develop prevention strategies to mitigate further impact on Black communities.

Methods

We conducted a retrospective study of patients admitted to an urban safety net hospital in New Orleans, Louisiana, with reactive SARS-CoV-2 testing from March 9 to 31, 2020. Clinical characteristics of Black and other racial/ethnic group patients were compared using Wilcoxon rank-sum test and Fisher exact tests. The relationship between race and outcome was assessed using day 14 status on an ordinal scale.

Results

This study included 249 patients. The median age was 59, 44% were male, and 86% were age ≥65 years or had ≥1 comorbidity. Overall, 87% were Black, relative to 55% Black patients typically hospitalized at our center. Black patients had longer symptom duration at presentation (6.41 vs 5.88 days; P = .05) and were more likely to have asthma (P = .008) but less likely to have dementia (P = .002). There were no racial differences in initial respiratory status or laboratory values except for higher lactate dehydrogenase in Black patients. Patient age and initial oxygen requirement, but not race (adjusted proportional odds ratio, 0.92; 95% CI, 0.70–1.20), were associated with worse day 14 outcomes.

Conclusions

Our results demonstrate minor racial differences in comorbidities or disease severity at presentation, and day 14 outcomes were not different between groups. However, Black patients were disproportionately represented in hospitalizations, suggesting that prevention efforts should include strategies to limit SARS-CoV-2 exposures and transmission in Black communities as one step toward reducing COVID-19-related racial inequities.
Outcomes of Outpatient Parenteral Antimicrobial Therapy With Ceftriaxone for Methicillin-Susceptible Staphylococcus aureus Bloodstream Infections—A Single-Center Observational Study
Authors: Hamad Yasir , Connor Lee , Bailey Thomas C , George Ige A
Published: August 2020

Background

Staphylococcus aureus bloodstream infections (BSIs) are associated with significant morbidity and mortality. Ceftriaxone is convenient for outpatient parenteral antimicrobial therapy (OPAT), but data for this indication are limited.

Methods

Adult patients with methicillin-susceptible Staphylococcus aureus (MSSA) BSI discharged on OPAT with cefazolin, oxacillin, or ceftriaxone for at least 7 days were included. We compared outcomes of ceftriaxone vs either oxacillin or cefazolin. Ninety-day all-cause mortality, readmission due to MSSA infection, and microbiological failure were examined as a composite outcome and compared among groups. Rates of antibiotic switches due to intolerance were assessed.

Results

Of 243 patients included, 148 (61%) were discharged on ceftriaxone and 95 (39%) were discharged on either oxacillin or cefazolin. The ceftriaxone group had lower rates of intensive care unit care, endocarditis, and shorter duration of bacteremia, but higher rates of cancer diagnoses. There was no significant difference in the composite adverse outcome in the oxacillin or cefazolin group vs the ceftriaxone group (18 [19%] vs 31 [21%]; P = .70), comprising microbiological failure (6 [6.3%] vs 9 [6.1%]; P = .94), 90-day all-cause mortality (7 [7.4%] vs 15 [10.1%]; P = .46), and readmission due to MSSA infection (10 [10.5%] vs 13 [8.8%]; P = .65). Antibiotic intolerance necessitating a change was similar between the 2 groups (4 [4.2%] vs 6 [4.1%]; P = .95).

Conclusions

For patients with MSSA BSI discharged on OPAT, within the limitations of the small numbers and retrospective design we did not find a significant difference in outcomes for ceftriaxone therapy when compared with oxacillin or cefazolin therapy.
Genotypic and Phenotypic Characteristics of Staphylococcus aureus Prosthetic Joint Infections: Insight on the Pathogenesis and Prognosis of a Multicenter Prospective Cohort
Authors: Muñoz-Gallego Irene , Viedma Esther , Esteban Jaime , Mancheño-Losa Mikel , García-Cañete Joaquín , Blanco-García Antonio , Rico Alicia , García-Perea Adelaida , Ruiz Garbajosa Patricia , Escudero-Sánchez Rosa , Sánchez Somolinos Mar , Marín Arriaza Mercedes , Romanyk Juan , Barbero José María , Arribi Vilela Ana , González Romo Fernando , Pérez-Jorge Conchita , M. Arana David , Monereo Alfonso , Domingo Diego , Cordero José , Sánchez Romero Mª Isabel , García Viejo Miguel Ángel , Lora-Tamayo Jaime , Chaves Fernando ,   Grupo de Infección Osteoarticular de la Comunidad de Madrid, Cambero Raúl Parrón , Rubio Álvaro Auñón , Roblas Ricardo Fernández , Hernández Luis Alcalá , Martínez Javier Marco , Fonseca Berta Laguna , Cacho Juana , Caballero Gloria Pérez
Published: August 2020

Background

Staphylococcus aureus is the leading cause of prosthetic joint infection (PJI). Beyond the antibiogram, little attention has been paid to the influence of deep microbiological characteristics on patient prognosis. Our aim was to investigate whether microbiological genotypic and phenotypic features have a significant influence on infection pathogenesis and patient outcome.

Methods

A prospective multicenter study was performed, including all S. aureus PJIs (2016–2017). Clinical data and phenotypic (agr functionality, β-hemolysis, biofilm formation) and genotypic characteristics of the strains were collected. Biofilm susceptibility to antimicrobials was investigated (minimal biofilm eradication concentration [MBEC] assay).

Results

Eighty-eight patients (39.8% men, age 74.7 ± 14.1 years) were included. Forty-five had early postoperative infections (EPIs), 21 had chronic infections (CPIs), and 19 had hematogenous infections (HIs). Twenty (22.7%) were caused by methicillin-resistant S. aureus. High genotypic diversity was observed, including 16 clonal complexes (CCs), with CC5 being the most frequent (30.7%). agr activity was greater in EPI than CPI (55.6% vs 28.6%; P = .041). Strains causing EPI were phenotypically and genotypically similar, regardless of symptom duration. Treatment failure (36.5%) occurred less frequently among cases treated with implant removal. In cases treated with debridement and implant retention, there were fewer failures among those who received combination therapy with rifampin. No genotypic or phenotypic characteristics predicted failure, except vancomycin minimal inhibitory concentration ≥1.5 mg/L (23.1% failure vs 3.4%; P = .044). MBEC50 was >128 mg/L for all antibiotics tested and showed no association with prognosis.

Conclusions

S. aureus with different genotypic backgrounds is capable of causing PJI, showing slight differences in clinical presentation and pathogenesis. No major microbiological characteristics were observed to influence the outcome, including MBEC.
Concurrent Hepatitis C and B Virus and Human Immunodeficiency Virus Infections Are Associated With Higher Mortality Risk Illustrating the Impact of Syndemics on Health Outcomes
Authors: Butt Zahid A , Wong Stanley , Rossi Carmine , Binka Mawuena , Wong Jason , Yu Amanda , Darvishian Maryam , Alvarez Maria , Chapinal Nuria , Mckee Geoff , Gilbert Mark , Tyndall Mark W , Krajden Mel , Janjua Naveed Z
Published: August 2020

Background

Hepatitis C virus (HCV), hepatitis B virus (HBV), and human immunodeficiency virus (HIV) infections are associated with significant mortality globally and in North America. However, data on impact of concurrent multiple infections on mortality risk are limited. We evaluated the effect of HCV, HBV, and HIV infections and coinfections and associated factors on all-cause mortality in British Columbia (BC), Canada.

Methods

The BC Hepatitis Testers Cohort includes ~1.7 million individuals tested for HCV or HIV, or reported as a case of HCV, HIV, or HBV from 1990 to 2015, linked to administrative databases. We followed people with HCV, HBV, or HIV monoinfection, coinfections, and triple infections from their negative status to date of death or December 31, 2016. Extended Cox proportional hazards regression was used to estimate hazard ratios (HRs) and 95% confidence intervals (CIs) for factors associated with all-cause mortality.

Results

Of 658 704 individuals tested for HCV, HBV, and HIV, there were 33 804 (5.13%) deaths. In multivariable Cox regression analysis, individuals with HCV/HBV/HIV (HR, 8.9; 95% CI, 8.2–9.7) infections had the highest risk of mortality followed by HCV/HIV (HR, 4.8; 95% CI, 4.4–5.1), HBV/HIV (HR, 4.1; 95% CI, 3.5–4.8), HCV/HBV (HR, 3.9; 95% CI, 3.7–4.2), HCV (HR, 2.6; 95% CI, 2.6–2.7), HBV (HR, 2.2; 95% CI, 2.0–2.3), and HIV (HR, 1.6; 95% CI, 1.5–1.7). Additional factors associated with mortality included injection drug use, problematic alcohol use, material deprivation, diabetes, chronic kidney disease, heart failure, and hypertension.

Conclusions

Concurrent multiple infections are associated with high mortality risk. Substance use, comorbidities, and material disadvantage were significantly associated with mortality independent of coinfection. Preventive interventions, including harm reduction combined with coinfection treatments, can significantly reduce mortality.
Frameless Stereotactic Brain Biopsies: Comparison of Minimally Invasive Robot-Guided and Manual Arm-Based Technique
Authors: Minchev Georgi , Kronreif Gernot , Ptacek Wolfgang , Kettenbach Joachim , Micko Alexander , Wurzer Ayguel , Maschke Svenja , Wolfsberger Stefan
Published: August 2020

BACKGROUND

Most brain biopsies are still performed with the aid of a navigation-guided mechanical arm. Due to the manual trajectory alignment without rigid skull contact, frameless aiming devices are prone to considerably lower accuracy.

OBJECTIVE

To compare a novel minimally invasive robot-guided biopsy technique with rigid skull fixation to a standard frameless manual arm biopsy procedure.

METHODS

Accuracy, procedural duration, diagnostic yield, complication rate, and cosmetic result were retrospectively assessed in 40 consecutive cases of frameless stereotactic biopsies and compared between a minimally invasive robotic technique using the iSYS1 guidance device (iSYS Medizintechnik GmbH) (robot-guided group [ROB], n = 20) and a manual arm-based technique (group MAN, n = 20).

RESULTS

Application of the robotic technique resulted in significantly higher accuracy at entry point (group ROB median 1.5 mm [0.4-3.2 mm] vs manual arm-based group (MAN) 2.2 mm [0.2-5.2 mm], P = .019) and at target point (group ROB 1.5 mm [0.4-2.8 mm] vs group MAN 2.8 mm [1.4-4.9 mm], P = .001), without increasing incision to suture time (group ROB 30.0 min [20-45 min vs group MAN 32.5 min [range 20-60 min], P = .09) and significantly shorter skin incision length (group ROB 16.3 mm [12.7-23.4 mm] vs group MAN 24.2 mm [18.0-37.0 mm], P = .008).

CONCLUSION

According to our data, the proposed technique of minimally invasive robot-guided brain biopsies can improve accuracy without increasing operating time while being equally safe and effective compared to a standard frameless arm-based manual biopsy technique.
Interannual variability of diet composition and prey preference of larval redfish (Sebastes spp.) in the Gulf of St. Lawrence
Authors: Burns Corinne M , Lauzon Félix , Plourde Stéphane , Sirois Pascal , Robert Dominique
Published: August 2020

Spatiotemporal overlap between fish larvae and their planktonic prey is an important source of recruitment variability. Over the past decade, one species of redfish, Sebastes mentella, from the Gulf of St. Lawrence (GSL) produced multiple strong cohorts following decades of low recruitment, which has generated strong interest in identifying potential drivers of larval survival. The present study provides the first detailed, multi-year assessment of larval redfish (Sebastes spp.) trophodynamics. Interannual variability in larval redfish diet composition and prey selectivity was assessed using high-resolution prey identification of larval gut contents and in situ prey fields. Eggs from the calanoid copepod Calanus finmarchicus represented the most frequently consumed prey in 3 of the 4 collection years, and contributed the largest proportion of carbon ingested by redfish larvae in all years. The high consumption of C. finmarchicus eggs by larvae, combined with evidence of positive selection for this taxon in some years, supports the hypothesis of a strong trophic link between larval redfish and a key calanoid copepod in the GSL ecosystem. Our results indicate that future efforts investigating GSL redfish recruitment processes should consider environment-driven variability in the reproductive phenology and abundance of C. finmarchicus.
Efficacy of concentrated growth factors combined with mineralized collagen on quality of life and bone reconstruction of guided bone regeneration
Authors: Dai Yan , Han Xiao-Hui , Hu Li-Hua , Wu Hai-Wei , Huang Sheng-Yun , Lü Yu-Peng
Published: August 2020

To evaluate the clinical efficacy of concentrated growth factors (CGFs) combined with mineralized collagen (MC) in guided bone regeneration (GBR). A retrospective study involving 29 patients treated with GBR technique, which was performed either CGF and MC complexes or MC alone. Implants were inserted simultaneously and cone-beam computed tomography was taken immediately, at 3 and 6 months postoperation. Questionnaires were completed by all patients so as to evaluate the main symptoms and daily activities during the first week after surgery. The outcomes of the two groups were statistically compared. All implants healed uneventfully. Patients in both groups suffered from different levels of discomfort for the reason of swelling, pain and chewing impairment on 1–2 days. Meanwhile, swelling of the Trial group was weaker than the Control group. When compared with the Control group, pain levels in Trial group were more rapidly reduced and patients took fewer analgesics from Day 3. Furthermore, the reconstitution mean value of the graft was thicker at 3 and 6 months in Trial group. CGFs complex with MC were beneficial to relieve the clinical symptoms, promote the peri-implant bone regeneration and shorten the healing time.
Individual responses to topical ibuprofen gel or capsaicin cream for painful knee osteoarthritis: a series of n-of-1 trials
Authors: Persson Monica S M , Stocks Joanne , Sarmanova Aliya , Fernandes Gwen , Walsh David A , Doherty Michael , Zhang Weiya
Published: August 2020

Objectives

To determine individual responses to ibuprofen gel or capsaicin cream for painful, radiographic knee OA using a series of n-of-1 trials.

Methods

Twenty-two participants were allocated 5% ibuprofen gel (A) and 0.025% capsaicin cream (B) in random sequence (AB or BA). Patients underwent up to 3 treatment cycles, each comprising one treatment for 4 weeks, an individualized washout period (maximum 4 weeks), then the other treatment for 4 weeks. Differential (ibuprofen or capsaicin) response was defined when change-from-baseline pain intensity scores (0–10 NRS) differed by ≥1 between treatments in ≥2 cycles within a participant.

Results

A total of 104 treatment periods were aggregated. Mean pain reduction was 1.2 (95% CI: 0.5, 1.8) on ibuprofen and 1.6 (95% CI: 0.9, 2.4) on capsaicin (P = 0.221). Of 22 participants, 4 (18%) had a greater response to ibuprofen, 9 (41%) to capsaicin, 4 (18%) had similar responses, and 5 (23%) were undetermined.

Conclusion

Irrespective of equal efficacy overall, 59% of people displayed a greater response to one treatment over the other. Patients who do not benefit from one type of topical treatment should be offered to try another, which may be more effective. N-of-1 trials are useful to identify individual response to treatment.

Clinical trial registration

https://clinicaltrials.gov, NCT03146689
Rheumatoid arthritis related interstitial lung disease – improving outcomes over 25 years: a large multicentre UK study
Authors: Kelly Clive A , Nisar Mohamed , Arthanari Suba , Carty Sarah , Woodhead Felix A , Price-Forbes Alex , Middleton David , Dempsey Owen , Miller Dave , Basu Neil , Dawson Julie , Sathi Nav , Ahmad Yasmin , Palmer Evelyn , Iqbal Kundan , Janakiraman Geeta , Koduri Gouri , Young Adam
Published: August 2020

Objective

This study explores whether the prognosis of interstitial lung disease in rheumatoid arthritis (RA-ILD) has improved over time and assesses the potential influence of drug therapy in a large multicentre UK network.

Methods

We analysed data from 18 UK centres on patients meeting criteria for both RA and ILD diagnosed over a 25-year period. Data included age, disease duration, outcome and cause of death. We compared all cause and respiratory mortality between RA controls and RA-ILD patients, assessing the influence of specific drugs on mortality in four quartiles based on year of diagnosis.

Results

A total of 290 RA-ILD patients were identified. All cause (respiratory) mortality was increased at 30% (18%) compared with controls 21% (7%) (P =0.02). Overall, prognosis improved over quartiles with median age at death rising from 63 years to 78 years (P =0.01). No effect on mortality was detected as a result of DMARD use in RA-ILD. Relative risk (RR) of death from any cause was increased among patients who had received anti-TNF therapy [2.09 (1.1–4.0)] P =0.03, while RR was lower in those treated with rituximab [0.52(0.1–2.1)] or mycophenolate [0.65 (0.2–2.0)]. Patients receiving rituximab as their first biologic had longer three (92%), five (82%) and seven year (80%) survival than those whose first biologic was an anti-TNF agent (82%, 76% and 64%, respectively) (P =0.037).

Discussion

This large retrospective multicentre study demonstrates survival of patients with RA-ILD has improved. This may relate to the increasing use of specific immunosuppressive and biologic agents.
Serial Eviction Filing: Civil Courts, Property Management, and the Threat of Displacement
Authors: Leung Lillian , Hepburn Peter , Desmond Matthew
Published: August 2020

Drawing on over 8 million eviction court records from twenty-eight states, this study shows the role that eviction filings play in extracting monetary sanctions from tenants. In so doing, it documents an unanticipated feature of housing insecurity: serial eviction filings. Serial eviction filings occur when a property manager files to evict the same household repeatedly from the same address. Almost half of all eviction filings in our sample are associated with serial filings. Combining multivariate analysis with in-depth interviews conducted with thirty-three property managers and ten attorneys and court officials, we document the dynamics and consequences of serial eviction filings. When legal environments expedite the eviction process, property managers use the housing court to collect rent and late fees, passing costs on to tenants. Serial eviction filings exacerbate tenants’ housing cost burden and compromise their ability to find future housing. Using tract-level rent and filing fees, we estimate that each eviction filing translates into approximately $180 in fines and fees for the typical renter household, raising their monthly housing cost by 20%. The study challenges existing views of eviction as a discrete event concentrated among poor renters. Rather, it may be better conceived of as a routinized, drawn-out process affecting a broader segment of the rental market and entailing consequences beyond displacement.
Flavonoid and cannabinoid impact on the ocular surface
Authors: Bielory Leonard , Tabliago Nikko Rowe A.
Published: August 2020

Purpose of review

To evaluate the impact of flavonoids and cannabinoids as anti-inflammatory and antiallergic treatments on the anterior surface of the eye.

Recent findings

Allergic conjunctivitis and dry eye syndrome are common ocular surface diseases that have been treated with traditional pharmacological measures, e.g. corticosteroids, antihistamines. Given the side-effect profiles of these medications and the growing interest in complementary treatment modalities as part of integrative medical interventions, well known flavonoids, such as quercetin and catechin, are under investigation for topical and systemic application methods for relief. As flavonoid derivatives, pycnogenol and epigallocatechin gallate have alleviated dry eye symptoms, including lacrimal gland inflammation, tear secretion, and the stability of the tear film. Research on ocular cannabinoid receptors and response to synthetic cannabinoids are also being considered for therapy of anterior ocular disorders. The expansion of herbal formulations provides a framework for future treatment regimens for ocular surface disorders.

Flavonoids and cannabinoids show promise as potential complementary treatment for allergic diseases because of their anti-inflammatory and antiallergic properties. Several studies implementing ocular and systemic application of these compounds show potential in becoming adjuvant treatment strategies for improving quality of life while also managing ocular surface disease processes.
Muscular Strength and Cardiovascular Disease
Authors: Carbone Salvatore , Kirkman Danielle L. , Garten Ryan S. , Rodriguez-Miguelez Paula , Artero Enrique G. , Lee Duck-chul , Lavie Carl J.
Published: August 2020

This review discusses the associations of muscular strength (MusS) with cardiovascular disease (CVD), CVD-related death, and all-cause mortality, as well as CVD risk factors, such as metabolic syndrome, diabetes, obesity, and hypertension. We then briefly review the role of resistance exercise training in modulating CVD risk factors and incident CVD.

The role of MusS has been investigated over the years, as it relates to the risk to develop CVD and CVD risk factors. Reduced MusS, also known as dynapenia, has been associated with increased risk for CVD, CVD-related mortality, and all-cause mortality. Moreover, reduced MusS is associated with increased cardiometabolic risk. The majority of the studies investigating the role of MusS with cardiometabolic risk, however, are observational studies, not allowing to ultimately determine association versus causation. Importantly, MusS is also essential for the identification of nutritional status and body composition abnormalities, such as frailty and sarcopenia, which are major risk factors for CVD.