bluuebunny/crossref_metadata_2025 huggingface dataset:
Metatranscriptomics provide insights into the role of the symbiont Midichloria mitochondrii in Ixodes ticks
Authors: Leclerc Laurene , Mattick John , Burns Brendan P , Sassera Davide , Hotopp Julie Dunning , Lo Nathan
Published: October 2024

Ticks are important vectors of bacterial, viral, and protozoan pathogens of humans and animals worldwide. Candidatus Midichloria mitochondrii is a highly abundant bacterial endosymbiont found in many tick species, including two medically important ticks respectively found in Europe and Australia, Ixodes ricinus and Ixodes holocyclus. The present study aimed to determine the symbiont’s biological role by identifying lateral gene transfer (LGT) events, characterizing the transcriptome, and performing differential expression analyses. Metatranscriptomic data revealed that M. mitochondrii species in I. ricinus and I. holocyclus were equipped with the metabolic potential and were actively transcribing the genes for several important roles including heme, biotin and folate synthesis, oxidative stress response, osmotic regulation, and ATP production in microaerobic conditions. Differential expression analyses additionally showed an upregulation in stringent response and DNA repair genes in M. mitochondrii of I. holocyclus nymphs compared to adults. Low rates of differential expression suggest the symbiont may lack global gene regulation, as observed in other endosymbionts. Moreover, the identification of an LGT event and the proposed specialization of the M. mitochondrii strains, mIxholo1 and mIxholo2, for different I. holocyclus life stages highlight the complex interactions between M. mitochondrii and their tick hosts.
Online patient–provider communication and healthy ageing: the roles of health literacy and health self-efficacy
Authors: Liu Piper Liping
Published: October 2024

eHealth involves using digital technologies, like electronic health records and telemedicine, to enhance healthcare delivery and outcomes. For older adults, eHealth helps manage chronic conditions, access services remotely, and engage in preventive health, improving physical and psychological well-being. This study investigates the association between online patient–provider communication (OPPC) and older adults’ quality of life (QoL, i.e. sleep quality, exercise and psychological health). The study also explores how health literacy and health self-efficacy mediate the relationship between OPPC and QoL. This study utilized data from the National Cancer Institute’s Health Information National Trends Survey, collected in 2019 (HINTS 5 Cycle 3), specifically targeting individuals aged ≥ 60 (N = 2587). The associations among variables were analysed using structural equation modelling. OPPC was positively and significantly associated with health literacy (β = 0.53, p < 0.001). Health literacy was positively and significantly related to health self-efficacy (β = 0.02, p < 0.001). Health self-efficacy was significantly related to five dimensions of QoL: sleep quality (β = 0.20, p < 0.001), fruit and vegetable consumption (β = 0.13, p < 0.010), exercise (β = 0.59, p < 0.001), sedentariness (β = −0.58, p < 0.001) and psychological health (β = 0.24, p < 0.001). Besides, health literacy and health self-efficacy also mediated the influence of OPPC on QoL sequentially, being identificators as two serial mediators between OPPC and older adults’ QoL. This study suggests that OPPC plays an important role in older adults’ QoL.
The effect of structured psychoeducation for caregivers of ALS patients on perceived stress, psychological resilience and self-compassion
Authors: Duran Songül , Aydogdu Arzu
Published: October 2024

Patients diagnosed with amyotrophic lateral sclerosis (ALS) become dependent on caregivers to meet their daily needs and perform personal care activities. For this reason, ALS is a disease that can challenge both the patient and the caregiver physically, mentally and socially. Supporting the caregiver indirectly affects the patient’s quality of care and mental well-being. Therefore, this study aimed to determine the effect of a structured psychoeducation program on coping with stress, psychological resilience and self-compassion in caregivers of ALS patients. This quasi-experimental study with a pre-test–post-test control group was conducted with caregivers of 62 ALS patients in Türkiye. The study was conducted between July 2023 and February 2024. A psychoeducation program was applied to five different groups via zoom application for 6 weeks each. The survey form, Perceived Stress Scale, Brief Resilience Scale and Short Form of Self-Compassion Questionnaire were used as measurement tools. The chi-squared test and paired samples t-test were used to analyze the data. While there was no significant difference between the intervention group and the control group in the pre-test in terms of their mean scores on the coping with stress inventory, short psychological resilience scale and self-compassion scale, at the post-test, psychological resilience and self-compassion scores were significantly higher in the intervention group. This study revealed that psychoeducational programs that support caregivers are effective in increasing psychological resilience and self-compassion.
Epigenome-Wide DNA Methylation in Unipolar Depression: Predictive Biomarker of Antidepressant Treatment Response?
Authors: Schiele Miriam A , Crespo Salvador Oscar , Lipovsek Jan , Schwarte Kathrin , Schlosser Pascal , Zwanzger Peter , Arolt Volker , Baune Bernhard T , Köttgen Anna , Domschke Katharina
Published: October 2024

Background

Despite the well-documented efficacy of antidepressant agents for the treatment of major depressive disorder (MDD), initial treatment nonresponse rates are high. Recent years have seen an increase in research into predictive biomarkers toward improving diagnosis and individualized treatment. Among those, epigenetic mechanisms such as DNA methylation constitute promising candidate markers in predicting antidepressant treatment response in MDD. The present study sought to address epigenome-wide DNA methylation as a predictor of antidepressant treatment response in the largest sample to date of patients with MDD.

Methods

Epigenome-wide DNA methylation was analyzed using the Infinium MethylationEPIC BeadChip in peripheral blood of n = 230 Caucasian patients with MDD receiving 6-week antidepressant treatment in a naturalistic in-patient setting as well as in a subsample of n = 107 patients primarily receiving continuous treatment with serotonin reuptake inhibitors or serotonin and norepinephrine reuptake inhibitors. Treatment response was assessed by means of the Hamilton Depression Scale.

Results

No genome-wide significant hits were observed. Suggestive (P < 1E-5) epigenome-wide evidence was discerned for altered DNA methylation at 6 CpG sites (LOC102724467, LOC100506023, RSPO2, SAG, IL16, PRKCI) to predict response to naturalistic antidepressant treatment. In patients treated with serotonin reuptake inhibitors or serotonin and norepinephrine reuptake inhibitors, differential DNA methylation at 11 CpGs, for example, mapping to the TIMP2, VDAC1, or SORL1 genes, was suggestively associated with treatment response.

Conclusions

The present results provide preliminary evidence for altered DNA methylation patterns to be associated with antidepressant treatment response in MDD. Provided significant replication in independent and larger samples, the present findings might in the future aid in clinical decision-making toward more individualized and thus more efficacious treatments of MDD.
High Frequency of Artemisinin Partial Resistance Mutations in the Great Lakes Region Revealed Through Rapid Pooled Deep Sequencing
Authors: Wernsman Young Neeva , Gashema Pierre , Giesbrecht David , Munyaneza Tharcisse , Maisha Felicien , Mwebembezi Fred , Budodo Rule , Leonetti Alec , Crudale Rebecca , Iradukunda Vincent , Jean Bosco Ntwari , Kirby Rebecca I , Boyce Ross M , Mandara Celine I , Kanyankole Grace K , Ntaro Moses , Okell Lucy C , Watson Oliver J , Mulogo Edgar , Ishengoma Deus S , Hangi Stan , Karema Corine , Mazarati Jean-Baptiste , Juliano Jonathan J , Bailey Jeffrey A
Published: October 2024

Background

In Africa, the first Plasmodium falciparum artemisinin partial resistance mutation was Kelch13 (K13) 561H, detected and validated at appreciable frequency in Rwanda in 2014. Surveillance to better define the extent of the emergence in Rwanda and neighboring countries is critical.

Methods

We used novel liquid blood drop preservation with pooled sequencing to provide cost-effective rapid assessment of resistance mutation frequencies at multiple collection sites across Rwanda and neighboring regions in Uganda, Tanzania, and the Democratic Republic of the Congo. Malaria-positive samples (N = 5465) from 39 health facilities collected between May 2022 and March 2023 were sequenced in 199 pools.

Results

In Rwanda, K13 561H and 675V were detected in 90% and 65% of sites, with an average frequency of 19.0% (range, 0%–54.5%) and 5.0% (0%–35.5%), respectively. In Tanzania, 561H had high frequency in multiple sites. 561H appeared at 1.6% in Uganda. 561H was absent from the Democratic Republic of the Congo, although 675V was seen at low frequency. Concerningly, candidate mutations were observed: 441L, 449A, and 469F co-occurred with validated mutations, suggesting that they are arising under the same pressures. Other markers for decreased susceptibility to artemether-lumefantrine are common: P falciparum multidrug resistance protein 1 N86 at 98.0% (range, 63.3%–100%) and 184F at 47.0% (0%–94.3%) and P falciparum chloroquine resistance transporter 76T at 14.7% (0%–58.6%). Additionally, sulfadoxine-pyrimethamine–associated mutations show high frequencies.

Conclusions

K13 mutations are rapidly expanding in the region, further endangering control efforts with the potential of engendering partner drug resistance.
Molecular diversity in fusidic acid–resistant Methicillin Susceptible Staphylococcus aureus
Authors: Bivona Dalida , Nicitra Emanuele , Bonomo Carmelo , Calvo Maddalena , Migliorisi Giuseppe , Perez Marianna , Privitera Grete Francesca , Musso Nicolò , Stefani Stefania , Bongiorno Dafne
Published: October 2024

Objectives

The recent emergence of fusidic acid (FA)–resistant Staphylococcus aureus has underscored the importance of active surveillance in isolating these strains. The molecular basis of fusidic acid resistance and the carriage of virulence factors in four borderline oxacillin-resistant Staphylococcus aureus (BORSA) clinical strains was assessed through phenotypical and genotypical methods.

Methods

All S. aureus clinical strains were obtained from various hospital units in Sicily. In vitro antibiotic susceptibility testing was conducted. WGS was performed using the Illumina MiSeq Platform, and data analysis was carried out to determine ST, resistome and virulome profiles.

Results

Genotypic characterization revealed that the strains belong to four STs: ST630, ST8, ST15, and ST1. FA resistance was associated with mutations in the fusA gene or fusB and fusC genes. Additionally, one case exhibited resistance to mupirocin, related to the presence of the mupA gene. Borderline MIC values were observed for cefoxitin in three out of four cases, leading to their categorization as BORSA. Virulence gene content was complex and diversified, with one testing positive for the lukS/F genes, coding for PVL toxin.

Conclusions

Resistance to FA is multifactorial, involving point mutations in chromosomal genes or association with mobile genetic elements. Monitoring the resistance to these antibiotics might help to manage and eradicate mupirocin- and FA-resistant S. aureus strains, which are also known to be important carriers of virulence determinants.
A study of solely used phytase or in combination with multi-carbohydrase on growth performance along with tibia mineralization, and carcass traits in broilers fed nutrient-deficient diets
Authors: Sta. Cruz Bernadette G , Yu Myunghwan , Oketch Elijah O , Nawarathne Shan R , Chathuranga Nuwan C , Maniraguha Venuste , Seo Eunsoo , Lee Jeseok , Park Haeeun , Yun Hyungjung , Lee Dohoon , Heo Jung Min
Published: October 2024

The objective of this study aimed to investigate the effectiveness of phytase alone and in combination with multi-carbohydrase in available phosphorus (AP) and energy-deficient diets on growth performance, nutrient digestibility, tibia traits, and carcass quality of broilers. A total of 288 1-d-old Ross 308 broiler chicks were randomly assigned to one of 6 dietary treatments in a completely randomized design, with each treatment having 6 replicates and 8 birds per cage. The treatments were as follows: 1) positive control with adequate nutrition (PC); 2) 0.20% AP-deficient diet without phytase (NC-1); 3) 0.25% AP-deficient diet without phytase (NC-2); 4) NC-1 diet plus 500 FTU/kg phytase (NCP-1); 5) NC-2 diet plus 750 FTU/kg phytase (NCP-2); and 6) NC-2 with 100 kcal/kg ME deficient diet plus 1,000 FTU/kg phytase and multi-carbohydrase: 2,200 U/kg galactomannanase, 30,000 U/kg xylanase, 22,000 U/kg β-glucanase, and 700 U/kg α-galactosidase (NCPM). Broilers in the PC group and those fed enzyme-supplemented diets exhibited greater (P < 0.05) growth performance in terms of body weight, average daily gain, and feed conversion ratio, along with enhanced tibia mineralization through the ash, calcium (Ca), phosphorus (P) composition, and tibia breaking strength compared to NC diets throughout the study. Among the treatments, broilers assigned to the NCPM group showed greater (P < 0.05) levels of energy and P digestibility on days 21 and 35. Concerning carcass characteristics, the leg meat yield was greater (P < 0.05) in broilers fed the NCP-2 diet compared to all other treatments on days 21 and 35. Supplementation of phytase at doses of 500 FTU/kg and 750 FTU/kg effectively recovers AP deficiencies of 0.20% and 0.25%, respectively, in broiler diets without compromising the growth performance of broilers. Additionally, combining multi-carbohydrase and phytase led to AP and energy loss recovery, which improved tibia mineralization and nutrient digestibility through their synergistic interaction.
Liquid–liquid extraction solvent selection for comparing illegal drugs in whole blood and dried blood spot with LC–MS–MS
Authors: Aydoğdu Melike , Ertaş Hasan , Ertaş Fatma Nil , Akgür Serap Annette
Published: October 2024

This study focused on the simultaneous detection of amphetamine, 3,4-methylenedioxy methamphetamine, morphine, benzoylecgonine, and 11-nor-9-carboxy-tetrahydrocannabinol in whole blood and dried blood spot (DBS). It is aimed to select a solvent mixture for liquid–liquid extraction technique employing liquid chromatography–tandem mass spectrometry (LC–MS-MS). The obtained DBS results were compared with the whole blood samples results. A simple, rapid, and reliable LC–MS-MS method was developed and validated for all analytes in whole blood and DBS. LC was performed on a Hypersil Gold C18 column with an initial gradient of 0.01% formic acid, 5 mM ammonium format buffer in water, and acetonitrile at 0.3 ml/min with 7.5 min runtime. A methanol:acetonitrile (40:60 v/v) mixture was selected for both matrices. Limit of quantitation (LOQ) values were 10–25 ng/mL; linear ranges were LOQ–500 ng/ml for all analytes; correlation coefficients were greater than 0.99, and all calibrator concentrations were within 20%. Analytical recovery in blood and DBS ranged from 84.9% to 113.2% of the expected concentration for both intra- and inter-day. Analytes were stable for 1, 10, and 30 days after three freeze/thaw cycles. It was determined that the variances of the results obtained with the two matrices in the comparison study were equal for each analyte, and the results were highly correlated (r = 0.9625). A sensitive, accurate, and reliable chromatographic method was developed to determine amphetamine, 3,4-methylenedioxy methamphetamine, morphine, benzoylecgonine, and cannabis, by performing the same preliminary steps with whole blood and dried blood spots. It was observed that the results obtained in these two matrices were compatible and interchangeable when statistically compared.
Deep generative model-based synthesis framework of four-bar linkage mechanisms with target conditions
Authors: Lee Sumin , Kim Jihoon , Kang Namwoo
Published: October 2024

This paper proposes a deep generative model-based framework for synthesizing four-bar linkage mechanisms that satisfy specified kinematic and quasi-static conditions. We define two objective functions for crank-rocker mechanisms using kinematic workspaces and geometric configurations. Our approach utilizes a conditional generative adversarial network (cGAN) modified for mechanism synthesis, which learns the relationship between mechanism requirements and linkage lengths. The results demonstrate that the proposed model successfully generates multiple distinct mechanisms meeting specific kinematic and quasi-static requirements. We compare our cGAN approach to traditional optimization methods and other deep learning-based generative models. Our method offers several advantages over traditional design approaches, enabling efficient generation of diverse yet feasible design candidates while exploring a large design space. By considering both kinematic and quasi-static requirements, the proposed model can produce more effective mechanisms for real-world applications. This makes it a promising tool for linkage mechanism design, offering designers a way to efficiently generate multiple viable design options that satisfy key performance criteria.
Entropy optimization in Casson tetra-hybrid nanofluid flow over a rotating disk with nonlinear thermal radiation: a Levenberg–Marquardt neural network approach
Authors: Sakkaravarthi K , Reddy P Bala Anki , Sakthi I
Published: October 2024

This research employs a neural network, specifically the Levenberg–Marquardt algorithm, to characterize the entropy optimization performance in the electro-magneto-hydrodynamic flow of a Casson tetra-hybrid nanofluid over a rotating disk. The problem was formulated mathematically using equations for momentum, continuity, and temperature. This study converts ordinary differential equations (ODEs) into partial differential equations (PDEs) by a self-similarity transformation. The equations are resolved via the fourth-order Runge-Kutta method in combination with a shooting technique for obtaining the required datasets. Using the Levenberg-Marquardt algorithm (LMA), these datasets are characterised as training, testing, and validation. The proposed outcomes are presented in multiple tables and graphs. This trained neural network is then utilized to predict the heat flow velocity and Nusselt number of the rotating disk. The developed model was evaluated using mean square error, error analysis, and regression analysis, thereby confirming the consistency, accuracy, and reliability of the designed technique. The best validation performance for skin friction and the Nusselt number for the Casson tetra-hybrid nanofluid flow across a rotating disk is 8752e-05 at epoch 95 and 0.00033239 at epoch 37. Training, validation, testing, and all performance metrics of the artificial neural network model are close to unity. As magnetic field strength increases, temperature profiles rise in di-hybrid, ternary-hybrid, and tetra-hybrid nanoparticle scenarios. Tetra-hybrid nanofluids are considered superior fluids when compared to di-hybrid, ternary-hybrid, and tetra-hybrid nanofluids. This optimization method holds promise for diverse applications in biotechnology, microbiology, and medicine, offering significant potential for various fields.
Long-term causal inference under persistent confounding via data combination
Authors: Imbens Guido , Kallus Nathan , Mao Xiaojie , Wang Yuhao
Published: October 2024

We study the identification and estimation of long-term treatment effects by combining short-term experimental data and long-term observational data subject to unobserved confounding. This problem arises often when concerned with long-term treatment effects since experiments are often short-term due to operational necessity while observational data can be more easily collected over longer time frames but may be subject to confounding. In this paper, we tackle the challenge of persistent confounding: unobserved confounders that can simultaneously affect the treatment, short-term outcomes, and long-term outcome. In particular, persistent confounding invalidates identification strategies in previous approaches to this problem. To address this challenge, we exploit the sequential structure of multiple short-term outcomes and develop several novel identification strategies for the average long-term treatment effect. Based on these, we develop estimation and inference methods with asymptotic guarantees. To demonstrate the importance of handling persistent confounders, we apply our methods to estimate the effect of a job training program on long-term employment using semi-synthetic data.
Microsporum audouinii: Emergence of an etiological agent of tinea capitis in Rio de Janeiro, Brazil (2012–2019)
Authors: Santino Mariana Franco Ferraz , de Melo Cecilia Siqueira , Melo Analy Salles de Azevedo , Lima Soraia Lopes , Paixão Marilene do Nascimento , Akiti Tiyomi , Barreiros Gloria , Falcão Eduardo Mastrangelo Marinho , Barbosa Simone Saintive
Published: October 2024

The etiology of tinea capitis changes over time, mainly due to trends in migration. We report 19 cases of tinea capitis caused by Microsporum audouinii, an uncommon agent in South America, all of them confirmed by molecular methods. All patients were male. The average age was 6.1 years. Fifteen patients were residents of Rio de Janeiro city and four were from neighboring cities. Among the patients submitted to follow-up, griseofulvin was prescribed for eight of them. Due to medication shortages, terbinafine was prescribed for five patients, needing to be switched in three cases, with a bigger total average time until clinical improvement. The study reaffirms the emergence of a new etiological agent in Rio de Janeiro, Brazil.
Implications for galaxy property estimation revealed by CO luminosity-FWHM relations in local star-forming galaxies
Authors: Wu Yi-Han , Wang Jun-Feng , Li Xiao-Hu , Jiang Xue-Jian , Tsai Chao-Wei , Wu Jing-Wen , Shi Kun-Peng , Zhu Lin , Zhong Wen-Yu
Published: October 2024

This study explores a relationship between the $\rm {CO}$ luminosity-full width at half-maximum linewidth linear relation (i.e. the $\rm {CO}$ LFR) and mean galaxy property of the local star-forming galaxy sample in the xCOLDGASS data base, via a mathematical statement. The whole data base galaxies were separated into two subsamples based on their stellar masses and redshifts, being a help to examine the dependence issue of the $\rm {CO}$ LFR. Selecting the galaxy data with a stringent requirement was also implemented in order to assure the validly of the $\rm {CO}$ LFR. An algorithm of the linear regression was conducted with the data of the subsample. An assessment about the linear correlation manifested a valid $\rm {CO}$ LFR occurs in the selected galaxy of the subsample, and the intercept of the $\rm {CO}$ LFR may be related with the mean galaxy properties such as the molecular gas fraction and galaxy size. For the finding on the intercept of the $\rm {CO}$ LFR, we aligned that intercept with those galaxy properties via the involvement of a $\psi$ parameter. On evaluating the $\psi$ value with our local star-forming galaxy sample, we numerically determined a relationship between the statistical result and the galaxy property in a different stellar mass range. It also shows a possible method on estimating galaxy property.
Optical and γ-ray variability analysis of BL Lacertae object TXS 1902+556
Authors: Li Huai-Zhen , Qin Long-Hua , Gong Yun-Lu , Liu Fen , Guo Di-Fu , Gao Quan-Gui , Yi Ting-Feng , Liu Hong-Tao
Published: October 2024

The variability data for the BL Lacertae object TXS 1902+556 in the optical and $\gamma$-ray wavebands were obtained from the 0.76-m Katzman Automatic Imaging Telescope and the Fermi Large Area Telescope (Fermi-LAT), covering periods of 14.4 and 14.7 yr, respectively. The variability properties were systematically analysed, with particular emphasis on the first comprehensive investigation of radiation variation in the optical waveband. Four well-established techniques were employed for this purpose: the Lomb–Scargle periodogram, REDFIT program, Jurkevich method, and discrete correlation function (DCF) approach. The optical waveband exhibits quasi-periodic oscillations (QPO) with a time-scale of $P_{\rm O}=276.8\pm 6.1$ d at a significance level $3.87\sigma$, while the $\gamma$-ray waveband does not exhibit any significant periodicity. However, it should be noted that the QPO time-scale is consistent with the Sun-gaps in the optical light curve within 2$\sigma$ uncertainties. The optical QPO behaviour is most likely attributed to the helical motion of the jet driven by the orbital motion in a supermassive black hole binary system. Moreover, we have provided an explanation for the absence of QPO in the $\gamma$-ray light curves. Furthermore, utilizing the DCF method, a weak correlation between the variability in the optical and $\gamma$-ray wavebands was observed, suggesting that the emission of TXS 1902+556 may be generated through a combination of synchrotron self-Compton (SSC) and external Compton (EC) processes, or a leptonic–hadronic hybrid process.
A trifecta of modelling tools: a Bayesian binary black hole model selection combining population synthesis and galaxy formation models
Authors: Rauf Liana , Howlett Cullan , Stevenson Simon , Riley Jeff , Willcox Reinhold
Published: October 2024

Gravitational waves (GWs) have revealed surprising properties of binary black hole (BBH) populations, but there is still mystery surrounding how these compact objects evolve. We apply Bayesian inference and an efficient method to calculate the BBH merger rates in the Shark host galaxies, to determine the combination of COMPAS parameters that outputs a population most like the GW sources from the LIGO, Virgo, and KAGRA (LVK) transient catalogue. For our COMPAS models, we calculate the likelihood with and without the dependence on the predicted number of BBH merger events. We find strong correlations between hyper-parameters governing the specific angular momentum (AM) of mass lost during mass transfer, the mass-loss rates of Wolf–Rayet stars via winds and the chemically homogeneous evolution (CHE) formation channel. We conclude that analysing the marginalized and unmarginalized likelihood is a good indicator of whether the population parameters distribution and number of observed events reflect the LVK data. In doing so, we see that the majority of the models preferred in terms of the population-level parameters of the BBHs greatly overpredict the number of events we should have observed to date. Looking at the smaller number of models that perform well with both likelihoods, we find that those with no CHE, AM loss occurring closer to the donor during the first mass-transfer event, and/or higher rates of mass-loss from Wolf–Rayet winds are generally preferred by current data. We find these conclusions to be robust to our choice of selection criteria.
Late-time supernovae radio re-brightening in the VAST pilot survey
Authors: Rose Kovi , Horesh Assaf , Murphy Tara , Kaplan David L , Sfaradi Itai , Ryder Stuart D , Aloisi Robert J , Dobie Dougal , Driessen Laura , Fender Rob , Green David A , Leung James K , Lenc Emil , Qiu Hao , Williams-Baldwin David
Published: October 2024

We present our analysis of supernovae serendipitously found to be radio-bright several years after their optical discovery. We used recent observations from the Australian SKA Pathfinder (ASKAP) taken as part of the pilot Variables and Slow Transients and Rapid ASKAP Continuum Survey programmes. We identified 29 objects by cross-matching sources from these ASKAP observations with known core-collapse supernovae below a declination of $+40^{\circ }$ and with a redshift of $z\le 0.15$. Our results focus on eight cases that show potential late-time radio emission. These supernovae exhibit significantly greater amounts of radio emission than expected from the standard model of a single shockwave propagating through a spherical circumstellar medium, with a constant density structure produced by regular stellar mass-loss. We also discuss how we can learn from future ASKAP surveys about the circumstellar environments and emission mechanisms of supernovae that undergo late-time radio re-brightening. This pilot work tested and confirmed the potential of the Variables and Slow Transients survey to discover and study late-time supernova emission.
Detection of the large-scale tidal field with galaxy multiplet alignment in the DESI Y1 spectroscopic survey
Authors: Lamman Claire , Eisenstein Daniel , Forero-Romero Jaime E , Aguilar Jessica Nicole , Ahlen Steven , Bailey Stephen , Bianchi Davide , Brooks David , Claybaugh Todd , de la Macorra Axel , Doel Peter , Ferraro Simone , Font-Ribera Andreu , Gaztañaga Enrique , Gontcho A Gontcho Satya , Gutierrez Gaston , Honscheid Klaus , Howlett Cullan , Kremin Anthony , Lambert Andrew , Landriau Martin , Le Guillou Laurent , Levi Michael E , Meisner Aaron , Miquel Ramon , Moustakas John , Newman Jeffrey A , Niz Gustavo , Prada Francisco , Pérez-Ràfols Ignasi , Ross Ashley J , Rossi Graziano , Sanchez Eusebio , Schubnell Michael , Sprayberry David , Tarlé Gregory , Vargas-Magaña Mariana , Weaver Benjamin Alan , Zou Hu
Published: October 2024

We explore correlations between the orientations of small galaxy groups, or ‘multiplets’, and the large-scale gravitational tidal field. Using data from the Dark Energy Spectroscopic Instrument (DESI) Y1 survey, we detect the intrinsic alignment (IA) of multiplets to the galaxy-traced matter field out to separations of $100\,h^{-1}$ Mpc. Unlike traditional IA measurements of individual galaxies, this estimator is not limited by imaging of galaxy shapes and allows for direct IA detection beyond redshift $z=1$. Multiplet alignment is a form of higher order clustering, for which the scale-dependence traces the underlying tidal field and amplitude is a result of small-scale ($\lt 1h^{-1}$ Mpc) dynamics. Within samples of bright galaxies, luminous red galaxies (LRG) and emission-line galaxies, we find similar scale-dependence regardless of intrinsic luminosity or colour. This is promising for measuring tidal alignment in galaxy samples that typically display no IA. DESI’s LRG mock galaxy catalogues created from the A bacusS ummitN-body simulations produce a similar alignment signal, though with a 33 per cent lower amplitude at all scales. An analytic model using a non-linear power spectrum (NLA) only matches the signal down to 20 $h^{-1}$ Mpc. Our detection demonstrates that galaxy clustering in the non-linear regime of structure formation preserves an interpretable memory of the large-scale tidal field. Multiplet alignment complements traditional two-point measurements by retaining directional information imprinted by tidal forces, and contains additional line-of-sight information compared to weak lensing. This is a more effective estimator than the alignment of individual galaxies in dense, blue, or faint galaxy samples.
REXPACO ASDI: joint unmixing and deconvolution of the circumstellar environment by angular and spectral differential imaging
Authors: Flasseur Olivier , Denis Loïc , Thiébaut Éric , Langlois Maud
Published: October 2024

Angular and spectral differential imaging is an observational technique of choice to investigate the immediate vicinity of stars. By leveraging the relative angular motion and spectral scaling between on-axis and off-axis sources, post-processing techniques can separate residual star light from light emitted by surrounding objects such as circumstellar discs or point-like objects. This paper introduces a new algorithm that jointly unmixes these components and deconvolves disc images. The proposed algorithm is based on a statistical model of the residual star light, accounting for its spatial and spectral correlations. These correlations are crucial yet remain inadequately modelled by existing reconstruction algorithms. We employ dedicated shrinkage techniques to estimate the large number of parameters of our correlation model in a data-driven fashion. We show that the resulting separable model of the spatial and spectral covariances captures very accurately the star light, enabling its efficient suppression. We apply our method to data sets from the Very Large Telescope/Spectro-Polarimetry High-contrast Exoplanet REsearch instrument and compare its performance with standard algorithms (median subtraction, PCA, PACO). We demonstrate that considering the multiple correlations within the data significantly improves reconstruction quality, resulting in better preservation of both disc morphology and photometry. With its unique joint spectral modelling, the proposed algorithm can reconstruct discs with circular symmetry (e.g. rings, spirals) at intensities one million times fainter than the star, without needing additional reference data sets free from off-axis objects.
Cardiac magnetic resonance assessment of cardiac function across chronic kidney disease stages
Authors: An Shutian , Qian Hao , Yang Jinxiu , Han Caiyun , Ye Yanzimeng , Liu Yan , Deng Wei , Yue Xiuzheng , Yu Yongqiang , Zhao Ren , Li Xiaohu
Published: October 2024

Background

Cardiovascular disease prevalence remains high among chronic kidney disease (CKD) patients. Mechanisms and treatments to improve prognosis remain of paramount importance, and imaging biomarkers of left ventricular myocardial structure and function have better defined the phenotype of renal cardiomyopathy. The left atrial function and right heart remain are less well reported in CKD. This study used cardiac magnetic resonance imaging (CMR) to assess the interplay of left atrial and right ventricular function.

Methods

In a cross-sectional study, we examined 58 CKD patients (Group I: stages 2–3, n = 25; Group II: stages 4–5, n = 33). Additionally, 26 age-matched healthy controls were included. Comprehensive CMR protocols (1.5T) were employed, encompassing cine imaging, native T1 and T2 mapping, and tissue tracking strain analysis. Left ventricular (LV), right ventricular (RV) and left atrial (LA) structure, function and strain parameters were assessed.

Results

Compared with healthy controls, both Groups I and II exhibited impaired RV and LA function. right ventricular end-diastolic volume index and right ventricular end-systolic volume index showed significant increases in both Groups I and II (P < .001). All LV, RV and LA strain parameters were reduced in the patient groups (all P < .001). In the univariate binary logistic regression, several parameters, including age, blood pressure, RV volumes and LV/RV strain, were found to have a statistically significant association with CKD. In a multivariable model adjusted for other confounders, RV GLS and left atrial strain remained as independent significant predictors.

Conclusions

RV size, LA strain and volume assessed by CMR serve as markers of RV and LA cardiac dysfunction in CKD patients with preserved LVEF. Greater attention should be given to RV and LA dysfunction for early identification of cardiac dysfunction in CKD patients.
Sex differences in the molecular profile of adult diffuse glioma are shaped by IDH status and tumor microenvironment
Authors: Huang Yingbo , Shan Yuting , Zhang Weijie , Printzis Christina , Pesce Lorenzo , Stover Danielle , Stanhope Catherine , Stranger Barbara E , Huang Rong Stephanie
Published: October 2024

Background

Sex differences in adult diffuse glioma (ADG) are well established clinically, yet the underlying molecular mechanisms remain inadequately understood. Here, we aim to reveal molecular features and cellular compositions unique to each sex in ADG to comprehend the role of sex in disease etiology.

Methods

We quantified sex differences in the transcriptome of ADG using multiple independent glioma patient datasets. Next, we delved into the single-cell landscape to examine sex differences in gene expression and cellular composition. To explore how sex influences disease progression, we analyzed paired samples from primary and recurrent ADG cases, aiming to identify sex-specific differences in molecular and cellular features.

Results

Our analysis revealed that mutations in isocitrate dehydrogenase (IDH) genes and the tumor microenvironment emerged as primary influencers of sex-differential molecular enrichments. In IDHwt tumors, genes in the neuronal signaling pathway are found to be enriched in male tumors, while genes in hypoxia and inflammatory response pathways are enriched in female tumors. This pattern was reversed in IDHmut gliomas. We hypothesized that these distinctions could be attributed to heterogeneous cellular composition between sexes. Using single-cell data, we observed distinctive patterns of sex differences in cell states, cell composition, and cell–cell interaction in IDHwt and IDHmut tumors separately. Further, by comparing molecular changes in paired primary and recurrent ADG samples, we identified sex-specific differences in molecular characteristics and cellular compositions of recurrent tumors.

Conclusions

Our results provide a comprehensive multilevel characterization of sex differences in ADG; such findings provide novel insights into glioma disease progression in each sex.
Non-small cell lung cancer with synchronous brain metastases: Identification of prognostic factors in a retrospective multicenter study (HOT 1701)
Authors: Ohhara Yoshihito , Kojima Tetsuya , Honjo Osamu , Yamada Noriyuki , Sato Toshitaka , Takahashi Hirofumi , Takamura Kei , Takashina Taichi , Sukoh Noriaki , Tanaka Hisashi , Kawai Yasutaka , Fujita Yuka , Yokoo Keiki , Hommura Fumihiro , Harada Toshiyuki , Honda Ryoichi , Amano Toraji , Dosaka-Akita Hirotoshi , Oizumi Satoshi , Kinoshita Ichiro
Published: October 2024

Background

Non-small-cell lung cancer (NSCLC) is associated with a high incidence of brain metastasis (BM), and the prognosis of patients with NSCLC and BM is poor. This study aimed to identify the prognostic factors and elucidate the survival rates of Japanese patients with NSCLC and BM at initial diagnosis.

Methods

HOT 1701 is a retrospective multicenter study of patients with NSCLC and BM at initial diagnosis. The medical records of all consecutive patients diagnosed with advanced or recurrent NSCLC and BM at 14 institutions of the Hokkaido Lung Cancer Clinical Study Group Trial (HOT) in Japan were reviewed. The participants were categorized based on the presence or absence of driver mutations. The Kaplan–Meier method was used to estimate median overall survival (OS). Univariate and multivariate analyses were performed to identify prognostic factors in these patients.

Results

Among 566 patients with NSCLC and BM, the median OS was 11.8 months. Patients with driver mutations survived longer than those without driver mutations. The univariate and multivariate analyses revealed 6 independent prognostic factors: age ≥65 years, poor performance status, T factor, absence of driver gene mutations, presence of extracranial metastases, and number of BM. According to the prognostic score based on these 6 factors, the patients were stratified into 3 risk groups: low-, intermediate-, and high-risk, with median OS of 27.8, 12.2, and 2.8 months, respectively.

Conclusions

We developed a new prognostic model for patients with NSCLC and BM, which may help determine prognosis at diagnosis.
Genomic tumor evolution dictates human medulloblastoma progression
Authors: Ruchiy Yana , Tsea Ioanna , Preka Efthalia , Verhoeven Bronte Manouk , Olsen Thale Kristin , Mei Shenglin , Sinha Indranil , Blomgren Klas , Carlson Lena-Maria , Dyberg Cecilia , Johnsen John Inge , Baryawno Ninib
Published: October 2024

Background

Medulloblastoma (MB) is the most common high-grade pediatric brain tumor, comprised of 4 main molecular subgroups—sonic-hedgehog (SHH), Wnt, Group 3, and Group 4. Group 3 and Group 4 tumors are the least characterized MB subgroups, despite Group 3 having the worst prognosis (~50% survival rate), and Group 4 being the most prevalent. Such poor characterization can be attributed to high levels of inter- and intratumoral heterogeneity, making it difficult to identify common therapeutic targets.

Methods

In this study, we generated single-cell sequencing data from 14 MB patients spanning all subgroups that we complemented with publicly available single-cell data from Group 3 patients. We used a ligand–receptor analysis tool (CellChat), expression- and allele-based copy-number variation (CNV) detection methods, and RNA velocity analysis to characterize tumor cell–cell interactions, established a connection between CNVs and temporal tumor progression, and unraveled tumor evolution.

Results

We show that MB tumor cells follow a temporal trajectory from those with low CNV levels to those with high CNV levels, allowing us to identify early and late markers for SHH, Group 3, and Group 4 MBs. Our study also identifies SOX4 upregulation as a major event in later tumor clones for Group 3 and Group 4 MBs, suggesting it as a potential therapeutic target for both subgroups.

Conclusion

Taken together, our findings highlight MB’s inherent tumor heterogeneity and offer promising insights into potential drivers of MB tumor evolution particularly in Group 3 and Group 4 MBs.
“Like and Subscribe”: A Compendium of Infectious Diseases Audio Podcasts
Authors: Oehler Richard L , Katzman Ju Hee , Sunny Arun
Published: October 2024

In little more than 15 years, the podcast has gone from being virtually unknown to becoming a multibillion-dollar industry. There are an estimated half-billion podcast listeners worldwide. Podcasts are available for various interests, from entertainment to news, politics, sports, hobbies, and education. Podcasting in medicine has similar origins, beginning with journals and academic/educational institutions wishing to share information on new clinical trials or publications, as well as by those who wanted to promote the free and open access model of online education. The COVID-19 outbreak led to a renaissance in the availability of infectious diseases–oriented audio podcasts, due to the need for regular information about SARS-CoV-2 and the pandemic-related preference for virtual learning. However, many in the infectious diseases community have not yet been introduced to available infectious diseases podcast resources. In this article, we highlight 38 of the most popular infectious diseases–oriented audio podcasts.
Survey of Hepatitis B Vaccination Coverage and Surface Antibody–Positive Rates in People Aged 1–59 Years in 2006 and 2024
Authors: Gong Xiaoying , Zheng Canjie , Fang Quanjun , Xu Wenjie , Yin Zhiying
Published: October 2024

Background

Implementing hepatitis B vaccination is an important strategy to reduce hepatitis B virus infection and disease burden. Suboptimal adult hepatitis B vaccination coverage limits the further reduction of hepatitis B virus infection.

Methods

A multistage stratified random sampling method was adopted to survey the permanent population aged 1–59 in 2006 and 2024. We calculated the vaccination coverage rate, hepatitis B surface antibody (HBsAb)–positive rate, rate difference, and their 95% confidence intervals (CIs) of the 2 survey populations, and used the 95% CI and χ2 test to determine whether the difference in rate was statistically significant.

Results

Six hundred twenty-three people were surveyed in 2006 and 606 people were surveyed in 2024. From 2006 to 2024, the hepatitis B vaccination coverage among people aged 1–59 years increased from 54.1% to 78.9%, and the HBsAb-positive rate increased from 46.2% to 57.6%. There was no significant difference in vaccination coverage in the population <15 years of age, but the antibody-positive rate increased significantly. The vaccination coverage rate of the 15–59 age group increased significantly, but there was no statistical difference in the antibody positivity rate of the 15–49 age group, and the antibody positivity rate of the 50–59 age group increased significantly.

Conclusions

Hepatitis B vaccination coverage among adults was still insufficient. Hepatitis B vaccine-mediated immunity was low in adults aged 30–49 years. It is recommended to update the guidelines for hepatitis B vaccination of adults in China, cancel the assessment of risk factors and prevaccination serological screening, and emphasize universal vaccination of all unvaccinated adults to increase coverage.
A Single-center Experience of Coccidioides Meningitis in Immunocompetent Patients: Case Series and Literature Review
Authors: Rajmohan Ravi , Deyell Jacob , Harris Mark , Gramajo-Aponte Kevin , Fote Gianna , Davies Jordan , Chen Nita , Diamond Catherine , Lu Xiaoying
Published: October 2024

Recently, the California Department of Public Health issued an advisory related to the substantial rise in Coccidioidomycosis in California, which has been attributed in part to climate change and rapid housing development. Most cases are self-limiting, but some may spread to the meninges, resulting in coccidioidal meningitis (CM). Many providers mistakenly presume that CM is limited to patients who are immunocompromised. In this case series and literature review, we present 12 cases of CM in immunocompetent individuals seen at a single tertiary academic center between 1 January 2019 and 31 December 2023. All 12 cases developed complications, with 10 requiring ventriculoperitoneal shunting, 6 having spinal cord involvement (5 with cervical spine involvement), 4 having strokes, and 3 dying from complications related to CM. It is important to recognize CM as it may be life-threatening if not promptly diagnosed.
Microbiologic and Histopathologic Features of Pedal Osteomyelitis
Authors: Madrid-Morales Julieta , Maier Marissa M , Boda Amy , Bosch Robert , Bajema Kristina L
Published: October 2024

The value of microbiology and histopathology in the diagnosis of neuropathic foot osteomyelitis remains poorly understood. In this retrospective cohort study, we evaluated the concordance of microbiology and histopathology results from bone resections and found similar proportions of bacterial growth in samples with and without histopathologic evidence of osteomyelitis.