bluuebunny/crossref_metadata_2025_split huggingface dataset:
Synoptic Climatology of Central U.S. Snowfall
Authors: Suriano Zachary J. , Loewy Charles , Uz Jamie 
Published: October 2023

Abstract
Prior research evaluating snowfall conditions and temporal trends in the United States often acknowledges the role of various synoptic-scale weather systems in governing snowfall variability. While synoptic classifications have been performed in other regions of North America in applications to snowfall, there remains a need for enhanced understanding of the atmospheric mechanisms of snowfall in the central United States. Here we conduct a novel synoptic climatological investigation of the weather systems responsible for snowfall in the central United States from 1948 to 2021 focused on their identification and the quantification of associated snowfall totals and events. Ten unique synoptic weather types (SWTs) were identified, each resulting in distinct regions of enhanced snowfall across the study domain aligning with regions of sufficiently cold air temperatures and forcing mechanisms. While a substantial proportion of seasonal snowfall is attributed to SWTs associated with surface troughs and/or midlatitude cyclones, in portions of the southeastern and western study domain, as much as 70% of seasonal snowfall occurs during systems with high pressure centers as the domain’s synoptic-scale forcing. Easterly flow, potentially resulting in topographic uplift from high pressure to east of the domain, was associated with between 15% and 25% of seasonal snowfall in Nebraska and South Dakota. On average, 64.8% of the SWT occurrences resulted in snowfall within the study region, ranging between 40.1% and 93.5% by SWT. Synoptic climatological investigations provide valuable insights into the unique weather systems that generate hydroclimatic variability.

Significance Statement
By evaluating the weather patterns that are responsible for snowfall in the central United States, key insights can be gained into how and why snowfall varies and potentially changes over space and time. Using an approach that categorizes weather patterns based on their similarities, here 10 unique snowfall-producing weather patterns are identified and analyzed from 1948 to 2021. Each pattern resulted in different snowfall amounts across the central United States, varying substantially spatially and within the calendar year. Approximately 65% of the time that these weather patterns occur, snowfall is observed in the region. The majority of snowfall-producing weather patterns are associated with low pressure systems, but in some regions up to 70% of snowfall is associated with instances of high pressure in which winds can cause upward motions associated with topography.
Topography-Generated Submesoscale Coherent Vortices in the Kuroshio–Oyashio Extension Region from High-Resolution Simulations
Authors: Zhu Ruichen , Yang Haiyuan , Chen Zhaohui , Jing Zhiyou , Zhang Zhiwei , Sun Bingrong , Wu Lixin 
Published: October 2023

Abstract
A variety of submesoscale coherent vortices (SCVs) in the Kuroshio Extension region have been reported by recent observational studies, and the preliminary understanding of their properties, spatial distribution, and possible origins has progressively improved. However, due to relatively sparse in situ observations, the generation mechanisms of these SCVs and associated dynamic processes remain unclear. In this study, we use high-resolution model simulations to fill the gaps of the in situ observations in terms of the three-dimensional structures and life cycles of SCVs. Vortex detection and tracking algorithms are adopted and the characteristics of warm-core and cold-core SCVs are revealed. These vortices have finite Rossby numbers (0.25–0.4), and their horizontal structures can be well described by the Taylor vortex model in terms of the gradient wind balance. The vertical velocity field is characterized by a distinct dipole pattern with upwelling and downwelling cells at the vortex edge. It is very likely that both types of SCVs are generated along the eastern Japan coast through flow–topography interactions, and the Izu–Ogasawara Ridge and Hokkaido slope are found to be two important generation sites where topography friction produces extremely low potential vorticity. After leaving the boundary, SCVs can propagate over long distances and trap a water volume of ∼1011 m3.
Ertapenem Versus Meropenem for the Treatment of Extended Spectrum Beta-Lactamase-Producing Enterobacterales Bacteremia in Critically Ill Patients
Authors: VanDorf Sydney , Shah Prakash , Yost Christine N. 
Published: October 2023

Background: The preferred carbapenem for treatment of infections caused by extended spectrum beta-lactamase-producing Enterobacterales (ESBL-E) in critically ill patients is debated. Objective: The purpose of this study was to evaluate the difference in clinical failure between ertapenem and meropenem for treatment of ESBL-E bacteremia in critically ill patients. Of concern is ertapenem use in hypoalbuminemia given the potential for higher drug clearance. Methods: This retrospective, matched cohort study compared critically ill patients treated with ertapenem or meropenem for ESBL-E bacteremia between October 2016 and August 2022. Patients were matched on age, sex, lowest albumin, and in a 1:2 ratio of ertapenem to meropenem. The primary outcome, clinical failure, was a composite of 30-day mortality, antibiotic escalation, and microbiological failure. Secondary outcomes included all-cause readmission and development of superinfection. Results: Of 54 patients, 18 received ertapenem and 36 meropenem. Most had a urinary infection source (55.6% vs 41.7%, P = 0.393). There was no difference in clinical failure (50.0% vs 38.9%, P = 0.436). Ertapenem patients had antibiotic escalation more often (33.3% vs 2.8%, P = 0.002). There was no difference in 30-day mortality (11.1% vs 27.8%, P = 0.298), microbiological failure (27.8% vs 11.1%, P = 0.142), all-cause readmission (22.2% vs 13.9%, P = 0.461), or development of superinfection (11.1% vs 13.9%, P = 1.000). Conclusion and relevance: There was no difference in clinical failure in a small, retrospective cohort of critically ill patients receiving ertapenem or meropenem for ESBL-E bacteremia. Ertapenem may be appropriate in some critically ill and hypoalbuminemic patients, though additional data are needed.
Emotion recognition in autism spectrum condition during the COVID-19 pandemic
Authors: Schnitzler Tim , Korn Christoph , C. Herpertz Sabine , Fuchs Thomas 
Published: October 2023

With the widespread use of masks in the COVID-19 pandemic, it is crucial to understand how emotion recognition is affected by partial face covering. Since individuals with autism spectrum condition often tend to look at the lower half of the face, they are likely to be particularly restricted in emotion recognition by people wearing masks, since they are now forced to look at the upper half of the face. This study compared the recognition of basic and complex emotions in individuals with and without autism spectrum condition, when faces were presented uncovered, with face masks, or with sunglasses. We also used eye tracking to examine group differences in gaze patterns during emotion recognition. Individuals with autism spectrum condition were less accurate at recognizing emotions in all three conditions. Averaged across the three stimulus types, individuals with autism spectrum condition had greater difficulty recognizing anger, fear, pride, and embarrassment than control group. There was no group difference in emotion recognition between the three conditions. However, compared to individuals without autism spectrum condition, there was no evidence of either gaze avoidance or preference for the mouth region. Our results suggest that emotion recognition is reduced in individuals with autism spectrum condition, but this is not due to differences in gaze patterns. Lay Abstract In the COVID-19 pandemic, wearing face masks became mandatory to prevent the spread of the virus. However, they restrict the ability to recognize emotions to the upper part of the face. Since individuals with autism spectrum condition often tend to look at the lower half of the face, they may be particularly restricted in emotion recognition by people wearing masks, since they are now forced to look at the upper half of the face. The current study compared the recognition of facially expressed emotions between individuals with and without autism spectrum condition. Each photo was shown in three types, once uncovered, once with face mask, and once with sunglasses. Our results revealed a reduction in accuracy of individuals with autism spectrum condition at recognizing emotions in all three stimulus types and exhibited more difficulties distinguishing anger, fear, pride, and embarrassment. During the emotion recognition task, there was no difference in which facial areas the groups looked at. We did not find evidence that the disadvantages of individuals with autism spectrum condition in emotion recognition were due to looking at different areas of the face.
Macrostructural Cerebellar Neuroplasticity Correlates With Motor Recovery After Stroke
Authors: Hanakawa Takashi , Hotta Fujiko , Nakamura Tatsuhiro , Shindo Keiichiro , Ushiba Naoko , Hirosawa Masaki , Yamazaki Yutaka , Moriyama Yoshinao , Takagi Syota , Mizuno Katsuhiro , Liu Meigen 
Published: October 2023

Background Motor recovery varies across post-stroke individuals, some of whom require a better rehabilitation strategy. We hypothesized that macrostructural neuroplasticity of the motor control network including the cerebellum might underlie individual differences in motor recovery. Objectives. To gain insight into the macrostructural neuroplasticity after stroke, we examined 52 post-stroke individuals using both the Fugl-Meyer assessment and structural magnetic resonance imaging. Methods We performed voxel-based lesion symptom mapping and cross-sectional voxel-based morphometry to correlate the motor scores with the lesion location and the gray matter volume (GMV), respectively. Longitudinal data were available at ~8 and/or 15 weeks after admission from 43 individuals with supratentorial lesions. We performed a longitudinal VBM analysis followed by a multiple regression analysis to correlate between the changes of the motor assessment scores and those of GMV overtime. Results We found a cross-sectional correlation of residual motor functioning with GMV in the ipsilesional cerebellum and contralesional parietal cortex. Longitudinally, we found increases in GMV in the ipsilesional supplementary motor area, and the ipsilesional superior and inferior cerebellar zones, along with a GMV decrease in the ipsilesional thalamus. The motor recovery was correlated with the GMV changes in the superior and inferior cerebellar zones. The regaining of upper-limb motor functioning was correlated with the GMV changes of both superior and inferior cerebellum while that of lower-limb motor functioning with the GMV increase of the inferior cerebellum only. Conclusions The present findings support the hypothesis that macrostructural cerebellar neuroplasticity is correlated with individual differences in motor recovery after stroke.
INvestigation of the impact of a Pharmacist in a Hospital At Home Care Team (IN PHACT)
Authors: Patrick Morgan E. , Harder Curtis K. , Spina Sean P. 
Published: October 2023

Background: In November 2020, Island Health, with the support of the British Columbia Ministry of Health, introduced the Hospital at Home (HaH) care model at Victoria General Hospital in Victoria, British Columbia. Given the acuity of the patients anticipated to receive care through this model, questions arose regarding how the delivery of clinical pharmacy services on which inpatients rely on could be included. With limited supporting evidence for the inclusion of a clinical pharmacist, Island Health launched the HaH program with 2 clinical pharmacists who provide services 7 days a week during daytime hours. The aim of this study is to assess the impact of the HaH pharmacist on patient care, from the perspective of the pharmacists serving in this role, patients, caregivers and program stakeholders. Methods: This prospective, observational mixed-methods study was conducted from December 2021 to March 2022. Data collection involved the HaH pharmacist documenting daily clinical activities and resolving drug therapy problems, patients and caregivers completing a 4-question postdischarge phone survey and program stakeholders completing a 9-question online survey and an optional 7-question interview. Results and Interpretation: It was found that one of the most significant roles the pharmacist plays is in identifying indications for medication therapy and making recommendations to initiate therapy where there is an absence. There was high congruence between patient, caregiver and stakeholder perceptions that the HaH pharmacist positively affects patient care within the Island Health model. Conclusion: This study provides support for the integration of a dedicated clinical pharmacist in the HaH care model.
Investigating the effect of eye drops based on iodine nanoparticles in the treatment of corneal ulcers in rabbit eyes
Authors: Feghi Mostafa , Makhmalzadeh Sharif , Masihpour Nasrin , Amin Mansour , Mortazavinia Nader 
Published: October 2023

Abstract
Background
Various organisms, such as bacteria, viruses, and fungi, can cause corneal ulcers. One of the leading causes of vision loss and disability worldwide is corneal ulceration. Practical, accessible, and affordable treatment for this disease seems essential.

Materials and methods
Fifteen New Zealand rabbits infected with Staphylococcus aureus (ATCC 25923) corneal ulcers were randomly divided into three groups of five for the present study. (I, II, and III). Group I was used as the control group (without treatment). The second group received an iodine solution (1.25%) without a nanoparticle structure (betadine). The third group received an iodine solution with a nanoparticle structure used as eye drops. Drops in the corneal ulcer group were used five times daily for 14 days.
Microbial counts and disease severity scores were measured on the first, second, fifth, and fourteenth days and compared between groups separately for each disease.

Results
The results showed that the changes in microbial load were significant in the group that received betadine and nanoparticles. The microbial load was further reduced when using iodine nanoparticles than betadine. The betadine and nano-iodine groups significantly reduced the severity of the disease in rabbits with corneal ulcers (p < 0.05). The average changes in disease severity score were 4.8 ± 1.3, -2.6 ± 0.89, and -2.22 ± 1.22 in the untreated, nano iodine, and betadine groups, respectively. However, a significant increase in disease severity was observed in the untreated group (p = 0.001). It shows a significant difference (p < 0.001) between the nano iodine, betadine, and untreated groups. However, the difference in disease severity changes between nano iodine and non-nano iodine groups was insignificant.

Conclusion
Nanoparticle iodine is more effective than non-nanoparticle iodine in reducing bacterial load. In reducing the severity of the disease, both types of iodine were superior to no treatment. But there was no apparent difference between the two groups treated with iodine.
Regularized multi-trait multi-locus linear mixed models for genome-wide association studies and genomic selection in crops
Authors: Lozano Aurélie C. , Ding Hantian , Abe Naoki , Lipka Alexander E. 
Published: October 2023

AbstractBackgroundWe consider two key problems in genomics involving multiple traits: multi-trait genome wide association studies (GWAS), where the goal is to detect genetic variants associated with the traits; and multi-trait genomic selection (GS), where the emphasis is on accurately predicting trait values. Multi-trait linear mixed models build on the linear mixed model to jointly model multiple traits. Existing estimation methods, however, are limited to the joint analysis of a small number of genotypes; in fact, most approaches consider one SNP at a time. Estimating multi-dimensional genetic and environment effects also results in considerable computational burden. Efficient approaches that incorporate regularization into multi-trait linear models (no random effects) have been recently proposed to identify genomic loci associated with multiple traits (Yu et al. in Multitask learning using task clustering with applications to predictive modeling and GWAS of plant varieties.arXiv:1710.01788, 2017; Yu et al in Front Big Data 2:27, 2019), but these ignore population structure and familial relatedness (Yu et al in Nat Genet 38:203–208, 2006).ResultsThis work addresses this gap by proposing a novel class of regularized multi-trait linearmixedmodels along with scalable approaches for estimation in the presence of high-dimensional genotypes and a large number of traits. We evaluate the effectiveness of the proposed methods using datasets in maize and sorghum diversity panels, and demonstrate benefits in both achieving high prediction accuracy in GS and in identifying relevant marker-trait associations.ConclusionsThe proposed regularized multivariate linear mixed models are relevant for both GWAS and GS. We hope that they will facilitate agronomy-related research in plant biology and crop breeding endeavors.
Pan-genome de Bruijn graph using the bidirectional FM-index
Authors: Depuydt Lore , Renders Luca , Abeel Thomas , Fostier Jan 
Published: October 2023

Abstract
Background
Pan-genome graphs are gaining importance in the field of bioinformatics as data structures to represent and jointly analyze multiple genomes. Compacted de Bruijn graphs are inherently suited for this purpose, as their graph topology naturally reveals similarity and divergence within the pan-genome. Most state-of-the-art pan-genome graphs are represented explicitly in terms of nodes and edges. Recently, an alternative, implicit graph representation was proposed that builds directly upon the unidirectional FM-index. As such, a memory-efficient graph data structure is obtained that inherits the FM-index’ backward search functionality. However, this representation suffers from a number of shortcomings in terms of functionality and algorithmic performance.

Results
We present a data structure for a pan-genome, compacted de Bruijn graph that aims to address these shortcomings. It is built on the bidirectional FM-index, extending the ability of its unidirectional counterpart to navigate and search the graph in both directions. All basic graph navigation steps can be performed in constant time. Based on these features, we implement subgraph visualization as well as lossless approximate pattern matching to the graph using search schemes. We demonstrate that we can retrieve all occurrences corresponding to a read within a certain edit distance in a very efficient manner. Through a case study, we show the potential of exploiting the information embedded in the graph’s topology through visualization and sequence alignment.

Conclusions
We propose a memory-efficient representation of the pan-genome graph that supports subgraph visualization and lossless approximate pattern matching of reads against the graph using search schemes. The C++ source code of our software, called Nexus, is available at https://github.com/biointec/nexus under AGPL-3.0 license.
Dung beetle-associated yeasts display multiple stress tolerance: a desirable trait of potential industrial strains
Authors: Nwaefuna Anita Ejiro , Garcia-Aloy Mar , Loeto Daniel , Ncube Thembekile , Gombert Andreas K. , Boekhout Teun , Alwasel Saleh , Zhou Nerve 
Published: October 2023

Abstract
Background
Stress-tolerant yeasts are highly desirable for cost-effective bioprocessing. Several strategies have been documented to develop robust yeasts, such as genetic and metabolic engineering, artificial selection, and natural selection strategies, among others. However, the significant drawbacks of such techniques have motivated the exploration of naturally occurring stress-tolerant yeasts. We previously explored the biodiversity of non-conventional dung beetle-associated yeasts from extremophilic and pristine environments in Botswana (Nwaefuna AE et.al., Yeast, 2023). Here, we assessed their tolerance to industrially relevant stressors individually, such as elevated concentrations of osmolytes, organic acids, ethanol, and oxidizing agents, as well as elevated temperatures.

Results
Our findings suggest that these dung beetle-associated yeasts tolerate various stresses comparable to those of the robust bioethanol yeast strain, Saccharomyces cerevisiae (Ethanol Red™). Fifty-six percent of the yeast isolates were tolerant of temperatures up to 42 °C, 12.4% of them could tolerate ethanol concentrations up to 9% (v/v), 43.2% of them were tolerant to formic acid concentrations up to 20 mM, 22.7% were tolerant to acetic acid concentrations up to 45 mM, 34.0% of them could tolerate hydrogen peroxide up to 7 mM, and 44.3% of the yeasts could tolerate osmotic stress up to 1.5 M.

Conclusion
The ability to tolerate multiple stresses is a desirable trait in the selection of novel production strains for diverse biotechnological applications, such as bioethanol production. Our study shows that the exploration of natural diversity in the search for stress-tolerant yeasts is an appealing approach for the development of robust yeasts.
Systemic biochemical changes in pepper (Capsicum annuum L.) against Rhizoctonia solani by kale (Brassica oleracea var. acephala L.) green manure application
Authors: Rodríguez Víctor M. , Velasco Pablo , Cartea María Elena , Poveda Jorge 
Published: October 2023

Abstract
Background
In the search for new alternatives to avoid the problems associated with the use of synthetic chemical fungicides in agriculture, the use of green manure (GrM) could help combat fungal diseases of crops, such as those produced by the necrotrophic pathogen Rhizoctonia solani. In the case of the use of Brassica tissues as GrM, it could have an elicitor capacity for systemic plant resistance.

Results
We used kale leaves as a GrM and applied it to pepper plants infected with R. solani. The application of freeze-dried kale tissues to the roots of pepper plants produced a systemic activation of foliar defences via the salicylic acid (SA) and ethylene (ET) pathways, significantly reducing pathogen damage. In addition, this systemic response led to the accumulation of secondary defence metabolites, such as pipecolic acid, hydroxycoumarin and gluconic acid, in leaves. Remarkably, pepper plants treated with lyophilised kale GrM accumulated glucosinolates when infected with R. solani. We also confirmed that autoclaving removed part of the glucobrassicin (85%) and sinigrin (19%) content of the kale tissues.

Conclusions
GrM kale tissues can activate systemic defences in bell pepper against foliar pathogens through SA/ET hormonal pathways, accumulating secondary defence metabolites.