bluuebunny/crossref_metadata_2025_split huggingface dataset:
Teaching the Teacher
Authors: Goering Mary DeGrote 
Published: January 2024

Background:
Faculty can support successful preceptor-led clinical experiences by providing registered nurses with educational resources to guide them in the preceptor role.

Purpose:
To upgrade our institution's educational resources using an online platform that enables just-in-time access.

Method:
This was a quality improvement project to create and implement an educational resource tool kit for prelicensure nursing preceptors.

Results:
Half of our preceptors (n = 46, 52%) had no formal preceptor education. The preceptors used all the resources and were satisfied with the tool kit's content and ease of use.

Conclusion:
Implementing the tool kit was feasible. Further development includes (a) adding content regarding diverse students and trauma-informed nursing care, (b) incorporating interactive educational materials, (c) exploring avenues to reduce cognitive load, (d) creating a prelicensure preceptor preparation course, and (e) considering avenues for providing open access for nursing faculty of prelicensure programs.
Learning Environments in Undergraduate Nursing Education During COVID-19
Authors: Lee Anna , Kim Sinhye , Noh Wonjung 
Published: January 2024

Background:
The COVID-19 pandemic radically changed nursing education.

Purpose:
To map the existing literature on learning environments (LEs) in undergraduate nursing education during COVID-19 and identify the LE elements based on the 4 domains of Gruppen's conceptual framework: personal, social, organizational, and physical and virtual spaces.

Method:
Eligible articles were reviewed using the Joanna Briggs framework.

Results:
The search retrieved 5003 articles, of which 80 met the inclusion criteria. Most studies were cross-sectional and conducted in the United States. Of the studies included, 68 studies focused on the personal component of students, 67 investigated physical and virtual space components, 19 examined the social domain, and 15 examined organizational aspects.

Conclusions:
The COVID-19 pandemic significantly influenced the LE of nursing students. Based on the current review of LE in nursing education, nurse educators and researchers can develop interventions to maintain the quality and accessibility of nursing education in future crises.
Immunocompromised-Associated Pediatric Acute Respiratory Distress Syndrome: Experience From the 2016/2017 Pediatric Acute Respiratory Distress Syndrome Incidence and Epidemiology Prospective Cohort Study*
Authors: Gertz Shira J. , Bhalla Anoopindar , Chima Ranjit S. , Emeriaud Guillaume , Fitzgerald Julie C. , Hsing Deyin D. , Jeyapalan Asumthia S. , Pike Francis , Sallee Colin J. , Thomas Neal J. , Yehya Nadir , Rowan Courtney M. ,   on behalf of the Pediatric Acute Respiratory Distress Syndrome Incidence and Epidemiology (PARDIE) Investigators and the Pediatric Acute Lung Injury and Sepsis Investigators (PALISI) Network
Published: January 2024

OBJECTIVES:To characterize immunocompromised-associated pediatric acute respiratory distress syndrome (I-PARDS) and contrast it to PARDS.DESIGN:This is a secondary analysis of the 2016–2017 PARDS incidence and epidemiology (PARDIE) study, a prospective observational, cross-sectional study of children with PARDS.SETTING:Dataset of 145 PICUs across 27 countries.PATIENTS:During 10 nonconsecutive weeks (from May 2016 to June 2017), data about immunocompromising conditions (ICCs, defined as malignancy, congenital/acquired immunodeficiency, posttransplantation, or diseases requiring immunosuppression) were collected.INTERVENTIONS:None.MEASUREMENTS AND MAIN RESULTS:Of 708 subjects, 105 (14.8%) had ICC. Before the development of I-PARDS, those with ICC were more likely to be hospitalized (70% vs. 35%,p< 0.001), have more at-risk for PARDS (p= 0.046), and spent more hours at-risk (20 [interquartile range, IQR: 8–46] vs. 11 [IQR: 4–33], [p= 0.002]). Noninvasive ventilation (NIV) use was more common in those with ICC (p< 0.001). Of those diagnosed with PARDS on NIV (n= 161), children with ICC were more likely to be subsequently intubated (n= 28/40 [70%] vsn= 53/121 [44%],p= 0.004). Severe PARDS was more common (32% vs 23%,p< 0.001) in I-PARDS. Oxygenation indices were higher at diagnosis and had less improvement over the first 3 days of PARDS (p< 0.001). Children with I-PARDS had greater nonpulmonary organ dysfunction. Adjusting for Pediatric Risk of Mortality IV and oxygenation index, children with I-PARDS had a higher severity of illness-adjusted PICU mortality (adjusted hazard ratio: 3.0 [95% CI, 1.9–4.7]p< 0.001) and were less likely to be extubated alive within 28 days (subdistribution hazard ratio: 0.47 [95% CI, 0.31–0.71]p< 0.001).CONCLUSIONS:I-PARDS is a unique subtype of PARDS associated with hospitalization before diagnosis and increased: time at-risk for PARDS, NIV use, hypoxia, nonpulmonary organ dysfunction, and mortality. The opportunity for early detection and intervention seems to exist. Dedicated study in these patients is imperative to determine if targeted interventions will benefit these unique patients with the ultimate goal of improving outcomes.
Recent advances in Alzheimer disease genetics
Authors: Nicolas Gaël 
Published: January 2024

Purpose of review
Genetics studies provide important insights into Alzheimer disease (AD) etiology and mechanisms. Critical advances have been made recently, mainly thanks to the access to novel techniques and larger studies.

Recent findings
In monogenic AD, progress has been made with a better understanding of the mechanisms associated with pathogenic variants and the input of clinical studies in presymptomatic individuals. In complex AD, increasing sample sizes in both DNA chip-based (genome-wide association studies, GWAS) and exome/genome sequencing case-control studies unveiled novel common and rare risk factors, while the understanding of their combined effect starts to suggest the existence of rare families with oligogenic inheritance of early-onset, nonmonogenic, AD.

Summary
Most genetic risk factors with a known consequence designate the aggregation of the Aβ peptide as a core etiological factor in complex AD thus confirming that the research based on monogenic AD – where the amyloid cascade seems more straightforward – is relevant to complex AD as well. Novel mechanistic insights and risk factor studies unveiling novel factors and attempting to combine the effect of common and rare variants will offer promising perspectives for future AD prevention, at least regarding early-onset AD, and probably in case of later onset as well.
Clinical Characteristics of Idiopathic Intracranial Hypertension in Older Adults
Authors: Sabet Sina J. , Gasquet Nicolas C. , Henderson Amanda D. , Carey Andrew R. 
Published: January 2024

Background:
Idiopathic intracranial hypertension (IIH) is a condition that classically affects obese women of child-bearing age. However, it is sometimes encountered in older patients. The purpose of this study was to help clinicians better understand how this disease can present differently in these age groups.

Methods:
This is a retrospective chart review from a single academic center of baseline characteristics of adult patients diagnosed with IIH based on the modified Dandy criteria. The patients were divided into 2 groups: (1) those 18–44 years old and (2) those older than 45 years at diagnosis.

Results:
One hundred sixty-seven patients were identified; 135 in the younger group and 32 in the older group. The younger group had a higher rate of headaches (90% vs 63%, P = 0.0004), higher body mass index (38.9 vs 36.1, P = 0.046), higher opening pressure (38 vs 31 cm H2O, P = 0.005), and thicker peripapillary retinal nerve fiber layer average thickness (right eye 178 vs 131 μm, P = 0.02; left eye 184 vs 136 μm, P = 0.045). The older group had higher rates of empty sella (90% vs 62%, P = 0.0039). In addition in the younger group, there was a trend toward higher rates of pulsatile tinnitus (63% vs 45%, P = 0.08), transient visual obscurations (50% vs 32%, P = 0.07), and lower rates of spontaneous cerebrospinal fluid leak (4% vs 13%, P = 0.08). Sex, rates of obesity, other MRI findings typical of elevated intracranial pressure, frequency and Frisen grading of papilledema, and visual field loss were not statistically different between the groups.

Conclusions:
The older age group had milder signs and symptoms of IIH and a higher prevalence of empty sella than the younger group, but otherwise had typical characteristics. These findings suggest that IIH in the older age group may represent milder chronic disease that was previously undiagnosed.
MAPK activity and MAP kinase phosphatase 2 (AtMKP2) protein stability under altered glutathione homeostasis inArabidopsis thaliana
Authors: Yang Yingxue , Matern Sanja , Steininger Heike , Vinde Marcos Hamborg , Rausch Thomas , Peskan-Berghöfer Tanja 
Published: January 2024

AbstractMitogen-activated protein kinases (MAPKs) are important signaling players involved in various responses to diverse environmental stresses. MAP kinase phosphatases (MKPs) are crucial negative regulators of MAPKs and control the intensity and duration of MAPK activation. It has been shown that transgenic tobacco plants with increased glutathione content display an oxidative shift and have constitutively active immunity-related MAPKs. The mechanism by which glutathione can activate or keep these MAPKs in activated state is unclear. In this study, it is shown that theArabidopsisstress-related MAPKs, AtMPK3 and AtMPK6 are hypersensitive to a pathogen-associated molecular pattern flg22 in thecat2-1line, under the conditions causing an altered glutathione homeostasis and elevated oxidative stress responses in this background. As AtMKP2 is the only dual specificity phosphatase deactivating AtMPK3 and AtMPK6 in response to oxidative stress, the stability of the wild-type AtMKP2 protein and the mutant version of the protein with the substitution of the cys109 in the active site with serine has been studied in wild type (Col-0) andcat2-1background. The results indicate that AtMKP2 is a stable protein in both genetic backgrounds, whereas the active site cys109 stabilizes the protein under severe oxidative stress conditions and can be glutathionylatedin vitro.
Sleep moderates the effects of exercise on cognition in chronic stroke: secondary analysis of a randomized trial
Authors: Falck Ryan S. , Stein Ryan G. , Davis Jennifer C. , Eng Janice J. , Middleton Laura E. , Hall Peter A. , Liu-Ambrose Teresa 
Published: January 2024

AbstractBackgroundExercise (EX) or cognitive and social enrichment (ENRICH) are two promising strategies for promoting cognitive function post-stroke. Sleep may moderate the effects of these interventions on cogntion, whereby intervention effects may be more robust among individuals suffering from poor sleep. We examined whether sleep moderates the effects of EX or ENRICH on cognitive function in adults with chronic stroke.MethodsSecondary analysis of a three-arm parallel, single-blinded, randomized clinical trial among community-dwelling adults aged 55+ years with chronic stroke (i.e., ≥12 months since stroke). Participants were randomized to 2x/week EX, ENRICH, or balance and tone control (BAT). At baseline, device-measured sleep duration and efficiency were measured using MotionWatch8 wrist-worn actigraphy; self-reported quality was measured by Pittsburgh Sleep Quality Index (PSQI). Participants were categorized at baseline as having good or poor: 1) device-measured duration; 2) device-measured efficiency; or 3) self-reported quality. The primary cognitive outcome was Alzheimer’s Disease Assessment Scale Plus (ADAS-Cog-Plus) measured at baseline, 6 months (end of intervention), and 12 months (6-month follow-up). Linear mixed models examined if baseline sleep categorizations (i.e., good/poor) moderated the effects of EX or ENRICH on ADAS-Cog-Plus.ResultsWe enrolled 120 participants in the trial (EX=34; ENRICH=34; BAT=52). Baseline sleep categorization did not moderate the effect of ENRICH on ADAS-Cog-Plus; however, it moderated the effect of EX. EX participants with poor baseline sleep efficiency (estimated mean difference: −0.48; 95% CI:[−0.85, −0.10];p=0.010) or self-reported sleep quality (estimated mean difference: −0.38; 95% CI:[−0.70, −0.07];p=0.014) had significantly better ADAS-Cog-Plus performance at 6 months compared with BAT participants with poor sleep. There was no effect of EX on ADAS-Cog-Plus for participants with good baseline sleep.ConclusionThe effects of EX on cognitive function in adults with chronic stroke is moderated by sleep, whereby poor sleepers benefit more.
Neuronal polyunsaturated fatty acids are protective in FTD/ALS
Authors: Giblin A , Cammack AJ , Blomberg N , Mikheenko A , Carcolé M , Coneys R , Zhou L , Mohammed Y , Olivier-Jimenez D , Atilano ML , Niccoli T , Coyne AN , van der Kant R , Lashley T , Giera M , Partridge L , Isaacs AM 
Published: January 2024

AbstractWe report a conserved transcriptomic signature of reduced fatty acid and lipid metabolism gene expression in human post-mortem ALS spinal cord and aDrosophilamodel of the most common genetic cause of FTD/ALS, a repeat expansion inC9orf72. To investigate lipid alterations, we performed lipidomics on C9FTD/ALS iPSC-neurons and post-mortem FTLD brain tissue. This revealed a common and specific reduction in phospholipid species containing polyunsaturated fatty acids (PUFAs). To determine whether this PUFA deficit contributes to neurodegeneration, we fed C9FTD/ALS flies PUFAs, which yielded a modest increase in survival. However, increasing PUFA levels specifically in neurons of theC9orf72flies, by overexpressing fatty acid desaturase enzymes, led to a substantial extension of lifespan. Neuronal overexpression of fatty acid desaturases also suppressed stressor induced neuronal death in C9FTD/ALS patient iPSC-neurons. These data implicate neuronal fatty acid saturation in the pathogenesis of FTD/ALS and suggest that interventions to increase PUFA levels specifically within neurons will be beneficial.
ProteinMPNN Recovers Complex Sequence Properties of Transmembrane β-barrels
Authors: Dolorfino Marissa , Samanta Rituparna , Vorobieva Anastassia 
Published: January 2024

AbstractRecent deep-learning (DL) protein design methods have been successfully applied to a range of protein design problems, including thede novodesign of novel folds, protein binders, and enzymes. However, DL methods have yet to meet the challenge ofde novomembrane protein (MP) and the design of complex β-sheet folds. We performed a comprehensive benchmark of one DL protein sequence design method, ProteinMPNN, using transmembrane and water-soluble β-barrel folds as a model, and compared the performance of ProteinMPNN to the new membrane-specific Rosetta Franklin2023 energy function. We tested the effect of input backbone refinement on ProteinMPNN performance and found that given refined and well-defined inputs, ProteinMPNN more accurately captures global sequence properties despite complex folding biophysics. It generates more diverse TMB sequences than Franklin2023 in pore-facing positions. In addition, ProteinMPNN generated TMB sequences that passed state-of-the-art in silico filters for experimental validation, suggesting that the model could be used inde novodesign tasks of diverse nanopores for single-molecule sensing and sequencing. Lastly, our results indicate that the low success rate of ProteinMPNN for the design of β-sheet proteins stems from backbone input accuracy rather than software limitations.
Nonnative Fish in the Pearl River Delta: A Comprehensive Study on Their Salinity Adaptability and Potential Distribution Area in Brackish Water
Authors: Luo Du , Yang Dingtian , Li Yuefei , Li Jie 
Published: January 2024

AbstractAfter extensive aquaculture, urbanization, and industrial development, the Pearl River Delta (PRD) has undergone profound environmental changes, with biological invasion emerging as a consequential anthropogenic byproduct, carrying significant implications for natural ecosystems, human health, and the economy. Despite these transformations, our understanding of nonnative fish species and their adaptability to the dynamic environmental conditions within the intricate river network of the PRD remains incomplete. To address this, we conducted a systematic survey of nonnative fish species in PRD waters through literature reviews. Then we analyzed the salinity adaptation of these fish, coupled with a spatial examination of salinity distribution, to comprehensively understand the potential invasion mechanisms of exotic fish in the region. Our findings identified 25 nonnative fish species in PRD waters, with three being translocated species within China and the remaining 22 being exotic introductions. Phylogenetically, these fish are broadly distributed among several orders, with Cichliformes, Perciformes, Cypriniformes, and Siluriformes emerging as the predominant orders. Despite most of the nonnative fish being freshwater species and exhibiting species-specific differences in salinity adaptability, they generally demonstrated an average salinity tolerance of 23.74 ppt, allowing them to adjust to brackish water. The diversity of species declined as the relative distance decreased from the upstream of the Pearl River Estuary (PRE) to its mouth in the sea (p < 0.01). Spatial analysis unveiled pronounced heterogeneity in salinity distribution, particularly in the east PRE of the LingDing Bay, featuring a sizable area with brackish water. Notably, under salinity intrusion circumstances, a gap region between salinity levels of 5.0 ppt and 15.0 ppt, spanning 3111.2 km2, emerged as a potential adaptation zone for nonnative fish. By emphasizing salinity as a key factor, our study may contribute to elucidating invasion mechanisms and enhancing the assessment of invasion risks in estuarine environments.
Substrate elasticity does not impact on DNA methylation changes during differentiation of pluripotent stem cells
Authors: Mabrouk Mohamed H. Elsafi , Zeevaert Kira , Henneke Ann-Christine , Maaßen Catharina , Wagner Wolfgang 
Published: January 2024

AbstractSubstrate elasticity may direct cell-fate decisions of stem cells. However, it is largely unclear how matrix stiffness impacts on differentiation of induced pluripotent stem cells (iPSCs) and if this is also reflected by epigenetic modifications. We have therefore cultured iPSCs on tissue culture plastic (TCP) and polydimethylsiloxane (PDMS) with different Young’s modulus (0.2 kPa, 16 kPa, or 64 kPa) to investigate the sequel on growth and differentiation towards endoderm, mesoderm, and ectoderm. Immunofluorescence and gene expression of canonical differentiation markers was hardly affected by the substrates. Notably, when we analyzed DNA methylation profiles of undifferentiated iPSCs or after three-lineage differentiation, we did not see any significant differences on the three different PDMS elasticities. Only when we compared DNA methylation profiles on PDMS-substratesversusTCP, we observed epigenetic differences, particularly upon mesodermal differentiation. Taken together, stiffness of PDMS-substrates did not impact on directed differentiation of iPSCs, whereas the moderate epigenetic differences on TCP might also be attributed to other chemical parameters.
Liming pasture soils in the Amazon region promotes low-affinity methane oxidation by type I and II methanotrophs
Authors: de Souza Leandro Fonseca , Nakamura Fernanda Mancini , Kroeger Marie , Alvarez Dasiel Obregon , de Moraes Moacir Tuzzin , Vicente Mariana Gomes , Moreira Marcelo Zacharias , Pellizari Vivian Helena , Tsai Siu Mui , Nüsslein Klaus 
Published: January 2024

AbstractIn the Amazon Forest region, cattle pastures are the main land use subsequent to deforestation. This land-use change affects the soil microbial community and methane fluxes, shifting the soil from a methane sink to a source. Soil physical and chemical attributes are changed due to slash-and-burn processes, including an increased soil pH after forest-to-pasture conversion. Without amendments, the pasture soils can become acidic again resulting in many cases in soil degradation. Liming is a standard management practice to increase soil pH while decreasing Al3+availability. Liming is important to recover these degraded lands and increase soil fertility, but its impact on soil methane cycling in tropical soils is unknown. Here we investigated the role of soil pH on methane uptake under high concentrations of the gas. The top layer of forest (pH 4.1) and adjacent pasture soils (pH 4.8) from the Eastern Amazon were subjected to liming treatment (final pH 5.8) and incubated with ∼10,000 ppm of13CH4for 24 days to label DNA with13C. Soil DNA was evaluated with Stable Isotopic Probing (SIP-DNA), methanotrophic abundance was quantified (pmoAgene), and high throughput sequencing of 16SrRNAwas performed. Liming increased the methane uptake in both forest (∼10%) and pasture (∼25%) soils. MethanotrophsMethylocaldum sp. (type I) and Beijerinckaceae (type II) were identified to actively incorporate carbon from methane in limed pasture soils. In limed forest soils,Nitrososphaeraceae,Lysobactersp., andAcidothermus sp. were identified as13C-enriched taxa. The enrichment of the archaeal familyNitrososphaeraceae, known as ammonia oxidizers, is correlated with an increase of ammonia monooxygenase genes, which code for an enzyme complex with wide substrate specificity that can also perform methane oxidation. In conclusion, liming Amazonian pasture soils not only contributes to the fertility and recovery of degraded areas but also has the potential to improve the oxidation of methane at high concentrations of this gas.
Plant kleptomaniacs: geographic genetic patterns in the amphi-apomicticRubusser.Glandulosi(Rosaceae) reveal complex reticulate evolution of Eurasian brambles
Authors: Sochor Michal , Šarhanová Petra , Duchoslav Martin , Konečná Michaela , Hroneš Michal , Trávníček Bohumil 
Published: January 2024

AbstractRubusser.Glandulosirepresents a unique model of geographic parthenogenesis on a homoploid (4x) level. We employed double digest restriction-site associated DNA sequencing (ddRADseq) in 587 individuals of differentRubustaxa and modelling of suitable climate to characterize evolutionary and phylogeographic patterns and shed light on the geographic differentiation of apomicts and sexuals. Six ancestral species were identified that contributed to the contemporary gene pool ofR.ser.Glandulosi. While sexuals were introgressed fromR. dolichocarpusandR. moschusin West Asia and fromR. ulmifoliusagg.,R. canescensandR. incanescensin Europe, apomicts were characterized by alleles ofR.subsect.Rubus. Gene flow between sexuals and apomicts was also detected, as well as occasional hybridization with other taxa. We hypothesize that sexuals survived the last glacial period in several large southern refugia, whereas apomicts were mostly restricted to southern France from whence they quickly recolonized Central and Western Europe. The secondary contact of sexuals and apomicts was probably the principal factor that established geographic parthenogenesis inR.ser.Glandulosi. Sexual populations are not impoverished in genetic diversity along their borderline with apomicts and maladaptive population genetic processes likely did not shape the geographic patterns.HighlightsGeographic parthenogenesis inRubusser.Glandulosiis caused by secondary contactReticulate evolution in Eurasian brambles is more extensive than expectedAt least six species contributed to the evolution ofRubusser.GlandulosiExtinct ancestor’s gene pool is associated with apomixisAbstract FigureGraphical abstract