bluuebunny/crossref_metadata_2025_split huggingface dataset:
Premotor projections from the locus coeruleus and periaqueductal grey are altered in two rat models with inborn differences in emotional behavior
Authors: Shupe Elizabeth A. , Kerman Ilan A. , Clinton Sarah M. 
Published: February 2024

AbstractEmotionally motivated behaviors rely on the coordinated activity of descending neural circuits involved in motor and autonomic functions. Using a pseudorabies (PRV) tract-tracing approach in typically behaving rats, our group previously identified descending premotor, presympathetic, and dual-labeled premotor-presympathetic populations throughout the central rostral-caudal axis. The premotor-presympathetic populations are thought to integrate somatomotor and sympathetic activity. To determine whether these circuits are dysregulated in subjects with altered emotional regulation, subsequent neuroanatomical analyses were performed in male subjects of two distinct genetic models relevant to clinical depression and anxiety: the Wistar Kyoto (WKY) rat and selectively bred Low Novelty Responder (bLR) rat. The present study explored alterations in premotor efferents from locus coeruleus (LC) and subdivisions of the periaqueductal grey (PAG), two areas involved in emotionally motivated behaviors. Compared to Sprague Dawley rats, WKY rats had significantly fewer premotor projections to hindlimb skeletal muscle from the LC and from the dorsomedial (DMPAG), lateral (LPAG), and ventrolateral (VLPAG) subdivisions of PAG. Relative to selectively bred High Novelty Responder (bHR) rats, bLR rats had significantly fewer premotor efferents from LC and dorsolateral PAG (DLPAG). Cumulatively, these results demonstrate that somatomotor circuitry in several brain areas involved in responses to stress and emotional stimuli are altered in rat models with depression-relevant phenotypes. These somatomotor circuit differences could be implicated in motor-related impairments in clinically depressed patients.
A study on the association between gut microbiota, inflammation, and type 2 diabetes
Authors: Liu Nannan , Yan Xuehua , Lv Bohan , Wu Yanxiang , Hu Xuehong , Zheng Chunyan , Tao Siyu , Deng Ruxue , Dou Jinfang , Zeng Binfang , Jiang Guangjian 
Published: February 2024

Abstract
Type 2 diabetes mellitus (T2DM) was reported to be associated with impaired immune response and alterations in microbial composition and function. However, the underlying mechanism remains elusive. To investigate the association among retinoic acid-inducible gene-I-like receptors (RLRs) signaling pathway, intestinal bacterial microbiome, microbial tryptophan metabolites, inflammation, and a longer course of T2DM, 14 patients with T2DM and 7 healthy controls were enrolled. 16S rRNA amplicon sequencing and untargeted metabolomics were utilized to analyze the stool samples. RNA sequencing (RNA-seq) was carried out on the peripheral blood samples. Additionally, C57BL/6J specific pathogen-free (SPF) mice were used. It was found that the longer course of T2DM could lead to a decrease in the abundance of probiotics in the intestinal microbiome. In addition, the production of microbial tryptophan derivative skatole declined as a consequence of the reduced abundance of related intestinal microbes. Furthermore, low abundances of probiotics, such as Bacteroides and Faecalibacterium, could trigger the inflammatory response by activating the RLRs signaling pathway. The increased level of the member of TNF receptor-associated factors (TRAF) family, nuclear factor kappa-B (NF-κB) activator (TANK), in the animal colon activated nuclear factor kappa B subunit 2 (NFκB2), resulting in inflammatory damage. In summary, it was revealed that the low abundances of probiotics could activate the RLR signaling pathway, which could in turn activate its downstream signaling pathway, NF-κB, highlighting a relationship among gut microbes, inflammation, and a longer course of T2DM.

Key points

Hyperglycemia may suppress tryptophanase activity.

The low abundance of Bacteroides combined with the decrease of Dopa decarboxylase (DDC) activity may lead to the decrease of the production of tryptophan microbial derivative skatole, and the low abundance of Bacteroides or reduced skatole may further lead to the increase of blood glucose by downregulating the expression of glucagon-like peptide-1 (GLP1).

A low abundance of anti-inflammatory bacteria may induce an inflammatory response by triggering the RLR signaling pathway and then activating its downstream NF-κB signaling pathway in prolonged T2DM.
Applied microbiology of the phyllosphere
Authors: Rangel Lorena I. , Leveau Johan H. J. 
Published: February 2024

Abstract
The phyllosphere, or plant leaf surface, represents a microbial ecosystem of considerable size, holding extraordinary biodiversity and enormous potential for the discovery of new products, tools, and applications in biotechnology, agriculture, medicine, and elsewhere. This mini-review highlights the applied microbiology of the phyllosphere as an original field of study concerning itself with the genes, gene products, natural compounds, and traits that underlie phyllosphere-specific adaptations and services that have commercial and economic value for current or future innovation. Examples include plant-growth-promoting and disease-suppressive phyllobacteria, probiotics and fermented foods that support human health, as well as microbials that remedy foliar contamination with airborne pollutants, residual pesticides, or plastics. Phyllosphere microbes promote plant biomass conversion into compost, renewable energy, animal feed, or fiber. They produce foodstuffs such as thickening agents and sugar substitutes, industrial-grade biosurfactants, novel antibiotics and cancer drugs, as well as enzymes used as food additives or freezing agents. Furthermore, new developments in DNA sequence-based profiling of leaf-associated microbial communities allow for surveillance approaches in the context of food safety and security, for example, to detect enteric human pathogens on leafy greens, predict plant disease outbreaks, and intercept plant pathogens and pests on internationally traded goods.

Key points
• Applied phyllosphere microbiology concerns leaf-specific adaptations for economic value
• Phyllobioprospecting searches the phyllosphere microbiome for product development
• Phyllobiomonitoring tracks phyllosphere microbial profiles for early risk detection

Graphical Abstract
Balancing resources for dynamic vehicle routing with stochastic customer requests
Authors: Soeffker Ninja , Ulmer Marlin W. , Mattfeld Dirk C. 
Published: February 2024

AbstractWe consider a service provider performing pre-planned service for initially known customers with a fleet of vehicles, e.g., parcel delivery. During execution, new dynamic service requests occur, e.g., for parcel pickup. The goal of the service provider is to serve as many dynamic requests as possible while ensuring service of all initial customers. The allocation of initial services impacts the potential of serving dynamic requests. An allocation aiming on a time-efficient initial routing leads to minimal overall workload regarding the initial solution but may congest some vehicles that are unable to serve additional requests along their routes. An even workload division is less efficient but grants all vehicles flexibility for additional services. In this paper, we investigate the balance between efficiency and flexibility. For the initial customers, we modify a routing algorithm to allow a shift between efficient initial routing and evenly balanced workloads. For effective dynamic decision making with respect to the dynamic requests, we present value function approximations with different feature sets capturing vehicle workload in different levels of detail. We show that sacrificing some initial routing efficiency in favor of a balanced vehicle workload is a key factor for a flexible integration of later customer requests that leads to an average improvement of 10.75%. Further, we show when explicitly depicting heterogeneity in the vehicle workload by features of the value function approximation provides benefits and that the best choice of features leads to an average improvement of 5.71% compared to the worst feature choice.
The RIN4-like/NOI proteins NOI10 and NOI11 modulate the response to biotic stresses mediated by RIN4 in Arabidopsis
Authors: Contreras Estefania , Martinez Manuel 
Published: February 2024

Abstract
Key message
NOI10 and NOI11 are two RIN4-like/NOI proteins that participate in the immune response of the Arabidopsis plant and affect the RIN4-regulated mechanisms involving the R-proteins RPM1 and RPS2.

Abstract
The immune response in plants depends on the regulation of signaling pathways triggered by pathogens and herbivores. RIN4, a protein of the RIN4-like/NOI family, is considered to be a central immune signal in the interactions of plants and pathogens. In Arabidopsis thaliana, four of the 15 members of the RIN4-like/NOI family (NOI3, NOI5, NOI10, and NOI11) were induced in response to the plant herbivore Tetranychus urticae. While overexpressing NOI10 and NOI11 plants did not affect mite performance, opposite callose accumulation patterns were observed when compared to RIN4 overexpressing plants. In vitro and in vivo analyses demonstrated the interaction of NOI10 and NOI11 with the RIN4 interactors RPM1, RPS2, and RIPK, suggesting a role in the context of the RIN4-regulated immune response. Transient expression experiments in Nicotiana benthamiana evidenced that NOI10 and NOI11 differed from RIN4 in their functionality. Furthermore, overexpressing NOI10 and NOI11 plants had significant differences in susceptibility with WT and overexpressing RIN4 plants when challenged with Pseudomonas syringae bacteria expressing the AvrRpt2 or the AvrRpm1 effectors. These results demonstrate the participation of NOI10 and NOI11 in the RIN4-mediated pathway. Whereas RIN4 is considered a guardee protein, NOI10 and NOI11 could act as decoys to modulate the concerted activity of effectors and R-proteins.
Risdiplam improves subjective swallowing quality in non-ambulatory adult patients with 5q-spinal muscular atrophy despite advanced motor impairment
Authors: Brakemeier S. , Lipka J. , Schlag M. , Kleinschnitz C. , Hagenacker T. 
Published: February 2024

Abstract
Background
5q-associated spinal muscular atrophy (SMA) is characterized by the progressive loss of motor neurons with consecutive weakness and atrophy of the limb, respiratory, and bulbar muscles. While trunk and limb motor function improve or stabilize in adults with SMA under nusinersen and risdiplam treatment, the efficacy on bulbar function in this age group of patients remains uncertain. However, it is important to assess bulbar dysfunction, which frequently occurs in the disease course and is associated with increased morbidity and mortality.

Methods
Bulbar function was evaluated prospectively in 25 non-ambulatory adults with type 2 and 3 SMA before and 4 and 12 months after risdiplam treatment initiation using the Sydney Swallow Questionnaire (SSQ) and the bulbar subscore of the Amyotrophic Lateral Sclerosis Functional Rating Scale Revised (b-ALSFRS-R). Extremity function was assessed using the Hammersmith Functional Motor Scale Expanded (HFMSE) and Revised Upper Limb Module (RULM).

Results
Subjective swallowing quality, measured with the SSQ, improved after 12 months of therapy with risdiplam. For the b-ALSFRS-R, a non-significant trend towards improvement was observed. The RULM score improved after 12 months of risdiplam therapy, but not the HFMSE score. HFMSE and RULM scores did not correlate with the SSQ but the b-ALSFRS-R score at baseline.

Conclusions
The improvement in subjective swallowing quality under risdiplam treatment, despite an advanced disease stage with severe motor deficits, strengthens the importance of a standardized bulbar assessment in addition to established motor scores. This may reveal relevant treatment effects and help individualize treatment decisions in the future.
Intertwined regulators: hypoxia pathway proteins, microRNAs, and phosphodiesterases in the control of steroidogenesis
Authors: Ariyeloye Stephen , Kämmerer Susanne , Klapproth Erik , Wielockx Ben , El-Armouche Ali 
Published: February 2024

AbstractOxygen sensing is of paramount importance for maintaining cellular and systemic homeostasis. In response to diminished oxygen levels, the hypoxia-inducible factors (HIFs) orchestrate various biological processes. These pivotal transcription factors have been identified as key regulators of several biological events. Notably, extensive research from our group and others has demonstrated that HIF1α exerts an inverse regulatory effect on steroidogenesis, leading to the suppression of crucial steroidogenic enzyme expression and a subsequent decrease in steroid levels. These steroid hormones occupy pivotal roles in governing a myriad of physiological processes. Substantial or prolonged fluctuations in steroid levels carry detrimental consequences across multiple organ systems and underlie various pathological conditions, including metabolic and immune disorders. MicroRNAs serve as potent mediators of multifaceted gene regulatory mechanisms, acting as influential epigenetic regulators that modulate a broad spectrum of gene expressions. Concomitantly, phosphodiesterases (PDEs) play a crucial role in governing signal transduction. PDEs meticulously manage intracellular levels of both cAMP and cGMP, along with their respective signaling pathways and downstream targets. Intriguingly, an intricate interplay seems to exist between hypoxia signaling, microRNAs, and PDEs in the regulation of steroidogenesis. This review highlights recent advances in our understanding of the role of microRNAs during hypoxia-driven processes, including steroidogenesis, as well as the possibilities that exist in the application of HIF prolyl hydroxylase (PHD) inhibitors for the modulation of steroidogenesis.
Role and relevance of dentists in a multiprofessional palliative care team: results of a cross-sectional survey study
Authors: Weihermann Greta Antonia , Bernhardt Florian , Brix Tobias J. , Baumeister Sebastian-Edgar , Lenz Philipp 
Published: February 2024

Abstract
Purpose
Despite the multiprofessional concept surrounding palliative care patients (PCPs) and their high prevalence of oral issues, licensed dentists (LDs) are often not included in their treatment team. This study aimed to examine the current state of cooperation and to determine whether and how LDs should be included in the care for PCPs.

Methods
This single-centre cross-sectional study was conducted at the University Hospital Muenster, Germany. We surveyed three participant groups: PCPs, LDs, and healthcare professionals (HCPs). Questionnaires were tailored for each group, with some questions common for comparison.

Results
The study encompassed the results of 48 questionnaires from LDs, 50 from PCPs along with 50 from HCPs. Consensus was reached among all parties (LDs: 73% (n = 35/48); HCPs: 94%, n = 47/50; PCPs: 60%, n = 30/50) that involving LDs in the treatment concept is favourable. On the other hand, a significant discrepancy emerged in the perception of the dental treatment effort required by PCPs. While LDs (81%; n = 39/48) and HCPs (64%; n = 32/50) were convinced of increased effort, PCPs (34%; n = 17/50) largely did not share this perspective. To enhance patient care and formulate appropriate treatment plans, LDs consider both training (58%; n = 28/48) and guidebooks (71%; n = 34/48) to be valuable and would attend or use such resources.

Conclusion
This study sheds light on the current gaps in including LDs in palliative care teams and emphasizes the importance of multidisciplinary collaboration to address oral health needs effectively. Development of continuing education options and collaborative models between LDs and HCPs needs to be further expanded in future.
Analysis of flux footprints in fragmented, heterogeneous croplands
Authors: Kumari Shweta , Kambhammettu B. V. N. P. , Adams Mark. A. , Niyogi Dev 
Published: February 2024

AbstractAn accurate quantification of fluxes from heterogeneous sites and further bifurcation into contributing homogeneous fluxes is an active field of research. Among such sites, fragmented croplands with varying surface roughness characteristics pose formidable challenges for footprint analysis. We conducted two flux monitoring experiments in fragmented croplands characterized by two dissimilar surfaces with objectives to: (i) evaluate the performance of two analytical footprint models in heterogeneous canopy considering aggregated roughness parameters and (ii) analyze the contribution of fluxes from individual surfaces under changing wind speed. A set of three eddy covariance (EC) towers (one each capturing the homogenous fluxes from individual surfaces and a third, high tower capturing the heterogeneous mixed fluxes) was used for method validation. High-quality EC fluxes that fulfill stationarity and internal turbulence tests were analyzed considering daytime, unstable conditions. In the first experiment, source area contribution from a surface is gradually reduced by progressive cut, and its effect on high-tower flux measurements is analyzed. Two footprint models (Kormann and Meixner ‘KM’; analytical solution to Lagrangian model ‘FFP’) with modified surface roughness parameters were applied under changing source area contributions. FFP model has consistently over predicted the footprints (RMSEFFP = 0.31 m−1, PBIASFFP = 19.00), whereas KM model prediction was gradually changed from over prediction to under prediction towards higher upwind distances (RMSEKM = 0.02 m−1, PBIASKM = 8.50). Sensitivity analysis revealed that the models are more sensitive to turbulent conditions than surface characteristics. This motivated to conduct the second experiment, where the fractional contribution of individual surfaces (α and β) to the heterogeneous fluxes measured by the high tower (T3) was estimated using the principle of superposition (FT3 = α FT1 + β FT2). Results showed that α and β are dynamic during daylight hours and strongly depend on mean wind speed (U) and friction velocity (u*). The contribution of fluxes from adjoining fields [1 − (α + β)] is significant beyond 80% isopleth. Our findings provide guidelines for future analysis of fluxes in heterogeneous, fragmented croplands.
“You cannot just stop life for just that”: a qualitative study on children’s experiences on refugee journey to Sweden
Authors: Mattelin Erica , Söderlind Natalie , Korhonen Laura 
Published: February 2024

AbstractChildren with refugee backgrounds are often exposed to violence and other adverse experiences with well-known detrimental consequences on mental health. However, the current group of approximately 40 million child refugees is heterogeneous, stressing the importance of first-person perspectives in understanding children’s unique experiences and needs related to the migration process. Identifying contextual factors promoting health and resilience is also essential. For instance, the roles children play as active agents in constructing their own lives and adapting to different environments are poorly described in contemporary research on child refugees and their mental health. To address these knowledge gaps, we conducted qualitative interviews with a reflexive thematic analysis with eighteen children with refugee backgrounds in Sweden. This resulted in two main themes: Longing for a good life that cannot be taken for granted and Challenged agency and changing rights. The narratives indicate that children, although exposed to different challenges in different migration phases and based on gender and asylum status, have experiences of ordinary childhood with a desire for a good life with prospects. The results also show that children execute active and adaptable agency that is impacted by various factors. Reaching the full age appears to be a confusing and ambivalent transition due to changes in rights. The results pinpoint several possibilities to address factors that pose a risk to health and restrictions of rights among child refugees.
Prolonged viral pneumonia and high mortality in COVID-19 patients on anti-CD20 monoclonal antibody therapy
Authors: Feuth Eeva , Nieminen Valtteri , Palomäki Antti , Ranti Juha , Sucksdorff Marcus , Finnilä Taru , Oksi Jarmo , Vuorinen Tytti , Feuth Thijs 
Published: February 2024

Abstract
Purpose
In clinical practice, we observed an apparent overrepresentation of COVID-19 patients on anti-CD20 monoclonal antibody therapy. The aim of this study was to characterize the clinical picture of COVID-19 in these patients.

Methods
All adult patients from Turku University Hospital, Turku, Finland, with COVID-19 diagnosis and/or positive SARS-CoV-2 PCR test result up to March 2023, and with anti-CD20 therapy within 12 months before COVID-19 were included. Data was retrospectively obtained from electronic patient records.

Results
Ninety-eight patients were identified. 44/93 patients (47.3%) were hospitalized due to COVID-19. Patients with demyelinating disorder (n = 20) were youngest (median age 36.5 years, interquartile range 33–45 years), had less comorbidities, and were least likely to be hospitalized (2/20; 10.0%) or die (n = 0). COVID-19 mortality was 13.3% in the whole group, with age and male sex as independent risk factors. Persistent symptoms were documented in 33/94 patients (35.1%) alive by day 30, in 21/89 patients (23.6%) after 60 days, and in 15/85 after 90 days (17.6%), mostly in patients with haematological malignancy or connective tissue disease. Prolonged symptoms after 60 days predisposed to persistent radiological findings (odds ratio 64.0; 95% confidence interval 6.3–711; p < 0.0001) and persistently positive PCR (odds ratio 45.5, 95% confidence interval 4.0–535; p < 0.0001). Several patients displayed rapid response to late antiviral therapy.

Conclusion
Anti-CD20 monoclonal antibody therapy is associated with high COVID-19 mortality and with a phenotype consistent with prolonged viral pneumonia. Our study provides rationale for retesting of immunocompromised patients with prolonged COVID-19 symptoms and considering antiviral therapy.
Improving the Automated Diagnosis of Breast Cancer with Mesh Reconstruction of Ultrasound Images Incorporating 3D Mesh Features and a Graph Attention Network
Authors: Chowa Sadia Sultana , Azam Sami , Montaha Sidratul , Bhuiyan Md Rahad Islam , Jonkman Mirjam 
Published: February 2024

AbstractThis study proposes a novel approach for breast tumor classification from ultrasound images into benign and malignant by converting the region of interest (ROI) of a 2D ultrasound image into a 3D representation using the point-e system, allowing for in-depth analysis of underlying characteristics. Instead of relying solely on 2D imaging features, this method extracts 3D mesh features that describe tumor patterns more precisely. Ten informative and medically relevant mesh features are extracted and assessed with two feature selection techniques. Additionally, a feature pattern analysis has been conducted to determine the feature’s significance. A feature table with dimensions of 445 × 12 is generated and a graph is constructed, considering the rows as nodes and the relationships among the nodes as edges. The Spearman correlation coefficient method is employed to identify edges between the strongly connected nodes (with a correlation score greater than or equal to 0.7), resulting in a graph containing 56,054 edges and 445 nodes. A graph attention network (GAT) is proposed for the classification task and the model is optimized with an ablation study, resulting in the highest accuracy of 99.34%. The performance of the proposed model is compared with ten machine learning (ML) models and one-dimensional convolutional neural network where the test accuracy of these models ranges from 73 to 91%. Our novel 3D mesh-based approach, coupled with the GAT, yields promising performance for breast tumor classification, outperforming traditional models, and has the potential to reduce time and effort of radiologists providing a reliable diagnostic system.