bluuebunny/crossref_metadata_2025_split huggingface dataset:
Will the arid and semi-arid regions of Northwest China become wetter Under Stabilized 1.5°C and 2.0°C Warming Futures?
Authors: Zhang Mi , Wang Shuyu , Wang Shuangshuang 
Published: June 2023

Abstract
Future dry-wet changes of Northwest China and their mechanisms remain controversial. Therefore, this work projected seasonal and annual dry-wet conditions in the arid (AD) and semi-arid (SA) regions by analyzing the variation of water availability, which is defined as precipitation minus evaporation. It was based on future climate change under 1.5/2.0°C stabilized warming scenarios (1.5s/2.0s) obtained using downscaled simulations from the Weather Research and Forecasting (WRF) model. The results showed that, the water availability in AD increased by 1.09 and 1.24 mm/month under 1.5s and 2.0s, respectively, while in SA, the increase was lower than in AD and even decreased in summer. The results of changes in moisture transport indicated a decrease in moisture supply to SA in summer, mainly related to moisture outflow from its southern boundary. The moisture budget analysis further demonstrated that, the increase of water availability in AD was mainly due to the enhanced contribution of the thermodynamic term caused by warming, which further increased by 8% with an additional warming of 0.5°C. Whereas the decrease in summer SA was from a negative contribution of the nonlinear term, which may be related to changes in the East Asian summer monsoon. This work linked future hydrological cycle processes with thermodynamical and dynamical processes in northwest China, providing an important basis for changes in the water cycle.
Interactive effects of multiple seed dispersers on plant fitness: An empirical study of the Japanese walnut and two rodent species
Authors: Okawa Ryunosuke , Saitoh Takashi , Noda Takashi 
Published: June 2023

Abstract
The effects of seed dispersers on plant fitness (seed dispersal effectiveness, SDE) have been evaluated based on the number (quantity) and recruitment probability (quality) of dispersed seeds. Although seeds of most zoochore species are dispersed by two or more animal species, which may interact with each other, SDE has been studied assuming a one-plant and one-animal species system. We compared the SDE of Japanese walnut (Juglans ailantifolia) between squirrel-only and squirrel-mouse sites in natural forests of Hokkaido, Japan, and found that the SDE from red squirrels (Sciurus vulgaris), considered a primary seed disperser, was altered by an alternative seed disperser species, the Japanese wood mouse (Apodemus speciosus). Seed removal rates at the squirrel-mouse site were significantly higher than those at the squirrel-only site, and both dispersed seeds and seedlings were less aggregated with the strongly repulsive relationship with adult conspecific trees at the squirrel-mouse site. Seedlings established themselves at a location with fewer medium-sized trees (< 10 cm DBH) at the squirrel-mouse site. These results suggest that the interactive effect of the rodent species affects the SDE of the Japanese walnut.
Comprehensive characterization of the neurogenic and neuroprotective action of a novel TrkB agonist using mouse and human stem cell models of Alzheimer’s Disease.
Authors: Charou Despoina , Rogdakis Thanasis , Latorrata Alessia , Valcarcel Maria , Papadogiannis Vasileios , Athanasiou Christina , Tsengenes Alexandros , Papadopoulou Maria Anna , Lypitkas Dimitrios , Lavigne Matthieu D. , Katsila Theodora , Wade Rebecca C. , Cader M. Zameel , Calogeropoulou Theodora , Gravanis Achille , Charalampopoulos Ioannis 
Published: June 2023

Abstract

Background Neural stem cell (NSC) proliferation and differentiation in the mammalian brain decreases to minimal levels postnatally. Nevertheless, neurogenic niches persist in the adult cortex and hippocampus in rodents, primates and humans, with adult NSC differentiation sharing key regulatory mechanisms with development. Adult neurogenesis impairments have been linked to Alzheimer’s Disease (AD) pathology. Addressing these impairments by using neurotrophic factors is a promising new avenue for therapeutic intervention based on neurogenesis. However, this possibility has been hindered by technical difficulties of using in-vivo models to conduct screens, including working with scarce NSCs in the adult brain and differences between human and mouse models or ethical limitations.Methods Here, we use a combination of mouse and human stem cell models for comprehensive in-vitro characterization of a novel neurogenic compound, focusing on the brain-derived neurotrophic factor (BDNF) pathway. The ability of ENT-A011, a steroidal dehydroepiandrosterone derivative, to activate the tyrosine receptor kinase B (TrkB) receptor was tested through western blotting in NIH-3T3 cells and its neurogenic and neuroprotective action were assessed through proliferation, cell death and Amyloid-β (Aβ) toxicity assays in mouse primary adult hippocampal NSCs, mouse embryonic cortical NSCs and neural progenitor cells differentiated from three human induced pluripotent stem cell (iPSC) lines from healthy and AD donors. RNA-seq profiling was used to assess if the compound acts through the same gene network as BDNF in human NPCs.Results ENT-A011 was able to increase proliferation of mouse primary adult hippocampal NSCs and embryonic cortical NSCs, in the absence of EGF/FGF, while reducing Aβ-induced cell death, acting selectively through TrkB activation. The compound was able to increase astrocytic gene markers involved in NSC maintenance, protect hippocampal neurons from Αβ toxicity and prevent synapse loss after Aβ treatment. ENT-A011 successfully induces proliferation and prevents cell death after Aβ toxicity in human NPCs, acting through a core gene network shared with BDNF as shown through RNA-seq.Conclusions Our work characterizes a novel BDNF mimetic with preferable pharmacological properties and neurogenic and neuroprotective actions in Alzheimer’s disease via stem cell-based screening, demonstrating the promise of stem cell systems for short-listing competitive candidates for further testing.
Needs and contents of a customized digital tool for retention in care and medication adherence among pregnant and breast-feeding women living with HIV in Kilimanjaro
Authors: Maro Rehema Anenmose , Ngowi Kennedy , Martin Haikael , Dillip Angel , Masika Lyidia , Mtenga Alan , Mtesha Benson , Boer Marion Sumari-de 
Published: June 2023

Abstract

Background
Retention in care and adherence to medication among pregnant and breastfeeding women living with HIV (PBWLH) are crucial for the prevention of mother-to-child transmission (PMTCT) of HIV. Wide coverage of mobile phones, digital tools, including the use of internet-enabled medication dispensers and short message service (SMS), have been recommended as potential interventions to improve adherence to medication by PBWLH. The main objective of the study was to understand the needs and contents for a customized digital tool for retention in care and medication adherence among PBWLH.
Method
A mixed-methods study was conducted from September 2021 to March 2022 at five health facilities in Kilimanjaro region. Pregnant and breastfeeding women receiving PMTCT services were included in a survey using a semi-structured questionnaire. Among the interviewed, twenty breastfeeding women were purposively selected and enrolled to use an internet-enabled Wisepill medication dispenser for one month. They received different types of SMS reminders for a period of one month and feedback on their adherence patterns was received after one month using adherence graph from the Wisepill digital tool. Later, exit interviews and in-depth interviews were conducted to explore the needs and contents for a future customized digital adherence tool. Descriptive analyses for quantitative data and thematic content analyses for qualitative data were also done.
Results
Among 142 women interviewed, 42(30%) were pregnant and 100 (70%) were breastfeeding. A majority of 136 (95%) had access to mobile phones and used SMS daily, while 90% were interested in receiving reminder messages. Qualitative findings revealed more insights on reminders’ content and educational SMS. Most people preferred neutral SMS which does not contain the word “medication”. Health educational SMS content was preferred to be on breastfeeding, opportunistic diseases, nutrition and entrepreneurship education. Overall, SMSs were regarded helpful to remind clients of medication time and the medication dispenser provided them with privacy and safe storage for their medication.
Conclusions
Findings from this study will help to construct useful content for future digital adherence tools to support the health of pregnant and breastfeeding women living with HIV.
Novel Disulfidptosis-associated Genetic Signatures to Predict Prognosis in Patients with Hepatocellular Carcinoma
Authors: Song Zheng , Luo Wei , Lv Caihong , Xu Ran , Wang Sihao , He Quanwei , Chang Xiujuan , Yang Yongping 
Published: June 2023

Abstract
Background
Hepatocellular carcinoma (HCC) poses significant challenges to prognosis prediction due to its heterogeneity and high recurrence rate. Disulfidoptosis, a unique form of cell death dependent on disulfide aggregation in cells overexpressing SLC7A11 under glucose starvation, distinguishes itself from known programmed cell death. However, the prognostic implications of disulfidoptosis-related genes in HCC require further elucidation.
Methods
From public databases, we gathered mRNA expression profiles and corresponding clinical data on HCC patients. Utilizing the least absolute shrinkage and selection operator (LASSO) Cox regression model, a four-gene signature was constructed in the TCGA cohort. Validation was performed from the ICGC and GSE14520 cohorts. According to the risk score, TIMER algorithm was used to analyze the infiltration of immune cells in the microenvironment of HCC. Predicted the sorafenib-therapeutic response was conducted based on the Genomics of Drug Sensitivity in Cancer (GDSC). Gene Ontology (GO) and Kyoto Encyclopedia of Genes and Genomes (KEGG) analyses was performed to gain insights into the biological functions of the disulfidptosis model-associated genes.
Results
Seven known disulfidoptosis-related genes significantly correlated with overall survival (OS) according to univariate Cox regression analysis (P adj. < 0.05). High-risk patients demonstrated a significantly lower OS than low-risk patients (P = 0.002 in the TCGA and P = 0.004 in the ICGC cohort). The risk scores served as independent predictors of OS in both TCGA and ICGC cohorts, according to multivariate Cox regressions (HR > 1, P < 0.001). Gene signature prediction was further validated by receiver operating characteristic (ROC) analysis. Notably, immune cell infiltration and the sorafenib treatment response differed between the two groups. Functional analysis revealed enrichment of mitosis-related pathways.
Conclusion
our study proposes a novel disulfidoptosis-related gene signature with potential clinical utility for prognostic prediction in HCC. For HCC, targeting disulfidoptosis may be a promising therapeutic option.
Medication-free treatment in mental health care: How does it differ from traditional treatment?
Authors: Standal Kari , Solbakken Ole A. , Rugkåsa Jorun , Halvorsen Margrethe S. , Abbass Allan , Wirsching Christopher , Brakstad Ingrid Engeseth , Heiervang Kristin S. 
Published: June 2023

Abstract
Background
Norwegian health authorities have implemented treatment units devoted to medication-free mental health treatment in all health regions to improve people’s freedom of choice. This article examines how medication-free treatment differs from treatment as usual across various central dimensions.
Methods
We used a mixed-methods design that included questionnaire data obtained from a medication-free unit and two comparison units (n 59 + 124), as well as interviews with patients (n 5) and staff (n 8) in the medication-free unit. Participants compared their experiences with the unit to other relevant experiences with mental health care.
Results
Medication-free treatment involved less reliance on medications to become well and more extensive psychosocial treatment that involved a culture of openness, expression of feelings, and focus on individual responsibility and intensive work. The extent of formal examination and overall ratings of help with medications was similar to that in standard treatment. Medication-free treatment was experienced as more demanding. For patients, this could be connected to a stronger sense of purpose and was experienced as helpful but could also be experienced as a type of pressure and lack of understanding. The extent of patient influence for medication-free treatment compared with standard treatment varied on different themes, but the overall measures related to patient influence were similar between medication-free and standard treatment. Patients in medication-free treatment had more freedom to reduce or not use medication. Other changes went in different directions. Patients in medication-free treatment reported greater satisfaction with the treatment, which may be linked to a richer psychosocial treatment package that focuses on patient participation and freedom from pressure to use medication.
Conclusion
The findings provide insights into how a medication-free treatment service might work and show that it can be a viable alternative for people who are not comfortable with the current medication focus of mental health care. Patients react differently to increased demands and clinicians should be reflexive of the dimensions of individualism–relationalism in medication-free treatment services.
Trial registration:
This study was registered with ClinicalTrials.gov (Identifier NCT03499080) on 17 April 2018.
Voxel Image of Crystals for High-Throughput Materials Screening: Formation Energy Prediction by a Deep Convolutional Network
Authors: Davariashtiyani Ali , Kadkhodaei Sara 
Published: June 2023

Abstract
Emerging machine-learned models have enabled efficient and accurate prediction of compound formation energy. While the prevalent models rely on graph structures for representing crystalline materials, we introduce an alternative approach using voxel images of crystals. By designing a deep and complex convolutional network, we demonstrate the capability to learn the underlying features of structural and chemical arrangements in inorganic compounds from this visual image representation and map them to the compounds’ formation energy. Our model achieves accurate formation energy prediction by utilizing skip connections in a deep convolutional network and incorporating augmentation of rotated crystal samples during training, performing on par with state-of-the-art methods. By adopting visual images as an alternative representation for crystal compounds and harnessing the capabilities of deep convolutional networks, this study extends the frontier of machine learning for accelerated materials discovery and optimization. In a comprehensive evaluation, we analyze the predicted convex hulls for 3,115 binary systems and introduce error metrics beyond formation energy error. This evaluation offers valuable insights into the impact of formation energy error on the performance of the predicted convex hulls.
Genome-wide identification of the basic leucine zipper transcription factor genes related to starch synthesis in wheat (Triticum aestivum L.)
Authors: Ding Jinjin , Chen Xiaolei , Karim Hassan , Carlos Guzmán , Harwood Wendy , Tang Huaping , Dong Huixue , Xu Qiang , Zhang Yazhou , Jiang Yunfeng , Qi Pengfei , Deng Mei , Ma Jian , Pu Zhien , Li Wei , Wang Jirui , Chen Guoyue , Wei Yuming , Zheng Youliang , jiang Qiantao 
Published: June 2023

Abstract
The growth and development of plants are dependent upon the transcription factors. In plants, the basic leucine zipper (bZIP) family of transcription factor is known for its largest size and diversity. Using newly available wheat genome data, we compared our identification of 181 Triticum aestivum bZIP (TabZIP) genes to those reported in earlier studies. One gene was characterized, and some duplicate genes and incorrect annotations in previous studies are supplemented and corrected. The 181 bZIP genes identified were divided into 13 known groups and 5 unknown groups by phylogenetic analysis. All of the bZIP genes exhibit a minimum of one bZIP motif in their motif distribution and gene structure. Spatial and temporal expression patterns of bZIP family members during various stages of plant growth vary, as suggested by transcriptome data.
As per the expression data obtained via quantitative reverse transcription PCR (qRT-PCR), over 10 TabZIP genes showed similarity with starch synthesis in wheat. In vitro binding activity of TabZIP68 to the promoter of TaWaxy was demonstrated by a dual-luciferase reporter (LUC) assay. Given its potential involvement in starch synthesis, the TabZIP68gene presents itself as a strong candidate for further investigation.
DNA damage repair and ROS manipulation in response to 60Co γ-ray radiation and FcMYB5-mediated flavonoid response mechanisms in axillary buds of Ficus carica L
Authors: Wang Ziran , Chen Ziyu , Li Jinping , Zheng Chuanlin , Bahayiding Wupur , Ma Huiqin 
Published: June 2023

Abstract
Background The irradiation of plant species has been used to induce inheritable genetic variations in cropgermplasms. However, the underlying mechanisms involved remain unclear. In the present study, young shoot cuttings of Ficus carica L. were treated with 100 grays (Gy) of 60Co γ-rays and axillary buds were collected at 3, 6, 12, 24, 48 h post-irradiation.
Results RNA-seq analysis revealed 5337, 7135, 4289, 1595 and 2356 differentially expressed genes (DEGs) at five time points, respectively. KEGG enrichment revealed the homologous recombination pathway displayed significant differential regulation at 3 and 6 h after irradiation, while pathways for DNA replication, base excision repair and mismatch repair were only significantly enriched at 3 h. taking together the number of 16 retrotransposons found upregulation at 6 h. The results indicated the major routes of early DNA damage repair and the window time of mutation initiation. DEGs of MAPK signaling pathway were significantly enriched at 6, 12, 24 and 48 h after irradiation demonstrated the mobilization of kinase signaling cascades in response to cellular stress. The SOD, POD and CAT enzyme activities of fig axillary buds after radiation treatment showed a decreasing and then increasing trend with increasing time, while the MDA and H2O2 contents basically maintained an increasing trend. Enriched DEGs in reactive oxygen species (ROS) scavenging, glutathione-S-transferase and of biosynthetic pathways for phenylpropanoids and flavonoids were detected at all time points, indicating a comprehensive mechanism for eliminating the radiation-induced cellular ROS burst. Among them, a large number of changes in MYB, WARKY and bHLH transcription factor family genes were found within 6 h. of radiation. Luciferase assay and yeast one-hybrid screen revealed that FcMYB5 binds the promoter region of FcCHS in the flavonoid biosynthesis pathway, suggesting that radiation may promote the functional activation of some transcription factors leading to the accumulation of antioxidant-like secondary metabolites.
Conclusions Our results could help to improve the efficiency of radiation induced mutagenesis, support new traits creation and enable a better understanding of the mechanisms underlying radiation tolerance in different plant materials.
Sildenafil Improves Hemodynamic Changes Caused by Acute Pulmonary Embolism by Inhibiting Rho-kinase Activity
Authors: Wang Hui , Li Wei , Yan Yan , Shi Meng-Jie , Hou Feng , Zhang Rui-Peng 
Published: June 2023

Abstract

Acute right heart failure and/or circulatory shock caused by a dramatic increase in pulmonary vascular resistance are the main causes of death from acute pulmonary embolism (APE), and drug intervention of neurohumoral factor-mediated pulmonary vasoconstriction may reduce APE-induced hemodynamic disturbances and improve prognosis. Sildenafil is a cGMP specific highly selective inhibitor of phosphodiesterase type 5 (PDE5) and its main mechanism of action is vasodilator effect via cGMP. In our study, the results showed that Rho kinase signaling pathway was activated during APE in rats, and sildenafil intervention inhibited the activation of Rho kinase signaling pathway in APE rats, elucidating the mechanism of sildenafil protection against APE and providing new ideas for the clinical treatment of acute pulmonary thromboembolism.
Genome-based analysis for the biosynthetic potential of Streptomyces sp. FIM 95-F1 producing antifungal antibiotic Scopafungin
Authors: Fei Peng , Wenzhou Zhang , Yangjun Lin , Yuee Zhuang , Ping Lin , Yiwen Zhou , Chengzhi Liu , Zihan Zhuang , Jingyan Xu , Shiqian Wu , Xinxin Huang , Hong Jiang , Yunyang Lian , Youxia Huang , Linlin Chen 
Published: June 2023

Abstract
Background: Marine microbial members of the genus Streptomyces are an excellent source for novel secondary metabolites. However, publicly available complete genome sequences of marine streptomycetes are still limited. Here, 16S rRNA phylogeny analysis and morphological characterization of a marine Streptomyces sp. FIM95-F1 was demonstrated. Meanwhile, the complete genome sequence of this strain was also presented and employed to examine the biosynthetic potential by informatic analysis.
Results: The 16S rRNA phylogeny analysis and morphological characterization revealed that isolated strain FIM95-F1 belonged to the genus of Streptomyces and had the closest genetic relative with S. antimycoticus. To investigate the biosynthesis potential of this strain, a high quality complete genome (9.7 Mb) of Streptomyces sp. FIM95-F1 was obtained with a G + C content of 71.04% and 8236 protein coding genes. The in silico analysis revealed presence of 42 biosynthetic gene clusters (BGCs), the most of which showed similarity with the known and novel BGCs that are responsible for the biosynthesis of previously known and novel bioactive agents of microbial origin. Specifically, the BGC of the antifungal antibiotic scopafungin produced by strain FIM95-F1, named as spf BGC, was characterized. Detailed comparison of the scopafungin BGC with niphimycin BGC has suggested the proposed common pathway for scopafungin biosynthesis and determined the absolute configuration of the stereocenters of scopafungin. One of the interesting outcomes of this study was to discover at least two novel BGCs (Cluster 26 and Cluster 32) present in biosynthetic gene clusters, suggesting that Streptomycessp. FIM95-F1 has the potential to be developed as a producer for novel secondary metabolites production.
Conclusions: This study highlights the biosynthesis potential of strain FIM95-F1 related to the secondary metabolite production using genomic based approach. Our results indicate that Streptomycessp. FIM95-F1 has great potential to produce a variety of potentially valuable known and novel bioactive compounds for drug discovery.