bluuebunny/crossref_metadata_2025_split huggingface dataset:
Effect of plantain barrier plants on potyvirus-associated diseases in yam cultivation
Authors: Ramírez José Efraín González , Chávez Vaniert Ventura , Fereres Alberto , Portal Orelvis 
Published: January 2024

Abstract

Yam belongs to a very diverse plant genus (Dioscorea L.), comprising more than 600 species, both wild and cultivated. In Cuba, different species are distributed in the central and eastern regions, where the most widespread cultivars belong to the species water yam (Dioscorea alata L.) and white yam (Dioscorea cayenensis subsp. rotundata (Poir.) J. Miège). Among global major constraints facing the yam production areas are those caused by viral diseases. In this sense, potyviruses have the greatest economic impact, since they can cause losses of more than 50% in agricultural yields. In Cuba, the presence of yam mosaic virus and yam mild mosaic virus has been detected in commercial plantations by Enzyme-Linked ImmunoSorbent Assay (ELISA) tests. The movement of propagules between plantations without phytosanitary certification has facilitated the distribution of the viruses throughout the producing areas. Disease management involves a continuous process of events consisting of the selection and use of techniques aimed at reducing plant diseases to a tolerable level. Knowledge about the existing relationships between the host, virus, vector, and ecosystem is fundamental to the implementation of successful management. In the present work, by using potyvirus-free propagation material of two commercial yam cultivars and the perimeter protection with a live barrier based on plantain ‘Burro CEMSA’, it was possible to reduce the field incidence of viral diseases (average infection decreased from 60 to 15%). Likewise, the barrier avoided losses in agricultural yields ranging between 50–57% for both cultivars, compared to the farmer’s usual practices.
Real world clinical experience using daily artificial intelligence-assisted online adaptive radiotherapy for head and neck cancer
Authors: Blumenfeld Philip , Arbit Eduard , Den Robert , Salhab Ayman , Michaeli Tal Falick , Wygoda Marc , Hillman Yair , Pfeffer Raphael , Fang Marcel , Misrati Yael , Weizman Noam , Feldman Jon , Popovtzer Aron 
Published: January 2024

Abstract
Background: Adaptive radiation therapy (ART) offers a dynamic approach to address structural and spatial changes that occur during radiotherapy (RT) for locally advanced head and neck cancers. The integration of daily ART with Cone-Beam CT (CBCT) imaging presents a solution to enhance the therapeutic ratio by addressing inter-fractional changes.
Methods: We evaluated the initial clinical experience of daily ART for patients with head and neck cancer using an online adaptive platform with AI-assisted workflows on daily CBCT. Treatment included AI-based auto-contour and structure deformation of Organs at Risk (OARs) and target structures, with adjustments by the treating physician. Two plans were generated: one based on the initial CT simulation with the edited structures (scheduled) and a re-optimized plan (adaptive). Both plans were evaluated and the superior one approved and delivered. Clinical and dosimetric outcomes were reviewed.
Results: Twenty two patients with head and neck cancers (7 Nasopharynx, 6 Oropharynx, 1 oral cavity, 8 larynx) stages I-IVA were treated with daily ART. 770 adaptive and scheduled radiotherapy plans were generated. 703 ( 91.3%) adaptive plans were chosen. Median time to deliver ART was 20 minutes (range: 18-23). Adaptive compared to scheduled plans demonstrated improved mean V95 values for the PTV70, PTV59.5, and PTV56 by 1.2%, 7.2%, and 6.0% respectively and a mean 1.4% lower maximum dose in PTV70. Fourteen of 17 OARs demonstrated improved dosimetry with adaptation, with select OARs reaching statistical significance. At a median follow up of 14.1 months, local control was 95.5%, two patients developed metastatic disease and four patients died. 9.1% of patients had acute grade 3 dysphagia and 13.6% had grade 2 chronic xerostomia.
Discussion: These findings provide real world evidence of the feasibility and dosimetric benefit of incorporating daily adaptive AI radiotherapy on CBCT in the treatment of head and neck cancer. Prospective study is needed to determine if these dosimetric improvements translate into improved outcomes.
What fire didn’t take away: plant growth-promoting microorganisms await for plant species' arrival in burned old-growth forests of Los Andes Cordillera.
Authors: Almonacid Leonardo , HERRERA HECTOR , FUENTES ANDRES , VARGAS RODRIGO , TOY OCTAVIO , VALADARES RAFAEL , DE OLIVEIRA PAULO 
Published: January 2024

Abstract
Background and Aims: Wildfires can dramatically alter forests, their biodiversity and goods they provide to society. In the Andes Cordillera, Nothofagus pumilio is a native, fire-sensitive tree that is completely excluded from severely burned areas. Therefore, it is of interest to evaluate whether there are differences in the microbial soil communities that could contribute to an improvement in the recruitment of N. pumilio after a fire. We aimed at determining the diversity of soil bacteria and fungi associated with the native tree Nothofagus pumilioin old-growth forests affected by a severe fire in the Andes Cordillera of south-central Chile in 2015.
Methods: Rhizosphere soil samples were collected from selected N. pumiliotrees and bulk soil in fire-affected areas and compared with those from unburned areas using a metabarcoding approach.
Results: We found that beneficial microorganisms such as saprophytic, ectomycorrhizal fungi, ericoid mycorrhizal taxa and N-fixing bacteria were present in the burned area. The most abundant bacterial genera were Mycobacterium, Rhodoplanes and Bryobacter. While Cortinarius and Penicillium were the most common fungal genera identified in burned and unburned sites.
Conclusions: In the burned forest, eight years after the fire, there is little disparity observed in the bacterial and fungal species associated with N. pumilio, when compared to the unburned forest, which could be determinant to N. pumilio establishment and survival after fire. Identifying the microbial diversity associated with native trees is essential to know beneficial microorganisms supporting the recovery of plant species and the restoration of forest ecosystems in fire-affected forests.
2-(morpholino)ethylammonium picrate monohydrate: A novel single crystal for third-harmonic generation applications
Authors: Chidambaranathan B. , Sivaraj S. , Vijayamathubalan P. , Gunaseelan R. , Selvakumar S. 
Published: January 2024

Abstract
A novel compound, 2-(morpholino)ethylammonium picrate monohydrate (MEAPM), was synthesized using the equimolar ratio of 4-(2- aminoethyl)morpholine and picric acid. . With the slow evaporation solution growth technique, single crystals of the synthesized compound were grown. A single crystal X-ray diffraction study revealed that MEAPM crystallizes in a triclinic system with space group P. The functional groups of the title compound were confirmed by FTIR analysis. A UV-Vis-NIR optical study indicated a cut-off wavelength of 370 nm. The UV-Vis-NIR spectrum was also used to calculate the optical parameters, such as the linear absorption coefficient, linear refractive index, and extinction coefficient. The two-photon coefficient absorption coefficient and third-order optical nonlinearity of the grown crystal were investigated using the Z-scan technique. The order susceptibility is found to be 2.96x10-11 esu. A dielectric study on MEAPM revealed a dielectric constant and dielectric loss at higher frequencies. The various hardness parameters were calculated via a Vickers hardness study. The work-handing coefficient is found to be 5.2. The thermal stability of the sample was investigated by TG-DTG analysis.
Exchangeable elements forms in river surface sediments and their influence for migration process of typical elements: a case study from the Nalenggele River basin, Qaidam Basin
Authors: Zhao Huibin , Miao Weiliang , Zhang Xiying , Li Wenxia 
Published: January 2024

Abstract
The occurrence of elements in sediments is significant to show the migration process of typical elements and their influence mechanism. The terminal salt lake regions of the Nalenggele River basin in Qaidam Basin is an important salt lake resource area rich in Li, K, B in the Qinghai-Tibet Plateau. But, the occurrence fraction of these important resource elements in the migration process is still poorly understood, which hinders the further understanding of the enrichment rule of resource elements in the salt lake area. In this paper, the occurrence states of typical elements (K Li B Ca Mg) in surface sediments of different hydrological environments in the Nalenggele River basin were studied based on the sequential extraction experiments. The results show that the exchangeable elements forms are different in different hydrological environments, which reflects the control of different geological processes on the distribution of exchangeable species of resource elements, including salt mineral precipitation, clay mineral adsorption and Fe-Mn oxide adsorption. ​In particular, the high content of exchangeable Li in the water-soluble fraction and Fe-Mn oxide fraction in the sediments of runoff plot and salt lake regions in study area indicates that the adsorption of Fe-Mn oxides and the precipitation of salt minerals may play an important role in Li isotope fractionation, besides the adsorption of clay minerals in general. Overall, this study has important implications for understanding the migration process of resource elements in the Nalenggele River basin.
Geospatial analysis of soil erosion and associated geomorphic hazards to avert increasing disaster risk in environmentally stressed eastern Himalaya region
Authors: Rawat Pradeep , Belho Khrieketouno , Rawat M 
Published: January 2024

Abstract
Geo-environmentally, the eastern Himalaya region is highly vulnerable to erosion and soil loss geomorphic hazard due to humid tropical to humid sub-temperate climate (receives 1600-3200mm mean rainfall), young and highly erodible rock formations (mainly comprised of sandstones, siltstones and shales), fragmented reshaping geomorphology, high erodibility of surface and sub-surface soils. Despite that, anthropogenic activities have been enhancing this geo-environmental vulnerability to erosion hazard through rapid unplanned urbanization with associated infrastructural development in urban to suburban areas and shifting cultivation practices in rural areas. Addressing this burning environmental problem, a geospatial technology-based case study of the Kohima district, Nagaland state (India) from eastern Himalaya is presented here. Various experiential models are available for computing soil erosion; however, a Revised Universal Soil Loss Equation (RUSLE) integrated with the GIS framework was applied in the current study due to its robustness and high accuracy level. Five key RUSLE factors such as erosivity of rainfall (RE), erodibility of soil (ES), erodibility of rock (ER), slope length (LS), crop management (CM) and conservation practice (CP) were calculated using required data sets in a GIS environment. RE ranges between 648.12–1294.15 MJ mm/ha/h/year, ES varies minimum of 0.10 to a maximum of 0.41 among the existing 15 classes of soils, ER factor values ranges 0.01–0.04, LS factor values range between 0 and 1.22, CM factor values vary from a minimum of 0.0 for dense forest area to maximum 1.80 for buildup areas whereas the CP value varies 0.1–1.0 across the study region to land use/cover pattern. The accumulated impact of these erosion and soil loss factors resulted in a quite higher average rate (about 16 t/ha/year) than the threshold value of soil erosion (< 10 t/ha/year). This value ranges from 1–92.18 t/ha/year and poses. Thus, it has been essential to minimize the high rate of erosion through intensifying CP factors at the government level, community level and even individual level by adopting scientific crop patterns, agro forestry and reforestation programs. If these necessary actions were not taken timely, it may lead to other erosion-induced geomorphic hazards such as land degradation, mass movement, landslides, slope failure etc.
Production of New Nano-Bacterial Cellulose with Lactobacillus rhamnosus by Using Whey Waste as Substrate with Optimization Taguchi Method, which has the potential to be used in many biomedical products
Authors: Bayraktar Aytül , Gürsoy Cansu 
Published: January 2024

Abstract
Whey waste, which has a negative impact on the environment, is an important component with high organic content. The fact that it contains lactose, a fermentable sugar, is a suitable substrate for the formation of natural nano-cellulose. Bacterial nano-cellulose (BNC), a type of natural cellulose polymer synthesized by some microorganisms, has been reported to be a promising natural biomedical material due to its distinctive feature, including its unique fibril nanostructure, high water holding capacity, crystallinity, high chemical purity, fine wet mechanical property.
In this study, new BNC production was realized for the first time by using Lactobacillus rhamnosus bacteria and whey as organic substrate. Optimum condition was determined by Taguchi method under the following condition; pH (5-6), organic source concentration (25-100 % g/L), active culture (10-30 % g/L), incubation period (8-12 day). Whereas Taguchi method was highest performed at at pH 5.5, organic source concentration 25 % g/L, active culture 30 % g/L, incubation period 8 days with 5.41 g BNC yield. Effects of organic source concentration found as decisive factor on Lactobacillus rhamnosus BNC yield with 95% confidence interval. Field emission scanning electron microscopy (FESEM), fourier transform infrared spectroscopy (FTIR), differential / thermogravimetric thermal analysis (DTG/TG) were utilised to evaluate the structure and characterization of BNC.
BNC production by Lactobacillus rhamnosus, with its biocompatible and biodegradable properties, environmentally friendly and low-cost nanomaterials have been produced with the potential to be used in many biomedical applications such as wound dressing and drug coating material.
Integrative and Comprehensive Pan-cancer Analysis of Ubiquitin Specific Peptidase 11 (USP11) As a Prognostic and Immunological Biomarker
Authors: Cui Lijuan , Yang Ling , Lai Boan , Luo Lingzhi , Deng Haoyue , Chen Zhongyi , Wang Zixing 
Published: January 2024

Abstract

Purpose
The role of USP11 as a crucial regulator in cancer has gained significant attention due to its deubiquitinating enzyme catalytic activity. However, a comprehensive evaluation of USP11 in pan-cancer studies is currently lacking.
Methods
Our analysis incorporates data from multiple sources, including five immunotherapy cohorts, thirty-three cohorts from The Cancer Genome Atlas (TCGA), and sixteen cohorts from the Gene Expression Omnibus (GEO), two of which were transcriptomic at the single-cell level.
Results
Our findings show that the aberrant expression of USP11was found to be predictive of survival outcomes in various cancer types. And the highest frequency of genomic alterations occurred in uterine corpus endometrial carcinoma (UCEC), and single-cell transcriptome analysis of UCEC further revealed a significantly higher expression of USP11 in plasmacytoid dendritic cells and mast cells. Notably, the expression of USP11 was related to the inﬁltration levels of CD8+ T cells and natural killing (NK) activated cells. Furthermore, in the skin cutaneous melanoma (SKCM) phs000452 cohort, patients who had higher levels of USP11 mRNA during immunotherapy experienced a significantly shorter median progression-free survival.
Conclusion
Based on our findings, USP11 emerges as a promising molecular biomarker with potential implications for predicting patient prognosis and immunoreaction in pan-cancer.
Enhancing Embryo Quality through Meiotic Spindle- Aligned Microinjection in POSEIDON Group 4 Patients Undergoing ICSI Cycles: A Retrospective Cohort Study
Authors: Chern Chyi-Uei , Liao Pei-Fen , Li Chia-Jung , Lin Pei-Hsuan , Su Wan-Ping , Chen Yu-Chen , Tsui Kuan-Hao , Lin Li-Te 
Published: January 2024

Abstract
Background
Embryologists have traditionally depended on the polar body (PB) as a reference point for guiding the process of intracytoplasmic sperm injection (ICSI). However, its accuracy in predicting the precise location of the meiotic spindle (MS) is constrained. To overcome this limitation, polarized light microscopy has emerged as a noninvasive technique for visualizing and precisely positioning the MS during ICSI procedures. The primary aim of our study was to assess whether implementing MS alignment in ICSI results in improved embryo quality compared to conventional PB alignment, specifically in the POSEIDON group 4 population.
Methods
This retrospective cohort study included 315 women who met the POSEIDON Group 4 criteria and underwent ICSI cycles. The study group comprised 168 women who underwent MS-aligned microinjection, while 147 women in the control group underwent the PB-aligned method. We conducted a comparative analysis of baseline and cycle characteristics as well as embryo quality between these two groups.
Results
At baseline, the MS-aligned group had older age and more previous IVF attempts than the PB-aligned group. The spindle-aligned group demonstrated a higher fertilization rate, a greater cleavage rate, an increased rate of top-quality day 3 embryos (TQE), and a larger number of TQE when compared to the PB-aligned group. Multivariate analysis revealed that the MS-aligned group had a positive impact on the likelihood of achieving ≥ 1 TQE (odds ratio [OR] 4.22, 95% confidence interval [CI] 2.24–7.96, P < 0.001) and reaching a TQE rate of ≥ 50 (OR 3.63, 95% CI 2.06–6.39, P < 0.001).
Conclusions
Our findings suggest that MS-aligned microinjection may enhance embryo quality in older patients with diminished ovarian reserve undergoing ICSI cycles.
Exosomal miR-378a-3p derived from keratinocytes inhibits transforming growth factor beta-induced fibroblast activation and attenuates bleomycin-induced skin fibrosis
Authors: Yang Lijun , Tian Guiping , Liu Baiting , Li Chenxi , Bo Yunyao , Si Jianjun , Zhang Lin , Yan Yuan 
Published: January 2024

Abstract
The association between microRNAs (miRNAs) and the development of skin fibrosis has been established. Consequently, the investigation of miRNA is crucial for the management of cutaneous fibrotic diseases. Recent investigations have linked miR-378a to several fibrosis diseases. Here, we discovered that miR-378a-3p effectively inhibited the proliferative, migratory, and COL1A1 expression effects induced by TGF-β1 in fibroblasts. Additionally, we found that miR-378a-3p exerts its anti-fibrotic properties by directly binding to FSTL1, a downstream factor involved in TGF-β1 activation. We have also demonstrated that long non-coding RNA (lncRNA) NORAD functions as a competing endogenous RNA (ceRNA) for miR-378a-3p, thereby activating the expression of FTSL1. Additionally, miR-378a-3p can be encapsulated within exosomes derived from keratinocytes and transferred to fibroblasts, resulting in an antagonistic effect against TGF-β1. The subcutaneous injection of miR-378a-3p-overexpressing keratinocytes-derived exosomes significantly attenuated skin fibrosis induced by bleomycin (BLM), as evidenced by reduced dermal thickening and decreased expression of COL1A1. Consequently, exosome-mediated delivery of miR-378a-3p holds promise as a potential therapeutic strategy for the treatment of skin fibrosis.
Adaptive designs in clinical trials: a systematic review-part I
Authors: Ben-Eltriki Mohamed , Rafiq Aisha , Paul Arun , Prabhu Devashree , Afolabi Michael O.S. , Bashaw Robert , Neilson Christine J , Mahmud Salaheddin M , Lacaze-Masmonteil Thierry , Marlin Susan , Offringa Martin , Butcher Nancy , Heath Anna , Driedger Michelle , Kelly Lauren E 
Published: January 2024

Abstract

Background: Adaptive designs (ADs) are intended to make clinical trials more flexible, offering efficient and potentially cost-saving benefits. Despite a large number of methods-based research papers in the literature on different adaptations to trials, the advantages and limitations of such designs remain unfamiliar to large parts of the clinical community including those in pediatric medicine where efficient clinical trials are essential to inform care. This systematic review provides an overview of the use of ADs in published clinical trials (Part I) and compares the application of AD in trials in adult and pediatric studies, providing real-world examples and recommendations for the child health community (Part II).
Methods: Published studies from 2010 to April 2020 were searched in the following databases: MEDLINE (Ovid), Embase (Ovid), and International Pharmaceutical Abstracts (Ovid). Protocols, reports, and a secondary analysis using AD were included. We did not include any trial registrations and interventions other than drugs or vaccines. Data from the published literature on study characteristics, types of adaptations, statistical analysis, stopping boundaries, logistical challenges, operational considerations and ethical considerations were extracted and summarized herein.
Results: Out of 23,886 retrieved studies, 317 publications of adaptive trials, 267 (84.2%) trial reports, and 50 (15.8%) study protocols), were included. Most trials included only adult participants (265, 83.9%), 16 trials (5.4%) were limited to only children and 28 (8.9%) were for both children and adults. Dose finding designs were used in the highest proportion of the included AD (82, 22.4 %), followed by adaptive randomization (56, 14.4%), group sequential design in 47 trials (12.8%), then drop-the-losers (pick-the-winner) design in 28 trials (7.6%) and seamless phase 2-3 design in 27 trials (7.4%). Approximately 203 (64%) studies used frequentist statistical methods and 75 (23.7%) used Bayesian methods.
Conclusion: In Part I of this review, we provide a comprehensive overview of the landscape and methodological features of adaptive clinical trials. We found that adaptive designs were applied mostly in Phase II oncology trials, aimed to establish efficacy and determine the choice of doses for the Phase III of the trials. Phase I trials of new drugs that included adaptations most frequently aimed to identify the maximum tolerable dose. Adaptation details were not uniformly reported across all trials and were hardly reported in the pediatric trials.
Study protocol registration: DOI:10.1186/s13063-018-2934-7