bluuebunny/crossref_metadata_2025_split huggingface dataset:
Dynamics of LacMeta’s role in the complete degradation and detoxification of malachite green
Authors: Lima Natalia Sarmanho Monteiro , Gomes-Pepe Elisângela Soares , Kock Flavio Vinicius Crizostomo , Colnago Luiz Alberto , Lemos Eliana Gertrudes de Macedo 
Published: January 2023

Abstract
LacMeta is suitable for the complete degradation and detoxification of malachite green (MG) dye and did not form leucomalachite (LCM, analogous compound). The optimal pH and temperature parameters of LacMeta were 5.0 and 50 °C, respectively (MG as substrate). LacMeta was tolerant of up to 10 mmol L-1 EDTA (82%ds) and up to 5% (V/V) acetone (91%ds) and methanol (71%ds), while SDS promoted severe inhibition. For ions, a high tolerance to cobalt, zinc, manganese, and calcium (10 mmol L-1) was also observed (> 90%ds). Even under high-salinity conditions (1 mol L-1 NaCl), the residual bleaching activity of the dye remained at 61%ds. Furthermore, the bleaching product of MG did not inhibit the germination of sorghum and tomato seeds and was inert to the vegetative structures of the germinated seedlings. Additionally, this treatment effectively reduced the cytotoxic effect of the dye on microorganisms (Escherichia coli and Azospirillum brasilense), which can be explained by H-NMR spectral analysis results since LacMeta completely degraded the peak signals corresponding to the aromatic rings in the dye, demonstrating extreme efficiency in the bioremediation of the xenobiotic at high concentrations (50 mg L-1).
Data-dependent and -independent acquisition lipidomics analysis reveals the tissue-dependent effect of metformin on lipid metabolism
Authors: Scheidemantle Grace , Duan Likun , Lodge Mareca , Cummings Magdalina J , Hilovsky Dalton , Pham Eva , Wang Xiaoqiu , Kennedy Arion , Liu Xiaojing 
Published: January 2023

Abstract

Introduction
Despite the well-recognized health benefits, the mechanisms and site of action of metformin remains elusive. Metformin-induced global lipidomic changes in plasma of animal models and human subjects have been reported. However, there is a lack of systemic evaluation of metformin-induced lipidomic changes in different tissues. Metformin uptake requires active transporters such as organic cation transporters (OCTs), and hence, it is anticipated that metformin actions are tissue-dependent. In this study, we aim to characterize metformin effects in non-diabetic male mice with a special focus on lipidomics analysis. The findings from this study will help us to better understand the cell-autonomous (direct actions in target cells) or non-cell-autonomous (indirect actions in target cells) mechanisms of metformin and provide insights into the development of more potent yet safe drugs targeting a particular organ instead of systemic metabolism for metabolic regulations without major side effects.
Objectives
To characterize metformin-induced lipidomic alterations in different tissues of non-diabetic male mice and further identify lipids affected by metformin through cell-autonomous or systemic mechanisms based on the correlation between lipid alterations in tissues and the corresponding in-tissue metformin concentrations.
Methods
Lipids were extracted from tissues and plasma of male mice treated with or without metformin in drinking water for 12 days and analyzed using MS/MS scan workflow (hybrid mode) on LC-Orbitrap Exploris 480 mass spectrometer using biologically relevant lipids-containing inclusion list for data-independent acquisition (DIA), named as BRI-DIA workflow followed by data-dependent acquisition (DDA), to maximum the coverage of lipids and minimize the negative effect of stochasticity of precursor selection on experimental consistency and reproducibility.
Results
Lipidomics analysis of 6 mouse tissues and plasma using MS/MS combining BRI-DIA and DDA allowed a systemic evaluation of lipidomic changes induced by metformin in different tissues. We observed that 1) the degrees of lipidomic changes induced by metformin treatment overly correlated with tissue concentrations of metformin; 2) the impact on lysophosphorylcholine and cardiolipins was positively correlated with tissue concentrations of metformin, while neutral lipids such as triglycerides did not correlate with the corresponding tissue metformin concentrations.
Conclusion
The data collected in this study from non-diabetic mice with 12-day metformin treatment suggest that the overall metabolic effect of metformin is positively correlated with tissue concentrations and the effect on individual lipid subclass is via both cell-autonomous mechanisms (cardiolipins and lysoPC) and non-cell-autonomous mechanisms (triglycerides).
Therapeutic outcomes and analysis of Doppler findings
in 25 patients with Non-ischemic Priapism
Authors: von Stempel Conrad , Shahzad Rohaan , Walkden Miles , Castiglione Fabio , Muneer Asif , Ralph David , Kirkham Alex 
Published: January 2023

Abstract
Non-ischemic priapism (NiP) is painless partial tumescence caused by genital trauma and the formation of intracorporal arterio-venous fistula (AVF). This retrospective study aims to determine the long-term erectile function (EF) after NiP and to correlate this with colour doppler ultrasound (CDUS) parameters in 25 patients. EF was assessed by IIEF domain A questionnaire and CDUS parameters (mean velocity (MV), peak systolic velocity (PSV), end diastolic velocity (EDV) and Resistive Index (RI)) at diagnosis and follow up. At a median follow-up of 24 months: 16 men had normal EF (64%) with median IIEF score 29; nine had erectile dysfunction (ED) (36%) with a median IIEF-EF score 17. Raised MV and EDV on late follow-up CDUS traces demonstrated a statistically significant correlation with developing ED: median MV 5.3cm/sec vs 2.95cm/sec and median EDV 4.0cm/sec vs 0cm/sec in patients with ED compared to those with normal EF p < 0.002 and p < 0.004. The abnormal low resistance blood flow suggests ED may be attributed to persistent arterio-venous shunting.
Asset mapping score analysis: A novel public health research methodology applied to maternal and child health resources in New Orleans
Authors: Healy Jack , Ramirez Shokufeh , Knapp Megan , Johnson Carolyn 
Published: January 2023

Abstract
Background
Asset mapping is a commonly used method in public health to identify and describe the resources within a community. However, there is currently a lack of standardization in the methods used for asset mapping, which can make it difficult for users to apply the method and compare results between different studies. In this article, we present a new approach called Asset Mapping Score Analysis (AMSA), which is a framework for collecting and organizing data on community assets. We provide an example of the AMSA method through its application in the evaluation of maternal and child health resources in New Orleans, Louisiana.
Results
The AMSA approach consists of five steps and results in a data collection tool that uses a scoring system to quantify the functional and content areas defined by the users. This method is flexible, reproducible, quantitative, inexpensive, and can be adapted to fit the needs of different geographic areas and fields of study. It can also be repeated over time to monitor changes in systems. We conducted a pilot study to examine the participation of local maternal and child health organizations in four functional areas (education, direct services, policy/advocacy, and research) and 22 content areas.
Conclusions
In addition to describing the AMSA method and providing an example of its application, we also discuss the methodological issues involved in using the AMSA approach. These include considerations related to study design, data analysis, and interpreting results. We assess the strengths, limitations, and potential future directions of the AMSA method. Finally, we present the results of our AMSA study on maternal and child health organizations in New Orleans to illustrate the utility of this approach. Our findings suggest that the AMSA method is a valuable tool for understanding and characterizing the assets and resources within a community.
Polyphyllin D induces necroptosis in neuroblastoma cells (IMR-32 and LA-N-2) in mice
Authors: Watanabe Shunsuke , Inoue Mikihiro , Suzuki Tatsuya , Kondo Yasuhiro , Murayama Mika 
Published: January 2023

Abstract
Background
We previously reported that polyphyllin D, the main component of the traditional herbal medicinal Paris polyphylla, exhibited anticancer effects in vitro against human neuroblastoma cells. The aim of this investigation was to examine in vivo antitumor effects of polyphyllin D.
Methods
Subcutaneous tumors were established in immune-deficient BALB/c nude mice using human neuroblastoma cell lines IMR-32 and LA-N-2. To evaluate the polyphyllin D activity, we used a mouse model of IMR-32 or LA-N-2 cell lines and analyzed subcutaneous tumors.
Results
Subcutaneous tumor models were successfully established in mice using two human neuroblastoma cell lines. In the subcutaneous tumor model, we found that polyphyllin D suppressed both the tumor volume and number of foci. We found that polyphyllin D induces the RIPK3 expression, while IMR-32 phosphorylates Ser358, a kinase domain that induces necroptosis, and LA-N-2 phosphorylates Ser358 and Tyr376, which promote necroptosis.
Conclusion
We developed a mouse model of subcutaneous tumors ofneuroblastoma and demonstrated for the first time that polyphyllin D has an antitumor effect on neuroblastoma. Polyphyllin D can cause necroptosis depending on the cell type. The new drug can be expected by investigating a method to selectively suppress cell death through the analysis of necroptosis.
WITHDRAWN: Effect of water absorption on graphene nanoplatelet and multiwalled carbon nanotubes- impregnated glass-reinforced epoxy composites
Authors: Ahmad M. A.A. , Ridzuan M.J.M. , Majid M. S. Abdul , Sapuan S. M. , Shahriman A. B , Mat Fauziah 
Published: January 2023

Abstract
In this study, the effect of water uptake on graphene nanoplatelets (GNP) and multiwalled carbon nanotube (MWCNT)-impregnated glass-reinforced epoxy composites was examined. The composite was manufactured using a hand lay-up and vacuum bagging technique. The nanofiller was mixed with epoxy using a mechanical stirrer, high-shear mixer, and ultrasonic probe machine. In situ electromechanical testing was performed on the specimens. The study found that the weight content and type of nanofiller impact the composites' water uptake and mechanical properties. The water uptake of GNP–glass, MWCNT–glass, and GNP–MWCNT–glass hybrid composites decrease with the addition of different nanofiller contents. Adding a 1.5 GNP–MWCNT hybrid mixture increased the composite's tensile and flexural strengths to 269.3 and 294.4 MPa, respectively. The GNP–MWCNT–glass hybrid composite shows a positive synergy effect on the enhancement of water-ageing with self-sensing ability, while the GNP–glass, MWCNT–glass composites show a less positive effect on water ageing sensing behaviour. The nanofillers dispersion and fracture surface morphological observations were disclosed using a field emission scanning electron microscope. The results established that the GNP–MWCNT–glass hybrid exhibits good potential for in situ damage monitoring of composites and can support their development and application as a smart material.
Application of the data envelope analysis technique (DEA) to measure the environmental efficiency of the 27 countries of the European Union during the period 2012-2020
Authors: Aceituno Juan Cámara , Hermoso-Orzaez Manuel Jesus , Nieto Angel Mena , Ramos Jose Enrique Garcia , Cepeda Julio Terrados 
Published: January 2023

Abstract
In the last decade we have experienced a changing geopolitical context that has caused changes in the energy context. In addition, human activity continues to contribute to global warming of the planet or the rise in sea level, that is, to climate change. Currently, some series of action policies have been launched to continue fighting against this environmental situation (such as the COP26 summit or the PNIEC of the European Union for 2030) so it is necessary to obtain conclusions to determine if we are going to good way. This creates the need to develop predictive models that allow us to analyze the current situation and the path taken with certainty, which is why this article proceeds to analyze the environmental efficiency of the 27 countries of the European Union (the United Kingdom is not included due to the Brexit in 2020) and for this, the data envelope analysis (DEA) will be used. For the calculation of environmental efficiency, economic data (GDP and per capita income), environmental data (CO2 and CH4 emissions) were collected... Once these data were collected, the subsequent calculation of said environmental efficiency was carried out using two methods based on in the DEA and another improved method in order to draw conclusions about the data obtained. The results show that of the 27 countries, only 12 have a high relative environmental efficiency to which, if it is not excellent, a series of corrections that may be necessary will be proposed. However, there are other countries that have low eco-efficiency and will have to improve in the coming years. We can highlight that rich countries are closer to achieving high environmental efficiency than those that are at the bottom in terms of economic indicators.
Soliton Solutions of the Nonlinear Time Fractional Harry Dym Equation in the Caputo Sense and the Symmetric Regularized Long Wave Equation in the Conformable Sense
Authors: ADERYANI SAFOURA REZAEI , SAADATI REZA , O’REGAN DONAL , INC MUSTAFA 
Published: January 2023

Abstract
In this paper, we apply two different methods, namely, the G G-expansion method and G G 2-expansion method to investigate the nonlinear time fractional Harry Dym equation in the Caputo sense and the symmetric regularized long wave equation in the conformable sense. The mentioned NPDES arise in diverse physical applications like ion sound waves in plasma and waves on shallow water surfaces. There exist multiple wave solutions to many NPDEs and one is interested in analytical approaches for obtaining multiple wave solutions to NPDEs. The multi-exp-function method formulates a solution algorithm for calculating multiple wave solutions to NPDEs and at the end of paper, we apply the MEFM for calculating multiple wave solutions to the (2+1)-dimensional equation.
Nitrogen Mustard Induced Protein Influx in Nucleus and Metabolism Change and p97 Mediated the Repair
Authors: Cheng Jin , Yu Wenpei , Liu Haoyin , Dong Xunhu , Sai Yan , Ye Feng , Dan Guorong , Chen Mingliang , Zhao Yuanpeng , Zhang Xi , Zou Zhongmin 
Published: January 2023

Abstract
Nitrogen mustard (NM) can alkylate nucleophilic proteins and DNA, causing severe cell damage. However, there are no reports on NM-induced proteomics dynamic changes. In this study, nuclear and cytoplasmic proteins of 16HBE cell were separated and the components and amounts were detected and analyzed. The amount of DNA protein cross-linking (DPC) and the function of p97 were also explored. One-hour-NM-exposure caused a tremendous number of proteins entered into the nucleus and DPC formation. As repair progressed, proteins exited. Although the protein influx at 1 h was delayed by si-p97 intervention, it continued to 24 h after NM withdrawal. In the early damage, the affected pathways mainly included spliceosome, ribosome biogenesis in eukaryotes, and mRNA surveillance, which switched to protein processing in endoplasmic reticulum and energy production in presumed repair stage. Si-p97 aggravated ferroptosis, cysteine and methionine metabolism at beginning of the damage, followed by downward ranking the transcription related pathways at 24 h. NM caused DPC and H2AX increases at 1 h. Si-p97 suppressed them at 1 h and extended the increase time to 24 h. MG132 effected similar to si-p97. Si-p97 and si-DVC1 increased the cytoplasmic level of proteasome (PSMD2). Si-DVC1 also increased the DPC content. These results suggest that NM caused a severe and rapid protein influx and crosslink in the nucleus in the early stage of injury, followed by the formation of secondary double-strand breaks. P97 was involved in the clearance of proteins in nucleus and DPC for repair, which required the participation of DVC1 and proteasome.
Characterization of Pancreatic Cancer with Ultra-low Tumor Mutational Burden
Authors: Imamura Taisuke , Ashida Ryo , Ohshima Keiichi , Uesaka Katsuhiko , Sugiura Teiichi , Ohgi Katsuhisa , Yamada Mihoko , Otsuka Shimpei , Hatakeyama Keiichi , Nagashima Takeshi , Sugino Takashi , Urakami Kenichi , Akiyama Yasuto , Yamaguchi Ken 
Published: January 2023

Abstract
In pancreatic cancer (PC), Tumor mutation burden (TMB) has been reported to be lower than in other cancers, with its clinical significance remaining unclear. We analyzed the dataset of whole-exome sequencing and gene expression profiling of 93 resected PC cases. The median TMB was 0.24. The TMB was classified as High (≥ 5.0), Low (< 5.0, ≥ 1.0), or Ultra-low (< 1.0). Nineteen samples (20%) were classified as TMB-low, and 74 (80%) were classified as TMB-ultra-low; no samples were TMB-high. TMB-ultra-low PC had significantly fewer borderline resectable lesions (P = 0.028) and fewer adenosquamous carcinomas (P = 0.003) than TBM-low PC. Furthermore, the TMB-ultra-low PC showed significantly lower detection rates of driver mutations and copy number variations. Microsatellite instability was not significantly correlated with the TMB status. The TMB-ultra-low PC had a significantly better prognosis than TBM-low PC (P = 0.023). A multivariate analysis identified TMB-ultra-low PC as an independent favorable prognostic factor (hazard ratio, 2.11; P = 0.019). A gene expression analysis showed that TMB-ultra-low PC was associated with reduced TP53 inactivation (P = 0.003) and reduced chromosomal instability (P = 0.001) compared to TBM-low PC. TMB-ultra-low PC had specific gene expression signatures and a better prognosis than TMB-low PC.
An investigation of neuromelanin distribution in substantia nigra and locus coeruleus in patients with Parkinson’s disease using neuromelanin-sensitive MRI
Authors: Liu Qiang , Wang Pan , Liu Chenghe , Xue Feng , Wang Qian , Chen Yuqing , Hou Ruihua , Chen Teng 
Published: January 2023

Abstract
Loss of neuromelanin in the midbrain is known in Parkinson’s disease(PD), which can now be directly detected by neuromelanin-sensitive MRI(NM-MRI). This case-control study was to investigate the distribution of neuromelanin in the substantia nigra(SN) and the locus coeruleus(LC) using NM-MRI technique and evaluate its potential as a diagnostic marker for PD. 10 early PD patients(H&Y stage Ⅰ, Ⅱ), 11 progressive PD patients(H&Y stage Ⅲ-Ⅴ), and 10 healthy controls matched in age and gender were recruited. All participants completed clinical and psychometric assessments as well as NM-MRI scans. Neuromelanin signal intensities in SN and LC were measured by contrast-to-noise ratios(CNRs) derived from NM-MRI scans. There were significant decreases of CNRs in SNpc(including anterior, central, and posterior) and LC in PD patients compared to controls. There were also significant differences of CNR between the left and right sides. CNR in LC had a negative correlation with the Non-Motor Symptoms Scale(NMSS) score in PD patients(|R|=0.49), whereas CNR in SNpc did not correlate with Unified Parkinson Disease Rating Scale(UPDRS) score(|R|<0.3). The receiver operating characteristic(ROC) curves revealed that the CNR in LC had a high diagnostic specificity of 90.1% in progressive patients. This study provides new evidence for the asymmetric distribution of neuromelanin in SN and the LC of patients with PD. The neuromelanin loss is bilateral and it occurred earlier in LC than that in SN. This distinct neuromelanin distribution pattern may offer an early diagnostic marker and a potential neuropharmacological intervention target for PD patients.
A Practical Utility-Based but Objective Approach to Model Selection for Scientific Applications in the Age of Big Data
Authors: Murari Andrea , Rossi Riccardo , Spolladore Luca , Lungaroni Michele , Gaudio Pasquale , Gelfusa Michela 
Published: January 2023

AbstractIn many fields of science, various types of models are available to describe phenomena, observations and the results of experiments. In the last decades, given the enormous advances of information gathering technologies, also machine learning techniques have been systematically deployed to extract models from the large available databases. However, regardless of their origins, no universal criterion has been found so far to select the most appropriate model given the data. A unique solution is probably a chimera, particularly in applications involving complex systems. Consequently, in this work a utility-based approach is advocated. However, the solutions proposed are not purely subjective but all based on “objective” criteria, rooted in the properties of the data, to preserve generality and to allow comparative assessments of the results. Several methods have been developed and tested, to improve the discrimination capability of basic Bayesian and information theoretic criteria. Both the quality of the fits and the evaluation of model complexity are aspects addressed by the advances proposed. The competitive advantages of the individual alternatives, for both cross sectional data and time series, are clearly identified, together with their most appropriate fields of application. Particular attention has been paid to ensure that the proposed improvements of the criteria are easy to implement in practice, in both confirmatory and exploratory settings. Extensive numerical tests have been performed to support the conceptual and theoretical considerations.
Effect of growth stage on Italian ryegrass silage fermentation from microbiological perspective
Authors: Yin Xuejing , Long Jiangyu , Zhao Jie , Wang Siran , Dong Zhihao , Li Junfeng , Shao Tao 
Published: January 2023

Abstract
Background
Italian ryegrass is a temperate crop, which is widely cultivated in the winter fallow paddy fields of subtropical China. The utilization efficiency of Italian ryegrass depends greatly on its growth stage at harvest. Previous studies have reported the optimum stage for harvesting various forage to balance their quality and quantity. However, considering the practice condition, such as rainy or unavailability of harvest equipment, the harvest stage of forage cannot always be implemented according to the production schedules. Thus, to characterize the effect of growth stage on the silage fermentation profile, bacterial community and metabolism, Italian ryegrass harvested at the filling stage and the milk stage were naturally ensiled (FSN and DSN), respectively.
Results
After ensiling for 1, 3, 7, 15, 30 and 60 days, triplicate silos were opened for sampling. The growth of Italian ryegrass increased the pH, dry matter, neutral and acid detergent fiber contents, but decreased buffering capacity, crude protein and water-soluble carbohydrates contents, and the epiphytic microbiota of Italian ryegrass harvested at the filling stage was simpler than that harvested at the dough stage. During ensiling, FSN had lower pH and higher organic acid content than DSN. The bacterial succession rate in FSN was also faster than DSN, which showed that Lactobacillus becomes the dominant genus in the early stage of ensiling. The predicted metabolisms revealed that carbohydrate and amino acid metabolisms were the two main metabolisms in silage fermentation. Compared to epiphytic microbiota, ensiling enhanced carbohydrate metabolism and diminished amino acid metabolism. The difference of these two metabolisms between FSN and DSN was obvious at the early stage of ensiling.
Conclusions
Growth stage affected the chemical and microbial composition of Italian ryegrass, so as to the fermentation profile, bacterial community and its metabolisms. Italian ryegrass harvested at the filling stage was prone to fermentation. The complexity of epiphytic microbiota made DSN more difficult to ferment.