bluuebunny/crossref_metadata_2025_split huggingface dataset:
Experimental and numerical model of anisotropic permeability and CO2 injectivity of coal during CO2 enhanced coalbed methane recovery process
Authors: Niu Qinghe , Hu Mingwei , Leng Bing , He Xiang , Su Wenjie , Wang Wei , Wang Qizhi , Chang Jiangfang , Ji Zhongmin , Qi Xiaofei 
Published: January 2023

Guaranteeing CO2 injectivity has been the precondition for implementing the CO2-enhanced coalbed methane recovery (CO2-ECBM), however, it dramatically decreases during the CO2 injection process because it is influenced by the dynamic change of the anisotropic permeability of coal. To reveal and evaluate the CO2 injectivity of coal, the anisotropic permeability test and the CO2 injectivity simulation test were first conducted, then the corresponding numerical models were established and verified by the experimental data. The results show that the permeability of coal in parallel face cleat direction is the largest, followed by the permeability of coal in parallel butt cleat direction and that in vertical bedding direction is the minimum. The peak value of the instantaneous injectivity rate is enhanced and the injection time is prolonged with the increase of the CO2 injection pressure. The total CO2 injectivity rate is nonlinearly increased from 13.61 to 311.87 cm2/MPa min when the CO2 injection pressure raises from 2 to 10 MPa. The anisotropic permeability model is appropriate to describe the dynamic evolution of permeability under different boundary conditions, the CO2 injectivity prediction model can be used to evaluate the CO2 injectivity during the CO2 injection process. Increasing the CO2 injection pressure may temporarily promote CO2 injectivity, while the CO2 injection increment is limited. The CO2 fracturing by phase transition may be an available reservoir stimulation method for enhancing the CO2 injection and should be focused on in the future.
The triglyceride and glucose index and risk of nonalcoholic fatty liver disease: A dose–response meta-analysis
Authors: Ling Qin , Chen Jiawei , Liu Xiao , Xu Yi , Ma Jianyong , Yu Peng , Zheng Kai , Liu Fuwei , Luo Jun 
Published: January 2023

BackgroundThe triglyceride and glucose (TyG) index is associated with the risk of nonalcoholic fatty liver disease (NAFLD), but the dose−response relationship between them is still unknown. We conducted a comprehensive meta-analysis to study the dose−response association between the TyG index and the risk of NAFLD.MethodsWe systematically searched the Cochrane Library, PubMed, and Embase databases until July 2022 for relevant studies. The robust error meta-regression method was used to investigate the dose−response association between the TyG index and NAFLD. Summary relative risks (ORs) and 95% CIs were estimated by using a random-effects model.ResultsA total of 4 cohort and 8 cross-sectional studies were included, with 28,788 NAFLD cases among the 105,365 participants. A positive association for the risk of NAFLD was observed for each additional unit of the TyG index with a linear association (p=0.82), and the summary OR was 2.84 (95% CI, 2.01-4.01). In the subgroup analyses, a stronger association of the TyG index with NAFLD was shown in females than in males (men: OR=2.97, 95% CI 2.55-3.46, women: OR=4.80, 95% CI 3.90-5.90, Psubgroup&lt;0.001).ConclusionThe TyG index may be a novel independent risk factor for NAFLD beyond traditional risk factors.Systematic Review Registrationhttps://www.crd.york.ac.uk/prospero, identifier (CRD42022347813).
Methylglyoxal products in pre-symptomatic type 1 diabetes
Authors: Shuck Sarah C. , Achenbach Peter , Roep Bart O. , Termini John S. , Hernandez-Castillo Carlos , Winkler Christiane , Weiss Andreas , Ziegler Anette-Gabriele 
Published: January 2023

IntroductionProgression to type 1 diabetes has emerged as a complex process with metabolic alterations proposed to be a significant driver of disease. Monitoring products of altered metabolism is a promising tool for determining the risk of type 1 diabetes progression and to supplement existing predictive biomarkers. Methylglyoxal (MG) is a reactive product produced from protein, lipid, and sugar metabolism, providing a more comprehensive measure of metabolic changes compared to hyperglycemia alone. MG forms covalent adducts on nucleic and amino acids, termed MG-advanced glycation end products (AGEs) that associate with type 1 diabetes.MethodsWe tested their ability to predict risk of disease and discriminate which individuals with autoimmunity will progress to type 1 diabetes. We measured serum MG-AGEs from 141 individuals without type 1 diabetes and 271 individuals with type 1 diabetes enrolled in the Fr1da cohort. Individuals with type 1 diabetes were at stages 1, 2, and 3.ResultsWe examined the association of MG-AGEs with type 1 diabetes. MG-AGEs did not correlate with HbA1c or differ between stages 1, 2, and 3 type 1 diabetes. Yet, RNA MG-AGEs were significantly associated with the rate of progression to stage 3 type 1 diabetes, with lower serum levels increasing risk of progression.DiscussionMG-AGEs were able to discriminate which individuals with autoantibodies would progress at a faster rate to stage 3 type 1 diabetes providing a potential new clinical biomarker for determining rate of disease progression and pointing to contributing metabolic pathways.
The protective effects of lipoxin A4 on type 2 diabetes mellitus: A Chinese prospective cohort study
Authors: Wang Sudan , Qian Xiaoyan , Shen Chao , Sun Qian , Jing Yang , Liu Bingyue , Zhang Kexin , Li Mengyuan , Wang Junrong , Zhou Hui , Dong Chen 
Published: January 2023

BackgroundSeveral cellular and animal studies have suggested that lipoxin A4 (LXA4) has a protective effect on type 2 diabetes mellitus (T2DM) development. However, little is known about whether LXA4 influences T2DM development at the population level.MethodsWe included 2755 non-diabetic participants from a cohort study in China who were followed for about seven years. Cox proportional hazards model was used to estimate hazard ratios (HRs) and 95% confidence intervals (CI) for the association between LXA4 and incident T2DM. Mediation models were used to examine how serum lipids as mediators impact the association between LXA4 and T2DM.ResultsIn total, 172 newly diagnosed T2DM cases were identified. Multivariate-adjusted HR for T2DM in the fourth compared with the first quartile of LXA4 was 0.62 (95% CI: 0.40-0.96). When used the optimal cutoff value determined by the receiver operating characteristic curve, the results showed participants with LXA4 &gt; 2.84 ng/mL had a decreased T2DM risk compared to those with LXA4 ≤ 2.84 ng/mL (HR: 0.63, 95% CI: 0.45-0.89). The effect of LXA4 on incident T2DM was significantly modified by gender (P-interaction = 0.024) and family history of diabetes (P-interaction = 0.025). Additionally, the association between LXA4 and incident T2DM was partially suppressed by the TyG and TG/HDL-c ratio, with a suppression proportion of 22.2% and 16.0%, respectively.ConclusionsHigher LXA4 levels are significantly associated with a lower risk of T2DM development. The present findings would be helpful in understanding the effect of LXA4 on T2DM development at the population level.
Nomogram for predicting central lymph node metastasis in T1-T2 papillary thyroid cancer with no lateral lymph node metastasis
Authors: Sun Yubo , Sun Wei , Xiang Jingzhe , Zhang Hao 
Published: January 2023

ObjectiveWhether routine central lymph node dissection (CLND) is necessary for T1-T2 papillary thyroid carcinoma (PTC) patients without certain lateral lymph node metastases (LLNM) remains controversial. This study aims to construct a nomogram that predicts central lymph node metastasis (CLNM) for T1-T2 PTC patients without LLNM.MethodsWe retrospectively reviewed adult T1-T2 PTC patients with no LLNM retrieved from the Surveillance, Epidemiology, and End Results (SEER) database from 2010 to 2015. We also collected data from patients treated at the First Hospital of China Medical University between February and April 2021 for external validation. Logistic regression model was used to construct a risk prediction model nomogram. The receiver-operating characteristic (ROC) curve, calibration plot, and decision curve analyses (DCA) were used for assessing the nomogram.Results5,094 patients from the SEER database and 300 patients from our department were finally included in this study. Variables such as age, gender, race, tumor size, multifocality, and minimal extrathyroidal extension (mETE) were found to be associated with CLNM and were subsequently incorporated into our nomogram. The C-index of our constructed model was 0.704, while the internal and external validation C-indexes were 0.693 and 0.745, respectively. The nomogram was then evaluated using calibration and decision curve analyses.ConclusionA visualized nomogram was successfully developed to predict CLNM in T1-T2 PTC patients without LLNM and assist clinicians in making personalized clinical decisions.
Identification of miRNA-mediated gene regulatory networks in L-methionine exposure counteracts cocaine-conditioned place preference in mice
Authors: Wang Yan , Yang Lvyu , Zhou Hansheng , Zhang Kunlin , Zhao Mei 
Published: January 2023

Background and Aims: Methionine has been proven to inhibit addictive behaviors of cocaine dependence. This study aimed to identify the potential mechanisms of MET relating to its inhibitory effects on cocaine induced cellular and behavioral changes.Methods: MRNA and miRNA high-throughput sequencing of the prefrontal cortex in a mouse model of cocaine conditioned place preference (CPP) combined with L-methionine was performed. Differentially expressed miRNAs (DE-miRNAs) and differentially expressed genes (DEGs) regulated by cocaine and inhibited by L-methionine were identified. DEGs were mapped to STRING database to construct a protein-protein interaction (PPI) network. Then, the identified DEGs were subjected to the DAVID webserver for functional annotation. Finally, miRNA-mRNA regulatory network and miRNA-mRNA-TF regulatory networks were established to screen key DE-miRNAs and coregulation network in Cytoscape.Results: Sequencing data analysis showed that L-methionine reversely regulated genes and miRNAs affected by cocaine. Pathways associated with drug addiction only enriched in CS-down with MC-up genes targeted by DE-miRNAs including GABAergic synapse, Glutamatergic synapse, Circadian entrainment, Axon guidance and Calcium signaling pathway. Drug addiction associated network was formed of 22 DEGs including calcium channel (Cacna1c, Cacna1e, Cacna1g and Cacng8), ephrin receptor genes (Ephb6 and Epha8) and ryanodine receptor genes (Ryr1 and Ryr2). Calcium channel gene network were identified as a core gene network modulated by L-methionine in response to cocaine dependence. Moreover, it was predicted that Grin1 and Fosb presented in TF-miRNA-mRNA coregulation network with a high degree of interaction as hub genes and interacted calcium channels.Conclusion: These identified key genes, miRNA and coregulation network demonstrated the efficacy of L-methionine in counteracting the effects of cocaine CPP. To a certain degree, it may provide some hints to better understand the underlying mechanism on L-methionine in response to cocaine abuse.
Olive leaves extract alleviates inflammation and modifies the intrinsic apoptotic signal in the leukemic bone marrow
Authors: Nath Priyatosh , Modak Snehashish , Aktar Tamanna , Maiti Sharanya , Ghosh Anisha , Singh Riddha , Debnath Mousumi , Saha Bhaskar , Maiti Debasish 
Published: January 2023

IntroductionCurrent anti-leukemic chemotherapies with multiple targets suffer from side effects. Synthetic drugs with huge off-target effects are detrimental to leukemic patients. Therefore, natural plant-based products are being increasingly tested for new anti-leukemic therapy with fewer or no side effects. Herein, we report the effect of ethanolic olive leaves extract (EOLE) on the K562 cell line and on the bone marrow (BM) of N-ethyl-N-nitrosourea (ENU)-induced leukemic mice.MethodsUsing standard methodologies, we assessed viability, chromatin condensation, and induction of apoptosis in EOLE-treated K562 cells in-vitro. The anti-leukemic activity of EOLE was assayed by measuring ROS, levels of various cytokines, expression of iNOS and COX-2 gene, and changes in the level of important apoptosis regulatory and cell signaling proteins in-vivo. ResultK562 cells underwent apoptotic induction after exposure to EOLE. In the BM of leukemic mice, EOLE therapy decreased the number of blast cells, ROS generation, and expression of NF-κB and ERK1/2. IL-6, IL-1β, TNF-α, iNOS, and COX-2 were among the inflammatory molecules that were down-regulated by EOLE therapy. Additionally, it decreased the expression of anti-apoptotic proteins BCL2A1, BCL-xL, and MCL-1 in the BM of leukemic mice.DiscussionChronic inflammation and anomalous apoptotic mechanism both critically contribute to the malignant transformation of cells. Inflammation in the tumor microenvironment promotes the growth, survival, and migration of cancer cells, accelerating the disease. The current investigation showed that EOLE treatment reduces inflammation and alters the expression of apoptosis regulatory protein in the BM of leukemic mice, which may halt the progression of the disease.
The dietary inflammatory index and its association with the prevalence of hypertension: A cross-sectional study
Authors: Zhou Nan , Xie Zhi-Ping , Liu Qing , Xu Yun , Dai Si-Cheng , Lu Juan , Weng Jia-Yi , Wu Li-Da 
Published: January 2023

AimsWe aim to investigate the association of the Dietary Inflammatory Index (DII) with the prevalence of hypertension in a large multiracial population in the United States.MethodsParticipants from the National Health and Nutrition Examination Survey (NHANES) (1999–2018) were included in this cross-sectional study. Dietary information was obtained and used to calculate DII. Blood pressures of participants were measured by experienced examiners. The NHANES used the method of “stratified multistage probability sampling,” and this study is a weight analysis following the NHANES analytic guidance. Weight logistic regression analysis was adopted to investigate the association of hypertension with DII. Least Absolute Shrinkage and Selection Operator (LASSO) regression was carried out to screen the most important dietary factors associated with the risk of hypertension. Moreover, a nomogram model based on key dietary factors was established; the receiver operating characteristic (ROC) curve was used to evaluate the diagnostic power of the nomogram model for screening hypertension risk.ResultsA total of 45,023 participants were included in this study, representing 191 million residents in the United States. Participants with hypertension had an elevated DII compared with those without hypertension. Weight logistic regression showed that an increment of DII was strongly associated with hypertension after adjusting for confounding factors. The nomogram model, based on key dietary factors screened by LASSO regression, showed a favorable discriminatory power with an area under the curve (AUC) of 78.5% (95% CI: 78.5%–79.3%). Results of the sensitivity analysis excluding participants who received any drug treatment were consistent with those in the main analysis.ConclusionAn increment of DII is associated with the risk of hypertension. For better prevention and treatment of hypertension, more attention should be paid to controlling dietary inflammation.
Prediction of celiac disease associated epitopes and motifs in a protein
Authors: Tomer Ritu , Patiyal Sumeet , Dhall Anjali , Raghava Gajendra P. S. 
Published: January 2023

IntroductionCeliac disease (CD) is an autoimmune gastrointestinal disorder causes immune-mediated enteropathy against gluten. Gluten immunogenic peptides have the potential to trigger immune responses which leads to damage the small intestine. HLA-DQ2/DQ8 are major alleles that bind to epitope/antigenic region of gluten and induce celiac disease. There is a need to identify CD associated epitopes in protein-based foods and therapeutics.MethodsIn this study, computational tools have been developed to predict CD associated epitopes and motifs. Dataset used for training, testing and evaluation contain experimentally validated CD associated and non-CD associate peptides. We perform positional analysis to identify the most significant position of an amino acid residue in the peptide and checked the frequency of HLA alleles. We also compute amino acid composition to develop machine learning based models. We also developed ensemble method that combines motif-based approach and machine learning based models.Results and DiscussionOur analysis support existing hypothesis that proline (P) and glutamine (Q) are highly abundant in CD associated peptides. A model based on density of P&amp;Q in peptides has been developed for predicting CD associated peptides which achieve maximum AUROC 0.98 on independent data. We discovered motifs (e.g., QPF, QPQ, PYP) which occurs specifically in CD associated peptides. We also developed machine learning based models using peptide composition and achieved maximum AUROC 0.99. Finally, we developed ensemble method that combines motif-based approach and machine learning based models. The ensemble model-predict CD associated motifs with 100% accuracy on an independent dataset, not used for training. Finally, the best models and motifs has been integrated in a web server and standalone software package “CDpred”. We hope this server anticipate the scientific community for the prediction, designing and scanning of CD associated peptides as well as CD associated motifs in a protein/peptide sequence (https://webs.iiitd.edu.in/raghava/cdpred/).
Epifriedelanol is the key compound to antibacterial effects of extracts of Synadenium glaucescens (Pax) against medically important bacteria
Authors: Msengwa Zaituni , Rwegoshora Frank , David Credo , Mwesongo James , Mafuru Magesa , Mabiki Faith P. , Mwang’onde Beda J. , Mtambo Madundo M. , Kusiluka Lughano J. M. , Mdegela Robinson H. , Olsen John E. 
Published: January 2023

IntroductionSynadenium glaucescens has been used for the treatment of bacterial infections in many parts of the world. We investigated the antibacterial and cytotoxicity activities of secondary metabolites of this plant.MethodsHexane, dichloromethane, methanol, and water were used as extraction solvents. The extract of the root bark was fractionated with ethyl acetate and methanol. The isolation of compounds from root barks, leaves and stem wood extracts were carried out using column chromatography. Antibacterial activities were characterized based on growth curves, killing curves and MIC determinations. Haemolytic effect towards sheep red blood cells (RBCs) was analysed with spectrophotometer at the wavelength of 540nm. Results and DiscussionExtracts from whole root and root bark showed strong activity against Staphylococcus aureus, and Streptococci and Enterococci species, and moderate to weak activity against Escherichia coli, Klebsiella pneumoniae, Pseudomonas aeruginosa, Salmonella species, Shigella sonnei and Yersinia enterocolitica. Staphylococcus aureus was the most susceptible, and E. coli and Klebsiella pneumonia were the least susceptible ones. Likewise, extracts, fractions, sub-fractions and epifriedelanol demonstrated bacteriostatic activity against S. aureus. The haemolytic activity of the extracts, fractions, sub-fractions and epifriedelanol was significantly low compared to the positive control, hydrogen peroxide. But extract from leaves showed high haemolytic effects at the concentrations of 500 μg/mL and 1000 μg/mL. Thus, extracts of S. glaucescens have antibacterial activity against several Gram-positive bacteria including Methicillin Resistant S. aureus with low haemolytic activity. At high concentrations, the extracts from leaves have toxicity risk. More studies for the active compounds are required for biological testing.
How does heat stress affect sponge microbiomes? Structure and resilience of microbial communities of marine sponges from different habitats
Authors: De Castro-Fernández Paula , Ballesté Elisenda , Angulo-Preckler Carlos , Biggs Jason , Avila Conxita , García-Aljaro Cristina 
Published: January 2023

IntroductionSponges are key components of marine benthic communities, providing many ecosystem functions and establishing close relationships with microorganisms, conforming the holobiont. These symbiotic microbiotas seem to be host species-specific and highly diverse, playing key roles in their sponge host. The effects of elevated seawater temperature on sponges and their microbiota are still poorly known, and whether sponges from polar areas are more sensitive to these impacts respect to temperate and tropical species is totally unknown.MethodsWe analyzed the microbiomes of different sponge species in their natural habitat and after exposure to heat stress in aquaria by 16S rRNA amplicon sequencing to (1) characterize the sponge microbiota covering a latitudinal gradient (polar, temperate and tropical environments), and (2) asses the effects of thermal stress on their microbial communities.ResultsBacterial communities’ structure was different in the different sponge species and also respect the surrounding seawater. The core microbiome is maintained in most sponge species after a heat stress, although whether they would recover to the normal conditions previous to the stress remains yet to be further investigated. We observed increased abundances of transient bacteria from unknown origin in sponge species exposed to heat stress.DiscussionSome of the transient bacteria may be opportunistic bacteria that may benefit from the heat stress-associated dysregulation in the sponge by occupying new niches in the holobiont. According to our results, sponges from Antarctic waters could be more resilient than tropical and temperate sponges. Both the microbiome composition and the changes produced by the heat stress seem to be quite host species-specific, and thus, depend on the sponge species. Under a global change scenario, the microbiomes of the tropical and temperate sponges will probably be those suffering the most the heat stress, and therefore the effects of global change may be dramatic for benthic ecosystems since sponges are a fundamental part of them.
Marine ecological security assessment from the perspective of emergy ecological footprint
Authors: Wang Cui , Lin Aiyong , Liu Conghu 
Published: January 2023

IntroductionMarine ecological security assessments are considered as a basis for coordinating marine economic development and ecological protection.MethodsWe propose an assessment method based on the emergy ecological footprint which first measures the emergy of the natural and economic elements of the marine ecosystem. Considering the role of economic, social and waste discharge factors in the marine ecosystem, an ecological security evaluation index is constructed, and a dynamic evaluation is conducted based on long time series data to characterize the change trend of ecological security.ResultsThe Guangxi marine ecosystem was selected as the case study, and the ecological security dynamic evaluation was conducted by collecting data from 2008 to 2020. The results show that Guangxi's marine ecosystem has always been in an ecologically secure state, but since 2010, the emergy ecological footprint intensity has been increasing, indicating ecosystem deterioration. Therefore, some targeted suggestions are put forward.DiscussionThis method provides a new assessment tool for marine ecological security evaluation and offers guidance for the sustainable development and utilization of marine ecosystems.