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1.
Small ; : e2403313, 2024 Oct 08.
Article in English | MEDLINE | ID: mdl-39377344

ABSTRACT

Hepatic ischemia-reperfusion injury (IRI) is a severe complication that occurs in the process of liver transplantation, hepatectomy, and other end-stage liver disease surgery, often resulting in the failure of surgery operation and even patient death. Currently, there is no effective way to prevent hepatic IRI clinically. Here, it is reported that the ultra-small copper-based multienzyme-like nanoparticles with catalase-like (CAT-like) and superoxide dismutase-like (SOD-like) catalytic activities significantly scavenge the surge-generated endogenous reactive oxygen species (ROS) and effectively protects hepatic IRI. Density functional theory calculations confirm that the nanoparticles efficiently scavenge ROS through their synergistic effects of the ultra-small copper SOD-like activity and manganese dioxides CAT-like activity. Furthermore, the results show that the biocompatible CMP NPs significantly protected hepatocytes from IRI in vitro and in vivo. Importantly, their therapeutic effect is much stronger than that of N-acetylcysteamine acid (NAC), an FDA-approved antioxidative drug. Finally, it is demonstrated that the protective effects of CMP NPs on hepatic IRI are related to suppressing inflammation and hepatocytic apoptosis and maintaining endothelial functions through scavenging ROS in liver tissues. The study can provide insight into the development of next-generation nanomedicines for scavenging ROS.

2.
J Breath Res ; 2024 Sep 11.
Article in English | MEDLINE | ID: mdl-39260377

ABSTRACT

BACKGROUND: The prevalence of patients with bronchiectasis (BE) has been rising in recent years, which increases the substantial burden on the family and society. Exploring a convenient, effective, and low-cost screening tool for the diagnosis of BE is urgent. We expect to identify the accuracy of breath biomarkers(BBs) for the diagnosis of BE through breathomics testing and explore the association between BBs and clinical features of BE. Method: Exhaled breath samples were collected and detected by high-pressure photon ionization time-of-flight mass spectrometry(HPPI-TOF MS) in a cross-sectional study. Exhaled breath samples were from 215 patients with BE and 295 control individuals. The potential BBs were selected via the machine learning method. The overall performance was assessed for the BBs-based BE detection model. The significant BBs between different subgroups such as the severity of BE, acute or stable stage, combined with hemoptysis or not, with or without Nontuberculous Mycobacterium (NTM), Pseudomonas aeruginosa (P.a) isolation or not, and the BBs related to the number of involved lung lobes and lung function were discovered and analyzed. Results: The top 10 BBs based machine learning model achieved an area under the curve (AUC) of 0.940, sensitivity of 90.7%, specificity of 85%, and accuracy of 87.4% in BE diagnosis. Except for the top ten BBs, other BBs were found also related to the severity, acute/stable status, hemoptysis or not, NTM infection, P.a isolation, the number of involved lobes, and three lung functional paramters in BE patients. Conclusions: BBs-based BE detection model showed good accuracy for diagnosis. BBs have a close relationship with the clinical features of BE. The breath test method may provide a new strategy for bronchiectasis screening and personalized management. Clinical Trail Number: NCT05293314 .

3.
J Theor Biol ; 592: 111895, 2024 09 07.
Article in English | MEDLINE | ID: mdl-38969168

ABSTRACT

In HIV drug therapy, the high variability of CD4+ T cells and viral loads brings uncertainty to the determination of treatment options and the ultimate treatment efficacy, which may be the result of poor drug adherence. We develop a dynamical HIV model coupled with pharmacokinetics, driven by drug adherence as a random variable, and systematically study the uncertainty quantification, aiming to construct the relationship between drug adherence and therapeutic effect. Using adaptive generalized polynomial chaos, stochastic solutions are approximated as polynomials of input random parameters. Numerical simulations show that results obtained by this method are in good agreement, compared with results obtained through Monte Carlo sampling, which helps to verify the accuracy of approximation. Based on these expansions, we calculate the time-dependent probability density functions of this system theoretically and numerically. To verify the applicability of this model, we fit clinical data of four HIV patients, and the goodness of fit results demonstrate that the proposed random model depicts the dynamics of HIV well. Sensitivity analyses based on the Sobol index indicate that the randomness of drug effect has the greatest impact on both CD4+ T cells and viral loads, compared to random initial values, which further highlights the significance of drug adherence. The proposed models and qualitative analysis results, along with monitoring CD4+ T cells counts and viral loads, evaluate the influence of drug adherence on HIV treatment, which helps to better interpret clinical data with fluctuations and makes several contributions to the design of individual-based optimal antiretroviral strategies.


Subject(s)
Anti-HIV Agents , HIV Infections , Medication Adherence , Viral Load , Humans , Anti-HIV Agents/therapeutic use , CD4-Positive T-Lymphocytes/virology , Computer Simulation , HIV Infections/drug therapy , HIV Infections/virology , Models, Biological , Monte Carlo Method , Stochastic Processes , Uncertainty
4.
New Phytol ; 243(5): 1870-1886, 2024 Sep.
Article in English | MEDLINE | ID: mdl-39010694

ABSTRACT

Maize silk is a specialized type of stigma, covered with numerous papillae for pollen grain capture. However, the developmental process of stigmatic papillae and the underlying regulatory mechanisms have remained largely unknown. Here, we combined the cytological, genetic and molecular studies to demonstrate that three homologous genes ZmSPL10, ZmSPL14 and ZmSPL26 play a central role in promoting stigmatic papilla formation in maize. We show that their triple knockout mutants are nearly complete lack of stigmatic papilla, resulting in a severe reduction in kernel setting. Cellular examination reveals that stigmatic papilla is developed from a precursor cell, which is the smaller daughter cell resulting from asymmetric cell division of a silk epidermal cell. In situ hybridization shows that ZmSPL10, ZmSPL14 and their target genes SPI1, ZmPIN1b, ZmARF28 and ZmWOX3A are preferentially expressed in the precursor cells of stigmatic papillae. Moreover, ZmSPL10, ZmSPL14 and ZmSPL26 directly bind to the promoters of SPI1, ZmPIN1b, ZmARF28 and ZmWOX3A and promote their expression. Further, Zmwox3a knockout mutants display severe defects in stigmatic papilla formation and reduced seed setting. Collectively, our results demonstrate that ZmSPL10, ZmSPL14 and ZmSPL26 act together to promote stigmatic papilla development through regulating auxin signaling and ZmWOX3A expression.


Subject(s)
Gene Expression Regulation, Plant , Indoleacetic Acids , Plant Proteins , Signal Transduction , Zea mays , Zea mays/genetics , Zea mays/growth & development , Indoleacetic Acids/metabolism , Plant Proteins/genetics , Plant Proteins/metabolism , Mutation/genetics , Flowers/genetics , Flowers/growth & development , Promoter Regions, Genetic/genetics , Genes, Plant , Protein Binding , Phenotype
5.
Tissue Cell ; 90: 102483, 2024 Oct.
Article in English | MEDLINE | ID: mdl-39059132

ABSTRACT

OBJECTIVE: Wound therapies utilizing gene delivery to the skin offer considerable promise owing to their localized treatment benefits and straightforward application. This study investigated the impact of skin electroporation of CYP1A1 shRNA lentiviral particles on diabetic wound healing in a streptozotocin (STZ)-induced rat model. METHODS: Male Sprague Dawley (SD) rats were made diabetic by injecting STZ and subsequently creating foot skin wounds. The rats were randomly divided into four groups: normal, diabetic foot ulcers (DFU), DFU + control shRNA (electroporation of control shRNA lentiviral particles), and DFU + CYP1A1 shRNA (electroporation of CYP1A1 shRNA lentiviral particles). Wound healing progress was monitored at multiple time points (0, 1, 3, 5, 7, 10, 14 days). On day 14, wound tissue specimens were collected for histological examination. Wound samples collected at days 7 and 14 were used for gene expression analysis via qRT-PCR, assessment of CYP1A1 protein levels using western blotting, and evaluation of oxidative stress markers. RESULTS: Treatment with CYP1A1 shRNA significantly enhanced diabetic wound healing rates compared to untreated controls over the observation period. Histological analysis revealed improved wound characteristics in the CYP1A1 shRNA-treated group, including enhanced epithelial regeneration, reduced inflammation, and increased collagen deposition, indicative of improved tissue repair. Furthermore, suppression of CYP1A1 corresponded with decreased expression levels of pro-inflammatory cytokines (interleukin-1ß, tumor necrosis factor-α, and interleukin-6) and diminished oxidative stress markers (malondialdehyde, superoxide dismutase) within wound tissues. CONCLUSION: Targeted suppression of CYP1A1 represents a promising therapeutic strategy to enhance diabetic wound healing by modulating inflammation and oxidative stress.


Subject(s)
Cytochrome P-450 CYP1A1 , Diabetes Mellitus, Experimental , Inflammation , Oxidative Stress , Rats, Sprague-Dawley , Wound Healing , Animals , Wound Healing/genetics , Male , Rats , Inflammation/metabolism , Inflammation/pathology , Inflammation/genetics , Cytochrome P-450 CYP1A1/metabolism , Cytochrome P-450 CYP1A1/genetics , Diabetes Mellitus, Experimental/metabolism , Diabetes Mellitus, Experimental/pathology , Disease Models, Animal , RNA, Small Interfering/metabolism , Diabetic Foot/metabolism , Diabetic Foot/pathology , Diabetic Foot/genetics
6.
J Breath Res ; 18(4)2024 Jul 10.
Article in English | MEDLINE | ID: mdl-38834048

ABSTRACT

Chronic obstructive pulmonary disease (COPD) and asthma are the most common chronic respiratory diseases. In middle-aged and elderly patients, it is difficult to distinguish between COPD and asthma based on clinical symptoms and pulmonary function examinations in clinical practice. Thus, an accurate and reliable inspection method is required. In this study, we aimed to identify breath biomarkers and evaluate the accuracy of breathomics-based methods for discriminating between COPD and asthma. In this multi-center cross-sectional study, exhaled breath samples were collected from 89 patients with COPD and 73 with asthma and detected on a high-pressure photon ionization time-of-flight mass spectrometry (HPPI-TOFMS) platform from 20 October 2022, to 20 May 2023, in four hospitals. Data analysis was performed from 15 June 2023 to 16 August 2023. The sensitivity, specificity, and accuracy were calculated to assess the overall performance of the volatile organic component (VOC)-based COPD and asthma discrimination models. Potential VOC markers related to COPD and asthma were also analyzed. The age of all participants ranged from to 18-86 years, and 54 (33.3%) were men. The age [median (minimum, maximum)] of COPD and asthma participants were 66.0 (46.0, 86.0), and 44.0 (17.0, 80.0). The male and female ratio of COPD and asthma participants were 14/75 and 40/33, respectively. Based on breathomics feature selection, ten VOCs were identified as COPD and asthma discrimination biomarkers via breath testing. The joint panel of these ten VOCs achieved an area under the curve of 0.843, sensitivity of 75.9%, specificity of 87.5%, and accuracy of 80.0% in COPD and asthma discrimination. Furthermore, the VOCs detected in the breath samples were closely related to the clinical characteristics of COPD and asthma. The VOC-based COPD and asthma discrimination model showed good accuracy, providing a new strategy for clinical diagnosis. Breathomics-based methods may play an important role in the diagnosis of COPD and asthma.


Subject(s)
Asthma , Biomarkers , Breath Tests , Exhalation , Pulmonary Disease, Chronic Obstructive , Volatile Organic Compounds , Humans , Pulmonary Disease, Chronic Obstructive/diagnosis , Pulmonary Disease, Chronic Obstructive/metabolism , Breath Tests/methods , Asthma/diagnosis , Asthma/metabolism , Male , Female , Middle Aged , Aged , Cross-Sectional Studies , Adult , Biomarkers/analysis , Aged, 80 and over , Volatile Organic Compounds/analysis , Young Adult , Diagnosis, Differential , Adolescent , Sensitivity and Specificity
7.
Nucleic Acids Res ; 52(14): 8454-8465, 2024 Aug 12.
Article in English | MEDLINE | ID: mdl-38769061

ABSTRACT

Riboswitches are conserved regulatory RNA elements participating in various metabolic pathways. Recently, a novel RNA motif known as the folE RNA motif was discovered upstream of folE genes. It specifically senses tetrahydrofolate (THF) and is therefore termed THF-II riboswitch. To unravel the ligand recognition mechanism of this newly discovered riboswitch and decipher the underlying principles governing its tertiary folding, we determined both the free-form and bound-form THF-II riboswitch in the wild-type sequences. Combining structural information and isothermal titration calorimetry (ITC) binding assays on structure-based mutants, we successfully elucidated the significant long-range interactions governing the function of THF-II riboswitch and identified additional compounds, including alternative natural metabolites and potential lead compounds for drug discovery, that interact with THF-II riboswitch. Our structural research on the ligand recognition mechanism of the THF-II riboswitch not only paves the way for identification of compounds targeting riboswitches, but also facilitates the exploration of THF analogs in diverse biological contexts or for therapeutic applications.


Subject(s)
Nucleic Acid Conformation , Riboswitch , Tetrahydrofolates , Riboswitch/genetics , Tetrahydrofolates/chemistry , Tetrahydrofolates/metabolism , Ligands , Models, Molecular , RNA Folding , Nucleotide Motifs , Mutation
8.
Anal Bioanal Chem ; 2024 May 13.
Article in English | MEDLINE | ID: mdl-38739158

ABSTRACT

Nanozymes are nanomaterials with mimetic enzyme properties and the related research has attracted much attention. It is of great value to develop methods to construct nanozymes and to study their application in bioanalysis. Herein, the metal-ligand cross-linking strategy was developed to fabricate superstructure nanozymes. This strategy takes advantage of being easy to operate, adjustable, cheap, and universal. The fabricated superstructure nanozymes possess efficient peroxidase-like catalytic activity. The enzyme reaction kinetic tests demonstrated that for TMB and H2O2, the Km is 0.229 and 1.308 mM, respectively. Furthermore, these superstructure nanozymes are applied to highly efficient and sensitive detection of glucose. The linear range for detecting glucose is 20-2000 µM, and the limit of detection is 17.5 µM. Furthermore, mechanistic research illustrated that this integrated system oxidizes glucose to produce hydrogen peroxide and further catalyzes the production of ·OH and O2·-, which results in a chromogenic reaction of oxidized TMB for the detection of glucose. This work could not only contribute to the development of efficient nanozymes but also inspire research in the highly sensitive detection of other biomarkers.

9.
J Ethnopharmacol ; 328: 117976, 2024 Jun 28.
Article in English | MEDLINE | ID: mdl-38492794

ABSTRACT

ETHNOPHARMACOLOGICAL RELEVANCE: Guhan Yangshengjing (GHYSJ) is an effective prescription for delaying progression of Alzheimer's disease (AD) based on the ancient Chinese medical classics excavated from Mawangdui Han Tomb. Comprising a combination of eleven traditional Chinese herbs, the precise protective mechanism through which GHYSJ acts on AD progression remains unclear and has significant implications for the development of new drugs to treat AD. AIM OF THE STUDY: To investigate the mechanism of GHYSJ in the treatment of AD through network pharmacology and validate the results through in vitro experiments. MATERIALS AND METHODS: Chemical composition-target-pathway network and protein-protein interaction network were constructed by network pharmacology to predict the potential targets of GHYSJ for the treatment of AD. The interaction relationship between active ingredients and targets was verified by molecular docking and molecular force. Furthermore, the chemical constituents of GHYSJ were analyzed by LC-MS and HPLC, the effects of GHYSJ on animal tissues were analyzed by H&E staining. An Aß-induced SH-SY5Y cellular model was established to validate the core pathways and targets predicted by network pharmacology and molecular docking. RESULTS: The results of the network pharmacology analysis revealed a total of 155 bioactive compounds capable of crossing the blood-brain barrier and interacting with 677 targets, among which 293 targets specifically associated with AD, which mainly participated in and regulated the amyloid aggregation pathway and PI3K/Akt signaling pathway, thereby treating AD. In addition, molecular docking analysis revealed a robust binding affinity between the principal bioactive constituents of GHYSJ and crucial targets implicated in AD. Our findings were further substantiated by in vitro experiments, which demonstrated that Liquiritigenin and Ginsenosides Rh4, crucial constituents of GHYSJ, as well as GHYSJ pharmaceutic serum, exhibited a significant down-regulation of BACE1 expression in Aß-induced damaged SH-SY5Y cells. This study provides valuable data and theoretical underpinning for the potential therapeutic application of GHYSJ in the treatment of AD and secondary development of GHYSJ prescription. CONCLUSION: Through network pharmacology, molecular docking, LC-MS, and cellular experiments, GHYSJ was initially confirmed to delay the progression of AD by regulating the expression of BACE1 in Amyloid aggregation pathway. Our observations provided valuable data and theoretical underpinning for the potential therapeutic application of GHYSJ in the treatment of AD.


Subject(s)
Alzheimer Disease , Drugs, Chinese Herbal , Neuroblastoma , Humans , Animals , Molecular Docking Simulation , Amyloid Precursor Protein Secretases , Alzheimer Disease/drug therapy , Network Pharmacology , Phosphatidylinositol 3-Kinases , Aspartic Acid Endopeptidases , Drugs, Chinese Herbal/pharmacology , Drugs, Chinese Herbal/therapeutic use
10.
Materials (Basel) ; 17(1)2024 Jan 02.
Article in English | MEDLINE | ID: mdl-38204094

ABSTRACT

Hydraulic fracturing using micro-particles is an effective technology in the petroleum industry since the particles facilitate crack propagation of the shale layer, creating pathways for oil and gas. A new kind of polymer-coated ceramsite particles (PCP) was generated. The friction and wear properties of the particles under different loads and speeds were also studied. The tribological relationship between the newly fabricated polymer-coated ceramsite particles and the fracturing fluid was studied through tribological experiments under the condition of fracturing fluid lubrication. The results show that, in contrast, the wear of the new-generation particles is relatively stable, indicating that it has good adjustable friction properties. In addition, under the lubrication condition of fracturing fluid, the new-generation particles have better hydrophobicity, high-pressure resistance, and low reflux rate, which have an important value as a practical engineering application for improving shale gas production efficiency and production.

11.
Mol Cell Proteomics ; 23(1): 100686, 2024 Jan.
Article in English | MEDLINE | ID: mdl-38008179

ABSTRACT

Hepatocellular carcinoma (HCC) is a leading cause of cancer-related mortality worldwide, ranking fourth in frequency. The relationship between metabolic reprogramming and immune infiltration has been identified as having a crucial impact on HCC progression. However, a deeper understanding of the interplay between the immune system and metabolism in the HCC microenvironment is required. In this study, we used a proteomic dataset to identify three immune subtypes (IM1-IM3) in HCC, each of which has distinctive clinical, immune, and metabolic characteristics. Among these subtypes, IM3 was found to have the poorest prognosis, with the highest levels of immune infiltration and T-cell exhaustion. Furthermore, IM3 showed elevated glycolysis and reduced bile acid metabolism, which was strongly correlated with CD8 T cell exhaustion and regulatory T cell accumulation. Our study presents the proteomic immune stratification of HCC, revealing the possible link between immune cells and reprogramming of HCC glycolysis and bile acid metabolism, which may be a viable therapeutic strategy to improve HCC immunotherapy.


Subject(s)
Carcinoma, Hepatocellular , Liver Neoplasms , Humans , Proteome , Proteomics , Tumor Microenvironment , Bile Acids and Salts
12.
Nucleic Acids Res ; 52(D1): D1163-D1179, 2024 Jan 05.
Article in English | MEDLINE | ID: mdl-37889038

ABSTRACT

Patient-derived gene expression signatures induced by cancer treatment, obtained from paired pre- and post-treatment clinical transcriptomes, can help reveal drug mechanisms of action (MOAs) in cancer patients and understand the molecular response mechanism of tumor sensitivity or resistance. Their integration and reuse may bring new insights. Paired pre- and post-treatment clinical transcriptomic data are rapidly accumulating. However, a lack of systematic collection makes data access, integration, and reuse challenging. We therefore present the Cancer Drug-induced gene expression Signature DataBase (CDS-DB). CDS-DB has collected 78 patient-derived, paired pre- and post-treatment transcriptomic source datasets with uniformly reprocessed expression profiles and manually curated metadata such as drug administration dosage, sampling time and location, and intrinsic drug response status. From these source datasets, 2012 patient-level gene perturbation signatures were obtained, covering 85 therapeutic regimens, 39 cancer subtypes and 3628 patient samples. Besides data browsing, download and search, CDS-DB also supports single signature analysis (including differential gene expression, functional enrichment, tumor microenvironment and correlation analyses), signature comparative analysis and signature connectivity analysis. This provides insights into drug MOA and its heterogeneity in patients, drug resistance mechanisms, drug repositioning and drug (combination) discovery, etc. CDS-DB is available at http://cdsdb.ncpsb.org.cn/.


Subject(s)
Antineoplastic Agents , Databases, Genetic , Gene Expression Profiling , Neoplasms , Humans , Antineoplastic Agents/administration & dosage , Antineoplastic Agents/therapeutic use , Neoplasms/drug therapy , Neoplasms/genetics , Transcriptome/genetics , Tumor Microenvironment , Dose-Response Relationship, Drug , Drug Resistance, Neoplasm/genetics
13.
PLoS Comput Biol ; 19(10): e1011535, 2023 10.
Article in English | MEDLINE | ID: mdl-37851640

ABSTRACT

During the COVID-19 pandemic, control measures, especially massive contact tracing following prompt quarantine and isolation, play an important role in mitigating the disease spread, and quantifying the dynamic contact rate and quarantine rate and estimate their impacts remain challenging. To precisely quantify the intensity of interventions, we develop the mechanism of physics-informed neural network (PINN) to propose the extended transmission-dynamics-informed neural network (TDINN) algorithm by combining scattered observational data with deep learning and epidemic models. The TDINN algorithm can not only avoid assuming the specific rate functions in advance but also make neural networks follow the rules of epidemic systems in the process of learning. We show that the proposed algorithm can fit the multi-source epidemic data in Xi'an, Guangzhou and Yangzhou cities well, and moreover reconstruct the epidemic development trend in Hainan and Xinjiang with incomplete reported data. We inferred the temporal evolution patterns of contact/quarantine rates, selected the best combination from the family of functions to accurately simulate the contact/quarantine time series learned by TDINN algorithm, and consequently reconstructed the epidemic process. The selected rate functions based on the time series inferred by deep learning have epidemiologically reasonable meanings. In addition, the proposed TDINN algorithm has also been verified by COVID-19 epidemic data with multiple waves in Liaoning province and shows good performance. We find the significant fluctuations in estimated contact/quarantine rates, and a feedback loop between the strengthening/relaxation of intervention strategies and the recurrence of the outbreaks. Moreover, the findings show that there is diversity in the shape of the temporal evolution curves of the inferred contact/quarantine rates in the considered regions, which indicates variation in the intensity of control strategies adopted in various regions.


Subject(s)
COVID-19 , Humans , COVID-19/epidemiology , COVID-19/prevention & control , SARS-CoV-2 , Pandemics/prevention & control , Quarantine , Contact Tracing , Neural Networks, Computer
14.
Comput Biol Med ; 165: 107431, 2023 10.
Article in English | MEDLINE | ID: mdl-37696183

ABSTRACT

Since the end of 2019 the COVID-19 repeatedly surges with most countries/territories experiencing multiple waves, and mechanism-based epidemic models played important roles in understanding the transmission mechanism of multiple epidemic waves. However, capturing temporal changes of the transmissibility of COVID-19 during the multiple waves keeps ill-posed problem for traditional mechanism-based epidemic compartment models, because that the transmission rate is usually assumed to be specific piecewise functions and more parameters are added to the model once multiple epidemic waves involved, which poses a huge challenge to parameter estimation. Meanwhile, data-driven deep neural networks fail to discover the driving factors of repeated outbreaks and lack interpretability. In this study, aiming at developing a data-driven method to project time-dependent parameters but also merging the advantage of mechanism-based models, we propose a transmission dynamics informed neural network (TDINN) by encoding the SEIRD compartment model into deep neural networks. We show that the proposed TDINN algorithm performs very well when fitting the COVID-19 epidemic data with multiple waves, where the epidemics in the United States, Italy, South Africa, and Kenya, and several outbreaks the Omicron variant in China are taken as examples. In addition, the numerical simulation shows that the trained TDINN can also perform as a predictive model to capture the future development of COVID-19 epidemic. We find that the transmission rate inferred by the TDINN frequently fluctuates, and a feedback loop between the epidemic shifting and the changes of transmissibility drives the occurrence of multiple waves. We observe a long response delay to the implementation of control interventions in the four countries, while the decline of the transmission rate in the outbreaks in China usually happens once the implementation of control interventions. The further simulation show that 17 days' delay of the response to the implementation of control interventions lead to a roughly four-fold increase in daily reported cases in one epidemic wave in Italy, which suggest that a rapid response to policies that strengthen control interventions can be effective in flattening the epidemic curve or avoiding subsequent epidemic waves. We observe that the transmission rate in the outbreaks in China is already decreasing before enhancing control interventions, providing the evidence that the increasing of the epidemics can drive self-conscious behavioural changes to protect against infections.


Subject(s)
COVID-19 , Humans , COVID-19/epidemiology , SARS-CoV-2 , Neural Networks, Computer , Computer Simulation
15.
Pathol Oncol Res ; 29: 1610956, 2023.
Article in English | MEDLINE | ID: mdl-37006438

ABSTRACT

The growing evidence implies that tumor cells need to increase NAD+ levels by upregulating NAD+ biosynthesis to satisfy their growth demand. NAD+ biosynthesis metabolism is implicated in tumor progression. Breast cancer (BC) is the most common malignant malignancy in the world. Nevertheless, the prognostic significance of NAD+ biosynthesis and its relationship with the tumor immune microenvironment in breast cancer still need further investigation. In this study, we obtained the mRNA expression data and clinical information of BC samples from public databases and calculated the level of NAD+ biosynthesis activity by single-sample gene set enrichment analysis (ssGSEA). We then explored the relationship between the NAD+ biosynthesis score, infiltrating immune cells, prognosis significance, immunogenicity and immune checkpoint molecules. The results demonstrated that patients with high NAD+ biosynthetic score displayed poor prognosis, high immune infiltration, high immunogenicity, elevated PD-L1 expression, and might more benefit from immunotherapy. Taken together, our studies not only deepened the understanding of NAD+ biosynthesis metabolism of breast cancer but also provided new insights into personalized treatment strategies and immunological therapies to improve the outcomes of breast cancer patients.


Subject(s)
Breast Neoplasms , Humans , Female , NAD , Prognosis , Databases, Factual , Immune Checkpoint Proteins , Tumor Microenvironment
16.
Adv Mater ; 35(46): e2211915, 2023 Nov.
Article in English | MEDLINE | ID: mdl-36920232

ABSTRACT

Unprecedented advances in metal nanoparticle synthesis have paved the way for broad applications in sensing, imaging, catalysis, diagnosis, and therapy by tuning the optical properties, enhancing catalytic performance, and improving chemical and biological properties of metal nanoparticles. The central guiding concept for regulating the size and morphology of metal nanoparticles is identified as the precise manipulation of nucleation and subsequent growth, often known as seed-mediated growth methods. However, since the growth process is sensitive not only to the metal seeds but also to capping agents, metal precursors, growth solution, growth/incubation time, reductants, and other influencing factors, the precise control of metal nanoparticle morphology is multifactorial. Further, multiple reaction parameters are entangled with each other, so it is necessary to clarify the mechanism by which each factor precisely regulates the morphology of metal nanoparticles. In this review, to exploit the generality and extendibility of metal nanoparticle synthesis, the mechanisms of growth influencing factors in seed-mediated growth methods are systematically summarized. Second, a variety of critical properties and applications enabled by grown metal nanoparticles are focused upon. Finally, the current progress and offer insights on the challenges, opportunities, and future directions for the growth and applications of grown metal nanoparticles are reviewed.

17.
BMC Infect Dis ; 23(1): 148, 2023 Mar 10.
Article in English | MEDLINE | ID: mdl-36899314

ABSTRACT

BACKGROUND: Diagnostics for pulmonary tuberculosis (PTB) are usually inaccurate, expensive, or complicated. The breathomics-based method may be an attractive option for fast and noninvasive PTB detection. METHOD: Exhaled breath samples were collected from 518 PTB patients and 887 controls and tested on the real-time high-pressure photon ionization time-of-flight mass spectrometer. Machine learning algorithms were employed for breathomics analysis and PTB detection mode, whose performance was evaluated in 430 blinded clinical patients. RESULTS: The breathomics-based PTB detection model achieved an accuracy of 92.6%, a sensitivity of 91.7%, a specificity of 93.0%, and an AUC of 0.975 in the blinded test set (n = 430). Age, sex, and anti-tuberculosis treatment does not significantly impact PTB detection performance. In distinguishing PTB from other pulmonary diseases (n = 182), the VOC modes also achieve good performance with an accuracy of 91.2%, a sensitivity of 91.7%, a specificity of 88.0%, and an AUC of 0.961. CONCLUSIONS: The simple and noninvasive breathomics-based PTB detection method was demonstrated with high sensitivity and specificity, potentially valuable for clinical PTB screening and diagnosis.


Subject(s)
Lung Diseases , Tuberculosis, Pulmonary , Humans , Cross-Sectional Studies , Tuberculosis, Pulmonary/diagnosis , Algorithms , Machine Learning
18.
Adv Mater ; 35(23): e2302335, 2023 Jun.
Article in English | MEDLINE | ID: mdl-36995655

ABSTRACT

High-entropy alloys nanoparticles (HEANPs) are receiving extensive attention due to their broad compositional tunability and unlimited potential in bioapplication. However, developing new methods to prepare ultra-small high-entropy alloy nanoparticles (US-HEANPs) faces severe challenges owing to their intrinsic thermodynamic instability. Furthermore, there are few reports on studying the effect of HEANPs in tumor therapy. Herein, the fabricated PtPdRuRhIr US-HEANPs act as bifunctional nanoplatforms for the highly efficient treatment of tumors. The US-HEANPs are engineered by the universal metal-ligand cross-linking strategy. This simple and scalable strategy is based on the aldol condensation of organometallics to form the target US-HEANPs. The synthesized US-HEANPs exhibit excellent peroxidase-like (POD-like) activity and can catalyze the endogenous hydrogen peroxide to produce highly toxic hydroxyl radicals. Furthermore, the US-HEANPs possess a high photothermal conversion effect for converting 808 nm near-infrared light into heat energy. In vivo and in vitro experiments demonstrated that under the synergistic effect of POD-like activity and photothermal action, the US-HEANPs can effectively ablate cancer cells and treat tumors. It is believed that this work not only provides a new perspective for the fabrication of HEANPs, but also opens the high-entropy nanozymes research direction and their biomedical application.


Subject(s)
Nanoparticles , Neoplasms , Humans , Photothermal Therapy , Alloys , Entropy , Neoplasms/drug therapy , Cell Line, Tumor , Hydrogen Peroxide , Tumor Microenvironment
19.
Anal Chem ; 95(14): 6130-6137, 2023 04 11.
Article in English | MEDLINE | ID: mdl-37002208

ABSTRACT

The localized surface plasmon resonance (LSPR) property, depending on the structure (morphology and assembly) of nanoparticles, is very sensitive to the environmental fluctuation. Retaining the colorimetric effect derived from the LSPR property while introducing new optical properties (such as fluorescence) that provide supplementary information is an effective means to improve the controllability in structures and reproducibility in optical properties. DNA as a green and low-cost etching agent has been demonstrated to effectively control the morphology and optical properties (the blue shift of the LSPR peak) of the plasmonic nanoparticles. Herein, taking silver nanotriangles (AgNTs) as a proof of concept, we report a novel strategy to induce precisely tunable LSPR and fluorescence-composited dual-mode signals by using mono-DNA first as an etching agent for etching the morphology of AgNTs and later as a template for synthesizing fluorescent silver nanoclusters (AgNCs). In addition, common templates for synthesizing AgNCs, such as l-glutathione and bovine serum albumin, were demonstrated to have the capability to serve as etching agents. More importantly, these biomolecules as dual-functional capping agents (etching agents and templates) follow the size-dependent rule: as the size of the thiolated biomolecule increases, the blue shift of the LSPR peak increases; at the same time, the fluorescence intensity increases. The enzyme that can change the molecular weight (size) of the biomolecular substrates (DNA, peptides, and proteins) through an enzymatic cleavage reaction was explored to regulate the LSPR and fluorescent properties of the resulting nanoparticles (by etching of AgNTs and synthesis of AgNCs), achieving excellent performance in detection of cancer-related proteases. This study can be expanded to other biopolymers to impact both fundamental nanoscience and applications and provide powerful new tools for bioanalytical biosensors and nanomedicine.


Subject(s)
Biosensing Techniques , Metal Nanoparticles , Silver/chemistry , Reproducibility of Results , Metal Nanoparticles/chemistry , Biosensing Techniques/methods , DNA/chemistry , Serum Albumin, Bovine
20.
Bioresour Technol ; 374: 128766, 2023 Apr.
Article in English | MEDLINE | ID: mdl-36813051

ABSTRACT

This study investigated the biological nitrogen removal mechanisms during the anaerobic digestion of swine manure and the effects of biogas circulation and activated carbon (AC) addition. Biogas circulation, AC addition, and their combination increased the methane yield by 25.9%, 22.3%, and 44.1%, respectively, when compared to the control. Nitrogen species analysis and metagenomic results indicated that nitrification-denitrification was the dominant ammonia removal pathway in all digesters with little oxygen, while anammox did not occur. Biogas circulation could promote mass transfer and induce air infiltration to enrich nitrification- and denitrification-related bacteria and functional genes. And AC might act as an electron shuttle to facilitate ammonia removal. The combined strategies showed a synergetic effect on the enrichment of nitrification and denitrification bacteria and functional genes, significantly lowering the total ammonia nitrogen by 23.6%. A single digester with biogas circulation and AC addition could enhance methanogenesis and ammonia removal via nitrification and denitrification.


Subject(s)
Ammonia , Denitrification , Animals , Swine , Ammonia/metabolism , Manure , Biofuels , Charcoal , Anaerobiosis , Nitrogen/metabolism , Oxidation-Reduction , Bioreactors/microbiology , Nitrification , Bacteria/genetics , Bacteria/metabolism
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