Relationship between TNF-<alpha> Gene Promoter Polymorphisms and Outcomes of Hepatitis B Virus Infections: A Meta-Analysis

Background: The clearance of hepatitis B virus (HBV) is a complex process which may be influenced by many factors including polymorphisms in the tumor necrosis factor,alpha. (TNF-,alpha.) gene promoter. However, previous reports regarding the relationship between polymorphisms in the TNF-,alpha. promoter and HBV clearance have been inconsistent. Therefore, we performed a meta-analysis on a large population to address this inconsistency. Methods: A meta-analysis was performed to examine the association between TNF-,alpha. promoter polymorphisms (-1031T/C,-863C/A,-857C/T,-308G/A and-238G/A) and chronic hepatitis B infection. Odds ratio (OR) and its 95 % confidence interval (CI) were used. Results: Twelve studies were chosen in our meta-analysis, involving 2,754 chronic HBV infection cases and 1,630 HBV clearance cases. The data showed that TNF-,alpha.-863 CC genotype was significantly associated with HBV clearance (-863 CC vs. AA: OR, 0.64; 95 % CI, [0.42, 0.97]; p = 0.04) while patients carrying-308 GG genotype had a significantly increased risk of HBV persistence compared with those with GA or AA genotype (GG vs. GA+AA: OR, 1.35; 95 % CI, [1.08, 1.70]; p = 0.01). For the other polymorphisms, no association with HBV infection outcome was found. Conclusions: The data showed that polymorphisms-863 A and-308 G in the TNF-,alpha. gene promoter region might be risk factors for HBV persistence. Furthermore, ethnicity might play an important role in HBV infection outcome, leading t

Prognostic value of long non-coding RNA MALAT1 in hepatocellular carcinoma: A study based on multi-omics analysis and RT-PCR validation

Background: This study aimed to explore the relationship between MALAT1 and the prognosis of patients with hepatocellular carcinoma (HCC).Methods: We constructed a MALAT1 protein-protein interaction network using the STRING database and a network of competing endogenous RNAs (ceRNAs) using the StarBase database. Using data from the GEPIA2 database, we studied the association between genes in these networks and survival of patients with HCC. The potential mechanisms underlying the relationship between MALAT1 and HCC prognosis were studied using combined data from RNA sequencing, DNA methylation, and somatic mutation data from The Cancer Genome Atlas (TCGA) liver cancer cohort. Tumor tissues and 19 paired adjacent non-tumor tissues (PANTs) from HCC patients who underwent radical resection were analyzed for MALAT1 mRNA levels using real-time PCR, and associations of MALAT1 expression with clinicopathological features or prognosis of patients were analyzed using log-rank test and Gehan-Breslow-Wilcoxon test.Results: Five interacting proteins and five target genes of MALAT1 in the ceRNA network significantly correlated with poor survival of patients with HCC (p &lt; 0.05). High MALAT1 expression was associated with mutations in two genes leading to poor prognosis and may upregulate some prognostic risk genes through methylation. MALAT1 was significantly co-expressed with various signatures of genes involved in HCC progression, including the cell cycle, DNA damage repair, mismatch repair, homologous recombination, molecular cancer m6A, exosome, ferroptosis, infiltration of lymphocyte (p &lt; 0.05). The expression of MALAT1 was markedly upregulated in HCC tissues compared with PANTs. In Kaplan-Meier analysis, patients with high MALAT1 expression had significantly shorter progression-free survival (PFS) (p = 0.033) and overall survival (OS) (p = 0.023) than those with low MALAT1 expression. Median PFS was 19.2 months for patients with high MALAT1 expression and 52.8 months for patients with low expression, while the corresponding median OS was 40.5 and 78.3 months. In subgroup analysis of patients with vascular invasion, cirrhosis, and HBsAg positive or AFP positive, MALAT1 overexpression was significantly associated with shorter PFS and OS. Models for predicting PFS and OS constructed based on MALAT1 expression and clinicopathological features had moderate predictive power, with areas under the receiver operating characteristic curves of 0.661–0.731. Additionally, MALAT1 expression level was significantly associated with liver cirrhosis, vascular invasion, and tumor capsular infiltration (p &lt; 0.05 for all).Conclusion:MALAT1 is overexpressed in HCC, and higher expression is associated with worse prognosis. MALAT1 mRNA level may serve as a prognostic marker for patients with HCC after hepatectomy

Full-length transcriptome sequencing reveals the molecular mechanism of monoterpene and sesquiterpene biosynthesis in Cinnamomum burmannii

Essential oil of Cinnamomum burmannii is rich in monoterpenes and sesquiterpenes and is widely used in cosmetics and medicines. Knowledge about the enzymes that catalyze the formation of monoterpenes and sesquiterpenes in C. burmannii is insufficient. Therefore, anatomy observation of C. burmannii at the four developmental stages (7 days, CBS1; 14 days, CBS2; 21 days, CBS3, and 28 days, CBS4) were conducted to elucidate the origins of essential oil production. Twelve full-length transcriptomes of C. burmannii leaves at the four stages were generated using Oxford Nanopore Technologies. GC-MS analysis revealed 15 monoterpene and sesquiterpenes dramatically increased from CBS1 to CBS4. A weighted correlation network analysis (WGCNA) in association and differentially expressed genes across four developmental stages were performed. A total of 44 differentially expressed genes (DEGs) were involved in terpenoid syntheses during leaf development. Among them, the DEGs of the mevalonate acid (MVA) pathway were predominantly expressed at CBS1, while those of the 2-C-methyl-D-erythritol 4-phosphate (MEP) pathway showed increased expression from CBS2 to CBS4. Besides, fourteen genes were associated with monoterpene synthesis and nine with sesquiterpene synthesis. Functions of these DEGs were further predicted with regard to gene expression profile and phylogenetic relationship with those characterized in previous studies. In addition, 922 long noncoding RNAs (lncRNAs) were detected, of which twelve were predicted to regulate monoterpene and sesquiterpene biosynthesis. The present study provided new insights the molecular mechanisms of monoterpenoid and sesquiterpenoid syntheses of C. burmannii

Construction and experimental validation of a signature for predicting prognosis and immune infiltration analysis of glioma based on disulfidptosis-related lncRNAs

BackgroundsDisulfidptosis, a newly discovered mechanism of programmed cell death, is believed to have a unique role in elucidating cancer progression and guiding cancer therapy strategies. However, no studies have yet explored this mechanism in glioma.MethodsWe downloaded data on glioma patients from online databases to address this gap. Subsequently, we identified disulfidptosis-related genes from published literature and verified the associated lncRNAs.ResultsThrough univariate, multivariate, and least absolute shrinkage and selection operator (LASSO) regression algorithms analyses, we identified 10 lncRNAs. These were then utilized to construct prognostic prediction models, culminating in a risk-scoring signature. Reliability and validity tests demonstrated that the model effectively discerns glioma patients’ prognosis outcomes. We also analyzed the relationship between the risk score and immune characteristics, and identified several drugs that may be effective for high-risk patients. In vitro experiments revealed that LINC02525 could enhances glioma cells’ migration and invasion capacities. Additionally, knocking down LINC02525 was observed to promote glioma cell disulfidptosis.ConclusionThis study delves into disulfidptosis-related lncRNAs in glioma, offering novel insights into glioma therapeutic strategies

Fabrication of TiN Coatings Deposited on Laser Shock Micro-Textured Substrates for Improving the Interface Adhesion Properties of Coatings

This paper aims to investigate the strengthening mechanism of laser shock peening on the interfacial bonding properties between TiN coatings and TC4 titanium alloy substrates. The different surface textures were induced by LSP on a TC4 titanium alloy substrate. Subsequently, titanium nitride (TiN) coatings were deposited on the surface texture. A scratch test and reciprocating sliding wear assessment were conducted to evaluate the impact of LSP on the interfacial bonding properties and wear performance of the coatings. The experimental results demonstrated that the adhesion of TiN coatings deposited on the surface texture formed by laser shock peening was significantly enhanced. The efficacy of laser shock treatment in reducing wear rates was found to be significantly enhanced in cases of both increased spot overlapping rate and increased laser power density. The surface texture created using laser parameters of 6.43 GW/cm2 and a 50% overlapping rate was found to have the most significant effect on improving the adhesion and anti-wear properties of the coating. The laser shock texture was identified as the main contributor to this improvement, providing a large interfacial contact area and a mechanical bond between the coating and the substrate. This bond inhibited the initiation and propagation of micro-cracks caused by the concentration of internal stress and interfacial stress of the coating

Towards High-Performance Load-Balance Multicast Switch via Erasure Codes

Recent studies on switching fabrics mainly focus on the switching schedule algorithms, which aim at improving the throughput (a key performance metric). However, the delay (another key performance metric) of switching fabrics cannot be well guaranteed. A good switching fabric should be endowed with the properties of high throughput, delay guarantee, low component complexity and high-speed multicast, which are difficult for conventional switching fabrics to achieve. This has fueled great interest in designing a new switching fabric that can support large-scale extension and high-speed multicast. Motivated by this, we reuse the self-routing Boolean concentrator network and embed a model of multicast packet copy separation in front to construct a load-balanced multicast switching fabric (LB-MSF) with delay guarantee. The first phase of LB-MSF is responsible for balancing the incoming traffic into uniform cells while the second phase is in charge of self-routing the cells to their final destinations. In order to improve the throughput, LB-MSF is combined with the merits of erasure codes against packet loss. Experiments and analyses verify that the proposed fabric is able to achieve high-speed multicast switching and suitable for building super large-scale switching fabric in Next Generation Network(NGN) with all the advantages mentioned above. Furthermore, a prototype of the proposed switch is developed on FPGA, and presents excellent performance.National Natural Science Foundation of China [NSFC61179028]; Shenzhen Basic Research Program [JCYJ20140509093817684]SCI(E)[email protected]; [email protected]

Genome-Wide Identification, Evolution, and Expression Analysis of the <i>DIR</i> Gene Family in <i>Schima superba</i>

Schima superba, commonly known as the Chinese guger tree, is highly adaptable and tolerant of poor soil conditions. It is one of the primary species forming the evergreen broad-leaved forests in southern China. Dirigent proteins (DIRs) play crucial roles in the synthesis of plant lignin and lignans, secondary metabolism, and response to adversity stress. However, research on the DIR gene family in S. superba is currently limited. This study identified 24 SsDIR genes, categorizing them into three subfamilies. These genes are unevenly distributed across 13 chromosomes, with 83% being intronless. Collinearity analysis indicated that tandem duplication played a more significant role in the expansion of the gene family compared to segmental duplication. Additionally, we analyzed the expression patterns of SsDIRs in different tissues of S. superba. The SsDIR genes exhibited distinct expression patterns across various tissues, with most being specifically expressed in the roots. Further screening identified SsDIR genes that may regulate drought stress, with many showing differential expression under drought stress conditions. In the promoter regions of SsDIRs, various cis-regulatory elements involved in developmental regulation, hormone response, and stress response were identified, which may be closely related to their diverse regulatory functions. This study will contribute to the further functional identification of SsDIR genes, providing insights into the biosynthetic pathways of lignin and lignans and the mechanisms of plant stress resistance

Flow diagram of identifying potential studies in our meta-analysis.

<p>Flow diagram of identifying potential studies in our meta-analysis.</p