Nucleosides, Nucleotides & Nucleic Acids最新文献

Deciphering the structural dynamics of Argonaute (AGO)-mediated gene silencing of miR-21-5p, miR-221-3p, miR-126-3p, miR-34a-5p and their role as potential biomarkers in lung cancer. 破译Argonaute （AGO）介导的miR-21-5p、miR-221-3p、miR-126-3p、miR-34a-5p基因沉默的结构动力学及其作为肺癌潜在生物标志物的作用。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-07-24 DOI: 10.1080/15257770.2025.2535749

Anmol Bhatia, Atul Kumar Upadhyay, Siddharth Sharma

{"title":"Deciphering the structural dynamics of Argonaute (AGO)-mediated gene silencing of miR-21-5p, miR-221-3p, miR-126-3p, miR-34a-5p and their role as potential biomarkers in lung cancer.","authors":"Anmol Bhatia, Atul Kumar Upadhyay, Siddharth Sharma","doi":"10.1080/15257770.2025.2535749","DOIUrl":"https://doi.org/10.1080/15257770.2025.2535749","url":null,"abstract":"Lung Cancer is the leading cause of cancer-related deaths worldwide, with over 85% of the cases being of non-small cell lung cancer. Despite the recent advances, lung cancer remains undiagnosed until after the disease has advanced. The role of miRNAs in gene silencing is driven by RNA-induced silencing complex (RISC) consisting of Argonaute (AGO) protein. Understanding the miRNA-assisted gene regulation in lung cancer poses a prospect for an improved diagnostic and preventive measure towards the disease. This study explores miRNA interactions and their target genes in lung cancer, identifying four key miRNAs: miR-21-5p, miR-221-3p, miR-126-3p, and miR-34a-5p. These were shortlisted through their minimum free energy score, pattern conservation, functional, and network analysis. The AGO protein was retrieved, prepared for docking analysis with miRNA-mRNA duplexes, and docked using the HDOCK webserver. The docking results pointed towards the strong binding affinity of the miRNAs towards their targets and the AGO protein playing a crucial role as a driving force for gene expression. Furthermore, the miRNAs were established for their clinical relevance, particularly noting the association of high miR-21-5p expression with poor overall survival, suggesting potential avenues for further molecular investigation in lung cancer development.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-34"},"PeriodicalIF":1.1,"publicationDate":"2025-07-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144699052","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

miR-766-3p promotes non-small cell lung cancer development through suppression of NR3C2. miR-766-3p通过抑制NR3C2促进非小细胞肺癌的发展。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-07-20 DOI: 10.1080/15257770.2025.2533391

Xuexi Zhang, Lei Cao, Gang Zhang

{"title":"miR-766-3p promotes non-small cell lung cancer development through suppression of NR3C2.","authors":"Xuexi Zhang, Lei Cao, Gang Zhang","doi":"10.1080/15257770.2025.2533391","DOIUrl":"https://doi.org/10.1080/15257770.2025.2533391","url":null,"abstract":"The incidence of non-small cell lung cancer (NSCLC) has exhibited an elevated trend yearly, seriously threatening human health. However, its molecular mechanism is still unknown. The objective of this experiment was to investigate the expression and prognostic value of miR-766-3p in the tissues of NSCLC patients, as well as to provide possible targets for the healing of NSCLC. In this study, miR-766-3p and nuclear receptor subfamily 3 group C member 2 (NR3C2) were detected in tissues of NSCLC patients using reverse transcription quantitative real-time polymerase chain reaction (RT-qPCR). Survival analysis was estimated with Kaplan-Meier and Cox proportional hazards model. In vitro experiments included Cell Counting Kit-8 (CCK-8) viability assay, flow cytometry for apoptosis, Transwell assay for migration and invasion, and luciferase reporter assay for target genes. miR-766-3p levels were clearly elevated in tumor tissues, and high miR-766-3p levels were considered to be a poor prognostic factor. NR3C2 was clearly down-regulated in the serum of NSCLC patients. miR-766-3p overexpression stimulated the proliferation and enhanced metastatic spread of lung cancer cells, whereas down-regulation of NR3C2 reversed the effect of miR-766-3p on cellular activity. miR-766-3p promotes NSCLC development by inhibiting NR3C2 levels and is a potential biomarker. Furthermore, high levels of miR-766-3p are likely to predict poor prognosis in NSCLC.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-11"},"PeriodicalIF":1.1,"publicationDate":"2025-07-20","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144668103","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The construction and analysis of a prognostic model based on CD8⁺ T cell immune-related genes in hepatocellular carcinoma. 基于CD8+ T细胞免疫相关基因的肝癌预后模型的构建与分析。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-07-18 DOI: 10.1080/15257770.2025.2531134

Zechang Zhang, Yuanyuan Yang, Yujia Zhang, Jing Wang, Huaifang Cai, Lei Yang, Wenxuan Liu

{"title":"The construction and analysis of a prognostic model based on CD8+ T cell immune-related genes in hepatocellular carcinoma.","authors":"Zechang Zhang, Yuanyuan Yang, Yujia Zhang, Jing Wang, Huaifang Cai, Lei Yang, Wenxuan Liu","doi":"10.1080/15257770.2025.2531134","DOIUrl":"https://doi.org/10.1080/15257770.2025.2531134","url":null,"abstract":"The effector functions of CD8+ T cell significantly influence the immunosuppressive microenvironment in hepatocellular carcinoma (HCC), which is intricately associated with HCC prognosis. Nevertheless, a comprehensive investigation into the relationship between CD8+ T cell immune-related genes and HCC prognosis remains lacking. This study aimed to construct a prognostic model for HCC using CD8+ T cell immune-related genes to provide insights for clinical management and prognosis. A prognostic model was constructed by incorporating 16 CD8+ T cell-specific immune-related genes, yielding area under the curve (AUC) values of 0.821, 0.796, and 0.784 for the prediction of 1-year, 3-year, and 5-year survival, respectively, via receiver operating characteristic (ROC) curve analysis. The qRT-PCR results showed that the mRNA levels of PTMA, RAC1, HSPD1, HSP90AA1, and TANK were significantly higher in HCC cells compared to normal cells (p < 0.05). Further analysis focused on the TANK gene, which was significantly upregulated in HCC tissues (p < 0.05). The CCK-8 and wound healing assays revealed a significant decrease in both the cell proliferation rate and wound-healing rate in the TANK-deficient group compared with the control group (p < 0.05). These findings may offer new insights into the clinical treatment and prognostic evaluation of HCC.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-22"},"PeriodicalIF":1.1,"publicationDate":"2025-07-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144659731","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Effect of single strand breaks on the formation of DNA interstrand crosslinks induced by the major oxidative adenine lesion 7,8-dihydro-8-oxoadenine. 单链断裂对主要氧化腺嘌呤损伤诱导的DNA链间交联形成的影响7,8-二氢-8-氧腺嘌呤。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-07-12 DOI: 10.1080/15257770.2025.2529353

Aaron L Rozelle, Louis B Zhang, Seongmin Lee

{"title":"Effect of single strand breaks on the formation of DNA interstrand crosslinks induced by the major oxidative adenine lesion 7,8-dihydro-8-oxoadenine.","authors":"Aaron L Rozelle, Louis B Zhang, Seongmin Lee","doi":"10.1080/15257770.2025.2529353","DOIUrl":"https://doi.org/10.1080/15257770.2025.2529353","url":null,"abstract":"The major oxidative adenine lesion, 7,8-dihydro-8-oxoadenine (oxoA), can readily undergo further oxidation to generate the highly genotoxic DNA interstrand cross-links (ICLs). Herein we report that the presence of single-strand breaks (SSBs), the major lesion formed at sites of oxidative stress, in the form of a nick or single-nucleotide gap in the phosphodiester backbone of duplex DNA significantly increases the cross-linking yield of oxoA with all canonical nucleotides (up to 67.5%) upon oxidation. The cross-linking reaction occurs between the purine/pyrimidine moiety of a nucleotide on the complementary strand of the duplex and the oxoA modification on the template strand, which was confirmed by the experiment involving the use of 2',3'-dideoxycytosine. Interestingly, the minor cross-linking products in intact DNA saw a more significant increase in reactivity relative to the major oxoA-G ICL. SSBs in the form of a gap or nick between the reacting nucleotide and thymine residue base paired to oxoA produced the most significant increase in yield.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-19"},"PeriodicalIF":1.1,"publicationDate":"2025-07-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144619448","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Association of CpG site of MTHFR gene promoter and type 2 diabetes in Moroccan population susceptibility. 摩洛哥人群MTHFR基因启动子CpG位点与2型糖尿病易感性的关系

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-07-10 DOI: 10.1080/15257770.2025.2532089

Houda El Alami, Meryem Bouqdayr, Khaoula Errafii, Nouha Messaoudi, Sofia Sehli, Najib Al Idrissi, Omar Abidi, Wajih Rhalem, Naima Khlil, Hassan Ghazal, Salsabil Hamdi

{"title":"Association of CpG site of MTHFR gene promoter and type 2 diabetes in Moroccan population susceptibility.","authors":"Houda El Alami, Meryem Bouqdayr, Khaoula Errafii, Nouha Messaoudi, Sofia Sehli, Najib Al Idrissi, Omar Abidi, Wajih Rhalem, Naima Khlil, Hassan Ghazal, Salsabil Hamdi","doi":"10.1080/15257770.2025.2532089","DOIUrl":"https://doi.org/10.1080/15257770.2025.2532089","url":null,"abstract":"Type 2 diabetes (T2D) is a complex multifactorial metabolic disorder characterized by progressive disease progression, involving varying degrees of insulin resistance and pancreatic islet dysfunction. Methylenetetrahydrofolate reductase (MTHFR) is a crucial enzyme regulating folate metabolism, and its polymorphisms have been associated with T2D. However, the methylation pattern of the MTHFR gene has not been previously studied. This study aimed to assess the association between T2D and the methylation profile of the MTHFR gene promotor in a Moroccan population. A total of 107 patients with T2D and 100 healthy controls were included in the study. The methylation status of CpG sites in the MTHFR gene promoter was conducted by methylation-specific PCR (MS-PCR). Statistical analyses were performed using SPSS software (version 20). The promoter region of the MTHFR gene was predominantly hyper-methylated in patients with T2D compared to healthy controls (OR: 2.924; 95% CI: 1.285-6.650; p = 0.008). The hypermethylated profile was not influenced by environmental or metabolic factors examined in this study. These findings suggest that hypermethylation of CpG sites in the MTHFR gene promoter is associated with T2D in the Moroccan population, highlighting a potential epigenetic mechanism contributing to the disease.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-14"},"PeriodicalIF":1.1,"publicationDate":"2025-07-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144608931","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

MiR-320a expression shows correlation with viral load in EBV-negative Burkitt lymphoma samples. 在ebv阴性伯基特淋巴瘤样本中，MiR-320a的表达与病毒载量相关。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-07-03 DOI: 10.1080/15257770.2025.2527141

Mevsim Saydam, Sercan Ergün, Ayhan Dağdemir, İbrahim Kartal, Oğuz Salih Dinçer, Seda Gün, Özlem Terzi

{"title":"MiR-320a expression shows correlation with viral load in EBV-negative Burkitt lymphoma samples.","authors":"Mevsim Saydam, Sercan Ergün, Ayhan Dağdemir, İbrahim Kartal, Oğuz Salih Dinçer, Seda Gün, Özlem Terzi","doi":"10.1080/15257770.2025.2527141","DOIUrl":"https://doi.org/10.1080/15257770.2025.2527141","url":null,"abstract":"The Epstein-Barr virus (EBV) infection status varies among BL subtypes. There are unresolved questions regarding the contribution of EBV, which is strongly associated with Burkitt lymphoma, to BL pathogenesis. Differences between EBV-positive and EBV-negative BL have been previously reported. A long-debated and studied topic is the differing origins of EBV-positive and EBV-negative BL cells. Studies have suggested that miRNAs, which are post-transcriptional elements involved in many pathways, play a role in this process. In our study, in silico analyses and a literature review were used to identify miRNAs potentially involved in lymphoma and B lymphocyte development pathways. Three miRNAs (miR-182, miR-320a, miR-144) targeting the BLIMP1 and XBP1 genes, which act as regulators in B lymphocyte development, and associated with lymphoma were identified. Paraffin-embedded tissue samples from 28 patients diagnosed with BL were included in the study. Real-Time PCR analysis of the BamHI-W and ApoB regions classified the samples into EBV-positive and EBV-negative groups. Expression analysis of the selected three miRNAs was performed using Real-Time PCR. Expression of miR-320a was observed in all samples, and a positive correlation was found between miR-320a expression and the viral load in the EBV-negative group. This study aimed to gain insights into the role of EBV in BL pathogenesis and has demonstrated the potential role of miR-320a. In conclusion, our study demonstrates that specific miRNAs are significantly associated with EBV in Burkitt lymphoma. These findings highlight the potential of targeting these miRNAs for therapeutic interventions and suggest further research into their mechanisms of action.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-18"},"PeriodicalIF":1.1,"publicationDate":"2025-07-03","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144560624","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Boronic acid-modified nucleoside - synthesis and structural characterisation in the solid state. 硼酸修饰核苷的合成及固态结构表征。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-06-28 DOI: 10.1080/15257770.2025.2512848

Tabea Lenz, Marian Hebenbrock

引用次数: 0

LINC00365 serves as a prognostic biomarker for thyroid cancer and regulates cell proliferation, migration and invasion by targeting miR-485-5p. LINC00365作为甲状腺癌的预后生物标志物，通过靶向miR-485-5p调控细胞增殖、迁移和侵袭。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-06-26 DOI: 10.1080/15257770.2025.2522350

Henghua Xiao, Manlong Long, Jun Yang, Qiong Luo, Lingli Hu, Fang Chen

{"title":"LINC00365 serves as a prognostic biomarker for thyroid cancer and regulates cell proliferation, migration and invasion by targeting miR-485-5p.","authors":"Henghua Xiao, Manlong Long, Jun Yang, Qiong Luo, Lingli Hu, Fang Chen","doi":"10.1080/15257770.2025.2522350","DOIUrl":"https://doi.org/10.1080/15257770.2025.2522350","url":null,"abstract":"Thyroid cancer (TC) is the most prevalent form of malignancy within the endocrine system globally, and its incidence has been increasing significantly in recent years. The aim of this study was to explore the clinical role of LINC00365 in TC, and to analyze the regulatory mechanism between LINC00365 and miR-485-5p and its specific impact on TC. This study included 135 TC patients. The levels of LINC00365 in TC tissues and cells were detected by RT-qPCR. The impact of LINC00365 on TC prognosis was investigated using Kaplan-Meier curve and multivariate Cox regression analysis. Furthermore, the impact of LINC00365 on TC cell proliferation was examined via CCK-8 assay, while transwell assays were utilized to evaluate changes in migration and invasion capabilities. The regulatory interaction between LINC00365 and miR-485-5p was confirmed through dual-luciferase reporter assay. The expression of LINC00365 was upregulated in TC tissues and cells, and its high expression was closely related to the poor prognosis of TC patients. Kaplan-Meier curve revealed a notable correlation between elevated LINC00365 expression levels and reduced survival outcomes and multivariate Cox regression analysis revealed that elevated LINC00365 expression levels served as an independent prognostic indicator, significantly associated with adverse clinical outcomes in TC patients. In addition, LINC00365 negatively regulated the expression level of miR-485-5p. Inhibiting LINC00365 may suppress the proliferation, migration and invasion abilities of TC cells. LINC00365 may be a potential prognostic indicator for TC, and LINC00365 may promote tumor growth and metastasis of TC by inhibiting miR-485-5p expression.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-14"},"PeriodicalIF":1.1,"publicationDate":"2025-06-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144497558","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Spectral analysis of protonated and deprotonated form of ribonucleotides and their components at room temperature. 室温下核糖核苷酸的质子化和去质子化形式及其组分的光谱分析。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-06-26 DOI: 10.1080/15257770.2025.2521555

Mykhailo Dotsenko, Roman Nikolaiev, Zenovii Tkachuk

引用次数: 0

Aptamer-directed siRNA delivery systems for triple-negative breast cancer therapy. 适配体定向siRNA递送系统用于三阴性乳腺癌治疗。

IF 1.1 4区生物学

Nucleosides, Nucleotides & Nucleic Acids Pub Date : 2025-06-26 DOI: 10.1080/15257770.2025.2524468

Dilpreet Singh, Satvir Singh, Nitin Tandon

{"title":"Aptamer-directed siRNA delivery systems for triple-negative breast cancer therapy.","authors":"Dilpreet Singh, Satvir Singh, Nitin Tandon","doi":"10.1080/15257770.2025.2524468","DOIUrl":"https://doi.org/10.1080/15257770.2025.2524468","url":null,"abstract":"Triple-negative breast cancer (TNBC) is an aggressive subtype of breast cancer characterized by the absence of estrogen, progesterone, and HER2 receptors, making it unresponsive to targeted hormonal and HER2-based therapies. Current treatment options, including chemotherapy and radiation, have limited efficacy and are associated with severe side effects, emphasizing the need for innovative therapeutic strategies. Aptamer-siRNA conjugates have emerged as a promising gene-silencing approach, leveraging the high specificity of nucleic acid aptamers to selectively deliver short interfering RNA (siRNA) to TNBC cells. Aptamers, single-stranded DNA or RNA molecules generated via SELEX, exhibit nanomolar-range binding affinities (Kd ∼0.5-2.5 nM) for TNBC biomarkers such as EGFR, EpCAM, nucleolin, and MUC1, enabling receptor-mediated internalization of siRNA. Preclinical studies have demonstrated that aptamer-siRNA conjugates enhance cellular uptake by 5-10-fold, improve gene silencing efficiency (80-95%), and extend siRNA stability in circulation (from <2 h to 6-9 h). In xenograft models, aptamer-siRNA therapies have shown tumor volume reductions of 60-85%, outperforming non-targeted siRNA and chemotherapy. However, challenges such as nuclease degradation, immune responses, endosomal escape, and large-scale production remain significant hurdles to clinical translation. Recent advances in chemical modifications, lipid-based carriers, and artificial intelligence-driven aptamer design are addressing these limitations, paving the way for personalized, precision RNAi-based therapeutics. This review explores the mechanisms, recent advancements, challenges, and future directions of aptamer-siRNA therapeutics, providing a comprehensive analysis of their potential to revolutionize TNBC treatment by offering targeted, effective, and less toxic gene-silencing approaches.","PeriodicalId":19343,"journal":{"name":"Nucleosides, Nucleotides & Nucleic Acids","volume":" ","pages":"1-19"},"PeriodicalIF":1.1,"publicationDate":"2025-06-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144497557","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":4,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0