DNA and cell biology最新文献

Genetic Underpinnings of Mitochondrial Cardiomyopathy: A Scoping 2010-2024 Update. 线粒体心肌病的遗传基础：范围2010-2024更新。

DNA and cell biology Pub Date : 2025-07-02 DOI: 10.1089/dna.2025.0089

Insaf Moudian, Joaira Bakkach, Zeineb Zian, Naima Ghailani Nourouti, Amina Barakat, Mohcine Bennani Mechita

引用次数: 0

In Vitro Study of the Damaging Effects of the Fungicide Dithianon on DNA Structure by Spectroscopic Techniques. 用光谱技术研究杀菌剂双硫农对DNA结构的破坏作用。

DNA and cell biology Pub Date : 2025-07-02 DOI: 10.1089/dna.2024.0158

Parvaneh Pakravan

{"title":"In Vitro Study of the Damaging Effects of the Fungicide Dithianon on DNA Structure by Spectroscopic Techniques.","authors":"Parvaneh Pakravan","doi":"10.1089/dna.2024.0158","DOIUrl":"https://doi.org/10.1089/dna.2024.0158","url":null,"abstract":"The common broad-spectrum protectant fungicide known as Dithianon is utilized in agriculture to manage pests; however, it could pose risks to human health. Dithianon may be associated with health problems due to its affinity for DNA. The interaction between Dithianon and calf thymus DNA (CT-DNA) was examined using UV-Vis absorption, fluorescence spectroscopy, and viscosity measurements with Neutral Red (NR) dye as a spectral probe in a physiological buffer. Dithianon, intercalated in DNA (K [DNA-Dithianon]= 2.3 × 105 M-1), causes the displacement of the NR dye from the NR-DNA complex. The binding constants (Kf), the number of binding sites (n ≈ 1), and thermodynamic parameters of the interaction of DNA-Dithianon were determined using the fluorescence quenching method at various temperatures. Dithianon's ability to intercalate in DNA base pairs was further supported by the variations in CT-DNA base stacking observed in circular dichroic spectrum measurements and the rise in viscosity of the CT-DNA solution. The interaction energy between Dithianon and the DNA was primarily due to hydrophobic Van der Waals interactions. This study offers a comprehensive understanding of how dithianon interacts with CT-DNA, providing insights into the toxic effects of the fungicide.","PeriodicalId":93981,"journal":{"name":"DNA and cell biology","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-07-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144546631","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Role of ETS2 in Macrophage Inflammation. ETS2在巨噬细胞炎症中的作用。

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-04-14 DOI: 10.1089/dna.2025.0064

Christina T Stankey, James Christopher Lee

引用次数: 0

STING rs7380824 Polymorphism Contributes to the Susceptibility of Colorectal Cancer in Chinese Population. STING rs7380824多态性与中国人群结直肠癌易感性有关

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-05-07 DOI: 10.1089/dna.2025.0020

Xiufeng Zhang, WenLong Wu, Hongyan Li, Ying Jian, Ang Li, Zhi Zhang, Xuemei Zhang

{"title":"STING rs7380824 Polymorphism Contributes to the Susceptibility of Colorectal Cancer in Chinese Population.","authors":"Xiufeng Zhang, WenLong Wu, Hongyan Li, Ying Jian, Ang Li, Zhi Zhang, Xuemei Zhang","doi":"10.1089/dna.2025.0020","DOIUrl":"10.1089/dna.2025.0020","url":null,"abstract":"STING, an endoplasmic reticulum-localized protein with multiple transmembrane domains, has been implicated in colorectal cancer (CRC) development. This study investigated the association between STING rs7380824 polymorphism and CRC susceptibility using both bioinformatics analysis and a case-control study. Bioinformatics predictions from SIFT and PolyPhen indicated that the rs7380824 variant, which results in an amino acid substitution from arginine (R) to glutamine (Q) at position 293, is likely to be deleterious, with a SIFT score of 0.000 and a PolyPhen score of 0.999. A total of 870 CRC patients and 870 healthy controls were genotyped using polymerase chain reaction-restriction fragment length polymorphism. Logistic regression analysis demonstrated that individuals carrying the CT and TT genotypes had an increased risk of CRC with OR (95% CI) of 1.564 (1.115-2.192) and 1.551 (1.271-1.893), respectively. Stratified analysis showed that the rs7380824 C > T variant increased CRC risk in all age and gender groups. Furthermore, non-smokers with the CT or TT genotype had a higher CRC risk (OR = 1.661, 95% CI: 1.333-2.071, p < 0.001), while no significant association was observed among smokers (p = 0.238). Similarly, non-drinkers carrying the CT or TT genotype showed an increased CRC risk (OR = 1.746, 95% CI: 1.395-2.185, p < 0.001), whereas no significant difference was detected among drinkers (p = 0.265). This study identifies STING rs7380824 polymorphism as a significant contributor to CRC susceptibility, with bioinformatics predictions and case-control analysis confirming its deleterious impact and the association with increased CRC risk. In addition, these findings underscore the interplay between genetic and environmental factors in CRC development, highlighting STING's potential as a genetic biomarker for CRC risk assessment in the Chinese population.","PeriodicalId":93981,"journal":{"name":"DNA and cell biology","volume":" ","pages":"380-388"},"PeriodicalIF":0.0,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144050373","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Active Ingredients of Herbs Targeting Long Noncoding RNA: A Potential Alternative to Treat Parenchymal Organ Inflammation and Fibrosis in the Future. 靶向长链非编码RNA的草药活性成分：未来治疗实质器官炎症和纤维化的潜在选择。

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-05-29 DOI: 10.1089/dna.2025.0058

Min Zhou, Biyu Tan, Jian Liu, Qiong Zhang, Li Wang, Qiongdan Hu

引用次数: 0

Modulation of Cuproptosis Pathway Genes (DLAT, FDX1) and Antioxidant Enzyme Activities in Obese Mice in Response to Quercetin and Calorie Restriction. 槲皮素和热量限制对肥胖小鼠铜化途径基因（DLAT, FDX1）和抗氧化酶活性的影响

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-05-12 DOI: 10.1089/dna.2025.0005

Nima Mahdei Nasirmahalleh, Mina Hemmati, Negin Parsamanesh, Mohammad Borji

{"title":"Modulation of Cuproptosis Pathway Genes (DLAT, FDX1) and Antioxidant Enzyme Activities in Obese Mice in Response to Quercetin and Calorie Restriction.","authors":"Nima Mahdei Nasirmahalleh, Mina Hemmati, Negin Parsamanesh, Mohammad Borji","doi":"10.1089/dna.2025.0005","DOIUrl":"10.1089/dna.2025.0005","url":null,"abstract":"Cuproptosis is a new mode of cell death that is closely related to mitochondrial stress. The purpose of this study is to investigate the amount of copper, copper-associated genes DLAT and FDX1 oxidative stress (OS) status in obesity. Since there is a close relationship between OS and cuproptosis, evaluating the effect of various strategies to reduce OS, including quercetin (QUER) and caloric restriction (CR), is another goal of this study. In this study, 30 male BALB-C mice aged 8 weeks and weighing 25 g, including the groups receiving normal diet (ND), ND with QUER (15 mg/kg, IP) and CR, a high-fat diet (HFD) with the QUER, CR or a combination of both were used. The activities of antioxidant enzymes superoxide dismutase (SOD), glutathione peroxidase (GPX), and glutathione reductase (GR), amount of copper in the liver and kidney tissues, and expression of DLAT and FDX1 genes were measured in all studied groups. The amount of copper in the liver and kidney tissue as well as the expression of FDX1 and DLAT in the HFD group increased significantly compared with the ND group. QUER, CR or their combination could significantly reduce the amount of copper as well as the expression of FDX1 and DLAT in liver and kidney tissues. QUER and CR, also significantly increased the activity of GR, SOD and GPX in serum, liver, and kidney tissues. Based on the results, QUER, CR and especially the simultaneous use of both, was able to reduce the amount of copper and its related cuproptosis. These effects may reduce cuproptosis-associated cell death. Therefore, the use of antioxidants and CR may be a promising solution to protect the human body against the effects of cuproptosis in conditions like obesity.","PeriodicalId":93981,"journal":{"name":"DNA and cell biology","volume":" ","pages":"370-379"},"PeriodicalIF":0.0,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144033026","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

The Solute Carrier Family 47 Member 1, Transcriptionally Regulated by GATA Binding Protein 6, Inhibits Ferroptosis in Gastric Cancer. GATA结合蛋白6转录调控的溶质载体家族47成员1抑制胃癌铁下垂

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-04-28 DOI: 10.1089/dna.2025.0015

Chang'e Shi, Hezhong Yan, Qihong Zhao, Zhengli Dou, Dejie Kong, Wensheng Wang

{"title":"The Solute Carrier Family 47 Member 1, Transcriptionally Regulated by GATA Binding Protein 6, Inhibits Ferroptosis in Gastric Cancer.","authors":"Chang'e Shi, Hezhong Yan, Qihong Zhao, Zhengli Dou, Dejie Kong, Wensheng Wang","doi":"10.1089/dna.2025.0015","DOIUrl":"10.1089/dna.2025.0015","url":null,"abstract":"Gastric cancer (GC) remains the leading cause of cancer deaths worldwide. GC development is a multistep and multifactorial process, and the molecular characterization of the multistage progression of gastric lesions to GC is poorly understood. Induction of ferroptosis driven by iron-dependent phospholipid peroxidation ameliorates the malignant progression of GC. Here, we found that solute carrier family 47 member 1 (SLC47A1) promoted GC progression by regulating ferroptosis. Clinically, SLC47A1 was elevated during the progression of gastritis to GC, and its high expression was associated with poor prognosis in patients with GC. Knockdown of SLC47A1 significantly inhibited cell proliferation, colony formation, and tumor growth. Further studies revealed that SLC47A1 was a regulator of ferroptosis rather than apoptosis or necrosis. Knockdown of SLC47A1 promoted ferroptosis in GC cells, as evidenced by increased erastin-induced cytoplasmic membrane rupture, cell death, lipid peroxidation, and malondialdehyde levels. Mechanistically, GATA6 promoted SLC47A1 transcription, leading to elevated SLC47A1 expression and promoting ferroptosis in GC cells. In summary, our study revealed the significant role of SLC47A1 in the development and progression of GC through regulating ferroptosis. Targeting the GATA6/SLC47A1 axis may be a promising therapeutic strategy for GC.","PeriodicalId":93981,"journal":{"name":"DNA and cell biology","volume":" ","pages":"360-369"},"PeriodicalIF":0.0,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144047215","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Chromatin Shearing in Suspension Cell Line: A Guide for Optimization. 悬浮细胞系染色质剪切：优化指南。

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-05-05 DOI: 10.1089/dna.2024.0284

Ambika Chamoli, Priyanka Patel Vatsa, Vinal Upadhyay, Amit Mandoli

{"title":"Chromatin Shearing in Suspension Cell Line: A Guide for Optimization.","authors":"Ambika Chamoli, Priyanka Patel Vatsa, Vinal Upadhyay, Amit Mandoli","doi":"10.1089/dna.2024.0284","DOIUrl":"10.1089/dna.2024.0284","url":null,"abstract":"Chromatin immunoprecipitation (ChIP) assesses DNA-proteins interactions and hence helps to generate intricate relationships and vital information. ChIP determines the genomic location of specific proteins or post-translational modifications at an individual locus or genome-wide. The protocol endures complexity; hence it is of utmost importance to identify the variable responsible for experimental erraticism. The most sensitive and critical step involves the chromatin fragmentation step. In the current study, the parameters required for chromatin shearing in the Kasumi-1 cell line have been optimized. To address this, the protocol includes the fixation of cells with formaldehyde followed by cell lysis and nuclei isolation. Further chromatin shearing using various sonication buffers and sonicator parameters was performed. Successful sonication was observed at the following settings: peak incident power of 150 W, duty factor 7.0%, cycles per burst 200, and water fill level 8 generating fragments of ∼250-600 bp in 7 min. To analyze enriched DNA sequences that are associated with the target protein ChIP coupled with quantitative PCR was performed. With this study, the optimal procedure has been standardized for a percentage of detergents, SDS (0.15%), DOC (0.05%) in the sonication buffer, and duration of sonication to achieve the desired fragmentation pattern. The quality of shearing determines the success of the experiment.","PeriodicalId":93981,"journal":{"name":"DNA and cell biology","volume":" ","pages":"389-398"},"PeriodicalIF":0.0,"publicationDate":"2025-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144047213","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0

Corrigendum to "Association Between MUC13 Gene Polymorphisms and Exacerbations of Asthma Under the Influence of Cigarette Smoking". “MUC13基因多态性与吸烟影响下哮喘恶化之间的关系”的勘误表。

DNA and cell biology Pub Date : 2025-07-01 Epub Date: 2025-07-02 DOI: 10.1089/dna.2024.0268.correx

引用次数: 0

Mapping Cophosphoregulation Networks Linked to Transcriptional Regulator Bromodomain-Containing Protein 4. 定位与转录调控因子含溴域蛋白4相关的磷调控网络。

DNA and cell biology Pub Date : 2025-06-12 DOI: 10.1089/dna.2025.0088

Anjana C Lalu, Fathimathul Lubaba, Athira Perunelly Gopalakrishnan, Althaf Mahin, Suhail Subair, Prathik Basthikoppa Shivamurthy, Athira C Rajeev, Rajesh Raju

{"title":"Mapping Cophosphoregulation Networks Linked to Transcriptional Regulator Bromodomain-Containing Protein 4.","authors":"Anjana C Lalu, Fathimathul Lubaba, Athira Perunelly Gopalakrishnan, Althaf Mahin, Suhail Subair, Prathik Basthikoppa Shivamurthy, Athira C Rajeev, Rajesh Raju","doi":"10.1089/dna.2025.0088","DOIUrl":"https://doi.org/10.1089/dna.2025.0088","url":null,"abstract":"Bromodomain-containing protein 4 (BRD4) is a pivotal transcriptional regulator implicated in cancer, fibrosis, and inflammation, yet its phospho-regulatory network remains underexplored. This study leverages an extensive analysis of 1000 qualitative and 225 quantitative global phosphoproteome datasets to decode the BRD4 phosphorylation landscape. We identified S601 and S1117 as predominant phosphorylation sites, driving the majority of BRD4 phospho-signaling. Co-regulation analysis revealed 755 and 972 proteins positively cophosphorylated with S601 and S1117, respectively, including key interactors like TRIM28 (S473) and PRKAR2A (S78), which enhance transcriptional activity and cAMP signaling. Upstream kinases MAPK14 and GRK5 emerged as high-confidence regulators of S1117 and S601, respectively, with correlations in breast cancer highlighting disease relevance. In addition, 93 phosphosites in 71 transcription factors co-regulated with S1117 and 69 in 53 with S601 underscore the role of BRD4 in transcription control. These findings unveil a complex phospho-signaling network, offering novel therapeutic targets for BRD4-associated diseases and a foundation for future experimental validation.","PeriodicalId":93981,"journal":{"name":"DNA and cell biology","volume":" ","pages":""},"PeriodicalIF":0.0,"publicationDate":"2025-06-12","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"144277127","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":0,"RegionCategory":"","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 0