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Unveiling the inflammatory potential of endogenous sncRNAs: Insights from infections to autoimmune diseases 揭示内源性 sncRNA 的炎症潜能:从感染到自身免疫性疾病的启示
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-23 DOI: 10.1016/j.omtn.2024.102297
Taisuke Kanaji, Xiang-Lei Yang
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引用次数: 0
Network biology approach unveils transcriptomic alterations triggered by particle radiation 网络生物学方法揭示粒子辐射引发的转录组变化
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-21 DOI: 10.1016/j.omtn.2024.102294
Zhi-Ping Liu, Tong Wang
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引用次数: 0
PLA-PEG as an alternative to PEGylated lipids for nanoparticle-based DNA vaccination against SARS-CoV-2 聚乳酸-聚乙二醇(PLA-PEG)作为聚乙二醇化脂类的替代品,用于基于纳米粒子的 SARS-CoV-2 DNA 疫苗接种
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-21 DOI: 10.1016/j.omtn.2024.102293
Walison Nunes da Silva, Pedro Henrique Dias Moura Prazeres, Pedro Pires Goulart Guimarães
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引用次数: 0
Advancements and challenges in mRNA and ribonucleoprotein-based therapies: From delivery systems to clinical applications 基于 mRNA 和核糖核蛋白疗法的进展与挑战:从输送系统到临床应用
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-19 DOI: 10.1016/j.omtn.2024.102313
Zohre Eftekhari, Horieh Zohrabi, Akbar Oghalaie, Tahereh Ebrahimi, Fatemeh Sadat Shariati, Mahdi Behdani, Fatemeh Kazemi-Lomedasht
The use of mRNA and ribonucleoproteins (RNPs) as therapeutic agents is a promising strategy for treating diseases such as cancer and infectious diseases. This review provides recent advancements and challenges in mRNA- and RNP-based therapies, focusing on delivery systems such as lipid nanoparticles (LNPs), which ensure efficient delivery to target cells. Strategies such as microfluidic devices are employed to prepare LNPs loaded with mRNA and RNPs, demonstrating effective genome editing and protein expression and . These applications extend to cancer treatment and infectious disease management, with promising results in genome editing for cancer therapy using LNPs encapsulating Cas9 mRNA and single-guide RNA. In addition, tissue-specific targeting strategies offer potential for improved therapeutic outcomes and reduced off-target effects. Despite progress, challenges such as optimizing delivery efficiency and targeting remain. Future research should enhance delivery efficiency, explore tissue-specific targeting, investigate combination therapies, and advance clinical translation. In conclusion, mRNA- and RNP-based therapies offer a promising avenue for treating various diseases and have the potential to revolutionize medicine, providing new hope for patients worldwide.
使用 mRNA 和核糖核蛋白(RNPs)作为治疗剂是治疗癌症和传染病等疾病的一种前景广阔的策略。本综述介绍了基于 mRNA 和 RNP 的疗法的最新进展和挑战,重点是脂质纳米颗粒(LNPs)等递送系统,它们能确保高效递送到靶细胞。利用微流体设备等策略制备装载有 mRNA 和 RNPs 的 LNPs,展示了有效的基因组编辑和蛋白质表达。这些应用已扩展到癌症治疗和传染病管理领域,利用封装 Cas9 mRNA 和单导 RNA 的 LNPs 进行癌症治疗的基因组编辑取得了可喜的成果。此外,组织特异性靶向策略为改善治疗效果和减少脱靶效应提供了潜力。尽管取得了进展,但优化递送效率和靶向性等挑战依然存在。未来的研究应提高递送效率、探索组织特异性靶向、研究联合疗法并推进临床转化。总之,基于 mRNA 和 RNP 的疗法为治疗各种疾病提供了一条前景广阔的途径,并有可能彻底改变医学,为全球患者带来新的希望。
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引用次数: 0
RNA exon editing: Splicing the way to treat human diseases RNA 外显子编辑:剪接治疗人类疾病的方法
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-16 DOI: 10.1016/j.omtn.2024.102311
Akiko Doi, Conor Delaney, David Tanner, Kirk Burkhart, Robert D. Bell
RNA exon editing is a therapeutic strategy for correcting disease-causing mutations by inducing -splicing between a synthetic RNA molecule and an endogenous pre-mRNA target, resulting in functionally restored mRNA and protein. This approach enables the replacement of exons at the kilobase scale, addresses multiple mutations with a single therapy, and maintains native gene expression without changes to DNA. For genes larger than 5 kb, RNA exon editors can be delivered in a single vector despite AAV capacity limitations because only mutated exons need to be replaced. While correcting mutations by -splicing has been previously demonstrated, prior attempts were hampered by low efficiency or lack of translation in preclinical models. Advances in synthetic biology, next-generation sequencing, and bioinformatics, with a deeper understanding of mechanisms controlling RNA splicing, have triggered a re-emergence of -splicing and the development of new RNA exon editing molecules for treating human disease, including the first application in a clinical trial (this study was registered at []). Here, we provide an overview of RNA splicing, the history of -splicing, previously reported therapeutic applications, and how modern advances are enabling the discovery of RNA exon editing molecules for genetic targets unable to be addressed by conventional gene therapy and gene editing approaches.
RNA 外显子编辑是一种纠正致病突变的治疗策略,它通过诱导合成 RNA 分子与内源性前 mRNA 靶点之间的剪接,产生功能恢复的 mRNA 和蛋白质。这种方法可以在千碱基范围内替换外显子,用一种疗法解决多种突变,并在不改变 DNA 的情况下保持基因的原生表达。对于大于 5 kb 的基因,尽管 AAV 的容量有限,但 RNA 外显子编辑器仍可在单一载体中传递,因为只需替换突变的外显子。虽然以前已经证实过通过剪接来纠正突变,但以前的尝试因效率低或无法在临床前模型中转化而受阻。合成生物学、下一代测序和生物信息学的进步,以及对 RNA 剪接控制机制的深入了解,引发了-剪接的再次兴起,并开发出了用于治疗人类疾病的新型 RNA 外显子编辑分子,包括首次应用于临床试验(该研究已在[]注册)。在此,我们将概述 RNA 剪接、-剪接的历史、以前报道的治疗应用,以及现代技术的进步如何使 RNA 外显子编辑分子的发现成为可能,以治疗传统基因治疗和基因编辑方法无法解决的遗传靶点。
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引用次数: 0
LinQURE: A novel AAV gene silencing platform that supports multi-transcript targeting for complex disorders LinQURE:支持多转录本靶向治疗复杂疾病的新型 AAV 基因沉默平台
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-15 DOI: 10.1016/j.omtn.2024.102307
Irena Bočkaj, Anna Moreno Garcia, Pablo de Miguel Herraiz, Sonay Keskin, Vanessa Zancanella, Şeyda Acar Broekmans, Astrid Vallès, Ying Poi Liu, Melvin Evers, Morgane Wartel
Given that numerous genetic disorders, driven by diverse pathogenic mechanisms, may be amenable to recombinant adeno-associated virus (rAAV)-delivered gene therapies, the sustained innovation of rAAV-based therapeutic modalities is crucial. The progression and severity of genetic diseases can be reduced by targeting the toxic transcripts of a defective gene using microRNA (miRNA)-based miQURE technology delivered within an AAV vector. By adapting the delivered cassette, it may be possible to simultaneously regulate the expression profile of multiple genes involved in the pathogenesis of complex genetic diseases. The established miQURE gene silencing strategy was expanded by concatenating several miQURE molecules in a single construct, resulting in the novel linQURE platform. Here, a proof of mechanism is established by demonstrating that linQURE technology enables the concomitant expression of two synthetic miRNAs and , allowing more efficient downregulation of their disease-causing mRNA targets. This approach supports the development of multi-targeting therapeutic strategies, enabling gene therapy products to adapt to more complex multigenic indications, thus expanding the toolbox of readily available gene therapies.
鉴于由不同致病机制驱动的多种遗传疾病可能适合采用重组腺相关病毒(rAAV)载体的基因疗法,基于 rAAV 的治疗模式的持续创新至关重要。利用基于微核糖核酸(miRNA)的 miQURE 技术在 AAV 载体中传递,可以靶向缺陷基因的毒性转录本,从而降低遗传疾病的进展和严重程度。通过调整递送的基因盒,有可能同时调节涉及复杂遗传病发病机制的多个基因的表达谱。通过将多个 miQURE 分子连接到一个单一的构建体中,扩展了已有的 miQURE 基因沉默策略,从而形成了新颖的 linQURE 平台。在这里,通过证明 linQURE 技术能够同时表达两种合成的 miRNA,并能更有效地下调它们的致病 mRNA 靶标,建立了一种机制证明。这种方法支持多靶点治疗策略的开发,使基因治疗产品能够适应更复杂的多基因适应症,从而扩大了随时可用的基因治疗工具箱。
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引用次数: 0
Aptamer-decorated nanocarriers for viral adsorption: A special look at COVID-19 用于病毒吸附的色素修饰纳米载体:特别关注 COVID-19
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-15 DOI: 10.1016/j.omtn.2024.102310
Somayeh Handali, Mohsen Rezaei
Viral infections are one of the leading causes of death in the world. One main challenge in fighting against these diseases is the unavailability of effective eradicating drugs and specific treatments. Nanocarriers and aptamer-decorated nanocarriers are designed to attach to many targets, including viral particles. By lowering the viral infectivity and attachment capability, they add therapeutic values even without containing antiviral drugs. Nevertheless, the nanoparticles (NPs) with encapsulated antiviral drugs can display extra therapeutic effects. Furthermore, it has been shown that aptamers can bind to viral particles and nanocarriers, presenting promising approaches for the identification of viruses and treatment of viral infections. Although there is no satisfying literature revealing the strong therapeutic potential of nanotechnology against COVID-19, the following information can provide new perspectives for upcoming investigations pertaining to developing effective aptamer-nanocarrier agents against COVID-19.
病毒感染是世界上导致死亡的主要原因之一。抗击这些疾病的一个主要挑战是缺乏有效的根除药物和特效疗法。纳米载体和由适配体装饰的纳米载体可附着在包括病毒颗粒在内的许多目标上。通过降低病毒的感染性和附着能力,即使不含抗病毒药物,它们也能增加治疗价值。然而,封装了抗病毒药物的纳米颗粒(NPs)可以显示出额外的治疗效果。此外,已有研究表明,适配体能与病毒颗粒和纳米载体结合,为病毒的识别和病毒感染的治疗提供了有前景的方法。虽然目前还没有令人满意的文献揭示纳米技术对 COVID-19 的强大治疗潜力,但以下信息可为即将开展的有关开发有效抗 COVID-19 的适配体-纳米载体制剂的研究提供新的视角。
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引用次数: 0
SMTRI: A deep learning-based web service for predicting small molecules that target miRNA-mRNA interactions SMTRI:基于深度学习的网络服务,用于预测针对 miRNA-mRNA 相互作用的小分子药物
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-15 DOI: 10.1016/j.omtn.2024.102303
Huan Xiao, Yihao Zhang, Xin Yang, Sifan Yu, Ziqi Chen, Aiping Lu, Zongkang Zhang, Ge Zhang, Bao-Ting Zhang
Mature microRNAs (miRNAs) are short, single-stranded RNAs that bind to target mRNAs and induce translational repression and gene silencing. Many miRNAs discovered in animals have been implicated in diseases and have recently been pursued as therapeutic targets. However, conventional pharmacological screening for candidate small-molecule drugs can be time-consuming and labor-intensive. Therefore, developing a computational program to assist mature miRNA-targeted drug discovery is desirable. Our previous work () revealed that the unique functional loops formed during Argonaute-mediated miRNA-mRNA interactions have stable structural characteristics and may serve as potential targets for small-molecule drug discovery. Developing drugs specifically targeting disease-related mature miRNAs and their target mRNAs would avoid affecting unrelated ones. Here, we present SMTRI, a convolutional neural network-based approach for efficiently predicting small molecules that target RNA secondary structural motifs formed by interactions between miRNAs and their target mRNAs. Measured on three additional testing sets, SMTRI outperformed state-of-the-art algorithms by 12.9%–30.3% in AUC and 2.0%–18.4% in accuracy. Moreover, four case studies on the published experimentally validated RNA-targeted small molecules also revealed the reliability of SMTRI.
成熟的微RNA(miRNA)是一种短的单链RNA,可与目标mRNA结合,诱导翻译抑制和基因沉默。在动物体内发现的许多 miRNA 与疾病有关,最近已被作为治疗靶点。然而,候选小分子药物的传统药理学筛选耗时耗力。因此,开发一种计算程序来协助成熟的 miRNA 靶向药物发现是可取的。我们之前的工作()揭示了Argonaute介导的miRNA-mRNA相互作用过程中形成的独特功能环具有稳定的结构特征,可作为小分子药物发现的潜在靶点。开发专门针对与疾病相关的成熟 miRNA 及其靶 mRNA 的药物可避免影响无关的 mRNA。在这里,我们介绍一种基于卷积神经网络的方法 SMTRI,它能有效预测以 miRNA 及其靶 mRNA 之间相互作用形成的 RNA 二级结构基团为靶点的小分子药物。在三个额外的测试集上测量,SMTRI 的 AUC 和准确率分别为 12.9%-30.3% 和 2.0%-18.4% ,优于最先进的算法。此外,对已发表的经实验验证的 RNA 靶向小分子进行的四项案例研究也揭示了 SMTRI 的可靠性。
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引用次数: 0
Molecular classification of geriatric breast cancer displays distinct senescent subgroups of prognostic significance 老年乳腺癌的分子分类显示出具有预后意义的不同衰老亚群
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-15 DOI: 10.1016/j.omtn.2024.102309
Xia Wu, Mengxin Chen, Kang Liu, Yixin Wu, Yun Feng, Shiting Fu, Huaimeng Xu, Yongqi Zhao, Feilong Lin, Liang Lin, Shihui Ye, Junqiang Lin, Taiping Xiao, Wenhao Li, Meng Lou, Hongyu Lv, Ye Qiu, Ruifan Yu, Wenyan Chen, Mengyuan Li, Xu Feng, Zhongbing Luo, Lu Guo, Hao Ke, Limin Zhao
Breast cancer in the elderly presents distinct biological characteristics and clinical treatment responses compared with cancer in younger patients. Comprehensive Geriatric Assessment is recommended for evaluating treatment efficacy in elderly cancer patients based on physiological classification. However, research on molecular classification in older cancer patients remains insufficient. In this study, we identified two subgroups with distinct senescent clusters among geriatric breast cancer patients through multi-omics analysis. Using various machine learning algorithms, we developed a comprehensive scoring model called “Sene_Signature,” which more accurately distinguished elderly breast cancer patients compared with existing methods and better predicted their prognosis. The Sene_Signature was correlated with tumor immune cell infiltration, as supported by single-cell transcriptomics, RNA sequencing, and pathological data. Furthermore, we observed increased drug responsiveness in patients with a high Sene_Signature to treatments targeting the epidermal growth factor receptor and cell-cycle pathways. We also established a user-friendly web platform to assist investigators in assessing Sene_Signature scores and predicting treatment responses for elderly breast cancer patients. In conclusion, we developed a novel model for evaluating prognosis and therapeutic responses, providing a potential molecular classification that assists in the pre-treatment assessment of geriatric breast cancer.
与年轻患者相比,老年乳腺癌具有不同的生物学特征和临床治疗反应。建议根据生理分类对老年癌症患者进行综合老年评估,以评估治疗效果。然而,有关老年癌症患者分子分类的研究仍然不足。在本研究中,我们通过多组学分析在老年乳腺癌患者中发现了两个具有不同衰老集群的亚组。利用各种机器学习算法,我们建立了一个名为 "Sene_Signature "的综合评分模型,与现有方法相比,它能更准确地区分老年乳腺癌患者,并更好地预测其预后。Sene_Signature与肿瘤免疫细胞浸润相关,单细胞转录组学、RNA测序和病理数据也支持这一观点。此外,我们还观察到 Sene_Signature 高的患者对表皮生长因子受体和细胞周期通路靶向治疗的药物反应性增加。我们还建立了一个用户友好型网络平台,以帮助研究人员评估 Sene_Signature 评分和预测老年乳腺癌患者的治疗反应。总之,我们开发了一种用于评估预后和治疗反应的新型模型,提供了一种潜在的分子分类方法,有助于对老年乳腺癌进行治疗前评估。
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引用次数: 0
Endothelial derived, secreted long non-coding RNAs Gadlor1 and Gadlor2 aggravate cardiac remodeling 内皮衍生的分泌型长非编码 RNA Gadlor1 和 Gadlor2 会加重心脏重塑
IF 8.8 2区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-08-15 DOI: 10.1016/j.omtn.2024.102306
Merve Keles, Steve Grein, Natali Froese, Dagmar Wirth, Felix A. Trogisch, Rhys Wardman, Shruthi Hemanna, Nina Weinzierl, Philipp-Sebastian Koch, Stefanie Uhlig, Santosh Lomada, Gesine M. Dittrich, Malgorzata Szaroszyk, Ricarda Haustein, Jan Hegermann, Abel Martin-Garrido, Johann Bauersachs, Derk Frank, Norbert Frey, Karen Bieback, Julio Cordero, Gergana Dobreva, Thomas Wieland, Joerg Heineke
Pathological cardiac remodeling predisposes individuals to developing heart failure. Here, we investigated two co-regulated long non-coding RNAs (lncRNAs), termed and , which are upregulated in failing hearts of patients and mice. Cardiac overexpression of and aggravated myocardial dysfunction and enhanced hypertrophic and fibrotic remodeling in mice exposed to pressure overload. Compound knockout (KO) mice showed markedly reduced myocardial hypertrophy, fibrosis, and dysfunction, while exhibiting increased angiogenesis during short and prolonged periods of pressure overload. Paradoxically, KO mice suffered from sudden death during prolonged overload, possibly due to cardiac arrhythmia. and , which are mainly expressed in endothelial cells (ECs) in the heart, where they inhibit pro-angiogenic gene expression, are strongly secreted within extracellular vesicles (EVs). These EVs transfer lncRNAs to cardiomyocytes, where they bind and activate calmodulin-dependent kinase II, and impact pro-hypertrophic gene expression and calcium homeostasis. Therefore, we reveal a crucial lncRNA-based mechanism of EC-cardiomyocyte crosstalk during heart failure, which could be specifically modified in the future for therapeutic purposes.
病理性心脏重塑易导致心力衰竭。在这里,我们研究了两种共同调控的长非编码 RNA(lncRNA),分别称为和,它们在患者和小鼠衰竭心脏中上调。在压力过载的小鼠体内,心脏过量表达和加重了心肌功能障碍,并增强了肥厚性和纤维性重塑。复合基因敲除(KO)小鼠的心肌肥厚、纤维化和功能障碍明显减轻,同时在短期和长期压力过载期间表现出血管生成增加。主要在心脏内皮细胞(ECs)中表达的lncRNA和Ⅳ抑制促血管生成基因的表达,它们在细胞外囊泡(EVs)中强烈分泌。这些EVs将lncRNA转移到心肌细胞中,在那里它们与钙调素依赖性激酶II结合并激活钙调素依赖性激酶II,影响促肥大基因的表达和钙稳态。因此,我们揭示了心力衰竭过程中心电图-心肌细胞串联的一种基于lncRNA的关键机制,未来可对其进行特异性改造以达到治疗目的。
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引用次数: 0
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Molecular Therapy. Nucleic Acids
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