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MicroRNA Nano-Shuttles: Engineering Extracellular Vesicles as a Cutting-Edge Biotechnology Platform for Clinical Use in Therapeutics. 微RNA纳米舱:将细胞外囊泡工程作为临床治疗中使用的尖端生物技术平台。
IF 3.7 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-05-21 DOI: 10.1186/s12575-024-00241-6
Nico G Menjivar, Jaiden Oropallo, Samuel Gebremedhn, Luca A Souza, Ahmed Gad, Christian M Puttlitz, Dawit Tesfaye

Extracellular vesicles (EVs) are nano-sized, membranous transporters of various active biomolecules with inflicting phenotypic capabilities, that are naturally secreted by almost all cells with a promising vantage point as a potential leading drug delivery platform. The intrinsic characteristics of their low toxicity, superior structural stability, and cargo loading capacity continue to fuel a multitude of research avenues dedicated to loading EVs with therapeutic and diagnostic cargos (pharmaceutical compounds, nucleic acids, proteins, and nanomaterials) in attempts to generate superior natural nanoscale delivery systems for clinical application in therapeutics. In addition to their well-known role in intercellular communication, EVs harbor microRNAs (miRNAs), which can alter the translational potential of receiving cells and thus act as important mediators in numerous biological and pathological processes. To leverage this potential, EVs can be structurally engineered to shuttle therapeutic miRNAs to diseased recipient cells as a potential targeted 'treatment' or 'therapy'. Herein, this review focuses on the therapeutic potential of EV-coupled miRNAs; summarizing the biogenesis, contents, and function of EVs, as well as providing both a comprehensive discussion of current EV loading techniques and an update on miRNA-engineered EVs as a next-generation platform piloting benchtop studies to propel potential clinical translation on the forefront of nanomedicine.

细胞外囊泡(EVs)是一种纳米级的膜运输体,可运输各种具有表型能力的活性生物分子,几乎所有细胞都会自然分泌这种物质,有望成为一种潜在的主要药物输送平台。EVs 本身具有毒性低、结构稳定和货物装载能力强等特点,这些特点继续推动着大量研究工作的开展,这些研究工作致力于在 EVs 中装载治疗和诊断货物(药物化合物、核酸、蛋白质和纳米材料),以尝试生成卓越的天然纳米级递送系统,并将其应用于临床治疗。除了众所周知的细胞间通信作用外,EVs 还携带微小核糖核酸(miRNA),它们可以改变接收细胞的翻译潜能,从而成为许多生物和病理过程的重要媒介。为了利用这一潜能,可对EV进行结构改造,将治疗性miRNA穿梭到患病的受体细胞中,作为一种潜在的靶向 "治疗 "或 "疗法"。在此,本综述将重点讨论 EV 耦合 miRNA 的治疗潜力;总结 EV 的生物发生、内容和功能,并全面讨论当前的 EV 装载技术,以及 miRNA 工程 EV 作为下一代平台的最新情况,该平台将试行台式研究,以推动纳米医学前沿的潜在临床转化。
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引用次数: 0
Breaking the Mucin Barrier: A New Affinity Chromatography-Mass Spectrometry Approach to Unveil Potential Cell Markers and Pathways Altered in Pseudomyxoma Peritonei. 打破粘蛋白屏障:一种新的亲和层析-质谱法揭示假性肌瘤腹膜的潜在细胞标记和改变途径
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-05-15 DOI: 10.1186/s12575-024-00239-0
Antonio Romero-Ruiz, Melissa Granados-Rodríguez, Florina I Bura, Francisca Valenzuela-Molina, Blanca Rufián-Andújar, Ana Martínez-López, Lidia Rodríguez-Ortiz, Rosa Ortega-Salas, María Torres-Martínez, Ana Moreno-Serrano, Justo Castaño, Carmen Michán, José Alhama, Mari C Vázquez-Borrego, Álvaro Arjona-Sánchez

Background: Pseudomyxoma peritonei (PMP) is a rare peritoneal mucinous carcinomatosis with largely unknown underlying molecular mechanisms. Cytoreductive surgery combined with hyperthermic intraperitoneal chemotherapy is the only therapeutic option; however, despite its use, recurrence with a fatal outcome is common. The lack of molecular characterisation of PMP and other mucinous tumours is mainly due to the physicochemical properties of mucin.

Results: This manuscript describes the first protocol capable of breaking the mucin barrier and isolating proteins from mucinous tumours. Briefly, mucinous tumour samples were homogenised and subjected to liquid chromatography using two specific columns to reduce mainly glycoproteins, albumins and immunoglobulin G. The protein fractions were then subjected to mass spectrometry analysis and the proteomic profile obtained was analysed using various bioinformatic tools. Thus, we present here the first proteome analysed in PMP and identified a distinct mucin isoform profile in soft compared to hard mucin tumour tissues as well as key biological processes/pathways altered in mucinous tumours. Importantly, this protocol also allowed us to identify MUC13 as a potential tumour cell marker in PMP.

Conclusions: In sum, our results demonstrate that this protein isolation protocol from mucin will have a high impact, allowing the oncology research community to more rapidly advance in the knowledge of PMP and other mucinous neoplasms, as well as develop new and effective therapeutic strategies.

背景:腹膜假性粘液瘤(PMP)是一种罕见的腹膜粘液癌,其分子机制尚不清楚。细胞切除手术联合腹腔内热化疗是唯一的治疗方案;然而,尽管使用了这种治疗方法,但复发并导致死亡的情况仍很常见。PMP和其他粘液性肿瘤之所以缺乏分子特征,主要是由于粘蛋白的理化特性:本手稿描述了首个能够打破粘蛋白屏障并从粘液瘤中分离蛋白质的方案。简而言之,将粘液性肿瘤样本匀浆后,使用两种特定色谱柱进行液相色谱分析,主要还原糖蛋白、白蛋白和免疫球蛋白 G。因此,我们在此展示了首个在 PMP 中分析的蛋白质组,并确定了软粘液肿瘤组织与硬粘液肿瘤组织中不同的粘蛋白同工酶谱,以及粘液性肿瘤中发生改变的关键生物过程/途径。重要的是,该方案还使我们能够将 MUC13 鉴定为 PMP 中潜在的肿瘤细胞标记物:总之,我们的研究结果表明,这种从粘液蛋白中分离蛋白质的方案将产生重大影响,使肿瘤研究界能够更快地增进对 PMP 和其他粘液性肿瘤的了解,并开发出新的有效治疗策略。
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引用次数: 0
PMS2 amplification contributes brain metastasis from lung cancer. PMS2 扩增有助于肺癌的脑转移。
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-05-07 DOI: 10.1186/s12575-024-00238-1
Jianing Chen, Congli Hu, Hainan Yang, Li Wang, Xiangling Chu, Xin Yu, Shiji Zhang, Xuefei Li, Chao Zhao, Lei Cheng, Weiping Hong, Da Liu, Lei Wen, Chunxia Su

Background: Lung adenocarcinoma metastasizing to the brain results in a notable increase in patient mortality. The high incidence and its impact on survival presents a critical unmet need to develop an improved understanding of its mechanisms.

Methods: To identify genes that drive brain metastasis of tumor cells, we collected cerebrospinal fluid samples and paired plasma samples from 114 lung adenocarcinoma patients with brain metastasis and performed 168 panel-targeted gene sequencing. We examined the biological behavior of PMS2 (PMS1 Homolog 2)-amplified lung cancer cell lines through wound healing assays and migration assays. In vivo imaging techniques are used to detect fluorescent signals that colonize the mouse brain. RNA sequencing was used to compare differentially expressed genes between PMS2 amplification and wild-type lung cancer cell lines.

Results: We discovered that PMS2 amplification was a plausible candidate driver of brain metastasis. Via in vivo and in vitro assays, we validated that PMS2 amplified PC-9 and LLC lung cancer cells had strong migration and invasion capabilities. The functional pathway of PMS2 amplification of lung cancer cells is mainly enriched in thiamine, butanoate, glutathione metabolism.

Conclusion: Tumor cells elevated expression of PMS2 possess the capacity to augment the metastatic potential of lung cancer and establish colonies within the brain through metabolism pathways.

背景:肺腺癌转移至大脑会导致患者死亡率显著上升。这种高发病率及其对生存的影响提出了一个亟待解决的问题,即如何更好地了解其发生机制:为了确定驱动肿瘤细胞脑转移的基因,我们收集了 114 例脑转移肺腺癌患者的脑脊液样本和配对血浆样本,并进行了 168 个面板靶向基因测序。我们通过伤口愈合试验和迁移试验研究了PMS2(PMS1同源物2)扩增肺癌细胞系的生物学行为。体内成像技术用于检测在小鼠大脑中定植的荧光信号。利用 RNA 测序比较了 PMS2 扩增和野生型肺癌细胞系的差异表达基因:结果:我们发现 PMS2 扩增是脑转移的一个可信的候选驱动因素。通过体内和体外实验,我们验证了 PMS2 扩增的 PC-9 和 LLC 肺癌细胞具有很强的迁移和侵袭能力。肺癌细胞PMS2扩增的功能通路主要富含硫胺素、丁酸盐、谷胱甘肽代谢:结论:PMS2 表达增高的肿瘤细胞具有增强肺癌转移潜能的能力,并能通过代谢途径在脑内建立集落。
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引用次数: 0
Development of an Interpretable Deep Learning Model for Pathological Tumor Response Assessment After Neoadjuvant Therapy 开发用于新辅助治疗后病理肿瘤反应评估的可解释深度学习模型
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-17 DOI: 10.1186/s12575-024-00234-5
Yichen Wang, Wenhua Zhang, Lijun Chen, Jun Xie, Xuebin Zheng, Yan Jin, Qiang Zheng, Qianqian Xue, Bin Li, Chuan He, Haiquan Chen, Yuan Li
Neoadjuvant therapy followed by surgery has become the standard of care for locally advanced esophageal squamous cell carcinoma (ESCC) and accurate pathological response assessment is critical to assess the therapeutic efficacy. However, it can be laborious and inconsistency between different observers may occur. Hence, we aim to develop an interpretable deep-learning model for efficient pathological response assessment following neoadjuvant therapy in ESCC. This retrospective study analyzed 337 ESCC resection specimens from 2020–2021 at the Pudong-Branch (Cohort 1) and 114 from 2021–2022 at the Puxi-Branch (External Cohort 2) of Fudan University Shanghai Cancer Center. Whole slide images (WSIs) from these two cohorts were generated using different scanning machines to test the ability of the model in handling color variations. Four pathologists independently assessed the pathological response. The senior pathologists annotated tumor beds and residual tumor percentages on WSIs to determine consensus labels. Furthermore, 1850 image patches were randomly extracted from Cohort 1 WSIs and binarily classified for tumor viability. A deep-learning model employing knowledge distillation was developed to automatically classify positive patches for each WSI and estimate the viable residual tumor percentages. Spatial heatmaps were output for model explanations and visualizations. The approach achieved high concordance with pathologist consensus, with an R^2 of 0.8437, a RAcc_0.1 of 0.7586, a RAcc_0.3 of 0.9885, which were comparable to two senior pathologists (R^2 of 0.9202/0.9619, RAcc_0.1 of 8506/0.9425, RAcc_0.3 of 1.000/1.000) and surpassing two junior pathologists (R^2 of 0.5592/0.5474, RAcc_0.1 of 0.5287/0.5287, RAcc_0.3 of 0.9080/0.9310). Visualizations enabled the localization of residual viable tumor to augment microscopic assessment. This work illustrates deep learning's potential for assisting pathological response assessment. Spatial heatmaps and patch examples provide intuitive explanations of model predictions, engendering clinical trust and adoption (Code and data will be available at https://github.com/WinnieLaugh/ESCC_Percentage once the paper has been conditionally accepted). Integrating interpretable computational pathology could help enhance the efficiency and consistency of tumor response assessment and empower precise oncology treatment decisions.
新辅助治疗后进行手术已成为局部晚期食管鳞状细胞癌(ESCC)的标准治疗方法,而准确的病理反应评估对于评估疗效至关重要。然而,病理反应评估可能很费力,不同观察者之间也可能出现不一致。因此,我们旨在开发一种可解释的深度学习模型,用于 ESCC 新辅助治疗后的高效病理反应评估。这项回顾性研究分析了复旦大学上海肿瘤防治中心浦东分院(队列1)2020-2021年的337例ESCC切除标本和浦西分院(队列2)2021-2022年的114例ESCC切除标本。这两个队列的整张切片图像(WSI)是使用不同的扫描仪生成的,以测试模型处理颜色变化的能力。四位病理学家独立评估病理反应。资深病理学家对 WSI 上的肿瘤床和残留肿瘤百分比进行注释,以确定共识标签。此外,还从队列 1 WSIs 中随机提取了 1850 个图像斑块,并对肿瘤存活率进行了二元分类。利用知识提炼技术开发的深度学习模型可自动对每个 WSI 的阳性斑块进行分类,并估算存活的残余肿瘤百分比。为模型解释和可视化输出了空间热图。该方法与病理学家的共识高度一致,R^2 为 0.8437,RAcc_0.1 为 0.7586,RAcc_0.3 为 0.9885,与两位资深病理学家(R^2 为 0.9202/0.9619,RAcc_0.1 为 8506/0.9425,RAcc_0.3 为 1.000/1.000),超过了两名初级病理学家(R^2 为 0.5592/0.5474,RAcc_0.1 为 0.5287/0.5287,RAcc_0.3 为 0.9080/0.9310)。可视化技术能够定位残留的存活肿瘤,从而加强显微镜评估。这项工作说明了深度学习在辅助病理反应评估方面的潜力。空间热图和斑块示例为模型预测提供了直观的解释,赢得了临床的信任和采用(一旦论文被有条件接受,将在 https://github.com/WinnieLaugh/ESCC_Percentage 上提供代码和数据)。整合可解释的计算病理学有助于提高肿瘤反应评估的效率和一致性,并有助于做出精确的肿瘤治疗决策。
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引用次数: 0
Targeting Mitochondrial Complex I Deficiency in MPP+/MPTP-induced Parkinson’s Disease Cell Culture and Mouse Models by Transducing Yeast NDI1 Gene 通过转导酵母 NDI1 基因解决 MPP+/MPTP 诱导的帕金森病细胞培养和小鼠模型中的线粒体复合物 I 缺乏问题
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-09 DOI: 10.1186/s12575-024-00236-3
Hongzhi Li, Jing Zhang, Yuqi Shen, Yifan Ye, Qingyou Jiang, Lan Chen, Bohao Sun, Zhuo Chen, Luxi Shen, Hezhi Fang, Jifeng Yang, Haihua Gu
MPTP (1-methyl-4-phenyl-1,2,3,6-tetrahydropyridine), original found in synthetic heroin, causes Parkinson’s disease (PD) in human through its metabolite MPP+ by inhibiting complex I of mitochondrial respiratory chain in dopaminergic neurons. This study explored whether yeast internal NADH-quinone oxidoreductase (NDI1) has therapeutic effects in MPTP- induced PD models by functionally compensating for the impaired complex I. MPP+-treated SH-SY5Y cells and MPTP-treated mice were used as the PD cell culture and mouse models respectively. The recombinant NDI1 lentivirus was transduced into SH-SY5Y cells, or the recombinant NDI1 adeno-associated virus (rAAV5-NDI1) was injected into substantia nigra pars compacta (SNpc) of mice. The study in vitro showed NDI1 prevented MPP+-induced change in cell morphology and decreased cell viability, mitochondrial coupling efficiency, complex I-dependent oxygen consumption, and mitochondria-derived ATP. The study in vivo revealed that rAAV-NDI1 injection significantly improved the motor ability and exploration behavior of MPTP-induced PD mice. Accordingly, NDI1 notably improved dopaminergic neuron survival, reduced the inflammatory response, and significantly increased the dopamine content in striatum and complex I activity in substantia nigra. NDI1 compensates for the defective complex I in MPP+/MPTP-induced models, and vastly alleviates MPTP-induced toxic effect on dopaminergic neurons. Our study may provide a basis for gene therapy of sporadic PD with defective complex I caused by MPTP-like substance.
MPTP(1-甲基-4-苯基-1,2,3,6-四氢吡啶)最初存在于合成海洛因中,通过抑制多巴胺能神经元线粒体呼吸链的复合体 I,其代谢产物 MPP+ 可导致人类帕金森病(PD)。MPP+ 处理的 SH-SY5Y 细胞和 MPTP 处理的小鼠分别用作 PD 细胞培养和小鼠模型。将重组 NDI1 慢病毒转导至 SH-SY5Y 细胞,或将重组 NDI1 腺相关病毒(rAAV5-NDI1)注射至小鼠黑质(SNpc)。体外研究表明,NDI1 可防止 MPP+ 诱导的细胞形态变化,并降低细胞活力、线粒体偶联效率、复合物 I 依赖性耗氧量和线粒体衍生 ATP。体内研究显示,注射 rAAV-NDI1 能显著改善 MPTP 诱导的帕金森病小鼠的运动能力和探索行为。相应地,NDI1明显提高了多巴胺能神经元的存活率,减轻了炎症反应,并显著增加了纹状体中多巴胺的含量和黑质中复合体I的活性。NDI1 弥补了 MPP+/MPTP 诱导的模型中复合体 I 的缺陷,大大减轻了 MPTP 诱导的对多巴胺能神经元的毒性作用。我们的研究可能为基因治疗由 MPTP 类物质引起的复合体 I 缺陷的散发性帕金森病提供依据。
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引用次数: 0
Correction: Analysis and Interpretation of Metagenomics Data: An Approach 更正:分析和解释元基因组学数据:一种方法
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-04-04 DOI: 10.1186/s12575-024-00235-4
Gauri S. Navgire, Neha Goel, Gifty Sawhney, Mohit Sharma, Prashant Kaushik, Yugal Kishore Mohanta, Tapan Kumar Mohanta, Ahmed Al-Harrasi
<p><b>Correction: Biol Proced Online 24:18, (2022)</b></p><p><b>https://doi.org/10.1186/s12575-022-00179-7</b></p><p> Following the publication of the original article [1], the authors regret to inform that there was an error in the affiliation details for Prashant Kaushik. The authors apologize for any inconvenience caused by this error. Prashant Kaushik should have been listed as “Independent Researcher”. The author details have been updated in the online version of the paper. The authors affirm that this correction does not affect the scientific conclusions of the research. The original publication has been updated accordingly.</p><ol data-track-component="outbound reference"><li data-counter="1."><p>Navgire GS, Goel N, Sawhney G et al. Analysis and interpretation of metagenomics data: an approach. Biol Proced Online. 2022;24:18. https://doi.org/10.1186/s12575-022-00179-7.</p></li></ol><p>Download references<svg aria-hidden="true" focusable="false" height="16" role="img" width="16"><use xlink:href="#icon-eds-i-download-medium" xmlns:xlink="http://www.w3.org/1999/xlink"></use></svg></p><span>Author notes</span><ol><li><p>Gauri S. Navgire and Neha Goel contributed equally to this work.</p></li></ol><h3>Authors and Affiliations</h3><ol><li><p>Department of Microbiology, Savitribai Phule Pune University, Pune, Maharashtra, 411007, India</p><p>Gauri S. Navgire</p></li><li><p>Department of Genetics and Tree Improvement, Forest Research Institute, Dehradun, 248006, India</p><p>Neha Goel</p></li><li><p>Inflammation Pharmacology Division, Academy of Scientific and Innovative Research (AcSIR), CSIR-Indian Institute of Integrative Medicine, Jammu-180001, Jammu Kashmir, India</p><p>Gifty Sawhney</p></li><li><p>Department of Molecular Medicine, Medical University of Warsaw and Malopolska Center of Biotechnology, Krakow, Poland</p><p>Mohit Sharma</p></li><li><p>Independent Researcher, Valencia, Spain</p><p>Prashant Kaushik</p></li><li><p>University of Science and Technology Meghalaya, Baridua, Meghalaya, 793101, India</p><p>Yugal Kishore Mohanta</p></li><li><p>Natural and Medical Sciences Research Center, University of Nizwa, Nizwa, 616, Oman</p><p>Tapan Kumar Mohanta & Ahmed Al-Harrasi</p></li></ol><span>Authors</span><ol><li><span>Gauri S. Navgire</span>View author publications<p>You can also search for this author in <span>PubMed<span> </span>Google Scholar</span></p></li><li><span>Neha Goel</span>View author publications<p>You can also search for this author in <span>PubMed<span> </span>Google Scholar</span></p></li><li><span>Gifty Sawhney</span>View author publications<p>You can also search for this author in <span>PubMed<span> </span>Google Scholar</span></p></li><li><span>Mohit Sharma</span>View author publications<p>You can also search for this author in <span>PubMed<span> </span>Google Scholar</span></p></li><li><span>Prashant Kaushik</span>View author publications<p>You can also search for this author in <span>PubMed<span> </span>Google Schola
更正:Biol Proced Online 24:18, (2022)https://doi.org/10.1186/s12575-022-00179-7 原文[1]发表后,作者很遗憾地通知大家,Prashant Kaushik 的单位信息有误。作者对此错误造成的不便深表歉意。Prashant Kaushik 本应列为 "独立研究员"。作者的详细信息已在论文的在线版本中进行了更新。作者申明,此次更正不会影响研究的科学结论。Navgire GS, Goel N, Sawhney G et al. Analysis and interpretation of metagenomics data: an approach.Biol Proced Online.2022;24:18. https://doi.org/10.1186/s12575-022-00179-7.Download 参考文献作者注释Gauri S. Navgire 和 Neha Goel 对本研究做出了同样的贡献。作者和所属单位印度马哈拉施特拉邦浦那 Savitribai Phule Pune 大学微生物学系,马哈拉施特拉邦浦那,411007Gauri S. Navgire.NavgireDepartment of Genetics and Tree Improvement, Forest Research Institute, Dehradun, 248006, IndiaNeha GoelInflammation Pharmacology Division, Academy of Scientific and Innovative Research (AcSIR), CSIR-Indian Institute of Integrative Medicine, Jammu-180001, Jammu Kashmir, IndiaGifty SawhneyDepartment of Molecular Medicine、波兰克拉科夫华沙医科大学和马洛波利斯卡生物技术中心分子医学系莫希特-夏尔马独立研究员,西班牙巴伦西亚普拉山特-考希克梅加拉亚科技大学,梅加拉亚邦巴里杜阿,793101,印度尤加尔-基肖尔-莫汉塔阿曼尼兹瓦大学自然与医学科学研究中心,尼兹瓦,616 塔潘-库马尔-莫汉塔与艾哈迈德-阿尔-哈拉西独立研究员,西班牙巴伦西亚Ahmed Al-Harrasi作者Gauri S.Navgire查看作者发表的作品您也可以在PubMed Google Scholar中搜索该作者Neha Goel查看作者发表的作品您也可以在PubMed Google Scholar中搜索该作者Gifty Sawhney查看作者发表的作品您也可以在PubMed Google Scholar中搜索该作者Mohit Sharma查看作者发表的作品您也可以在PubMed Google Scholar中搜索该作者作者发表作品您也可以在 PubMed Google ScholarPrashant KaushikView 作者发表作品您也可以在 PubMed Google ScholarYugal Kishore MohantaView 作者发表作品您也可以在 PubMed Google ScholarTapan Kumar MohantaView 作者发表作品您也可以在 PubMed Google ScholarAhmed Al-Harrasi查看作者发表的作品您也可以在PubMed Google Scholar中搜索该作者通信作者Tapan Kumar Mohanta或Ahmed Al-Harrasi。出版商注释Springer Nature对出版地图中的管辖权主张和机构隶属关系保持中立。原文的在线版本可在以下网址找到:https://doi.org/10.1186/s12575-022-00179-7.Open Access 本文采用知识共享署名 4.0 国际许可协议进行许可,该协议允许以任何媒介或格式使用、共享、改编、分发和复制,只要您适当注明原作者和来源,提供知识共享许可协议的链接,并说明是否进行了修改。本文中的图片或其他第三方材料均包含在文章的知识共享许可协议中,除非在材料的署名栏中另有说明。如果材料未包含在文章的知识共享许可协议中,且您打算使用的材料不符合法律规定或超出许可使用范围,则您需要直接从版权所有者处获得许可。要查看该许可的副本,请访问 http://creativecommons.org/licenses/by/4.0/。除非在数据的信用行中另有说明,否则创作共用公共领域专用免责声明 (http://creativecommons.org/publicdomain/zero/1.0/) 适用于本文提供的数据。转载与许可引用本文Navgire, G.S., Goel, N., Sawhney, G. et al. Correction:分析和解释元基因组学数据:一种方法。Biol Proced Online 26, 8 (2024). https://doi.org/10.1186/s12575-024-00235-4Download citationPublished: 04 April 2024DOI: https://doi.org/10.1186/s12575-024-00235-4Share this articleAnyone you share the following link with will be able to read this content:Get shareable linkSorry, a shareable link is not currently available for this article.Copy to clipboard Provided by the Springer Nature SharedIt content-sharing initiative
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引用次数: 0
A novel method to efficiently differentiate human osteoclasts from blood-derived monocytes 从血源性单核细胞高效分化人类破骨细胞的新方法
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-03-19 DOI: 10.1186/s12575-024-00233-6
Suganja Chandrabalan, Linh Dang, Uwe Hansen, Melanie Timmen, Corinna Wehmeyer, Richard Stange, Tim Beißbarth, Claudia Binder, Annalen Bleckmann, Kerstin Menck
Osteoclasts are the tissue-specific macrophage population of the bone and unique in their bone-resorbing activity. Hence, they are fundamental for bone physiology in health and disease. However, efficient protocols for the isolation and study of primary human osteoclasts are scarce. In this study, we aimed to establish a protocol, which enables the efficient differentiation of functional human osteoclasts from monocytes. Human monocytes were isolated through a double-density gradient from donor blood. Compared to standard differentiation schemes in polystyrene cell culture dishes, the yield of multinuclear osteoclasts was significantly increased upon initial differentiation of monocytes to macrophages in fluorinated ethylene propylene (FEP) Teflon bags. This initial differentiation phase was then followed by the development of terminal osteoclasts by addition of Receptor Activator of NF-κB Ligand (RANKL). High concentrations of RANKL and Macrophage colony-stimulating factor (M-CSF) as well as an intermediate cell density further supported efficient cell differentiation. The generated cells were highly positive for CD45, CD14 as well as the osteoclast markers CD51/ITGAV and Cathepsin K/CTSK, thus identifying them as osteoclasts. The bone resorption of the osteoclasts was significantly increased when the cells were differentiated from macrophages derived from Teflon bags compared to macrophages derived from conventional cell culture plates. Our study has established a novel protocol for the isolation of primary human osteoclasts that improves osteoclastogenesis in comparison to the conventionally used cultivation approach.
破骨细胞是骨组织特异性巨噬细胞群,具有独特的骨吸收活性。因此,它们是健康和疾病中骨生理的基础。然而,用于分离和研究原代人类破骨细胞的有效方案却很少。在这项研究中,我们的目标是建立一种方案,能够从单核细胞中有效分化出功能性人类破骨细胞。通过双密度梯度从供体血液中分离出人类单核细胞。与在聚苯乙烯细胞培养皿中的标准分化方案相比,在氟化乙烯丙烯(FEP)聚四氟乙烯袋中将单核细胞初步分化为巨噬细胞后,多核破骨细胞的产量显著增加。在初始分化阶段之后,加入 NF-κB 受体激活剂配体(RANKL),就能形成末端破骨细胞。高浓度的 RANKL 和巨噬细胞集落刺激因子(M-CSF)以及中等细胞密度进一步支持了细胞的高效分化。生成的细胞对 CD45、CD14 以及破骨细胞标记 CD51/ITGAV 和 Cathepsin K/CTSK 呈高度阳性,因此可将它们鉴定为破骨细胞。与从传统细胞培养板中提取的巨噬细胞相比,从特氟隆袋中提取的巨噬细胞分化出的破骨细胞的骨吸收率明显提高。我们的研究为分离原代人类破骨细胞建立了一种新的方案,与传统的培养方法相比,它能改善破骨细胞的生成。
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引用次数: 0
Efficient and scalable gene delivery method with easily generated cationic carbon dots. 利用易于生成的阳离子碳点实现高效、可扩展的基因递送方法。
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-03-08 DOI: 10.1186/s12575-024-00232-7
Manuel Algarra, Elena Gonzalez-Muñoz

Gene delivery is a complex process with several challenges when attempting to incorporate genetic material efficiently and safely into target cells. Some of the key challenges include not only efficient cellular uptake and endosomal escape to ensure that the genetic material can exert its effect but also minimizing the toxicity of the delivery system, which is vital for safe gene delivery. Of importance, if gene delivery systems are intended for biomedical applications or clinical use, they must be scalable and easy and affordable to manufacture to meet the demand. Here, we show an efficient gene delivery method using a combination of carbon dots coated by PEI through electrostatic binding to easily generate cationic carbon dots. We show a biofunctional approach to generate optimal cationic carbon dots (CCDs) that can be scaled up to meet specific transfection demands. CCDs improve cell viability and increase transfection efficiency four times over the standard of PEI polyplexes. Generated CCDs enabled the challenging transfection protocol to produce retroviral vectors via cell cotransfection of three different plasmids into packing cells, showing not only high efficiency but also functionality of the gene delivery, tested as the capacity to produce infective retroviral particles.

基因递送是一个复杂的过程,在尝试将遗传物质高效、安全地整合到靶细胞中时,面临着若干挑战。其中一些关键挑战不仅包括高效的细胞吸收和内泌体逸散,以确保遗传物质能够发挥其作用,还包括最大限度地降低递送系统的毒性,这对安全递送基因至关重要。重要的是,如果基因递送系统要用于生物医学应用或临床,就必须具有可扩展性、易于制造且价格合理,以满足需求。在这里,我们展示了一种高效的基因递送方法,该方法使用了通过静电结合涂覆 PEI 的碳点组合,从而轻松生成阳离子碳点。我们展示了一种生物功能方法来生成最佳的阳离子碳点(CCD),这种碳点可以放大以满足特定的转染需求。与标准的 PEI 多聚物相比,CCD 提高了细胞活力,并将转染效率提高了四倍。生成的 CCD 使具有挑战性的转染方案得以实现,即通过将三种不同的质粒共转染到包装细胞中来产生逆转录病毒载体,这不仅显示了高效率,还显示了基因递送的功能性,即测试产生感染性逆转录病毒颗粒的能力。
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引用次数: 0
Correction: Methyl β-Cyclodextrin-sperm-mediated gene editing (MBCD-SMGE): a simple and efficient method for targeted mutant mouse production. 更正:甲基β-环糊精-精子介导的基因编辑(MBCD-SMGE):一种简单高效的靶向突变小鼠生产方法。
IF 6.4 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-02-16 DOI: 10.1186/s12575-024-00231-8
Parisa Moradbeigi, Sara Hosseini, Mohammad Salehi, Asghar Mogheiseh
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引用次数: 0
Methyl β-Cyclodextrin-sperm-mediated gene editing (MBCD-SMGE): a simple and efficient method for targeted mutant mouse production. 甲基β-环糊精-精子介导的基因编辑(MBCD-SMGE):一种简单高效的靶向突变小鼠生产方法。
IF 3.7 3区 生物学 Q1 BIOCHEMICAL RESEARCH METHODS Pub Date : 2024-01-26 DOI: 10.1186/s12575-024-00230-9
Parisa Moradbeigi, Sara Hosseini, Mohammad Salehi, Asghar Mogheiseh

Background: Generating targeted mutant mice is a crucial technology in biomedical research. This study focuses on optimizing the CRISPR/Cas9 system uptake into sperm cells using the methyl β-cyclodextrin-sperm-mediated gene transfer (MBCD-SMGT) technique to generate targeted mutant blastocysts and mice efficiently. Additionally, the present study elucidates the roles of cholesterol and reactive oxygen species (ROS) in the exogenous DNA uptake by sperm.

Results: In this study, B6D2F1 mouse sperm were incubated in the c-TYH medium with different concentrations of MBCD (0, 0.75, 1, and 2 mM) in the presence of 20 ng/µl pCAG-eCas9-GFP-U6-gRNA (pgRNA-Cas9) for 30 min. Functional parameters, extracellular ROS, and the copy numbers of internalized plasmid per sperm cell were evaluated. Subsequently, in vitro fertilization (IVF) was performed and fertilization rate, early embryonic development, and transfection rate were assessed. Finally, our study investigated the potential of the MBCD-SMGT technique in combination with the CRISPR-Cas9 system, referred to as MBCD-SMGE (MBCD-sperm-mediated gene editing), for generating targeted mutant blastocysts and mice. Results indicated that cholesterol removal from the sperm membrane using MBCD resulted in a premature acrosomal reaction, an increase in extracellular ROS levels, and a dose-dependent influence on the copy numbers of the internalized plasmids per sperm cell. Moreover, the MBCD-SMGT technique led to a larger population of transfected motile sperm and a higher production rate of GFP-positive blastocysts. Additionally, the current study validated the targeted indel in blastocyst and mouse derived from MBCD-SMGE technique.

Conclusion: Overall, this study highlights the significant potential of the MBCD-SMGE technique for generating targeted mutant mice. It holds enormous promise for modeling human diseases and improving desirable traits in animals.

背景:产生靶向突变小鼠是生物医学研究中的一项重要技术。本研究的重点是利用甲基β-环糊精-精子介导的基因转移(MBCD-SMGT)技术优化CRISPR/Cas9系统在精子细胞中的吸收,从而高效地产生靶向突变囊胚和小鼠。此外,本研究还阐明了胆固醇和活性氧(ROS)在精子吸收外源 DNA 过程中的作用:本研究将 B6D2F1 小鼠精子置于含有不同浓度 MBCD(0、0.75、1 和 2 mM)的 c-TYH 培养基中,在 20 ng/µl pCAG-eCas9-GFP-U6-gRNA (pgRNA-Cas9)存在下培养 30 分钟。对功能参数、细胞外 ROS 和每个精子细胞内化质粒的拷贝数进行了评估。随后,进行了体外受精(IVF),并对受精率、早期胚胎发育和转染率进行了评估。最后,我们的研究调查了 MBCD-SMGT 技术与 CRISPR-Cas9 系统结合(称为 MBCD-SMGE(MBCD-精子介导的基因编辑))生成靶向突变囊胚和小鼠的潜力。结果表明,使用 MBCD 去除精子膜上的胆固醇会导致过早的顶体反应、细胞外 ROS 水平升高,并对每个精子细胞内化质粒的拷贝数产生剂量依赖性影响。此外,MBCD-SMGT 技术还能产生更多的转染运动精子和更高的 GFP 阳性囊胚生产率。此外,本研究还验证了 MBCD-SMGE 技术在囊胚和小鼠中产生的靶向吲哚:总之,本研究强调了 MBCD-SMGE 技术在产生靶向突变小鼠方面的巨大潜力。它为人类疾病建模和改善动物的理想性状带来了巨大希望。
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Biological Procedures Online
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