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Application and new findings of scRNA-seq and ST-seq in prostate cancer. scRNA-seq 和 ST-seq 在前列腺癌中的应用和新发现。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-10-29 DOI: 10.1186/s13619-024-00206-w
Zhuang Li, Zhengnan Li, Yuanyuan Luo, Weiming Chen, Yinyi Fang, Yuliang Xiong, Qinyi Zhang, Dongbo Yuan, Bo Yan, Jianguo Zhu

Prostate cancer is a malignant tumor of the male urological system with the highest incidence rate in the world, which seriously threatens the life and health of middle-aged and elderly men. The progression of prostate cancer involves the interaction between tumor cells and tumor microenvironment. Understanding the mechanisms of prostate cancer pathogenesis and disease progression is important to guide diagnosis and therapy. The emergence of single-cell RNA sequencing (scRNA-seq) and spatial transcriptome sequencing (ST-seq) technologies has brought breakthroughs in the study of prostate cancer. It makes up for the defects of traditional techniques such as fluorescence-activated cell sorting that are difficult to elucidate cell-specific gene expression. This review summarized the heterogeneity and functional changes of prostate cancer and tumor microenvironment revealed by scRNA-seq and ST-seq, aims to provide a reference for the optimal diagnosis and treatment of prostate cancer.

前列腺癌是世界上发病率最高的男性泌尿系统恶性肿瘤,严重威胁着中老年男性的生命健康。前列腺癌的进展涉及肿瘤细胞与肿瘤微环境之间的相互作用。了解前列腺癌的发病机制和疾病进展对指导诊断和治疗非常重要。单细胞 RNA 测序(scRNA-seq)和空间转录组测序(ST-seq)技术的出现为前列腺癌的研究带来了突破性进展。它弥补了荧光激活细胞分选等传统技术难以阐明细胞特异性基因表达的缺陷。本综述总结了scRNA-seq和ST-seq揭示的前列腺癌和肿瘤微环境的异质性和功能变化,旨在为前列腺癌的优化诊断和治疗提供参考。
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引用次数: 0
Beyond resorption: osteoclasts as drivers of bone formation. 超越吸收:破骨细胞是骨形成的驱动力。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-10-11 DOI: 10.1186/s13619-024-00205-x
Qianfeng Xiang, Lei Li, Wei Ji, Debby Gawlitta, X Frank Walboomers, Jeroen J J P van den Beucken

Emerging evidence illustrates that osteoclasts (OCs) play diverse roles beyond bone resorption, contributing significantly to bone formation and regeneration. Despite this, OCs remain mysterious cells, with aspects of their lifespan-from origin, fusion, alterations in cellular characteristics, to functions-remaining incompletely understood. Recent studies have identified that embryonic osteoclastogenesis is primarily driven by osteoclast precursors (OCPs) derived from erythromyeloid progenitors (EMPs). These precursor cells subsequently fuse into OCs essential for normal bone development and repair. Postnatally, hematopoietic stem cells (HSCs) become the primary source of OCs, gradually replacing EMP-derived OCs and assuming functional roles in adulthood. The absence of OCs during bone development results in bone structure malformation, including abnormal bone marrow cavity formation and shorter long bones. Additionally, OCs are reported to have intimate interactions with blood vessels, influencing bone formation and repair through angiogenesis regulation. Upon biomaterial implantation, activation of the innate immune system ensues immediately. OCs, originating from macrophages, closely interact with the immune system. Furthermore, evidence from material-induced bone formation events suggests that OCs are pivotal in these de novo bone formation processes. Nevertheless, achieving a pure OC culture remains challenging, and interpreting OC functions in vivo faces difficulties due to the presence of other multinucleated cells around bone-forming biomaterials. We here describe the fusion characteristics of OCPs and summarize reliable markers and morphological changes in OCs during their fusion process, providing guidance for researchers in identifying OCs both in vitro and in vivo. This review focuses on OC formation, characterization, and the roles of OCs beyond resorption in various bone pathophysiological processes. Finally, therapeutic strategies targeting OCs are discussed.

新出现的证据表明,破骨细胞(OCs)在骨吸收之外还发挥着多种作用,对骨形成和再生做出了重要贡献。尽管如此,破骨细胞仍然是一种神秘的细胞,人们对其生命周期的各个方面--从起源、融合、细胞特征的改变到功能--仍然知之甚少。最近的研究发现,胚胎破骨细胞的形成主要是由来自红细胞髓样祖细胞(EMPs)的破骨细胞前体细胞(OCPs)驱动的。这些前体细胞随后融合成对正常骨骼发育和修复至关重要的破骨细胞。出生后,造血干细胞(HSCs)成为 OCs 的主要来源,逐渐取代 EMP 衍生的 OCs,并在成年后发挥功能作用。在骨骼发育过程中,OCs 的缺失会导致骨骼结构畸形,包括骨髓腔形成异常和长骨变短。此外,据报道,OC 与血管有密切的相互作用,通过血管生成调节影响骨骼的形成和修复。生物材料植入后,先天性免疫系统会立即激活。源于巨噬细胞的 OC 与免疫系统密切相关。此外,材料诱导骨形成事件的证据表明,OCs 在这些新生骨形成过程中起着关键作用。然而,实现纯粹的 OC 培养仍然具有挑战性,而且由于成骨生物材料周围存在其他多核细胞,解释 OC 在体内的功能也面临困难。我们在此描述 OCP 的融合特征,总结 OC 融合过程中的可靠标记和形态变化,为研究人员在体外和体内识别 OC 提供指导。本综述侧重于 OC 的形成、表征以及 OC 在各种骨病理生理过程中除吸收外的作用。最后还讨论了针对 OCs 的治疗策略。
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引用次数: 0
Subtype-specific neurons from patient iPSCs display distinct neuropathological features of Alzheimer's disease. 来自患者 iPSCs 的亚型特异性神经元显示出阿尔茨海默病的不同神经病理学特征。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-10-10 DOI: 10.1186/s13619-024-00204-y
Ran Tao, Chunmei Yue, Zhijie Guo, Wenke Guo, Yao Yao, Xianfa Yang, Zhen Shao, Chao Gao, Jianqing Ding, Lu Shen, Shengdi Chen, Naihe Jing

Alzheimer's disease (AD) is a progressive neurodegenerative disorder characterized by massive neuronal loss in the brain. Both cortical glutamatergic neurons and basal forebrain cholinergic neurons (BFCNs) in the AD brain are selectively vulnerable. The degeneration and dysfunction of these two subtypes of neurons are closely associated with the cognitive decline of AD patients. The determination of cellular and molecular mechanisms involved in AD pathogenesis, especially in the early stage, will largely facilitate the understanding of this disease and the development of proper intervention strategies. However, due to the inaccessibility of living neurons in the brains of patients, it remains unclear how cortical glutamatergic neurons and BFCNs respond to pathological stress in the early stage of AD. In this study, we established in vitro differentiation systems that can efficiently differentiate patient-derived iPSCs into BFCNs. We found that AD-BFCNs secreted less Aβ peptide than cortical glutamatergic neurons did, even though the Aβ42/Aβ40 ratio was comparable to that of cortical glutamatergic neurons. To further mimic the neurotoxic niche in AD brain, we treated iPSC-derived neurons with Aβ42 oligomer (AβO). BFCNs are less sensitive to AβO induced tau phosphorylation and expression than cortical glutamatergic neurons. However, AβO could trigger apoptosis in both AD-cortical glutamatergic neurons and AD-BFCNs. In addition, AD iPSC-derived BFCNs and cortical glutamatergic neurons exhibited distinct electrophysiological firing patterns and elicited different responses to AβO treatment. These observations revealed that subtype-specific neurons display distinct neuropathological changes during the progression of AD, which might help to understand AD pathogenesis at the cellular level.

阿尔茨海默病(AD)是一种进行性神经退行性疾病,以大脑神经元大量丧失为特征。阿尔茨海默病大脑中的皮质谷氨酸能神经元和基底前脑胆碱能神经元(BFCNs)都是选择性易损的。这两种亚型神经元的退化和功能障碍与 AD 患者的认知能力下降密切相关。确定参与注意力缺失症发病机制的细胞和分子机制,尤其是在早期阶段,将在很大程度上促进对该疾病的理解和制定适当的干预策略。然而,由于无法获得患者大脑中的活体神经元,目前仍不清楚 AD 早期皮质谷氨酸能神经元和 BFCN 对病理应激的反应。在本研究中,我们建立了体外分化系统,该系统可将源自患者的 iPSCs 高效分化为 BFCNs。我们发现,AD-BFCNs分泌的Aβ肽少于皮质谷氨酸能神经元,即使Aβ42/Aβ40比率与皮质谷氨酸能神经元相当。为了进一步模拟 AD 大脑中的神经毒性生态位,我们用 Aβ42 寡聚体(AβO)处理 iPSC 衍生的神经元。与大脑皮层谷氨酸能神经元相比,BFCNs 对 AβO 诱导的 tau 磷酸化和表达的敏感性较低。然而,AβO可引发AD皮质谷氨酸能神经元和AD-BFCNs的细胞凋亡。此外,AD iPSC衍生的BFCNs和皮质谷氨酸能神经元表现出不同的电生理发射模式,并对AβO处理产生不同的反应。这些观察结果表明,亚型特异性神经元在AD进展过程中表现出不同的神经病理学变化,这可能有助于从细胞水平了解AD的发病机制。
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引用次数: 0
Targeting senescent cells in aging and COVID-19: from cellular mechanisms to therapeutic opportunities. 针对衰老和 COVID-19 中的衰老细胞:从细胞机制到治疗机会。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-10-02 DOI: 10.1186/s13619-024-00201-1
Yuan Yu, Kaixuan Lin, Haoyu Wu, Mingli Hu, Xuejie Yang, Jie Wang, Johannes Grillari, Jiekai Chen

The COVID-19 pandemic has caused a global health crisis and significant social economic burden. While most individuals experience mild or non-specific symptoms, elderly individuals are at a higher risk of developing severe symptoms and life-threatening complications. Exploring the key factors associated with clinical severity highlights that key characteristics of aging, such as cellular senescence, immune dysregulation, metabolic alterations, and impaired regenerative potential, contribute to disruption of tissue homeostasis of the lung and worse clinical outcome. Senolytic and senomorphic drugs, which are anti-aging treatments designed to eliminate senescent cells or decrease the associated phenotypes, have shown promise in alleviating age-related dysfunctions and offer a novel approach to treating diseases that share certain aspects of underlying mechanisms with aging, including COVID-19. This review summarizes the current understanding of aging in COVID-19 progression, and highlights recent findings on anti-aging drugs that could be repurposed for COVID-19 treatment to complement existing therapies.

COVID-19 大流行已造成全球健康危机和重大社会经济负担。虽然大多数人会出现轻微或非特异性症状,但老年人出现严重症状和危及生命的并发症的风险更高。对与临床严重性相关的关键因素进行探讨,可以发现衰老的关键特征,如细胞衰老、免疫失调、代谢改变和再生潜能受损,会导致肺部组织稳态的破坏和更糟糕的临床结果。衰老分解药物和衰老形态药物是旨在消除衰老细胞或减少相关表型的抗衰老治疗药物,在缓解与衰老相关的功能障碍方面已显示出前景,并为治疗与衰老有某些共同潜在机制的疾病(包括 COVID-19)提供了一种新方法。本综述总结了目前对衰老在 COVID-19 进展中的作用的认识,并重点介绍了抗衰老药物的最新研究成果,这些药物可重新用于 COVID-19 的治疗,以补充现有疗法的不足。
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引用次数: 0
Chromatin remodeling in tissue stem cell fate determination. 组织干细胞命运决定过程中的染色质重塑
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-09-30 DOI: 10.1186/s13619-024-00203-z
Xinyang Li, Gaoxiang Zhu, Bing Zhao

Tissue stem cells (TSCs), which reside in specialized tissues, constitute the major cell sources for tissue homeostasis and regeneration, and the contribution of transcriptional or epigenetic regulation of distinct biological processes in TSCs has been discussed in the past few decades. Meanwhile, ATP-dependent chromatin remodelers use the energy from ATP hydrolysis to remodel nucleosomes, thereby affecting chromatin dynamics and the regulation of gene expression programs in each cell type. However, the role of chromatin remodelers in tissue stem cell fate determination is less well understood. In this review, we systematically discuss recent advances in epigenetic control by chromatin remodelers of hematopoietic stem cells, intestinal epithelial stem cells, neural stem cells, and skin stem cells in their fate determination and highlight the importance of their essential role in tissue homeostasis, development, and regeneration. Moreover, the exploration of the molecular and cellular mechanisms of TSCs is crucial for advancing our understanding of tissue maintenance and for the discovery of novel therapeutic targets.

组织干细胞(TSCs)存在于特异性组织中,是组织稳态和再生的主要细胞来源,过去几十年来,人们一直在讨论组织干细胞转录或表观遗传调控对不同生物过程的贡献。与此同时,依赖 ATP 的染色质重塑者利用 ATP 水解产生的能量重塑核小体,从而影响染色质动态和各细胞类型中基因表达程序的调控。然而,染色质重塑者在组织干细胞命运决定中的作用还不太清楚。在这篇综述中,我们系统讨论了染色质重塑因子对造血干细胞、肠上皮干细胞、神经干细胞和皮肤干细胞命运决定的表观遗传调控的最新进展,并强调了它们在组织稳态、发育和再生中的重要作用。此外,对TSCs的分子和细胞机制的探索对于促进我们对组织维持的理解和发现新的治疗靶点至关重要。
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引用次数: 0
Expression levels and stoichiometry of Hnf1β, Emx2, Pax8 and Hnf4 influence direct reprogramming of induced renal tubular epithelial cells. Hnf1β、Emx2、Pax8和Hnf4的表达水平和配比影响诱导肾小管上皮细胞的直接重编程。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-09-30 DOI: 10.1186/s13619-024-00202-0
Xueli Hu, Jianjian Sun, Meng Wan, Bianhong Zhang, Linhui Wang, Tao P Zhong

Generation of induced renal epithelial cells (iRECs) from fibroblasts offers great opportunities for renal disease modeling and kidney regeneration. However, the low reprogramming efficiency of the current approach to generate iRECs has hindered potential therapeutic application and regenerative approach. This could be in part attributed to heterogeneous and unbalanced expression of reprogramming factors (RFs) Hnf1β (H1), Emx2 (E), Pax8 (P), and Hnf4α (H4) in transduced fibroblasts. Here, we establish an advanced retroviral vector system that expresses H1, E, P, and H4 in high levels and distinct ratios from bicistronic transcripts separated by P2A. Mouse embryonic fibroblasts (MEFs) harboring Cdh16-Cre; mT/mG allele are utilized to conduct iREC reprogramming via directly monitoring single cell fate conversion. Three sets of bicistronic RF combinations including H1E/H4P, H1H4/EP, and H1P/H4E have been generated to induce iREC reprogramming. Each of the RF combinations gives rise to distinct H1, E, P, and H4 expression levels and different reprogramming efficiencies. The desired H1E/H4P combination that results in high expression levels of RFs with balanced stoichiometry. substantially enhances the efficiency and quality of iRECs compared with transduction of separate H1, E, P, and H4 lentiviruses. We find that H1E/H4P-induced iRECs exhibit the superior features of renal tubular epithelial cells, as evidenced by expressing renal tubular-specific genes, possessing endocytotic arrogation activity and assembling into tubules along decellularized kidney scaffolds. This study establishes H1E/H4P cassette as a valuable platform for future iREC studies and regenerative medicine.

从成纤维细胞生成诱导肾上皮细胞(iRECs)为肾脏疾病建模和肾脏再生提供了巨大的机遇。然而,目前生成 iRECs 的重编程效率较低,阻碍了其潜在的治疗应用和再生方法。部分原因可能是转导成纤维细胞中的重编程因子(RFs)Hnf1β(H1)、Emx2(E)、Pax8(P)和Hnf4α(H4)表达不均且不平衡。在这里,我们建立了一种先进的逆转录病毒载体系统,它能高水平地表达 H1、E、P 和 H4,而且这些转录本与由 P2A 分离出来的双组分转录本的比例截然不同。利用携带Cdh16-Cre; mT/mG等位基因的小鼠胚胎成纤维细胞(MEF),通过直接监测单细胞命运转换来进行iREC重编程。为了诱导iREC重编程,产生了三组双核RF组合,包括H1E/H4P、H1H4/EP和H1P/H4E。每种RF组合都能产生不同的H1、E、P和H4表达水平以及不同的重编程效率。与单独的 H1、E、P 和 H4 慢病毒转导相比,理想的 H1E/H4P 组合能以平衡的化学计量产生高表达水平的 RF,从而大大提高 iRECs 的效率和质量。我们发现,H1E/H4P 诱导的 iRECs 表现出肾小管上皮细胞的优异特征,如表达肾小管特异性基因、具有内吞傲慢活性以及沿着脱细胞肾支架组装成肾小管。这项研究确立了 H1E/H4P 盒作为未来 iREC 研究和再生医学的宝贵平台的地位。
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引用次数: 0
Endogenous retroviral ERVH48-1 promotes human urine cell reprogramming. 内源性逆转录病毒 ERVH48-1 促进人类尿液细胞重编程
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-09-13 DOI: 10.1186/s13619-024-00200-2
Yuling Peng, Jieying Zhu, Qi Zhang, Ran Zhang, Zhenhua Wang, Zesen Ye, Ning Ma, Dajiang Qin, Duanqing Pei, Dongwei Li

Endogenous retroviruses (ERVs), once thought to be mere remnants of ancient viral integrations in the mammalian genome, are now recognized for their critical roles in various physiological processes, including embryonic development, innate immunity, and tumorigenesis. Their impact on host organisms is significant driver of evolutionary changes, offering insight into evolutionary mechanisms. In our study, we explored the functionality of ERVs by examining single-cell transcriptomic profiles from human embryonic stem cells and urine cells. This led to the discovery of a unique ERVH48-1 expression pattern between these cell types. Additionally, somatic cell reprogramming efficacy was enhanced when ERVH48-1 was overexpressed in a urine cell-reprogramming system. Induced pluripotent stem cells (iPSCs) generated with ERVH48-1 overexpression recapitulated the traits of those produced by traditional reprogramming approaches, and the resulting iPSCs demonstrated the capability to differentiate into all three germ layers in vitro. Our research elucidated the role of ERVs in somatic cell reprogramming.

内源性逆转录病毒(ERV)曾被认为只是哺乳动物基因组中古老病毒整合的残余,但现在人们认识到它们在胚胎发育、先天免疫和肿瘤发生等各种生理过程中发挥着关键作用。它们对宿主生物的影响是进化变化的重要驱动力,有助于深入了解进化机制。在我们的研究中,我们通过检测人类胚胎干细胞和尿液细胞的单细胞转录组图谱,探索了ERV的功能。结果发现了这些细胞类型之间独特的 ERVH48-1 表达模式。此外,当ERVH48-1在尿液细胞重编程系统中过度表达时,体细胞重编程的功效得到了增强。过表达ERVH48-1产生的诱导多能干细胞(iPSCs)再现了传统重编程方法产生的多能干细胞的特征,所产生的iPSCs显示出在体外分化成所有三个胚层的能力。我们的研究阐明了ERV在体细胞重编程中的作用。
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引用次数: 0
Standard: human intestine-on-a-chip. 标准:人体肠芯片。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-08-05 DOI: 10.1186/s13619-024-00198-7
Haitao Liu, Yaqing Wang, Xu Zhang, Min Zhang, Peng Wang, Jing Shang, Zhongqiang Li, Likun Gong, Jiabin Guo, Wei Sun, Jingbo Pi, Xianliang Li, Wei Ding, Dianbing Wang, Zhongyu Li, Jingzhong Zhang, Lan Wang, Xingchao Geng, Ruifu Yang, Pingkun Zhou, Wanjin Tang, Xian'en Zhang, Chunying Chen, Shengli Yang, Jianhua Qin

Organs-on-chips are microphysiological systems that allow to replicate the key functions of human organs and accelerate the innovation in life sciences including disease modeling, drug development, and precision medicine. However, due to the lack of standards in their definition, structural design, cell source, model construction, and functional validation, a wide range of translational application of organs-on-chips remains a challenging. "Organs-on-chips: Intestine" is the first group standard on human intestine-on-a-chip in China, jointly agreed and released by the experts from the Chinese Society of Biotechnology on 29th April 2024. This standard specifies the scope, terminology, definitions, technical requirements, detection methods, and quality control in building the human intestinal model on a chip. The publication of this group standard will guide the institutional establishment, acceptance and execution of proper practical protocols and accelerate the international standardization of intestine-on-a-chip for translational applications.

片上器官是一种微生理系统,可以复制人体器官的关键功能,加速疾病建模、药物开发和精准医疗等生命科学领域的创新。然而,由于在定义、结构设计、细胞来源、模型构建和功能验证等方面缺乏标准,片上器官的广泛转化应用仍面临挑战。"片上器官2024年4月29日,由中国生物技术学会专家共同商定并发布的《芯片上器官:肠道》是我国首个芯片上人体肠道的团体标准。该标准规定了建立芯片人体肠道模型的范围、术语、定义、技术要求、检测方法和质量控制。该团体标准的发布将指导机构建立、接受和执行适当的实用协议,并加速转化应用中的芯片肠道的国际标准化。
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引用次数: 0
Retraction Note: Future of low back pain: unravelling IVD components and MSCs' potential. 撤稿说明:腰背痛的未来:了解 IVD 成分和间充质干细胞的潜力。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-08-05 DOI: 10.1186/s13619-024-00199-6
Raquel Leão Monteiro
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引用次数: 0
METTL3 restricts RIPK1-dependent cell death via the ATF3-cFLIP axis in the intestinal epithelium. METTL3 在肠上皮细胞中通过 ATF3-cFLIP 轴限制 RIPK1 依赖性细胞死亡。
IF 4 Q2 CELL & TISSUE ENGINEERING Pub Date : 2024-08-02 DOI: 10.1186/s13619-024-00197-8
Meimei Huang, Xiaodan Wang, Mengxian Zhang, Yuan Liu, Ye-Guang Chen

Intestinal epithelial cells (IECs) are pivotal for maintaining intestinal homeostasis through self-renewal, proliferation, differentiation, and regulated cell death. While apoptosis and necroptosis are recognized as distinct pathways, their intricate interplay remains elusive. In this study, we report that Mettl3-mediated m6A modification maintains intestinal homeostasis by impeding epithelial cell death. Mettl3 knockout induces both apoptosis and necroptosis in IECs. Targeting different modes of cell death with specific inhibitors unveils that RIPK1 kinase activity is critical for the cell death triggered by Mettl3 knockout. Mechanistically, this occurs via the m6A-mediated transcriptional regulation of Atf3, a transcription factor that directly binds to Cflar, the gene encoding the anti-cell death protein cFLIP. cFLIP inhibits RIPK1 activity, thereby suppressing downstream apoptotic and necroptotic signaling. Together, these findings delineate the essential role of the METTL3-ATF3-cFLIP axis in homeostatic regulation of the intestinal epithelium by blocking RIPK1 activity.

肠上皮细胞(IECs)是通过自我更新、增殖、分化和调节细胞死亡来维持肠道平衡的关键。虽然凋亡和坏死被认为是不同的途径,但它们之间错综复杂的相互作用仍然难以捉摸。在这项研究中,我们报告了 Mettl3 介导的 m6A 修饰通过阻碍上皮细胞死亡来维持肠道稳态。Mettl3 基因敲除可诱导 IECs 细胞凋亡和坏死。用特异性抑制剂针对不同的细胞死亡模式发现,RIPK1激酶活性对Mettl3基因敲除引发的细胞死亡至关重要。从机制上讲,这是通过 m6A 介导的 Atf3 转录调控发生的,Atf3 是一种转录因子,可直接与 Cflar(编码抗细胞死亡蛋白 cFLIP 的基因)结合。cFLIP 可抑制 RIPK1 的活性,从而抑制下游的凋亡和坏死信号传导。这些发现共同阐明了 METTL3-ATF3-cFLIP 轴通过阻断 RIPK1 的活性在肠上皮细胞平衡调节中的重要作用。
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引用次数: 0
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Cell Regeneration
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