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3D epigenomics and 3D epigenopathies. 三维表观基因组学和三维表观基因病。
IF 3.8 3区 生物学 Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2024-04-12 DOI: 10.5483/bmbrep.2023-0249
Kyung-Hwan Lee, Jungyu Kim, Ji Hun Kim
Mammalian genomes are intricately compacted to form sophisticated 3-dimensional structures within the tiny nucleus, so called 3D genome folding. Despite their shapes reminiscent of an entangled yarn, the rapid development of molecular and next-generation sequencing technologies (NGS) has revealed that mammalian genomes are highly organized in a hierarchical order that delicately affects transcription activities. An increasing amount of evidence suggests that 3D genome folding is implicated in diseases, giving us a clue on how to identify novel therapeutic approaches. In this review, we will study what 3D genome folding means in epigenetics, what types of 3D genome structures there are, how they are formed, and how the technologies have developed to explore them. We will also discuss the pathological implications of 3D genome folding. Finally, we will discuss how to leverage 3D genome folding and engineering for future studies.
哺乳动物的基因组错综复杂,在微小的细胞核内形成复杂的三维结构,即所谓的三维基因组折叠。尽管它们的形状让人联想到缠绕的纱线,但分子和下一代测序技术(NGS)的快速发展揭示了哺乳动物基因组高度有序的层次结构,微妙地影响着转录活动。越来越多的证据表明,三维基因组折叠与疾病有关,这为我们找到新的治疗方法提供了线索。在这篇综述中,我们将研究三维基因组折叠在表观遗传学中的意义、三维基因组结构有哪些类型、它们是如何形成的,以及探索它们的技术是如何发展的。我们还将讨论三维基因组折叠的病理影响。最后,我们将讨论如何在未来的研究中利用三维基因组折叠和工程学。
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引用次数: 0
The contribution of the nervous system in the cancer progression. 神经系统在癌症进展中的作用。
IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-04-01
Hongryeol Park, Chan Hee Lee

Cancer progression is driven by genetic mutations, environmental factors, and intricate interactions within the tumor microenvironment (TME). The TME comprises of diverse cell types, such as cancer cells, immune cells, stromal cells, and neuronal cells. These cells mutually influence each other through various factors, including cytokines, vascular perfusion, and matrix stiffness. In the initial or developmental stage of cancer, neurotrophic factors such as nerve growth factor, brain-derived neurotrophic factor, and glial cell line-derived neurotrophic factor are associated with poor prognosis of various cancers by communicating with cancer cells, immune cells, and peripheral nerves within the TME. Over the past decade, research has been conducted to prevent cancer growth by controlling the activation of neurotrophic factors within tumors, exhibiting a novel attemt in cancer treatment with promising results. More recently, research focusing on controlling cancer growth through regulation of the autonomic nervous system, including the sympathetic and parasympathetic nervous systems, has gained significant attention. Sympathetic signaling predominantly promotes tumor progression, while the role of parasympathetic signaling varies among different cancer types. Neurotransmitters released from these signalings can directly or indirectly affect tumor cells or immune cells within the TME. Additionally, sensory nerve significantly promotes cancer progression. In the advanced stage of cancer, cancer-associated cachexia occurs, characterized by tissue wasting and reduced quality of life. This process involves the pathways via brainstem growth and differentiation factor 15-glial cell line-derived neurotrophic factor receptor alpha-like signaling and hypothalamic proopiomelanocortin neurons. Our review highlights the critical role of neurotrophic factors as well as central nervous system on the progression of cancer, offering promising avenues for targeted therapeutic strategies. [BMB Reports 2024; 57(4): 167-175].

基因突变、环境因素以及肿瘤微环境(TME)内错综复杂的相互作用是癌症发展的驱动力。肿瘤微环境由不同类型的细胞组成,如癌细胞、免疫细胞、基质细胞和神经细胞。这些细胞通过细胞因子、血管灌注和基质硬度等各种因素相互影响。在癌症的初期或发展阶段,神经营养因子(如神经生长因子、脑源性神经营养因子和胶质细胞系源性神经营养因子)通过与 TME 内的癌细胞、免疫细胞和周围神经沟通,与各种癌症的不良预后有关。在过去十年中,通过控制肿瘤内神经营养因子的活化来防止癌症生长的研究一直在进行,这是癌症治疗领域的一项新尝试,并取得了可喜的成果。最近,通过调节自律神经系统(包括交感神经系统和副交感神经系统)来控制癌症生长的研究获得了极大关注。交感神经信号主要促进肿瘤进展,而副交感神经信号的作用则因癌症类型而异。这些信号所释放的神经递质可直接或间接影响肿瘤细胞或肿瘤组织内的免疫细胞。此外,感觉神经也会明显促进癌症的进展。在癌症晚期,会出现癌症相关恶病质,其特点是组织消瘦和生活质量下降。这一过程涉及通过脑干生长和分化因子 15-胶质细胞系源性神经营养因子受体α样信号传导和下丘脑原髓鞘皮质素神经元的途径。我们的综述强调了神经营养因子和中枢神经系统对癌症进展的关键作用,为靶向治疗策略提供了前景广阔的途径。
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引用次数: 0
Triamcinolone acetonide alleviates benign biliary stricture by ameliorating biliary fibrosis and inflammation. 曲安奈德通过改善胆道纤维化和炎症,缓解良性胆道狭窄。
IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-04-01
Seyeon Joo, See Young Lee, Su Yeon Lee, Yeseong Hwang, Minki Kim, Jae Woong Jeong, Sung Ill Jang, Sungsoon Fang

We conducted a comprehensive series of molecular biological studies aimed at unraveling the intricate mechanisms underlying the anti-fibrotic effects of triamcinolone acetonide (TA) when used in conjunction with fully covered self-expandable metal stents (FCSEMS) for the management of benign biliary strictures (BBS). To decipher the molecular mechanisms responsible for the anti-fibrotic effects of corticosteroids on gallbladder mucosa, we conducted a comprehensive analysis. This analysis included various methodologies such as immunohistochemistry, ELISA, real-time PCR, and transcriptome analysis, enabling us to examine alterations in factors related to fibrosis and inflammation at both the protein and RNA levels. Overall, our findings revealed a dose-dependent decrease in fibrosisrelated signaling with higher TA concentrations. The 15 mg of steroid treatment (1X) exhibited anti-fibrosis and anti-inflammatory effects after 4 weeks, whereas the 30 mg of steroid treatment (2X) rapidly reduced fibrosis and inflammation within 2 weeks in BBS. Transcriptomic analysis results consistently demonstrated significant downregulation of fibrosis- and inflammation-related pathways and genes in steroid-treated fibroblasts. Use of corticosteroids, specifically TA, together with FCSEMS was effective for the treatment of BBS, ameliorating fibrosis and inflammation. Our molecular biological analysis supports the potential development of steroid-eluted FCSEMS as a therapeutic option for BBS in humans resulting from various surgical procedures. [BMB Reports 2024; 57(4): 200-205].

我们开展了一系列全面的分子生物学研究,旨在揭示曲安奈德-醋酸曲安奈德(TA)与全覆盖自膨胀金属支架(FCSEMS)联合用于治疗良性胆道狭窄(BBS)时抗纤维化作用的复杂机制。为了破译皮质类固醇对胆囊粘膜抗纤维化作用的分子机制,我们进行了一项综合分析。该分析包括免疫组化、ELISA、实时 PCR 和转录组分析等多种方法,使我们能够在蛋白质和 RNA 水平上检查纤维化和炎症相关因子的变化。总体而言,我们的研究结果表明,随着TA浓度的升高,与纤维化相关的信号传导会出现剂量依赖性下降。15 毫克类固醇治疗(1 倍)在 4 周后显示出抗纤维化和抗炎症作用,而 30 毫克类固醇治疗(2 倍)在 2 周内迅速减轻了 BBS 的纤维化和炎症。转录组分析结果一致表明,在类固醇治疗的成纤维细胞中,与纤维化和炎症相关的通路和基因明显下调。使用皮质类固醇(特别是 TA)和 FCSEMS 可有效治疗 BBS,改善纤维化和炎症。我们的分子生物学分析支持将类固醇浸泡的 FCSEMS 作为治疗各种外科手术导致的人体 BBS 的潜在疗法。
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引用次数: 0
Mitofusin-2 enhances cervical cancer progression through Wnt/β-catenin signaling. Mitofusin-2 通过 Wnt/β-catenin 信号增强宫颈癌的进展。
IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-04-01
Sung Yong Ahn

Overexpression of mitofusin-2 (MFN2), a mitochondrial fusion protein, is frequently associated with poor prognosis in cervical cancer patients. Here, I aimed to investigate the involvement of MFN2 in cervical cancer progression and determine the effect of MFN2 on prognosis in cervical cancer patients. After generating MFN2-knockdown SiHa cells derived from squamous cell carcinoma, I investigated the effect of MFN2 on SiHa cell proliferation using the Cell Counting Kit-8 assay and determined the mRNA levels of proliferation markers. Colony-forming ability and tumorigenesis were evaluated using a colonyformation assay and tumor xenograft mouse models. The migratory and invasive abilities associated with MFN2 were measured using wound-healing and invasion assays. Wnt/β-cateninmediated epithelial-mesenchymal transition (EMT) markers related to MFN2 were assessed through quantitative RT-PCR. MFN2-knockdown SiHa cells exhibited reduced proliferation, colony formation, migration, invasion, and tumor formation in vivo. The motility of SiHa cells with MFN2 knockdown was reduced through Wnt/β-catenin-mediated EMT inhibition. MFN2 promoted cancer progression and tumorigenesis in SiHa cells. Overall, MFN2 could serve as a therapeutic target and a novel biomarker for cervical cancer. [BMB Reports 2024; 57(4): 194-199].

线粒体融合蛋白Mitofusin-2(MFN2)的过表达常常与宫颈癌患者的不良预后有关。在此,笔者旨在研究 MFN2 参与宫颈癌进展的情况,并确定 MFN2 对宫颈癌患者预后的影响。在制备了MFN2-敲除的鳞状细胞癌SiHa细胞后,我使用细胞计数试剂盒-8检测法研究了MFN2对SiHa细胞增殖的影响,并测定了增殖标志物的mRNA水平。利用集落形成试验和肿瘤异种移植小鼠模型对集落形成能力和肿瘤发生进行了评估。使用伤口愈合和侵袭试验测量了与 MFN2 相关的迁移和侵袭能力。通过定量 RT-PCR 评估了与 MFN2 相关的 Wnt/β-catenin 介导的上皮-间质转化(EMT)标记物。MFN2-敲除的SiHa细胞在体内表现出增殖、集落形成、迁移、侵袭和肿瘤形成的减少。通过Wnt/β-catenin介导的EMT抑制作用,MFN2敲除的SiHa细胞的运动能力降低。MFN2促进了SiHa细胞的癌症进展和肿瘤发生。总之,MFN2可作为宫颈癌的治疗靶点和新型生物标记物。
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引用次数: 0
Targeting cell surface glucose-regulated protein 94 in gastric cancer with an anti-GRP94 human monoclonal antibody. 用抗 GRP94 人单克隆抗体靶向胃癌细胞表面葡萄糖调节蛋白 94。
IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-04-01
Hyun Jung Kim, Yea Bin Cho, Kyun Heo, Ji Woong Kim, Ha Gyeong Shin, Eun-Bi Lee, Seong-Min Park, Jong Bae Park, Sukmook Lee

Gastric cancer (GC), a leading cause of cancer-related mortality, remains a significant challenge despite recent therapeutic advancements. In this study, we explore the potential of targeting cell surface glucose-regulated protein 94 (GRP94) with antibodies as a novel therapeutic approach for GC. Our comprehensive analysis of GRP94 expression across various cancer types, with a specific focus on GC, revealed a substantial overexpression of GRP94, highlighting its potential as a promising target. Through in vitro and in vivo efficacy assessments, as well as toxicological analyses, we found that K101.1, a fully human monoclonal antibody designed to specifically target cell surface GRP94, effectively inhibits GC growth and angiogenesis without causing in vivo toxicity. Furthermore, our findings indicate that K101.1 promotes the internalization and concurrent downregulation of cell surface GRP94 on GC cells. In conclusion, our study suggests that cell surface GRP94 may be a potential therapeutic target in GC, and that antibody-based targeting of cell surface GRP94 may be an effective strategy for inhibiting GRP94-mediated GC growth and angiogenesis. [BMB Reports 2024; 57(4): 188-193].

胃癌(GC)是导致癌症相关死亡的主要原因之一,尽管近年来在治疗方面取得了进展,但胃癌仍然是一项重大挑战。在本研究中,我们探讨了用抗体靶向细胞表面葡萄糖调节蛋白 94(GRP94)作为治疗胃癌新方法的潜力。我们对各种癌症类型中 GRP94 的表达进行了全面分析,并特别关注 GC,分析结果显示 GRP94 存在大量过表达,这凸显了 GRP94 作为有潜力靶点的潜力。通过体外和体内疗效评估以及毒理学分析,我们发现 K101.1 是一种专为靶向细胞表面 GRP94 而设计的全人源单克隆抗体,能有效抑制 GC 生长和血管生成,且不会引起体内毒性。此外,我们的研究结果表明,K101.1 能促进 GC 细胞内化并同时下调细胞表面 GRP94。总之,我们的研究表明细胞表面 GRP94 可能是 GC 的潜在治疗靶点,基于抗体靶向细胞表面 GRP94 可能是抑制 GRP94 介导的 GC 生长和血管生成的有效策略。
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引用次数: 0
ErbB3 binding protein 1 contributes to adult hippocampal neurogenesis by modulating Bmp4 and Ascl1 signaling. ErbB3结合蛋白1通过调节Bmp4和Ascl1信号传导促进成年海马神经发生。
IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-04-01
Youngkwan Kim, Hyo Rim Ko, Inwoo Hwang, Jee-Yin Ahn

Neural stem cells (NSCs) in the adult hippocampus divide infrequently; the endogenous molecules modulating adult hippocampal neurogenesis (AHN) remain largely unknown. Here, we show that ErbB3 binding protein 1 (Ebp1), which plays important roles in embryonic neurodevelopment, acts as an essential modulator of adult neurogenic factors. In vivo analysis of Ebp1 neuron depletion mice showed impaired AHN with a low number of hippocampal NSCs and neuroblasts. Ebp1 leads to transcriptional repression of Bmp4 and suppression of Ascl1 promoter methylation in the dentate gyrus of the adult hippocampus reflecting an unusually high level of Bmp4 and low Ascl1 level in neurons of Ebp1-deficient mice. Therefore, our findings suggests that Ebp1 could act as an endogenous modulator of the interplay between Bmp4 and Ascl1/Notch signaling, contributing to AHN. [BMB Reports 2024; 57(4): 182-187].

成年海马中的神经干细胞很少分裂;调节成年海马神经发生(AHN)的内源性分子在很大程度上仍是未知的。在这里,我们发现在胚胎神经发育中起重要作用的ErbB3结合蛋白1(Ebp1)是成人神经源性因子的重要调节剂。Ebp1神经元耗竭小鼠的体内分析显示AHN受损,海马神经干细胞和成神经细胞数量较少。Ebp1导致成年海马齿状回中Bmp4的转录抑制和Ascl1启动子甲基化的抑制,反映出在Ebp1缺陷小鼠的神经元中异常高的Bmp4水平和低的Ascl1水平。因此,我们的研究结果表明,Ebp1可能是Bmp4和Ascl1/Notch信号传导之间相互作用的内源性调节剂,有助于AHN。
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引用次数: 0
Memory allocation at the neuronal and synaptic levels. 神经元和突触水平的记忆分配。
IF 2.9 3区 生物学 Q3 BIOCHEMISTRY & MOLECULAR BIOLOGY Pub Date : 2024-04-01
HyoJin Park, Bong-Kiun Kaang

Memory allocation, which determines where memories are stored in specific neurons or synapses, has consistently been demonstrated to occur via specific mechanisms. Neuronal allocation studies have focused on the activated population of neurons and have shown that increased excitability via cAMP response element-binding protein (CREB) induces a bias toward memoryencoding neurons. Synaptic allocation suggests that synaptic tagging enables memory to be mediated through different synaptic strengthening mechanisms, even within a single neuron. In this review, we summarize the fundamental concepts of memory allocation at the neuronal and synaptic levels and discuss their potential interrelationships. [BMB Reports 2024; 57(4): 176-181].

记忆分配决定了记忆在特定神经元或突触中的存储位置,一直被证明是通过特定机制发生的。神经元分配研究主要集中在激活的神经元群上,并表明通过cAMP反应元件结合蛋白(CREB)增加的兴奋性诱导了对记忆编码神经元的偏好。突触分配表明,即使在单个神经元内,突触标记也可以通过不同的突触强化机制来调节记忆。在这篇综述中,我们总结了记忆分配在神经元和突触水平上的基本概念,并讨论了它们之间潜在的相互关系。
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引用次数: 0
Triamcinolone acetonide alleviates benign biliary stricture by ameliorating biliary fibrosis and inflammation 曲安奈德通过改善胆道纤维化和炎症缓解良性胆道狭窄
IF 3.8 3区 生物学 Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2024-03-11 DOI: 10.5483/bmbrep.2023-0234
Seyeon Joo, S. Lee, Su Yeon Lee, Yeseong Hwang, Minki Kim, Jae Woong Jeong, Sung Ill Jang, Sungsoon Fang
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引用次数: 0
Mitofusin-2 enhances cervical cancer progression through Wnt/β-catenin signaling. Mitofusin-2 通过 Wnt/β-catenin 信号增强宫颈癌的进展。
IF 3.8 3区 生物学 Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2024-03-07 DOI: 10.5483/bmbrep.2023-0205
S. Ahn
Overexpression of mitofusin-2 (MFN2), a mitochondrial fusion protein, is frequently associated with poor prognosis in cervical cancer patients. Here, I aimed to investigate the involvement of MFN2 in cervical cancer progression and determine the effect of MFN2 on prognosis in cervical cancer patients. After generating MFN2-knockdown SiHa cells derived from squamous cell carcinoma, I investigated the effect of MFN2 on SiHa cell proliferation using the Cell Counting Kit-8 assay and determined the mRNA levels of proliferation markers. Colony-forming ability and tumorigenesis were evaluated using a colony-formation assay and tumor xenograft mouse models. The migratory and invasive abilities associated with MFN2 were measured using wound-healing and invasion assays. Wnt/β-catenin-mediated epithelial-mesenchymal transition (EMT) markers related to MFN2 were assessed through quantitative RT-PCR. MFN2-knockdown SiHa cells exhibited reduced proliferation, colony formation, migration, invasion, and tumor formation in vivo. The motility of SiHa cells with MFN2 knockdown was reduced through Wnt/β-catenin-mediated EMT inhibition. MFN2 promoted cancer progression and tumorigenesis in SiHa cells. Overall, MFN2 could serve as a therapeutic target and a novel biomarker for cervical cancer.
线粒体融合蛋白Mitofusin-2(MFN2)的过表达常常与宫颈癌患者的不良预后有关。在此,笔者旨在研究 MFN2 参与宫颈癌进展的情况,并确定 MFN2 对宫颈癌患者预后的影响。在制备了MFN2-敲除的鳞状细胞癌SiHa细胞后,我使用细胞计数试剂盒-8检测法研究了MFN2对SiHa细胞增殖的影响,并测定了增殖标志物的mRNA水平。利用集落形成试验和肿瘤异种移植小鼠模型对集落形成能力和肿瘤发生进行了评估。使用伤口愈合和侵袭试验测量了与 MFN2 相关的迁移和侵袭能力。通过定量 RT-PCR 评估了与 MFN2 相关的 Wnt/β-catenin 介导的上皮-间质转化(EMT)标记物。MFN2-敲除的SiHa细胞在体内表现出增殖、集落形成、迁移、侵袭和肿瘤形成的减少。通过Wnt/β-catenin介导的EMT抑制作用,MFN2敲除的SiHa细胞的运动能力降低。MFN2促进了SiHa细胞的癌症进展和肿瘤发生。总之,MFN2可作为宫颈癌的治疗靶点和新型生物标记物。
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引用次数: 0
Targeting cell surface glucose-regulated protein 94 in gastric cancer with an anti-GRP94 human monoclonal antibody. 用抗 GRP94 人单克隆抗体靶向胃癌细胞表面葡萄糖调节蛋白 94。
IF 3.8 3区 生物学 Q2 Biochemistry, Genetics and Molecular Biology Pub Date : 2024-03-07 DOI: 10.5483/bmbrep.2023-0195
Hyun Jung Kim, Yea Bin Cho, Kyun Heo, Ji Woong Kim, Hanho Shin, Eun-Bi Lee, Seong-Min Park, Jong Bae Park, Sukmook Lee
Gastric cancer (GC), a leading cause of cancer-related mortality, remains a significant challenge despite recent therapeutic advancements. In this study, we explore the potential of targeting cell surface glucose-regulated protein 94 (GRP94) with antibodies as a novel therapeutic approach for GC. Our comprehensive analysis of GRP94 expression across various cancer types, with a specific focus on GC, revealed a substantial overexpression of GRP94, highlighting its potential as a promising target. Through in vitro and in vivo efficacy assessments, as well as toxicological analyses, we found that K101.1, a fully human monoclonal antibody designed to specifically target cell surface GRP94, effectively inhibits GC growth and angiogenesis without causing in vivo toxicity. Furthermore, our findings indicate that K101.1 promotes the internalization and concurrent downregulation of cell surface GRP94 on GC cells. In conclusion, our study suggests that cell surface GRP94 may be a potential therapeutic target in GC, and that antibody-based targeting of cell surface GRP94 may be an effective strategy for inhibiting GRP94-mediated GC growth and angiogenesis.
胃癌(GC)是导致癌症相关死亡的主要原因之一,尽管近年来在治疗方面取得了进展,但胃癌仍然是一项重大挑战。在本研究中,我们探讨了用抗体靶向细胞表面葡萄糖调节蛋白 94(GRP94)作为治疗胃癌新方法的潜力。我们对各种癌症类型中 GRP94 的表达进行了全面分析,并特别关注 GC,分析结果显示 GRP94 存在大量过表达,这凸显了 GRP94 作为有潜力靶点的潜力。通过体外和体内疗效评估以及毒理学分析,我们发现 K101.1 是一种专为靶向细胞表面 GRP94 而设计的全人源单克隆抗体,能有效抑制 GC 生长和血管生成,且不会引起体内毒性。此外,我们的研究结果表明,K101.1 能促进 GC 细胞内化并同时下调细胞表面 GRP94。总之,我们的研究表明细胞表面 GRP94 可能是 GC 的潜在治疗靶点,基于抗体靶向细胞表面 GRP94 可能是抑制 GRP94 介导的 GC 生长和血管生成的有效策略。
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引用次数: 0
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