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Distinct discrepancy in breast cancer organoids recapitulation among molecular subtypes revealed by single-cell transcriptomes analysis 单细胞转录组分析揭示乳腺癌器官组织分子亚型再现的差异
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-21 DOI: 10.1002/ctm2.70023
Ziqi Jia, Hengyi Xu, Yaru Zhang, Heng Cao, Chunyu Deng, Longchen Xu, Yuning Sun, Jiayi Li, Yansong Huang, Pengming Pu, Tongxuan Shang, Xiang Wang, Jianzhong Su, Jiaqi Liu
<p>Dear Editor,</p><p>Breast cancer organoids (BCOs) are increasingly recognised as crucial tools in personalised medicine,<span><sup>1</sup></span> yet a significant gap remains between the need for precise drug sensitivity assessments and the biological disparities observed between BCOs and primary breast cancer (PBC) tissues.<span><sup>2, 3</sup></span> Our extensive analysis of paired single-cell RNA sequencing data has revealed a substantial preservation of molecular characteristics in hormone receptor-positive (HR-positive) and HER2-positive breast cancers. However, in triple-negative breast cancer (TNBC), we observed marked variability in cell subpopulations, likely influenced by oxygen-enriched culture conditions.</p><p>To investigate the preservation of characteristics across different molecular subtypes of breast cancer, we cultured six BCOs representing three subtypes: two HR-positive, two HER2-positive, and two TNBCs derived from surgical samples without prior adjuvant treatments (for study design, see Figure S1; for images of successfully established organoids, see Figure S2; patient clinical characteristics are detailed in the Supplementary Table). Following establishment, single-cell RNA sequencing was performed on matched PBCs and BCOs, yielding 66,920 quality-controlled cells (Figure 1A; for contributions of samples, molecular subtypes, and sample sources, see Figure S3). Our analysis of cell type composition revealed a significant reduction in immune and stromal cells in BCOs compared to PBCs (adjusted <i>p</i> < 0.001; Figure 1B), while epithelial cells proportions nearly doubled (<i>p</i> = 0.031, median fold change = 0.96, IQR = 0.94-1.78, Figure 1C). This suggests that organoid culture better preserves epithelial cells, and co-culture systems are required for the preservation of the tumour microenvironment (TME).<span><sup>4</sup></span> Further analyses demonstrated reductions in both the proportions and functionality of all immune and stromal cell subpopulations (Figure 1D-F). Notably, both malignant and non-malignant epithelial cells were amplified in BCOs while maintaining key functional characteristics (Figure 1G-I; see Methods section in Supplementary Materials for malignancy determination). Thus, despite the observed differences in cell type distribution, these findings did not diminish the value of organoids as robust in vitro models for studying epithelial components of tumours.</p><p>To assess genomic concordance in PDOs,<sup>5</sup> we analysed copy number variation (CNV) as a genomic marker between BCOs and PBCs using both paired and unpaired comparisons. Our findings revealed that BCOs effectively preserved cellular-level CNVs from PBCs in five out of six cases (Figure 2A), with an average retention rate of 71.6%. This preservation was particularly robust in HR-positive breast cancer at 88.2%, though it was less pronounced in TNBC at 62.4% (Figure 2B and C). Moreover, BCOs demonstrated the ability to amplify
亲爱的编辑,乳腺癌有机体(BCOs)越来越被认为是个性化医疗的重要工具1,但在精确药物敏感性评估的需求与BCOs和原发性乳腺癌(PBC)组织之间观察到的生物学差异之间仍存在巨大差距2, 3。我们对配对单细胞RNA测序数据的广泛分析表明,激素受体阳性(HR阳性)和HER2阳性乳腺癌的分子特征得到了很大程度的保留。为了研究不同分子亚型乳腺癌的特征保留情况,我们培养了代表三种亚型的六种 BCOs:两种 HR 阳性、两种 HER2 阳性和两种 TNBCs,它们都来自事先未接受辅助治疗的手术样本(研究设计见图 S1;成功建立的有机体图像见图 S2;患者临床特征详见附表)。建立后,对匹配的PBC和BCO进行了单细胞RNA测序,得到了66,920个质控细胞(图1A;样本贡献、分子亚型和样本来源见图S3)。我们对细胞类型组成的分析表明,与 PBCs 相比,BCOs 中的免疫细胞和基质细胞显著减少(调整后 p &lt; 0.001;图 1B),而上皮细胞的比例几乎翻了一番(p = 0.031,中位折叠变化 = 0.96,IQR = 0.94-1.78,图 1C)。4 进一步的分析表明,所有免疫细胞和基质细胞亚群的比例和功能都有所下降(图 1D-F)。值得注意的是,BCOs 中的恶性和非恶性上皮细胞均有扩增,同时保持了关键的功能特征(图 1G-I;恶性程度的测定方法见补充材料中的方法部分)。因此,尽管观察到细胞类型分布存在差异,但这些发现并没有降低有机体作为研究肿瘤上皮成分的强大体外模型的价值。为了评估 PDOs 的基因组一致性,5 我们使用配对和非配对比较的方法分析了 BCOs 和 PBCs 之间作为基因组标记的拷贝数变异(CNV)。我们的研究结果表明,在六个病例中,有五个病例的 BCO 有效保留了 PBC 的细胞级 CNV(图 2A),平均保留率为 71.6%。这种保留在 HR 阳性乳腺癌中尤为明显,保留率高达 88.2%,但在 TNBC 中的保留率较低,仅为 62.4%(图 2B 和 C)。此外,BCOs 还能扩增 CNV 的大小和比例,包括关键致癌基因,如 8q 染色体上的 MYC 和其他肿瘤驱动基因,从而导致扩增或删除 CNV 的细胞水平和比例增加(图 S4)。在P06患者身上观察到的CNV保存率较低,这与TNBC亚型有关,凸显了在此类病例中加强质量控制的必要性。虽然之前的研究记录了BCO中不同的DNA拷贝数保留情况,但我们的数据进一步证实,虽然不同分子亚型的保留模式各不相同,但器官组织显示出更强更清晰的CNV信号。PAM50 检测证实,BCOs 准确地保留了原始样本的分子亚型(图 2D)6。然而,在 HR 阳性乳腺癌中,与 PBCs 相比,BCOs 中 ESR1 的表达和 ESR1 高表达细胞的比例都显著降低(p &lt; 0.001,图 S5)。对于HER2阳性乳腺癌,PBCs和BCOs中99.5%的细胞都表现出ERBB2/HER2表达升高,但PBCs中的表达水平更高(p &lt; 0.05,图S5)。为了评估不同分子亚型 BCOs 中的细胞异质性和关键细胞群的保留情况,我们采用 Seurat 将细胞聚类为 11 个功能亚群(图 2E)。7 对分子亚型和这些亚群起源的分析表明,在 HR 阳性乳腺癌中占主导地位的雌激素受体反应亚群和在 HER2 阳性乳腺癌中占突出地位的代谢亚群在有机体中得到了高度保留。
{"title":"Distinct discrepancy in breast cancer organoids recapitulation among molecular subtypes revealed by single-cell transcriptomes analysis","authors":"Ziqi Jia,&nbsp;Hengyi Xu,&nbsp;Yaru Zhang,&nbsp;Heng Cao,&nbsp;Chunyu Deng,&nbsp;Longchen Xu,&nbsp;Yuning Sun,&nbsp;Jiayi Li,&nbsp;Yansong Huang,&nbsp;Pengming Pu,&nbsp;Tongxuan Shang,&nbsp;Xiang Wang,&nbsp;Jianzhong Su,&nbsp;Jiaqi Liu","doi":"10.1002/ctm2.70023","DOIUrl":"https://doi.org/10.1002/ctm2.70023","url":null,"abstract":"&lt;p&gt;Dear Editor,&lt;/p&gt;&lt;p&gt;Breast cancer organoids (BCOs) are increasingly recognised as crucial tools in personalised medicine,&lt;span&gt;&lt;sup&gt;1&lt;/sup&gt;&lt;/span&gt; yet a significant gap remains between the need for precise drug sensitivity assessments and the biological disparities observed between BCOs and primary breast cancer (PBC) tissues.&lt;span&gt;&lt;sup&gt;2, 3&lt;/sup&gt;&lt;/span&gt; Our extensive analysis of paired single-cell RNA sequencing data has revealed a substantial preservation of molecular characteristics in hormone receptor-positive (HR-positive) and HER2-positive breast cancers. However, in triple-negative breast cancer (TNBC), we observed marked variability in cell subpopulations, likely influenced by oxygen-enriched culture conditions.&lt;/p&gt;&lt;p&gt;To investigate the preservation of characteristics across different molecular subtypes of breast cancer, we cultured six BCOs representing three subtypes: two HR-positive, two HER2-positive, and two TNBCs derived from surgical samples without prior adjuvant treatments (for study design, see Figure S1; for images of successfully established organoids, see Figure S2; patient clinical characteristics are detailed in the Supplementary Table). Following establishment, single-cell RNA sequencing was performed on matched PBCs and BCOs, yielding 66,920 quality-controlled cells (Figure 1A; for contributions of samples, molecular subtypes, and sample sources, see Figure S3). Our analysis of cell type composition revealed a significant reduction in immune and stromal cells in BCOs compared to PBCs (adjusted &lt;i&gt;p&lt;/i&gt; &lt; 0.001; Figure 1B), while epithelial cells proportions nearly doubled (&lt;i&gt;p&lt;/i&gt; = 0.031, median fold change = 0.96, IQR = 0.94-1.78, Figure 1C). This suggests that organoid culture better preserves epithelial cells, and co-culture systems are required for the preservation of the tumour microenvironment (TME).&lt;span&gt;&lt;sup&gt;4&lt;/sup&gt;&lt;/span&gt; Further analyses demonstrated reductions in both the proportions and functionality of all immune and stromal cell subpopulations (Figure 1D-F). Notably, both malignant and non-malignant epithelial cells were amplified in BCOs while maintaining key functional characteristics (Figure 1G-I; see Methods section in Supplementary Materials for malignancy determination). Thus, despite the observed differences in cell type distribution, these findings did not diminish the value of organoids as robust in vitro models for studying epithelial components of tumours.&lt;/p&gt;&lt;p&gt;To assess genomic concordance in PDOs,&lt;sup&gt;5&lt;/sup&gt; we analysed copy number variation (CNV) as a genomic marker between BCOs and PBCs using both paired and unpaired comparisons. Our findings revealed that BCOs effectively preserved cellular-level CNVs from PBCs in five out of six cases (Figure 2A), with an average retention rate of 71.6%. This preservation was particularly robust in HR-positive breast cancer at 88.2%, though it was less pronounced in TNBC at 62.4% (Figure 2B and C). Moreover, BCOs demonstrated the ability to amplify ","PeriodicalId":10189,"journal":{"name":"Clinical and Translational Medicine","volume":"14 9","pages":""},"PeriodicalIF":7.9,"publicationDate":"2024-09-21","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ctm2.70023","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142276619","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
IFIT3 mediates TBK1 phosphorylation to promote activation of pDCs and exacerbate systemic sclerosis in mice IFIT3 介导 TBK1 磷酸化,促进 pDC 的活化并加剧小鼠的系统性硬化症
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-20 DOI: 10.1002/ctm2.1800
Xiangyang Huang, Yi Liu, Xia Rong, Yiheng Zhao, Dan Feng, Jun Wang, Wanhong Xing
<div> <section> <h3> Objective</h3> <p>To assess the impact of the IFIT3/TBK1 signalling pathway in activating plasmacytoid dendritic cells (pDCs) and its role in the development of SSc.</p> </section> <section> <h3> Methods</h3> <p>Utilized single-cell RNA sequencing (scRNA-seq) and high-throughput transcriptome RNA sequencing to reveal the differential abundance of pDCs and the role of the key gene IFIT3 in SSc. Conducted in vitro cell experiments to evaluate the effect of IFIT3/TBK1 signalling pathway intervention on pDC activation cytokine release and fibroblast function. Constructed an IFIT3<sup>−/−</sup> mouse model using clustered regularly interspaced short palindromic repeats (CRISPR)/CRISPR-associated protein 9 (Cas9) gene editing to assess the potential benefits of intervening in the IFIT3/TBK1 signalling pathway on skin and lung fibrosis in the SSc mouse model.</p> </section> <section> <h3> Results</h3> <p>The IFIT3/TBK1 signalling pathway plays a crucial role in activating pDCs, with IFIT3 acting as an upstream regulator of TBK1. Intervention in the IFIT3/TBK1 signalling pathway can inhibit pDC activation cytokine release and impact fibroblast function. The IFIT3<sup>−/−</sup> mouse model shows potential benefits of targeting the IFIT3/TBK1 signalling pathway in reducing skin and lung fibrosis in the SSc mouse model.</p> </section> <section> <h3> Conclusion</h3> <p>This study provides new insights into potential therapeutic targets for SSc, highlighting the critical role of the IFIT3/TBK1 signalling pathway in SSc development.</p> </section> <section> <h3> Highlights</h3> <div> <ul> <li>This study elucidates the pivotal role of plasmacytoid dendritic cells (pDCs) in systemic sclerosis (SSc).</li> <li>This study identified the key regulatory gene involved in systemic sclerosis (SSc) as IFIT3.</li> <li>This study has found that IFIT3 functions as an upstream regulatory factor, activating TBK1.</li> <li>This study provides Evidence of the regulatory effects of the IFIT3/TBK1 pathway on plasmacytoid dendritic cells (pDCs).</li> <li>This study validated the therapeutic potential using the IFIT3<sup>−/−</sup> mouse model.</li> </ul> </div> </section>
目的 评估 IFIT3/TBK1 信号通路在激活浆细胞树突状细胞(pDCs)中的影响及其在 SSc 发病中的作用。 方法 利用单细胞 RNA 测序(scRNA-seq)和高通量转录组 RNA 测序来揭示 pDCs 的不同丰度以及关键基因 IFIT3 在 SSc 中的作用。进行体外细胞实验,评估 IFIT3/TBK1 信号通路干预对 pDC 活化细胞因子释放和成纤维细胞功能的影响。利用簇状规则间隔短回文重复序列(CRISPR)/CRISPR相关蛋白9(Cas9)基因编辑技术构建IFIT3-/-小鼠模型,以评估干预IFIT3/TBK1信号通路对SSc小鼠模型中皮肤和肺纤维化的潜在益处。 结果 IFIT3/TBK1信号通路在激活pDC中起着至关重要的作用,其中IFIT3是TBK1的上游调节因子。干预 IFIT3/TBK1 信号通路可抑制 pDC 激活细胞因子的释放并影响成纤维细胞的功能。IFIT3-/- 小鼠模型表明,靶向 IFIT3/TBK1 信号通路可减少 SSc 小鼠模型中的皮肤和肺纤维化。 结论 本研究为SSc的潜在治疗靶点提供了新的见解,强调了IFIT3/TBK1信号通路在SSc发展过程中的关键作用。 亮点 本研究阐明了浆细胞树突状细胞(pDCs)在系统性硬化症(SSc)中的关键作用。 这项研究确定了参与系统性硬化症(SSc)的关键调控基因为 IFIT3。 该研究发现,IFIT3 作为上游调控因子激活了 TBK1。 这项研究为 IFIT3/TBK1 通路对质类树突状细胞(pDCs)的调控作用提供了证据。 这项研究利用 IFIT3-/- 小鼠模型验证了治疗潜力。
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引用次数: 0
Identification of hypoxic macrophages in glioblastoma: Unveiling therapeutic insights from tumour microenvironment analysis 识别胶质母细胞瘤中的缺氧巨噬细胞:从肿瘤微环境分析中揭示治疗思路
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-19 DOI: 10.1002/ctm2.70013
Zhen Qin, Xiu-Wu Bian, Yu Shi

Tumor-associatedmacrophages (TAMs) exhibit remarkable heterogeneity in glioblastoma. Spatially resolved single-cell transcriptomic studies identified a monocyte-derived TAM subset localized in the peri-necrotic niche, driven by hypoxic cues to acquire ahypoxia response signature. These hypoxia-TAMs destabilize endothelial adherens junctions through adrenomedullin paracrine signaling, promoting the formation of hyperpermeable neovasculature that impedes drug delivery. Blocking adrenomedullin produced by hypoxia-TAMs restores vascular integrity, increases drug deliveryinto tumors, and provides combinatorial therapeutic benefits. Here we discuss the heterogeneity of TAMs regarding functional states and locations in glioblastomas, and propose future directions for studying the temporospatial dynamics of multifaceted TAM.

Highlights

  • Single-cell omics reveal a functionally and spatially distinct hypoxia-TAM subset in glioblastoma.
  • Adrenomedullin secreted by hypoxia-TAM destabilizes tumor vasculature and its blockade enhances vessel integrity and drug delivery.
肿瘤相关巨噬细胞(TAMs)在胶质母细胞瘤中表现出显著的异质性。空间分辨单细胞转录组研究发现,单核细胞衍生的 TAM 亚群定位在坏死周围的龛位中,在缺氧线索的驱动下获得缺氧反应特征。这些缺氧-TAM 通过肾上腺髓质素旁分泌信号破坏内皮粘连接头的稳定性,促进形成阻碍药物输送的高渗透性新血管。阻断缺氧-TAMs 产生的肾上腺髓质素可以恢复血管完整性,增加向肿瘤内的药物输送,并提供综合治疗效果。在此,我们讨论了胶质母细胞瘤中 TAMs 在功能状态和位置方面的异质性,并提出了研究多元 TAM 时空动态的未来方向。 亮点 单细胞组学揭示了胶质母细胞瘤中功能和空间上不同的缺氧-TAM亚群。 低氧-TAM分泌的肾上腺髓质素能破坏肿瘤血管的稳定性,阻断肾上腺髓质素能增强血管的完整性和药物输送。
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引用次数: 0
ANKRD1 aggravates renal ischaemia‒reperfusion injury via promoting TRIM25-mediated ubiquitination of ACSL3 ANKRD1 通过促进 TRIM25 介导的 ACSL3 泛素化加重肾缺血再灌注损伤
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-17 DOI: 10.1002/ctm2.70024
Shangting Han, Jiayu Guo, Chenyang Kong, Jun Li, Fangyou Lin, Jiefu Zhu, Tianyu Wang, Qi Chen, Yiting Liu, Haochong Hu, Tao Qiu, Fan Cheng, Jiangqiao Zhou
<div> <section> <h3> Background</h3> <p>Renal ischaemia‒reperfusion injury (IRI) is the primary cause of acute kidney injury (AKI). To date, effective therapies for delaying renal IRI and postponing patient survival remain absent. Ankyrin repeat domain 1 (ANKRD1) has been implicated in some pathophysiologic processes, but its role in renal IRI has not been explored.</p> </section> <section> <h3> Methods</h3> <p>The mouse model of IRI-AKI and in vitro model were utilised to investigate the role of ANKRD1. Immunoprecipitation-mass spectrometry was performed to identify potential ANKRD1-interacting proteins. Protein‒protein interactions and protein ubiquitination were examined using immunoprecipitation and proximity ligation assay and immunoblotting, respectively. Cell viability, damage and lipid peroxidation were evaluated using biochemical and cellular techniques.</p> </section> <section> <h3> Results</h3> <p>First, we unveiled that ANKRD1 were significantly elevated in renal IRI models. Global knockdown of ANKRD1 in all cell types of mouse kidney by recombinant adeno-associated virus (rAAV9)-mitigated ischaemia/reperfusion-induced renal damage and failure. Silencing <i>ANKRD1</i> enhanced cell viability and alleviated cell damage in human renal proximal tubule cells exposed to hypoxia reoxygenation or hydrogen peroxide, while ANKRD1 overexpression had the opposite effect. Second, we discovered that ANKRD1's detrimental function during renal IRI involves promoting lipid peroxidation and ferroptosis by directly binding to and decreasing levels of acyl-coenzyme A synthetase long-chain family member 3 (ACSL3), a key protein in lipid metabolism. Furthermore, attenuating ACSL3 in vivo through pharmaceutical approach and in vitro via RNA interference mitigated the anti-ferroptotic effect of <i>ANKRD1</i> knockdown. Finally, we showed ANKRD1 facilitated post-translational degradation of ACSL3 by modulating E3 ligase tripartite motif containing 25 (TRIM25) to catalyse K63-linked ubiquitination of ACSL3, thereby amplifying lipid peroxidation and ferroptosis, exacerbating renal injury.</p> </section> <section> <h3> Conclusions</h3> <p>Our study revealed a previously unknown function of ANKRD1 in renal IRI. By driving ACSL3 ubiquitination and degradation, ANKRD1 aggravates ferroptosis and ultimately exacerbates IRI-AKI, underlining ANKRD1's potential as a therapeutic target for kidney IRI.</p> </section> <section> <h3> Key Points/Highlights</h3> <div>
背景 肾缺血再灌注损伤(IRI)是急性肾损伤(AKI)的主要原因。迄今为止,延迟肾脏 IRI 和延长患者生存期的有效疗法仍然缺乏。安基蛋白重复结构域 1(ANKRD1)与某些病理生理过程有关联,但它在肾脏 IRI 中的作用尚未得到探讨。 方法 利用 IRI-AKI 小鼠模型和体外模型研究 ANKRD1 的作用。采用免疫沉淀-质谱法鉴定潜在的与 ANKRD1 相互作用的蛋白质。分别使用免疫沉淀和近接试验以及免疫印迹法检测了蛋白质与蛋白质之间的相互作用和蛋白质泛素化。使用生化和细胞技术评估了细胞活力、损伤和脂质过氧化。 结果 首先,我们发现 ANKRD1 在肾脏 IRI 模型中显著升高。通过重组腺相关病毒(rAAV9)在小鼠肾脏的所有细胞类型中全面敲除 ANKRD1 可减轻缺血/再灌注诱导的肾损伤和衰竭。在暴露于缺氧复氧或过氧化氢的人肾近曲小管细胞中,沉默ANKRD1可提高细胞活力并减轻细胞损伤,而过表达ANKRD1则产生相反的效果。其次,我们发现 ANKRD1 在肾脏 IRI 期间的有害功能包括通过直接与酰基辅酶 A 合成酶长链家族成员 3(ACSL3)结合并降低其水平来促进脂质过氧化和铁变态反应。此外,通过药物方法和体外 RNA 干扰减弱体内 ACSL3 可减轻 ANKRD1 敲除的抗铁锈作用。最后,我们发现 ANKRD1 通过调节 E3 连接酶含三方基序 25(TRIM25)催化 ACSL3 的 K63 链接泛素化,促进了 ACSL3 的翻译后降解,从而扩大了脂质过氧化和铁变态反应,加重了肾损伤。 结论 我们的研究揭示了 ANKRD1 在肾脏 IRI 中以前未知的功能。通过驱动 ACSL3 泛素化和降解,ANKRD1 加剧了铁蛋白沉积,并最终加剧了 IRI-AKI,这凸显了 ANKRD1 作为肾脏 IRI 治疗靶点的潜力。 要点/亮点 Ankyrin repeat domain 1(ANKRD1)在体内和体外肾缺血再灌注损伤(IRI)模型中被迅速激活。 敲除 ANKRD1 可减轻肾损伤并保护肾功能。 在肾脏 IRI 中,ANKRD1 的功能恶化与铁蛋白沉积有关。 ANKRD1通过泛素-蛋白酶体途径促进酰基辅酶A合成酶长链家族成员3(ACSL3)降解。 E3连接酶含三方基序25(TRIM25)负责ANKRD1介导的ACSL3泛素化。
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引用次数: 0
NY-ESO-1 antigen: A promising frontier in cancer immunotherapy NY-ESO-1 抗原:癌症免疫疗法中前景广阔的前沿领域
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-14 DOI: 10.1002/ctm2.70020
Alaa Alsalloum, Julia A. Shevchenko, Sergey Sennikov
<div> <section> <p>Significant strides have been made in identifying tumour-associated antigens over the past decade, revealing unique epitopes crucial for targeted cancer therapy. Among these, the New York esophageal squamous cell carcinoma (NY-ESO-1) protein, a cancer/testis antigen, stands out. This protein is presented on the cell surface by major histocompatibility complex class I molecules and exhibits restricted expression in germline cells and various cancers, marking it as an immune-privileged site. Remarkably, NY-ESO-1 serves a dual role as both a tumour-associated antigen and its own adjuvant, implying a potential function as a damage-associated molecular pattern. It elicits strong humoural immune responses, with specific antibody frequencies significantly correlating with disease progression. These characteristics make NY-ESO-1 an appealing candidate for developing effective and specific immunotherapy, particularly for advanced stages of disease. In this review, we provide a comprehensive overview of NY-ESO-1 as an immunogenic tumour antigen. We then explore the diverse strategies for targeting NY-ESO-1, including cancer vaccination with peptides, proteins, DNA, mRNA, bacterial vectors, viral vectors, dendritic cells and artificial adjuvant vector cells, while considering the benefits and drawbacks of each strategy. Additionally, we offer an in-depth analysis of adoptive T-cell therapies, highlighting innovative techniques such as next-generation NY-ESO-1 T-cell products and the integration with lymph node-targeted vaccines to address challenges and enhance therapeutic efficacy. Overall, this comprehensive review sheds light on the evolving landscape of NY-ESO-1 targeting and its potential implications for cancer treatment, opening avenues for future tailored directions in NY-ESO-1-specific immunotherapy.</p> </section> <section> <h3> Highlights</h3> <div> <ul> <li> <p>Endogenous immune response: NY-ESO-1 exhibited high immunogenicity, activating endogenous dendritic cells, T cells and B cells.</p> </li> <li> <p>NY-ESO-1-based cancer vaccines: NY-ESO-1 vaccines using protein/peptide, RNA/DNA, microbial vectors and artificial adjuvant vector cells have shown promise in enhancing immune responses against tumours.</p> </li> <li> <p>NY-ESO-1-specific T-cell receptor-engineered cells: NY-ESO-1-targeted T cells, along with ongoing innovations in engineered natural killer cells and other cell therapies, have improved the efficacy of immunotherapy.</p> </li> </ul>
过去十年来,在鉴定肿瘤相关抗原方面取得了重大进展,揭示了对癌症靶向治疗至关重要的独特表位。其中,纽约食管鳞状细胞癌(NY-ESO-1)蛋白这一癌症/睾丸抗原尤为突出。这种蛋白通过主要组织相容性复合体 I 类分子呈现在细胞表面,在生殖细胞和各种癌症中的表达受到限制,因此是一个免疫优势位点。值得注意的是,NY-ESO-1 具有双重作用,既是肿瘤相关抗原,又是其自身的佐剂,这意味着它可能具有损伤相关分子模式的功能。它能引起强烈的体液免疫反应,特异性抗体频率与疾病进展密切相关。这些特点使 NY-ESO-1 成为开发有效和特异性免疫疗法的理想候选药物,尤其是针对晚期疾病。在本综述中,我们将全面概述作为免疫原的肿瘤抗原 NY-ESO-1。然后,我们探讨了针对 NY-ESO-1 的各种策略,包括使用肽、蛋白质、DNA、mRNA、细菌载体、病毒载体、树突状细胞和人工佐剂载体细胞接种癌症疫苗,同时考虑了每种策略的优点和缺点。此外,我们还深入分析了领养 T 细胞疗法,重点介绍了下一代 NY-ESO-1 T 细胞产品等创新技术以及与淋巴结靶向疫苗的整合,以应对挑战并提高疗效。总之,这篇全面的综述揭示了 NY-ESO-1 靶向不断发展的现状及其对癌症治疗的潜在影响,为 NY-ESO-1 特异性免疫疗法的未来定制方向开辟了道路。 亮点 内源性免疫反应:NY-ESO-1 具有很高的免疫原性,可激活内源性树突状细胞、T 细胞和 B 细胞。 基于 NY-ESO-1 的癌症疫苗:使用蛋白质/肽、RNA/DNA、微生物载体和人工佐剂载体细胞的 NY-ESO-1 疫苗在增强抗肿瘤免疫反应方面表现良好。 NY-ESO-1特异性T细胞受体工程细胞:以 NY-ESO-1 为靶点的 T 细胞,以及工程自然杀伤细胞和其他细胞疗法的不断创新,提高了免疫疗法的疗效。
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引用次数: 0
STING-ATF3/type I interferon crosstalk: A potential target to improve anti-tumour immunity in chemotherapy-treated urothelial carcinoma STING-ATF3/I型干扰素串扰:提高化疗尿路上皮癌患者抗肿瘤免疫力的潜在靶点
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-13 DOI: 10.1002/ctm2.70011
Alexandra Fauvre, Margot Machu, Audrey Merienne, Nadia Vie, Thomas Bessede, Mathilde Robin, Veronique Garambois, Clara Taffoni, Nadine Laguette, Nadine Gervois-Segain, Anne Jarry, Nathalie Labarriere, Yves Allory, Christel Larbouret, Laurent Gros, Diego Tosi, David B. Solit, Philippe Pourquier, Nadine Houédé, Celine Gongora
<p>Dear Editor,</p><p>In this study, we present the first demonstration that activation of the cGAS-STING pathway in tumour cells by chemotherapies does not necessarily lead to the production of type I interferon. Indeed, we show that the transcription factor ATF3, also induced by chemotherapies, acts as a transcriptional inhibitor of type I Interferon.</p><p>Upper tract urothelial carcinomas (UTUCs) are extremely aggressive and immunosuppressed tumours.<span><sup>1</sup></span> UTUC management is based on the combination of cisplatin and gemcitabine (CisGem) or carboplatin and gemcitabine (CarboGem); however, the relapse rate is > 50%.<span><sup>2</sup></span> Here, we investigated CisGem and CarboGem effects in UTUC (UM-UC-14, UCC-03, UCC-14 and UCC-17) and bladder cancer cell lines (HT-1197 and MB49) to identify additional targets that might improve their efficiency.</p><p>First, using a full-range dose matrix approach<span><sup>3</sup></span> SRB cytotoxicity assays we found that CisGem and CarboGem displayed an additive effect in 2D cultures and areas of synergistic effects in 3D cultures of UM-UC-14, HT-1197, MB49, UCC-03 and UCC-17 cells (Figure S1A), independently of their sensitivity (IC<sub>50</sub> in Figure S1B) to these drugs. Moreover, H2AX, ATM, ATR, CHK1 and CHK2 (but not DNA-PKcs) phosphorylation was increased in cells incubated with CisGem or CarboGem, indicating DNA damage induction and DNA damage response pathway activation (multiplexed immunofluorescence analysis; Figure S2A).</p><p>RNA-sequencing analysis of UM-UC-14 cells incubated with CisGem for 24 h identified 482 upregulated genes (particularly <i>ATF3</i>) and 376 downregulated genes (Figure S3A). Gene Set Enrichment Analysis indicated that four of the ten most differentially expressed gene sets were related to inflammation (Figure 1A). The enrichment scores for these four gene sets were high (<i>p</i> = 0.0026) and many IFN-stimulated genes (ISGs) were upregulated (Figure 1B and Figure S3B). We obtained similar results with CarboGem (Figure S3C–E). Moreover, in vitro analysis of calreticulin exposure, ATP release and HMGB1 release (Figure 2C–E) showed that the combinations induce immunogenic cell death markers, unlike cisplatin and carboplatin alone. Both combinations also upregulated <i>PD-L1</i> transcript, protein levels and PD-L1 cell surface expression (Figure S4A–D).</p><p>As DNA damage can activate the cGAS-STING pathway,<span><sup>4, 5</sup></span> particularly by releasing damaged DNA into the cytosol, we monitored the presence of DNA in the cytoplasm, TBK1 (STING target) and IRF3 phosphorylation, and ISG expression (RT-qPCR) after incubation (or not) with CisGem and CarboGem. The amount of cytosolic DNA was slightly higher (Figure 1F and Figure S2B), and phosphorylation of TBK1 and IRF3 (Figure 1G and Figure S2C), but not of NF-κB (Figure S4E) was increased in treated than untreated cultures. Moreover, CisGem and CarboGem induced expression of ISGs (Figur
所有人体研究都经过了相关机构审查委员会/伦理委员会的审查和批准,并按照作者的伦理标准进行。
{"title":"STING-ATF3/type I interferon crosstalk: A potential target to improve anti-tumour immunity in chemotherapy-treated urothelial carcinoma","authors":"Alexandra Fauvre,&nbsp;Margot Machu,&nbsp;Audrey Merienne,&nbsp;Nadia Vie,&nbsp;Thomas Bessede,&nbsp;Mathilde Robin,&nbsp;Veronique Garambois,&nbsp;Clara Taffoni,&nbsp;Nadine Laguette,&nbsp;Nadine Gervois-Segain,&nbsp;Anne Jarry,&nbsp;Nathalie Labarriere,&nbsp;Yves Allory,&nbsp;Christel Larbouret,&nbsp;Laurent Gros,&nbsp;Diego Tosi,&nbsp;David B. Solit,&nbsp;Philippe Pourquier,&nbsp;Nadine Houédé,&nbsp;Celine Gongora","doi":"10.1002/ctm2.70011","DOIUrl":"https://doi.org/10.1002/ctm2.70011","url":null,"abstract":"&lt;p&gt;Dear Editor,&lt;/p&gt;&lt;p&gt;In this study, we present the first demonstration that activation of the cGAS-STING pathway in tumour cells by chemotherapies does not necessarily lead to the production of type I interferon. Indeed, we show that the transcription factor ATF3, also induced by chemotherapies, acts as a transcriptional inhibitor of type I Interferon.&lt;/p&gt;&lt;p&gt;Upper tract urothelial carcinomas (UTUCs) are extremely aggressive and immunosuppressed tumours.&lt;span&gt;&lt;sup&gt;1&lt;/sup&gt;&lt;/span&gt; UTUC management is based on the combination of cisplatin and gemcitabine (CisGem) or carboplatin and gemcitabine (CarboGem); however, the relapse rate is &gt; 50%.&lt;span&gt;&lt;sup&gt;2&lt;/sup&gt;&lt;/span&gt; Here, we investigated CisGem and CarboGem effects in UTUC (UM-UC-14, UCC-03, UCC-14 and UCC-17) and bladder cancer cell lines (HT-1197 and MB49) to identify additional targets that might improve their efficiency.&lt;/p&gt;&lt;p&gt;First, using a full-range dose matrix approach&lt;span&gt;&lt;sup&gt;3&lt;/sup&gt;&lt;/span&gt; SRB cytotoxicity assays we found that CisGem and CarboGem displayed an additive effect in 2D cultures and areas of synergistic effects in 3D cultures of UM-UC-14, HT-1197, MB49, UCC-03 and UCC-17 cells (Figure S1A), independently of their sensitivity (IC&lt;sub&gt;50&lt;/sub&gt; in Figure S1B) to these drugs. Moreover, H2AX, ATM, ATR, CHK1 and CHK2 (but not DNA-PKcs) phosphorylation was increased in cells incubated with CisGem or CarboGem, indicating DNA damage induction and DNA damage response pathway activation (multiplexed immunofluorescence analysis; Figure S2A).&lt;/p&gt;&lt;p&gt;RNA-sequencing analysis of UM-UC-14 cells incubated with CisGem for 24 h identified 482 upregulated genes (particularly &lt;i&gt;ATF3&lt;/i&gt;) and 376 downregulated genes (Figure S3A). Gene Set Enrichment Analysis indicated that four of the ten most differentially expressed gene sets were related to inflammation (Figure 1A). The enrichment scores for these four gene sets were high (&lt;i&gt;p&lt;/i&gt; = 0.0026) and many IFN-stimulated genes (ISGs) were upregulated (Figure 1B and Figure S3B). We obtained similar results with CarboGem (Figure S3C–E). Moreover, in vitro analysis of calreticulin exposure, ATP release and HMGB1 release (Figure 2C–E) showed that the combinations induce immunogenic cell death markers, unlike cisplatin and carboplatin alone. Both combinations also upregulated &lt;i&gt;PD-L1&lt;/i&gt; transcript, protein levels and PD-L1 cell surface expression (Figure S4A–D).&lt;/p&gt;&lt;p&gt;As DNA damage can activate the cGAS-STING pathway,&lt;span&gt;&lt;sup&gt;4, 5&lt;/sup&gt;&lt;/span&gt; particularly by releasing damaged DNA into the cytosol, we monitored the presence of DNA in the cytoplasm, TBK1 (STING target) and IRF3 phosphorylation, and ISG expression (RT-qPCR) after incubation (or not) with CisGem and CarboGem. The amount of cytosolic DNA was slightly higher (Figure 1F and Figure S2B), and phosphorylation of TBK1 and IRF3 (Figure 1G and Figure S2C), but not of NF-κB (Figure S4E) was increased in treated than untreated cultures. Moreover, CisGem and CarboGem induced expression of ISGs (Figur","PeriodicalId":10189,"journal":{"name":"Clinical and Translational Medicine","volume":"14 9","pages":""},"PeriodicalIF":7.9,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ctm2.70011","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142230951","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Targeting senescence-associated secretory phenotypes to remodel the tumour microenvironment and modulate tumour outcomes 以衰老相关分泌表型为靶点,重塑肿瘤微环境并调节肿瘤结局
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-13 DOI: 10.1002/ctm2.1772
Jiaqiang Xiong, Lu Dong, Qiongying Lv, Yutong Yin, Jiahui Zhao, Youning Ke, Shixuan Wang, Wei Zhang, Meng Wu

Tumour cell senescence can be induced by various factors, including DNA damage, inflammatory signals, genetic toxins, ionising radiation and nutrient metabolism. The senescence-associated secretory phenotype (SASP), secreted by senescent tumour cells, possesses the capacity to modulate various immune cells, including macrophages, T cells, natural killer cells and myeloid-derived suppressor cells, as well as vascular endothelial cells and fibroblasts within the tumour microenvironment (TME), and this modulation can result in either the promotion or suppression of tumorigenesis and progression. Exploring the impact of SASP on the TME could identify potential therapeutic targets, yet limited studies have dissected its functions. In this review, we delve into the causes and mechanisms of tumour cell senescence. We then concentrate on the influence of SASP on the tumour immune microenvironment, angiogenesis, extracellular matrix and the reprogramming of cancer stem cells, along with their associated tumour outcomes. Last, we present a comprehensive overview of the diverse array of senotherapeutics, highlighting their prospective advantages and challenge for the treatment of cancer patients.

Key points

  • Senescence-associated secretory phenotype (SASP) secretion from senescent tumour cells significantly impacts cancer progression and biology.
  • SASP is involved in regulating the remodelling of the tumour microenvironment, including immune microenvironment, vascular, extracellular matrix and cancer stem cells.
  • Senotherapeutics, such as senolytic, senomorphic, nanotherapy and senolytic vaccines, hold promise for enhancing cancer treatment efficacy.
肿瘤细胞衰老可由多种因素诱发,包括 DNA 损伤、炎症信号、遗传毒素、电离辐射和营养代谢。衰老肿瘤细胞分泌的衰老相关分泌表型(SASP)有能力调节各种免疫细胞,包括巨噬细胞、T细胞、自然杀伤细胞和髓源性抑制细胞,以及肿瘤微环境(TME)中的血管内皮细胞和成纤维细胞,这种调节可以促进或抑制肿瘤的发生和发展。探索 SASP 对肿瘤微环境的影响可以确定潜在的治疗靶点,但对其功能的研究还很有限。在本综述中,我们将深入探讨肿瘤细胞衰老的原因和机制。然后,我们集中讨论 SASP 对肿瘤免疫微环境、血管生成、细胞外基质和癌症干细胞重编程的影响,以及与之相关的肿瘤结局。最后,我们全面概述了各种衰老治疗药物,强调了它们在治疗癌症患者方面的优势和挑战。 要点 衰老肿瘤细胞分泌的衰老相关分泌表型(SASP)对癌症的进展和生物学有重大影响。 SASP 参与调节肿瘤微环境的重塑,包括免疫微环境、血管、细胞外基质和癌症干细胞。 衰老疗法,如衰老溶解疗法、衰老形态疗法、纳米疗法和衰老溶解疫苗,有望提高癌症治疗效果。
{"title":"Targeting senescence-associated secretory phenotypes to remodel the tumour microenvironment and modulate tumour outcomes","authors":"Jiaqiang Xiong,&nbsp;Lu Dong,&nbsp;Qiongying Lv,&nbsp;Yutong Yin,&nbsp;Jiahui Zhao,&nbsp;Youning Ke,&nbsp;Shixuan Wang,&nbsp;Wei Zhang,&nbsp;Meng Wu","doi":"10.1002/ctm2.1772","DOIUrl":"https://doi.org/10.1002/ctm2.1772","url":null,"abstract":"<div>\u0000 \u0000 \u0000 <section>\u0000 \u0000 <p>Tumour cell senescence can be induced by various factors, including DNA damage, inflammatory signals, genetic toxins, ionising radiation and nutrient metabolism. The senescence-associated secretory phenotype (SASP), secreted by senescent tumour cells, possesses the capacity to modulate various immune cells, including macrophages, T cells, natural killer cells and myeloid-derived suppressor cells, as well as vascular endothelial cells and fibroblasts within the tumour microenvironment (TME), and this modulation can result in either the promotion or suppression of tumorigenesis and progression. Exploring the impact of SASP on the TME could identify potential therapeutic targets, yet limited studies have dissected its functions. In this review, we delve into the causes and mechanisms of tumour cell senescence. We then concentrate on the influence of SASP on the tumour immune microenvironment, angiogenesis, extracellular matrix and the reprogramming of cancer stem cells, along with their associated tumour outcomes. Last, we present a comprehensive overview of the diverse array of senotherapeutics, highlighting their prospective advantages and challenge for the treatment of cancer patients.</p>\u0000 </section>\u0000 \u0000 <section>\u0000 \u0000 <h3> Key points</h3>\u0000 \u0000 <div>\u0000 <ul>\u0000 \u0000 <li>Senescence-associated secretory phenotype (SASP) secretion from senescent tumour cells significantly impacts cancer progression and biology.</li>\u0000 \u0000 <li>SASP is involved in regulating the remodelling of the tumour microenvironment, including immune microenvironment, vascular, extracellular matrix and cancer stem cells.</li>\u0000 \u0000 <li>Senotherapeutics, such as senolytic, senomorphic, nanotherapy and senolytic vaccines, hold promise for enhancing cancer treatment efficacy.</li>\u0000 </ul>\u0000 </div>\u0000 </section>\u0000 </div>","PeriodicalId":10189,"journal":{"name":"Clinical and Translational Medicine","volume":"14 9","pages":""},"PeriodicalIF":7.9,"publicationDate":"2024-09-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ctm2.1772","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142230958","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Low methylthioadenosine phosphorylase expression is associated with worse survival in patients with acute myeloid leukaemia 甲基硫腺苷磷酸化酶的低表达与急性髓性白血病患者的生存率下降有关
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-11 DOI: 10.1002/ctm2.70015
Yiyu Xiao, Qianqian Peng, Advaith Maya Sanjeev Kumar, Houda Alachkar
<p>Dear Editor,</p><p>Deletions of methylthioadenosine phosphorylase (<i>MTAP</i>) are frequent in several malignancies and lead to 5′-deoxy-5′-methylthioadenosine (MTA) accumulation, competing with S-adenosylmethionine (SAM) for binding to Protein Arginine Methyltransferase 5 (PRMT5) and enhancing tumour sensitivity to PRMT5 inhibitors.<span><sup>1, 2</sup></span> Although MTAP enzyme deficiency has been documented in acute myeloid leukaemia (AML), deletions of the MTAP gene have not been identified in this haematological malignancy. Here we evaluated MTAP downregulation in AML datasets (TCGA and OHSU)<span><sup>3-7</sup></span> and its associations with clinical and molecular characteristics and patient's clinical outcome.</p><p>When comparing the <i>MTAP</i> expression between AML bone marrow (BM) (<i>n</i> = 542) and healthy BM (<i>n</i> = 73), different <i>MTAP</i> probes showed different results (MILE dataset,<span><sup>8</sup></span> Figure 1A–F). However, when comparing the GTEx and TCGA datasets on UCSC Xena,<span><sup>9</sup></span> we found higher <i>MTAP</i> expression in AML blood (<i>n</i> = 173) than normal blood samples (<i>n</i> = 337) (median-log2: 4.040 vs. −0.199, <i>p </i>= 6.596e<sup>−197</sup>, Figure 1G). Thirteen transcripts of MTAP were differentially expressed (Figure 1H). While only one deep deletion case was identified in AML in the TCGA dataset, using Z-score < −1 to define low expressor <i>MTAP</i>, we found 10.40% and 16.84% of cases have low <i>MTAP</i> expression in the TCGA and OHSU, respectively (Figure 1I).</p><p>To investigate whether low expression of <i>MTAP</i> is associated with specific baseline clinical features in patients with AML, we compared the frequency of <i>MTAP</i> low expression according to diagnosis age, sex, BM blast percentage, white blood cell count, peripheral blasts percentage, cytogenetic risk and molecular risk (Tables S1 and S2). In the TCGA dataset, we found <i>MTAP</i> low expression to be more frequent in older patients (diagnosis age ≥ 65 years) than in younger patients (diagnosis age < 65 years) (18.87% vs. 6.67%, <i>p </i>= .027). <i>MTAP</i> expression levels were found to be lower in patients with AML M3 (<i>n</i> = 16) than AML M2 (<i>n</i> = 38) (<i>p</i> = .030, Figure 2A).</p><p>We also assessed the association between <i>MTAP</i> low expression and AML molecular characteristics in terms of the presence of certain AML mutations (Tables S3 and S4). We compared the frequencies of <i>FLT3</i>, <i>DNMT3A</i>, <i>NPM1</i>, <i>IDH2</i>, <i>IDH1</i> and <i>TP53</i> mutations between low and unaltered/high <i>MTAP</i> patients. In OHSU, patients with MTAP low expression have a lower frequency of FLT3 mutations (17.3% vs. 32.1%, <i>p</i> = .036) and NPM1 mutation (3.8% vs. 30.6%, <i>p</i> < .001) compared with unaltered/high MTAP group. <i>MTAP</i> was expressed at significantly higher levels in patients with <i>NPM1</i> mutation (median-log2, TCGA: 1037 vs. 857.5, <i>p <
亲爱的编辑:甲硫腺苷磷酸化酶(MTAP)的缺失在几种恶性肿瘤中很常见,它会导致5′-脱氧-5′-甲硫腺苷(MTA)的积累,与S-腺苷蛋氨酸(SAM)竞争,从而与蛋白精氨酸甲基转移酶5(PRMT5)结合,增强肿瘤对PRMT5抑制剂的敏感性、2 虽然急性髓性白血病(AML)中存在 MTAP 酶缺陷,但在这种血液恶性肿瘤中尚未发现 MTAP 基因缺失。在此,我们评估了急性髓性白血病数据集(TCGA 和 OHSU)3-7 中 MTAP 的下调情况及其与临床和分子特征以及患者临床预后的关系。当比较急性髓性白血病骨髓(BM)(n = 542)和健康骨髓(n = 73)的 MTAP 表达时,不同的 MTAP 探针显示出不同的结果(MILE 数据集,8 图 1A-F)。然而,在 UCSC Xena 上比较 GTEx 和 TCGA 数据集9 时,我们发现 AML 血液(n = 173)中 MTAP 的表达高于正常血液样本(n = 337)(中位数-log2:4.040 vs. -0.199,p = 6.596e-197,图 1G)。有 13 个 MTAP 转录本出现差异表达(图 1H)。虽然在TCGA数据集中只发现了一个AML深度缺失病例,但使用Z-score &lt;-1来定义MTAP低表达,我们发现在TCGA和OHSU中分别有10.40%和16.84%的病例具有MTAP低表达(图1I)。为了研究MTAP的低表达是否与急性髓细胞性白血病患者的特定基线临床特征相关,我们比较了根据诊断年龄、性别、BM胚泡百分比、白细胞计数、外周胚泡百分比、细胞遗传学风险和分子风险得出的MTAP低表达频率(表S1和S2)。在TCGA数据集中,我们发现MTAP低表达在老年患者(诊断年龄≥65岁)中的发生率高于年轻患者(诊断年龄为65岁)(18.87% vs. 6.67%,P = .027)。我们还评估了MTAP低表达与AML分子特征之间的关联,即某些AML突变的存在(表S3和S4)。我们比较了MTAP低表达和未改变/高表达患者的FLT3、DNMT3A、NPM1、IDH2、IDH1和TP53突变频率。在 OHSU,与 MTAP 低表达组相比,MTAP 低表达组患者的 FLT3 突变频率(17.3% vs. 32.1%,p = .036)和 NPM1 突变频率(3.8% vs. 30.6%,p &lt;.001)较低。NPM1突变患者的MTAP表达水平明显更高(中位数-log2,TCGA:1037 vs. 857.5,p = .0018,调整后-p = .0112;OHSU:4.058 vs. 3.606, p &lt; .001, adjusted-p &lt; .001)、DNMT3A 突变(中位数-log2, TCGA: 980.3 vs. 844.0, p = .0094, adjusted-p = .0569; OHSU: 3.887 vs. 3.702, p = .048, adjusted-p = .生存期分析表明,MTAP-低患者的总生存期(OS)明显短于MTAP未变异/高患者(MTAP-低患者 vs. MTAP-未变异/高患者;中位OS [月]:TCGA:7.5 vs. 20.5,p = .014;OHSU:10.16 vs. 17.79,p = .02,图 3A、B)。此外,在TCGA数据集中,低MTAP患者的无病生存期(DFS)明显低于高MTAP患者(低MTAP患者(n = 18) vs. 高MTAP患者(n = 153);中位DFS(月):8.200 vs. 17.00,p = .017,图 3C)。OHSU 数据集不包含 DFS 数据。由于全反式维甲酸疗法的预后良好,我们还在排除了AML M3患者和无FAB数据的患者后进行了生存分析。与MTAP全反式维甲酸/高患者相比,MTAP低患者的预后仍然较差(TCGA:MTAP低患者(n = 16)vs MTAP全反式维甲酸/高患者(n = 139);中位OS(月):7.200 vs. 17.40,p = 0.004,OHSU:中位OS(月):7.200 vs. 17.40,p = 0.004,OHSU:MTAP低患者(n = 50) vs. MTAP低/高患者(n = 349);10.16 vs. 15.52,p = 0.035,图3D,E)。多变量分析(cox-回归模型)显示,经年龄、DNMT3A突变、TP53突变、FLT3突变调整后,MTAP低表达与OS显著相关(TCGA:p = 0.026;OHSU:p = 0.031)(表1)。在比较 OHSU 数据集中不同疾病状态(初始诊断、缓解、残留和复发)的 MTAP 表达时,我们发现诊断时(n = 443)的 MTAP 表达水平显著高于缓解时(n = 25,中位数-log2:3.855 vs. 3.073,p &lt; .001,图 3F)或残留疾病时(n = 129,中位数-log2:3.855 vs. 3.491,p &lt; .001,图 3G)。复发时(n = 36)的 MTAP 表达明显高于缓解时(n = 25)(中位数-log2:3.938 vs 3.073,p = .003,图 3H)和残留疾病时(n = 129)(中位数-log2:3.938 vs 3.491,p = .002,图 3I)。
{"title":"Low methylthioadenosine phosphorylase expression is associated with worse survival in patients with acute myeloid leukaemia","authors":"Yiyu Xiao,&nbsp;Qianqian Peng,&nbsp;Advaith Maya Sanjeev Kumar,&nbsp;Houda Alachkar","doi":"10.1002/ctm2.70015","DOIUrl":"https://doi.org/10.1002/ctm2.70015","url":null,"abstract":"&lt;p&gt;Dear Editor,&lt;/p&gt;&lt;p&gt;Deletions of methylthioadenosine phosphorylase (&lt;i&gt;MTAP&lt;/i&gt;) are frequent in several malignancies and lead to 5′-deoxy-5′-methylthioadenosine (MTA) accumulation, competing with S-adenosylmethionine (SAM) for binding to Protein Arginine Methyltransferase 5 (PRMT5) and enhancing tumour sensitivity to PRMT5 inhibitors.&lt;span&gt;&lt;sup&gt;1, 2&lt;/sup&gt;&lt;/span&gt; Although MTAP enzyme deficiency has been documented in acute myeloid leukaemia (AML), deletions of the MTAP gene have not been identified in this haematological malignancy. Here we evaluated MTAP downregulation in AML datasets (TCGA and OHSU)&lt;span&gt;&lt;sup&gt;3-7&lt;/sup&gt;&lt;/span&gt; and its associations with clinical and molecular characteristics and patient's clinical outcome.&lt;/p&gt;&lt;p&gt;When comparing the &lt;i&gt;MTAP&lt;/i&gt; expression between AML bone marrow (BM) (&lt;i&gt;n&lt;/i&gt; = 542) and healthy BM (&lt;i&gt;n&lt;/i&gt; = 73), different &lt;i&gt;MTAP&lt;/i&gt; probes showed different results (MILE dataset,&lt;span&gt;&lt;sup&gt;8&lt;/sup&gt;&lt;/span&gt; Figure 1A–F). However, when comparing the GTEx and TCGA datasets on UCSC Xena,&lt;span&gt;&lt;sup&gt;9&lt;/sup&gt;&lt;/span&gt; we found higher &lt;i&gt;MTAP&lt;/i&gt; expression in AML blood (&lt;i&gt;n&lt;/i&gt; = 173) than normal blood samples (&lt;i&gt;n&lt;/i&gt; = 337) (median-log2: 4.040 vs. −0.199, &lt;i&gt;p &lt;/i&gt;= 6.596e&lt;sup&gt;−197&lt;/sup&gt;, Figure 1G). Thirteen transcripts of MTAP were differentially expressed (Figure 1H). While only one deep deletion case was identified in AML in the TCGA dataset, using Z-score &lt; −1 to define low expressor &lt;i&gt;MTAP&lt;/i&gt;, we found 10.40% and 16.84% of cases have low &lt;i&gt;MTAP&lt;/i&gt; expression in the TCGA and OHSU, respectively (Figure 1I).&lt;/p&gt;&lt;p&gt;To investigate whether low expression of &lt;i&gt;MTAP&lt;/i&gt; is associated with specific baseline clinical features in patients with AML, we compared the frequency of &lt;i&gt;MTAP&lt;/i&gt; low expression according to diagnosis age, sex, BM blast percentage, white blood cell count, peripheral blasts percentage, cytogenetic risk and molecular risk (Tables S1 and S2). In the TCGA dataset, we found &lt;i&gt;MTAP&lt;/i&gt; low expression to be more frequent in older patients (diagnosis age ≥ 65 years) than in younger patients (diagnosis age &lt; 65 years) (18.87% vs. 6.67%, &lt;i&gt;p &lt;/i&gt;= .027). &lt;i&gt;MTAP&lt;/i&gt; expression levels were found to be lower in patients with AML M3 (&lt;i&gt;n&lt;/i&gt; = 16) than AML M2 (&lt;i&gt;n&lt;/i&gt; = 38) (&lt;i&gt;p&lt;/i&gt; = .030, Figure 2A).&lt;/p&gt;&lt;p&gt;We also assessed the association between &lt;i&gt;MTAP&lt;/i&gt; low expression and AML molecular characteristics in terms of the presence of certain AML mutations (Tables S3 and S4). We compared the frequencies of &lt;i&gt;FLT3&lt;/i&gt;, &lt;i&gt;DNMT3A&lt;/i&gt;, &lt;i&gt;NPM1&lt;/i&gt;, &lt;i&gt;IDH2&lt;/i&gt;, &lt;i&gt;IDH1&lt;/i&gt; and &lt;i&gt;TP53&lt;/i&gt; mutations between low and unaltered/high &lt;i&gt;MTAP&lt;/i&gt; patients. In OHSU, patients with MTAP low expression have a lower frequency of FLT3 mutations (17.3% vs. 32.1%, &lt;i&gt;p&lt;/i&gt; = .036) and NPM1 mutation (3.8% vs. 30.6%, &lt;i&gt;p&lt;/i&gt; &lt; .001) compared with unaltered/high MTAP group. &lt;i&gt;MTAP&lt;/i&gt; was expressed at significantly higher levels in patients with &lt;i&gt;NPM1&lt;/i&gt; mutation (median-log2, TCGA: 1037 vs. 857.5, &lt;i&gt;p &lt;","PeriodicalId":10189,"journal":{"name":"Clinical and Translational Medicine","volume":"14 9","pages":""},"PeriodicalIF":7.9,"publicationDate":"2024-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ctm2.70015","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142170231","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
The emerging roles of UFMylation in the modulation of immune responses UFMylation 在调节免疫反应中的新作用
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-11 DOI: 10.1002/ctm2.70019
Zhengyan Liang, Rongxuan Ning, Zhaoxiang Wang, Xia Kong, Yubin Yan, Yafei Cai, Zhiwei He, Xin-guang Liu, Yongkang Zou, Junzhi Zhou

Post-translational modification is a rite of passage for cellular functional proteins and ultimately regulate almost all aspects of life. Ubiquitin-fold modifier 1 (UFM1) system represents a newly identified ubiquitin-like modification system with indispensable biological functions, and the underlying biological mechanisms remain largely undiscovered. The field has recently experienced a rapid growth of research revealing that UFMylation directly or indirectly regulates multiple immune processes. Here, we summarised important advances that how UFMylation system responds to intrinsic and extrinsic stresses under certain physiological or pathological conditions and safeguards immune homeostasis, providing novel perspectives into the regulatory framework and functions of UFMylation system, and its therapeutic applications in human diseases.

翻译后修饰是细胞功能蛋白的必经之路,最终调控着生命的几乎所有方面。泛素折叠修饰因子 1(Ubiquitin-fold modifier 1,UFM1)系统是一种新发现的泛素类修饰系统,具有不可或缺的生物学功能,其潜在的生物学机制在很大程度上仍未被发现。最近,该领域的研究迅速发展,揭示了 UFMylation 直接或间接调控多种免疫过程。在此,我们总结了 UFMylation 系统在特定生理或病理条件下如何响应内在和外在压力并保障免疫稳态的重要进展,为 UFMylation 系统的调控框架和功能及其在人类疾病中的治疗应用提供了新的视角。
{"title":"The emerging roles of UFMylation in the modulation of immune responses","authors":"Zhengyan Liang,&nbsp;Rongxuan Ning,&nbsp;Zhaoxiang Wang,&nbsp;Xia Kong,&nbsp;Yubin Yan,&nbsp;Yafei Cai,&nbsp;Zhiwei He,&nbsp;Xin-guang Liu,&nbsp;Yongkang Zou,&nbsp;Junzhi Zhou","doi":"10.1002/ctm2.70019","DOIUrl":"https://doi.org/10.1002/ctm2.70019","url":null,"abstract":"<p>Post-translational modification is a rite of passage for cellular functional proteins and ultimately regulate almost all aspects of life. Ubiquitin-fold modifier 1 (UFM1) system represents a newly identified ubiquitin-like modification system with indispensable biological functions, and the underlying biological mechanisms remain largely undiscovered. The field has recently experienced a rapid growth of research revealing that UFMylation directly or indirectly regulates multiple immune processes. Here, we summarised important advances that how UFMylation system responds to intrinsic and extrinsic stresses under certain physiological or pathological conditions and safeguards immune homeostasis, providing novel perspectives into the regulatory framework and functions of UFMylation system, and its therapeutic applications in human diseases.</p>","PeriodicalId":10189,"journal":{"name":"Clinical and Translational Medicine","volume":"14 9","pages":""},"PeriodicalIF":7.9,"publicationDate":"2024-09-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/ctm2.70019","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142170134","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"医学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
引用次数: 0
Unveiling the functional roles of patient-derived tumour organoids in assessing the tumour microenvironment and immunotherapy 揭示源自患者的肿瘤器官组织在评估肿瘤微环境和免疫疗法中的功能作用。
IF 7.9 1区 医学 Q1 MEDICINE, RESEARCH & EXPERIMENTAL Pub Date : 2024-09-08 DOI: 10.1002/ctm2.1802
Di Chen, Lixia Xu, Mengjuan Xuan, Qingfei Chu, Chen Xue

Recent studies have established the pivotal roles of patient-derived tumour organoids (PDTOs), innovative three-dimensional (3D) culture systems, in various biological and medical applications. PDTOs, as promising tools, have been established and extensively used for drug screening, prediction of immune response and assessment of immunotherapeutic effectiveness in various cancer types, including glioma, ovarian cancer and so on. The overarching goal is to facilitate the translation of new therapeutic modalities to guide personalised immunotherapy. Notably, there has been a recent surge of interest in the co-culture of PDTOs with immune cells to investigate the dynamic interactions between tumour cells and immune microenvironment. A comprehensive and in-depth investigation is necessary to enhance our understanding of PDTOs as promising testing platforms for cancer immunotherapy. This review mainly focuses on the latest updates on the applications and challenges of PDTO-based methods in anti-cancer immune responses. We strive to provide a comprehensive understanding of the potential and prospects of PDTO-based technologies as next-generation strategies for advancing immunotherapy approaches.

最近的研究确定了病人衍生肿瘤器官组织(PDTOs)这一创新的三维(3D)培养系统在各种生物和医学应用中的关键作用。PDTOs 作为一种前景广阔的工具,已被建立并广泛用于各种癌症类型(包括胶质瘤、卵巢癌等)的药物筛选、免疫反应预测和免疫治疗效果评估。其总体目标是促进新治疗模式的转化,以指导个性化免疫疗法。值得注意的是,最近人们对 PDTO 与免疫细胞的共培养产生了浓厚的兴趣,以研究肿瘤细胞与免疫微环境之间的动态相互作用。有必要进行全面深入的研究,以加深我们对 PDTOs 作为癌症免疫疗法测试平台的了解。本综述主要关注基于 PDTO 的方法在抗癌免疫反应中的应用和挑战的最新进展。我们力求全面了解基于 PDTO 的技术作为下一代免疫疗法策略的潜力和前景。
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引用次数: 0
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Clinical and Translational Medicine
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