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Identification of novel potential homologous repair deficiency-associated genes in pancreatic adenocarcinoma via WGCNA coexpression network analysis and machine learning. 通过WGCNA共表达网络分析和机器学习识别胰腺癌中潜在的同源修复缺陷相关新基因
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-11-01 Epub Date: 2024-01-18 DOI: 10.1080/15384101.2023.2293594
Chun Liu, Jingyun Fang, Weibiao Kang, Yang Yang, Changjun Yu, Hao Chen, Yongwei Zhang, Huan Ouyang
<p><p>Homologous repair deficiency (HRD) impedes double-strand break repair, which is a common driver of carcinogenesis. Positive HRD status can be used as theranostic markers of response to platinum- and PARP inhibitor-based chemotherapies. Here, we aimed to fully investigate the therapeutic and prognostic potential of HRD in pancreatic adenocarcinoma (PAAD) and identify effective biomarkers related to HRD using comprehensive bioinformatics analysis. The HRD score was defined as the unweighted sum of the LOH, TAI, and LST scores, and it was obtained based on the previous literature. To characterize PAAD immune infiltration subtypes, the "ConsensusClusterPlus" package in R was used to conduct unsupervised clustering. A WGCNA was conducted to elucidate the gene coexpression modules and hub genes in the HRD-related gene module of PAAD. The functional enrichment study was performed using Metascape. LASSO analysis was performed using the "glmnet" package in R, while the random forest algorithm was realized using the "randomForest" package in R. The prognostic variables were evaluated using univariate Cox analysis. The prognostic risk model was built using the LASSO approach. ROC curve and KM survival analyses were performed to assess the prognostic potential of the risk model. The half-maximal inhibitory concentration (IC50) of the PARP inhibitors was estimated using the "pRRophetic" package in R and the Genomics of Drug Sensitivity in Cancer database. The "rms" package in R was used to create the nomogram. A high HRD score indicated a poor prognosis and an advanced clinical process in PAAD patients. PAAD tumors with high HRD levels revealed significant T helper lymphocyte depletion, upregulated levels of cancer stem cells, and increased sensitivity to rucaparib, Olaparib, and veliparib. Using WGCNA, 11 coexpression modules were obtained. The red module and 122 hub genes were identified as the most correlated with HRD in PAAD. Functional enrichment analysis revealed that the 122 hub genes were mainly concentrated in cell cycle pathways. One novel HRD-related gene signature consisting of CKS1B, HJURP, and TPX2 were screened via LASSO analysis and a random forest algorithm, and they were validated using independent validation sets. No direct association between HRD and <i>CKS1B</i>, <i>HJURP</i>, or <i>TPX2</i> has not been reported in the literature so far. Thus, these findings indicated that <i>CKS1B</i>, <i>HJURP</i>, and <i>TPX2</i> have potential as diagnostic and prognostic biomarkers for PAAD. We constructed a novel HRD-related prognostic model that provides new insights into PAAD prognosis and immunotherapy. Based on bioinformatics analysis, we comprehensively explored the therapeutic and prognostic potential of HRD in PAAD. One novel HRD-related gene signature consisting of CKS1B, HJURP, and TPX2 were identified through the combination of WGCNA, LASSO analysis and a random forest algorithm. A novel HRD-related risk model that can predict clini
同源修复缺陷(HRD)会阻碍双链断裂修复,而双链断裂修复是常见的致癌因素。HRD阳性可作为铂类和PARP抑制剂化疗反应的治疗标志物。在此,我们旨在全面研究胰腺腺癌(PAAD)HRD的治疗和预后潜力,并通过综合生物信息学分析确定与HRD相关的有效生物标志物。HRD评分定义为LOH、TAI和LST评分的非加权和,它是根据以往文献获得的。为确定 PAAD 免疫浸润亚型的特征,使用 R 软件包 "ConsensusClusterPlus "进行了无监督聚类。为阐明 PAAD HRD 相关基因模块中的基因共表达模块和枢纽基因,进行了 WGCNA 分析。使用 Metascape 进行了功能富集研究。预后变量采用单变量 Cox 分析法进行评估。预后风险模型采用 LASSO 方法建立。为评估风险模型的预后潜力,进行了 ROC 曲线和 KM 生存分析。PARP抑制剂的半数最大抑制浓度(IC50)是用R软件包 "pRRophetic "和癌症药物敏感性基因组学数据库估算的。R软件包 "rms "用于创建提名图。高HRD评分表明PAAD患者的预后较差,临床过程较晚。HRD水平高的PAAD肿瘤显示出明显的T辅助淋巴细胞耗竭、癌症干细胞水平上调以及对鲁卡帕利、奥拉帕利和veliparib的敏感性增加。利用 WGCNA,得到了 11 个共表达模块。红色模块和122个中心基因被确定为与PAAD的HRD最相关的基因。功能富集分析显示,这122个中心基因主要集中在细胞周期通路中。通过LASSO分析和随机森林算法筛选出了一个由CKS1B、HJURP和TPX2组成的新型HRD相关基因特征,并通过独立的验证集进行了验证。迄今为止,尚未有文献报道HRD与CKS1B、HJURP或TPX2直接相关。因此,这些发现表明 CKS1B、HJURP 和 TPX2 有可能成为 PAAD 的诊断和预后生物标志物。我们构建了一个与 HRD 相关的新型预后模型,为 PAAD 的预后和免疫疗法提供了新的见解。基于生物信息学分析,我们全面探讨了HRD在PAAD中的治疗和预后潜力。通过结合WGCNA、LASSO分析和随机森林算法,我们发现了一个由CKS1B、HJURP和TPX2组成的新型HRD相关基因特征。建立了一个新型的HRD相关风险模型,该模型可预测PAAD患者的临床预后和免疫治疗反应。
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引用次数: 0
SIRT1 alleviates insulin resistance and respiratory distress in late preterm rats by activating QKI5-mediated PPARγ/PI3K/AKT pathway. SIRT1 通过激活 QKI5 介导的 PPARγ/PI3K/AKT 通路,缓解晚期早产大鼠的胰岛素抵抗和呼吸窘迫。
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-11-01 Epub Date: 2024-01-18 DOI: 10.1080/15384101.2023.2297567
Jinxiao He, Fang Fan, Jingxian Li, Yi Han, Ye Song, Rong Zhang, Yang Xu, Huajie Wu, Rui Fan

Neonatal respiratory distress syndrome (NRDS) is a common complication of gestational diabetes mellitus (GDM) and late preterm births. Research suggests that SIRT1 was involved in LPS-induced acute respiratory distress syndrome, but its mechanism remains to be further explored. Here, pregnant rats were intraperitoneally injected with 45 mg/Kg streptozotocin at day 0 of gestation to induce GDM and injected with LPS at day 17 of gestation to induce late preterm birth. Pioglitazone (a PPARγ agonist) was administered from day 17 to parturition in GDM group, and it was administered for 3 days before LPS injection in late preterm birth group. SRT1720 (a SIRT1 activator) was administered by oral gavage from day 0 to day 17 in both groups. Our data showed that activation of SIRT1 or PPARγ alleviated the abnormal blood glucose metabolism and lung tissue injury, downregulated expression of surfactant proteins (SP-B and SP-C), and decreased activation of the PI3K/AKT pathway induced by GDM and late preterm birth in neonatal rats. Moreover, an insulin resistance model was established by treating primary AT-II cells with insulin. Activation of SIRT1 reversed insulin-induced reduction in cell proliferation, glucose consumption, SP-B and SP-C expression, and the activity of the PI3K/AKT pathway and increase in cellular inflammation and apoptosis. Mechanistically, SIRT1 upregulated PPARγ expression via deacetylation of QKI5, an RNA binding protein that can stabilize its target mRNA molecules, and then activated the PI3K/AKT pathway. In conclusion, SIRT1 promotes the expression of PPARγ via upregulation of QKI5 and activates the PI3K/AKT pathway, thus mitigating NRDS caused by GDM and late preterm birth.

新生儿呼吸窘迫综合征(NRDS)是妊娠糖尿病(GDM)和晚期早产的常见并发症。研究表明,SIRT1参与了LPS诱导的急性呼吸窘迫综合征,但其机制仍有待进一步探讨。在此,研究人员在妊娠第0天向妊娠大鼠腹腔注射45毫克/千克链脲佐菌素诱导GDM,并在妊娠第17天注射LPS诱导晚期早产。GDM组在妊娠第17天至分娩前服用吡格列酮(一种PPARγ激动剂),晚期早产组在注射LPS前3天服用吡格列酮。SRT1720(一种SIRT1激活剂)在两组中均从第0天至第17天口服给药。我们的数据显示,激活 SIRT1 或 PPARγ 可缓解 GDM 和晚期早产诱导的新生大鼠血糖代谢异常和肺组织损伤,下调表面活性蛋白(SP-B 和 SP-C)的表达,并减少 PI3K/AKT 通路的激活。此外,还通过用胰岛素处理原代 AT-II 细胞建立了胰岛素抵抗模型。激活 SIRT1 逆转了胰岛素诱导的细胞增殖、葡萄糖消耗、SP-B 和 SP-C 表达、PI3K/AKT 通路活性的降低以及细胞炎症和凋亡的增加。从机理上讲,SIRT1 通过去乙酰化 QKI5(一种 RNA 结合蛋白,可稳定其目标 mRNA 分子)上调 PPARγ 的表达,进而激活 PI3K/AKT 通路。总之,SIRT1通过上调QKI5促进PPARγ的表达,并激活PI3K/AKT通路,从而缓解GDM和晚期早产引起的NRDS。
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引用次数: 0
Transforming growth factor-β and bone morphogenetic protein signaling pathways in pathological cardiac hypertrophy. 病理心肌肥厚中的转化生长因子-β和骨形态发生蛋白信号通路
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-11-01 Epub Date: 2024-01-18 DOI: 10.1080/15384101.2023.2293595
Jing Wen, Guixiang Liu, Mingjie Liu, Huarui Wang, Yunyan Wan, Zhouhong Yao, Nannan Gao, Yuanyuan Sun, Ling Zhu

Pathological cardiac hypertrophy (referred to as cardiac hypertrophy) is a maladaptive response of the heart to a variety of pathological stimuli, and cardiac hypertrophy is an independent risk factor for heart failure and sudden death. Currently, the treatments for cardiac hypertrophy are limited to improving symptoms and have little effect. Elucidation of the developmental process of cardiac hypertrophy at the molecular level and the identification of new targets for the treatment of cardiac hypertrophy are crucial. In this review, we summarize the research on multiple active substances related to the pathogenesis of cardiac hypertrophy and the signaling pathways involved and focus on the role of transforming growth factor-β (TGF-β) and bone morphogenetic protein (BMP) signaling in the development of cardiac hypertrophy and the identification of potential targets for molecular intervention. We aim to identify important signaling molecules with clinical value and hope to help promote the precise treatment of cardiac hypertrophy and thus improve patient outcomes.

病理性心脏肥大(简称心肌肥大)是心脏对各种病理刺激的不良反应,心肌肥大是心力衰竭和猝死的独立危险因素。目前,治疗心脏肥大的方法仅限于改善症状,效果甚微。从分子水平上阐明心脏肥大的发展过程并确定治疗心脏肥大的新靶点至关重要。在这篇综述中,我们总结了与心肌肥大发病机制相关的多种活性物质及其信号通路的研究,重点关注转化生长因子-β(TGF-β)和骨形态发生蛋白(BMP)信号在心肌肥大发展过程中的作用,以及确定潜在的分子干预靶点。我们的目标是找出具有临床价值的重要信号分子,希望有助于促进心脏肥大的精确治疗,从而改善患者的预后。
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引用次数: 0
Depleting ANTXR1 suppresses glioma growth via deactivating PI3K/AKT pathway. 耗尽ANTXR1通过使PI3K/AKT通路失活来抑制胶质瘤的生长。
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-05 DOI: 10.1080/15384101.2023.2275900
Chaoyang Zhou, Aijun Liang, Jianzhong Zhang, Jingxing Leng, Bin Xi, Bin Zhou, Yu Yang, Ronglan Zhu, Liangchen Zhong, Xingxing Jiang, Dengfeng Wan

Gliomas are commonly known as primary brain tumors and associated with frequent recurrence and an unsatisfactory prognosis despite extensive research in the underlying molecular mechanisms. We aimed to examine the role of ANTXR1 in glioma tumorigenesis and explore its downstream regulatory mechanism. ANTXR1 expression in clinical specimens and its relationship with some pathological characteristics were detected using immunohistochemical staining. After silencing/upregulating ANTXR1 through lentiviral transfection in glioma cell lines, qRT-PCR and western blotting were used to examine mRNA and protein levels, and cell phenotype was also detected. ANTXR1-knockdown and -overexpression cells were then processed by AKT activator and PI3K inhibitor, respectively, to verify downstream PI3K/AKT pathway regulated by ANTXR1. Xenograft nude mice models were constructed to verify the role of ANTXR1 in vivo. We found overexpression of ANTXR1 in both cell lines in comparison with those in normal brain tissues. Glioma cell growth and migratory ability were dramatically impaired as a result of silencing ANTXR1 by shANTXR1 lentiviruses. ANTXR1 blockade also accelerated cell apoptosis and held back cell cycle via targeting G2 phrase during cell mitosis. In vivo xenograft models verified in vitro findings above. Further exploration disclosed that AKT activator promoted anti-tumor effects mediated by ANTXR1 knockdown, while PI3K inhibitor limited pro-tumor effects mediated by ANTXR1 overexpression, indicating that ANTXR1 functioned in glioma cells through regulating PI3K/AKT pathway. ANTXR1 could play an indispensable role in glioma tumorigenesis via activating PI3K/AKT-mediated cell growth. Our study provides a theoretical basis for targeting ANTXR1 as a molecular target in glioma clinical therapeutics.

胶质瘤通常被称为原发性脑肿瘤,尽管对其潜在的分子机制进行了广泛的研究,但其复发频繁,预后不佳。我们旨在研究ANTXR1在胶质瘤发生中的作用,并探讨其下游调控机制。应用免疫组织化学染色法检测临床标本中ANTXR1的表达及其与部分病理特征的关系。在胶质瘤细胞系中通过慢病毒转染沉默/上调ANTXR1后,采用qRT-PCR和western blotting检测mRNA和蛋白水平,并检测细胞表型。然后分别用AKT激活剂和PI3K抑制剂处理ANTXR1敲低和过表达细胞,以验证ANTXR1调控的下游PI3K/AKT通路。构建异种移植裸鼠模型,验证ANTXR1在体内的作用。与正常脑组织相比,我们发现ANTXR1在两种细胞系中都过表达。由于shanxr1慢病毒沉默ANTXR1,胶质瘤细胞的生长和迁移能力显著受损。阻断ANTXR1也通过靶向细胞有丝分裂的G2期加速细胞凋亡和延缓细胞周期。体内异种移植模型证实了上述体外发现。进一步研究发现,AKT激活剂可促进ANTXR1下调介导的抗肿瘤作用,而PI3K抑制剂可抑制ANTXR1过表达介导的促肿瘤作用,表明ANTXR1通过调节PI3K/AKT通路在胶质瘤细胞中起作用。ANTXR1可能通过激活PI3K/ akt介导的细胞生长,在胶质瘤发生过程中发挥不可或缺的作用。本研究为靶向ANTXR1作为胶质瘤临床治疗的分子靶点提供了理论依据。
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引用次数: 0
Role of non-coding RNAs as new therapeutic targets in regulating the EMT and apoptosis in metastatic gastric and colorectal cancers. 非编码rna作为新的治疗靶点在调节转移性胃癌和结直肠癌的EMT和细胞凋亡中的作用
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-15 DOI: 10.1080/15384101.2023.2286804
Nasim Ebrahimi, Ali Hakimzadeh, Farima Bozorgmand, Sepehr Speed, Mahdokht Sadat Manavi, Roya Khorram, Kobra Farahani, Fatemeh Rezaei-Tazangi, Atena Mansouri, Michael R Hamblin, Amir Reza Aref

Colorectal cancer (CRC) and gastric cancer (GC), are the two most common cancers of the gastrointestinal tract, and are serious health concerns worldwide. The discovery of more effective biomarkers for early diagnosis, and improved patient prognosis is important. Non-coding RNAs (ncRNAs), including microRNAs (miRNAs) and long non-coding RNAs (lncRNAs), can regulate cellular processes such as apoptosis and the epithelial-mesenchymal transition (EMT) leading to progression and resistance of GC and CRC tumors. Moreover these pathways (apoptosis and EMT) may serve as therapeutic targets, to prevent metastasis, and to overcome drug resistance. A subgroup of ncRNAs is common to both GC and CRC tumors, suggesting that they might be used as biomarkers or therapeutic targets. In this review, we highlight some ncRNAs that can regulate EMT and apoptosis as two opposite mechanisms in cancer progression and metastasis in GC and CRC. A better understanding of the biological role of ncRNAs could open up new avenues for the development of personalized treatment plans for GC and CRC patients.

结直肠癌(CRC)和胃癌(GC)是两种最常见的胃肠道癌症,是世界范围内严重的健康问题。发现更有效的生物标志物用于早期诊断和改善患者预后是重要的。非编码rna (ncRNAs),包括microRNAs (miRNAs)和长链非编码rna (lncRNAs),可以调节细胞凋亡和上皮-间质转化(EMT)等细胞过程,导致胃癌和结直肠癌肿瘤的进展和耐药。此外,这些途径(细胞凋亡和EMT)可能作为治疗靶点,防止转移和克服耐药。一个ncrna亚组在胃癌和结直肠癌肿瘤中都是常见的,这表明它们可能被用作生物标志物或治疗靶点。在这篇综述中,我们重点介绍了一些可以调节EMT和凋亡的ncrna,它们在胃癌和结直肠癌的癌症进展和转移中是两种相反的机制。更好地了解ncrna的生物学作用可以为GC和CRC患者的个性化治疗方案的发展开辟新的途径。
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引用次数: 0
Exosome-delivered circRNA circSYT15 contributes to cisplatin resistance in cervical cancer cells through the miR-503-5p/RSF1 axis. 外泌体递送的circRNA circSYT15通过miR-503-5p/RSF1轴参与宫颈癌细胞的顺铂耐药。
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-15 DOI: 10.1080/15384101.2023.2281768
Zhilong Chen, Zhen Xu, Qian Wang, Lu Wang, Hailing Zhang, Wuliang Wang, Hu Zhao, Yilin Guo, Jinquan Cui

The development of chemotherapy resistance is a major obstacle for cervical cancer (CC) patients. Exosome-mediated transfer of circular RNAs (circRNAs) was found to have relevance to the CC. This study is designed to explore the role and mechanism of exosomal circRNA synaptotagmin 15 (circSYT15) on cisplatin (DDP) resistance in CC. Cell proliferation ability and apoptosis rate were detected by Cell Counting Kit-8 (CCK-8), 5-ethynyl-2'-deoxyuridine (EdU), colony formation, and flow cytometry assays. CircSYT15, microRNA-503-5p (miR-503-5p), Remodeling spacing factor 1 (RSF1) levels were detected by real-time quantitative polymerase chain reaction (RT-qPCR). Exosomes were analyzed by a transmission electron microscope and nanoparticle tracking analysis. CD63, CD81, TSC101, Bcl-2, Bax, C-caspase 3, and RSF1 protein levels were examined by western blot assay. The binding between miR-503-5p and circSYT15 or RSF1 was predicted by circBank or Starbase and then verified by a dual-luciferase reporter and RNA Immunoprecipitation (RIP). The biological role of exosomal circSYT15 in DDP resistance of CC in vivo. CircSYT15 was upregulated in the DDP-resistant CC cells and exosomes isolated from DDP-resistant CC cells. CircSYT15 knockdown repressed the proliferation and drug resistance of CC and induced apoptosis in CC cells. Exosomes shuttled circSYT15 act as a sponge to affect RSF1 expression, thereby promoting proliferation and drug resistance and repressing apoptosis of sensitive CC cells. Exosomal circSYT15 boost DDP resistance of cervical cancer in vivo. Exosome-mediated transfer of circSYT15 enhanced DDP resistance in CC partly by targeting the miR-503-5p/RSF1 axis, providing a foundation for future clinical applications of CC drug resistance.

化疗耐药的发展是宫颈癌(CC)患者的主要障碍。本研究旨在探讨外泌体circRNA synaptotagmin 15 (circSYT15)在CC顺铂(DDP)耐药中的作用和机制,通过细胞计数试剂盒-8 (CCK-8)、5-乙基-2'-脱氧尿苷(EdU)、集落形成和流式细胞术检测细胞增殖能力和凋亡率。实时定量聚合酶链反应(RT-qPCR)检测CircSYT15、microRNA-503-5p (miR-503-5p)、重塑间隔因子1 (RSF1)水平。外泌体通过透射电子显微镜和纳米颗粒跟踪分析进行分析。western blot检测CD63、CD81、TSC101、Bcl-2、Bax、C-caspase 3、RSF1蛋白水平。通过circBank或Starbase预测miR-503-5p与circSYT15或RSF1的结合,然后通过双荧光素酶报告基因和RNA免疫沉淀(RIP)验证。外泌体circSYT15在CC体内DDP耐药中的生物学作用CircSYT15在ddp抗性CC细胞和从ddp抗性CC细胞分离的外泌体中表达上调。CircSYT15基因敲低可抑制CC细胞增殖和耐药,诱导CC细胞凋亡。穿梭于circSYT15的外泌体像海绵一样影响RSF1的表达,从而促进CC敏感细胞的增殖和耐药,抑制凋亡。外泌体circSYT15促进宫颈癌体内DDP耐药外泌体介导的circSYT15转移部分通过靶向miR-503-5p/RSF1轴增强CC中DDP耐药,为未来CC耐药的临床应用提供基础。
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引用次数: 0
Investigating the role of LncRNA PSMG3-AS1 in gastric cancer: implications for prognosis and therapeutic intervention. 研究LncRNA PSMG3-AS1在癌症中的作用:对预后和治疗干预的影响。
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-05 DOI: 10.1080/15384101.2023.2278942
Yi Wang, Zhongshi Hong, Shenghong Wei, Zaisheng Ye, Luchuan Chen, Chengzhi Qiu

LncRNAs are widely linked to the complex development of gastric cancer, which is acknowledged worldwide as the third highest contributor to cancer-related deaths and the fifth most common form of cancer. The primary focus of this study is to examine the role of LncRNA PSMG3-AS1 in a group of individuals with gastric cancer. The results of our study indicate that PSMG3-AS1 is highly expressed in over 20 different types of cancer. Significantly, there was a clear association found between the expression of PSMG3-AS1 and a multitude of TMB and MSI tumors. PSMG3-AS1 exhibited significant upregulation in gastric cancer patients compared to healthy individuals within the gastric cancer cohort. The prognosis of gastric cancer patients is intrinsically associated with PSMG3-AS1, as confirmed by survival analysis and ROC curves. Furthermore, we created a disruption vector based on LncRNA PSMG3-AS1 and introduced it into AGS and MKN-45 cells, which are human gastric cancer cells. Significant decreases in the expression of the PSMG3-AS1 gene were noticed in both intervention groups compared to the NC group, reflecting the protein level expressions. Significantly, the proliferative and invasive capabilities of MKN-45 and AGS cells were notably reduced following transfection with PSMG3-AS1 siRNA. The results of our study indicate that disruption of the LncRNA PSMG3-AS1 gene may impact the CAV1/miR-451a signaling pathway, thereby leading to a reduction in the ability of gastric cancer cells to multiply and invade.

LncRNA与癌症的复杂发展广泛相关,癌症被世界公认为癌症相关死亡的第三大贡献者和癌症的第五大常见形式。本研究的主要重点是检测LncRNA PSMG3-AS1在一组癌症患者中的作用。我们的研究结果表明,PSMG3-AS1在20多种不同类型的癌症中高度表达。值得注意的是,发现PSMG3-AS1的表达与大量TMB和MSI肿瘤之间存在明显的相关性。与癌症队列中的健康个体相比,PSMG3-AS1在癌症患者中表现出显著的上调。生存分析和ROC曲线证实,癌症患者的预后与PSMG3-AS1内在相关。此外,我们创建了一个基于LncRNA PSMG3-AS1的破坏载体,并将其引入AGS和MKN-45细胞,这是人类癌症细胞。与NC组相比,两个干预组的PSMG3-AS1基因表达均显著降低,反映了蛋白质水平的表达。值得注意的是,用PSMG3-AS1 siRNA转染后,MKN-45和AGS细胞的增殖和侵袭能力显著降低。我们的研究结果表明,LncRNA PSMG3-AS1基因的破坏可能影响CAV1/miR-451a信号通路,从而导致癌症细胞增殖和侵袭能力降低。
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引用次数: 0
Structural and functional insights into GSDMB isoforms complex roles in pathogenesis. GSDMB异构体在发病机制中的复杂作用的结构和功能见解。
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-15 DOI: 10.1080/15384101.2023.2287933
Sara Colomo, David Ros-Pardo, Sara S Oltra, Paulino Gomez-Puertas, David Sarrio, Gema Moreno-Bueno

SHADSGasdermins (GSDMs) have garnered significant scientific interest due to their protective and detrimental roles in innate immunity, host defense, inflammation, and cancer alongside with other pathologies. While GSDMs are mostly recognized as key effectors of a lytic type of pro-inflammatory cell death known as pyroptosis, they do also take part in other cell death processes (NETosis, secondary necrosis, or apoptosis) and exhibit cell-death independent functions depending on the cellular context. Among GSDMs, Gasdermin B (GSDMB) pyroptotic capacity has been a subject of conflicting findings in scientific literature even when its processing, and subsequent activation, by Granzyme A (GZMA) was decoded. Nevertheless, recent groundbreaking publications have shed light on the crucial role of alternative splicing in determining the pyroptotic capacity of GSDMB isoforms, which depends on the presence of exon 6-derived elements. This comprehensive review pays attention to the relevant structural differences among recently crystalized GSDMB isoforms. As a novelty, the structural aspects governing GSDMB isoform susceptibility to GZMA-mediated activation have been investigated. By elucidating the complex roles of GSDMB isoforms, this review aims to deepen the understanding of this multifunctional player and its potential implications in disease pathogenesis and therapeutic interventions. [Figure: see text].

SHADSGasdermins (GSDMs)由于其在先天免疫、宿主防御、炎症和癌症以及其他病理中的保护和有害作用而获得了重大的科学兴趣。虽然GSDMs主要被认为是一种被称为焦亡的溶解型促炎细胞死亡的关键效应物,但它们也参与其他细胞死亡过程(NETosis、继发性坏死或凋亡),并根据细胞环境表现出与细胞死亡无关的功能。在GSDMs中,Gasdermin B (GSDMB)的热降解能力一直是科学文献中相互矛盾的发现的主题,即使对其被颗粒酶a (GZMA)加工和随后激活进行了解码。尽管如此,最近的突破性出版物已经阐明了选择性剪接在决定GSDMB异构体的热腐能力中的关键作用,这取决于外显子6衍生元素的存在。本文综述了最近结晶的GSDMB异构体的相关结构差异。作为一种新事物,已经研究了控制GSDMB同工异构体对gzma介导的激活的易感性的结构方面。通过阐明GSDMB亚型的复杂作用,本综述旨在加深对这一多功能参与者及其在疾病发病机制和治疗干预中的潜在意义的理解。[图:见正文]。
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引用次数: 0
Knockdown of HNRNPM inhibits the progression of glioma through inducing ferroptosis. 敲低HNRNPM通过诱导铁下垂抑制胶质瘤的进展。
IF 3.4 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-15 DOI: 10.1080/15384101.2023.2286782
Jian Wang, Xiaolin Luo, Dehua Liu

Purpose: Ferroptosis acts as an important regulator in diverse human tumors, including the glioma. This study aimed to screen potential ferroptosis-related genes involved in the progression of glioma.

Materials and methods: Differently expressed genes (DEGs) were screened based on GSE31262 and GSE12657 datasets, and ferroptosis-related genes were separated. Among the important hub genes in the protein-protein interaction networks, HNRNPM was selected as a research target. Following the knockdown of HNRNPM, the viability, migration, and invasion were detected by CCK8, wound healing, and transwell assays, respectively. The role of HNRNPM knockdown was also verified in a xenograft tumor model in mice. Immunohistochemistry detected the expression levels of HNRNPM and Ki67. Moreover, the ferroptosis was evaluated according to the levels of iron, glutathione peroxidase (GSH), and malondialdehyde (MDA), as well as the expression of PTGS2, GPX4, and FTH1.

Results: Total 41 overlapping DEGs relating with ferroptosis and glioma were screened, among which 4 up-regulated hub genes (HNRNPM, HNRNPA3, RUVBL1, and SNRPPF) were determined. The up-regulation of HNRNPM presented a certain predictive value for glioma. In addition, knockdown of HNRNPM inhibited the viability, migration, and invasion of glioma cells in vitro, and also the tumor growth in mice. Notably, knockdown of HNRNPM enhanced the ferroptosis in glioma cells. Furthermore, HNRNPM was positively associated with SMARCA4 in glioma.

Conclusions: Knockdown of HNRNPM inhibits the progression of glioma via inducing ferroptosis. HNRNPM is a promising molecular target for the treatment of glioma via inducing ferroptosis. We provided new insights of glioma progression and potential therapeutic guidance.

目的:铁下垂在包括胶质瘤在内的多种人类肿瘤中起着重要的调节作用。本研究旨在筛选参与胶质瘤进展的潜在铁沉降相关基因。材料和方法:基于GSE31262和GSE12657数据集筛选不同表达基因(DEGs),分离铁衰相关基因。在蛋白-蛋白相互作用网络的重要枢纽基因中,HNRNPM被选为研究靶点。在敲除HNRNPM后,分别通过CCK8、伤口愈合和transwell试验检测其活力、迁移和侵袭。HNRNPM敲低的作用也在小鼠异种移植瘤模型中得到证实。免疫组化检测HNRNPM和Ki67的表达水平。此外,根据铁、谷胱甘肽过氧化物酶(GSH)、丙二醛(MDA)水平以及PTGS2、GPX4、FTH1的表达来评估铁下沉。结果:共筛选到与铁上吊和胶质瘤相关的41个重叠deg,其中确定了4个上调中枢基因(HNRNPM、HNRNPA3、RUVBL1、SNRPPF)。HNRNPM的上调对胶质瘤有一定的预测价值。此外,HNRNPM的敲低抑制胶质瘤细胞的体外活力、迁移和侵袭,并抑制小鼠肿瘤的生长。值得注意的是,HNRNPM的下调增强了胶质瘤细胞的铁下垂。此外,HNRNPM在胶质瘤中与SMARCA4呈正相关。结论:敲低HNRNPM通过诱导铁下垂抑制胶质瘤的进展。HNRNPM是通过诱导铁下垂治疗胶质瘤的一个有前景的分子靶点。我们为胶质瘤的进展和潜在的治疗指导提供了新的见解。
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引用次数: 0
Multi-omics integration analysis unveils heterogeneity in breast cancer at the individual level. 多组学整合分析揭示了个体水平乳腺癌的异质性。
IF 4.3 3区 生物学 Q3 CELL BIOLOGY Pub Date : 2023-10-01 Epub Date: 2023-12-15 DOI: 10.1080/15384101.2023.2281816
Zhangxiang Zhao, Tongzhu Jin, Bo Chen, Qi Dong, Mingyue Liu, Jiayu Guo, Xiaoying Song, Yawei Li, Tingting Chen, Huiming Han, Haihai Liang, Yunyan Gu

Identifying robust breast cancer subtypes will help to reveal the cancer heterogeneity. However, previous breast cancer subtypes were based on population-level quantitative gene expression, which is affected by batch effects and cannot be applied to individuals. We detected differential gene expression, genomic, and epigenomic alterations to identify driver differential expression at the individual level. The individual driver differential expression reflected the breast cancer patients' heterogeneity and revealed four subtypes. Mesenchymal subtype as the most aggressive subtype harbored deletion and downregulated expression of genes in chromosome 11q23 region. Specifically, silencing of the SDHD gene in 11q23 promoted the invasion and migration of breast cancer cells in vitro by the epithelial-mesenchymal transition. The immunologically hot subtype displayed an immune-hot microenvironment, including high T-cell infiltration and upregulated PD-1 and CTLA4. Luminal and genomic-unstable subtypes showed opposite macrophage polarization, which may be regulated by the ligand-receptor pairs of CD99. The integration of multi-omics data at the individual level provides a powerful framework for elucidating the heterogeneity of breast cancer.

确定稳健的乳腺癌亚型将有助于揭示癌症的异质性。然而,以往的乳腺癌亚型是基于群体水平的定量基因表达,受批效应的影响,不能适用于个体。我们检测了差异基因表达、基因组和表观基因组的改变,以确定个体水平上的驱动差异表达。个体驱动因子差异表达反映了乳腺癌患者的异质性,并揭示了四种亚型。间充质亚型是最具侵袭性的亚型,在染色体11q23区域存在基因缺失和下调表达。具体来说,11q23中SDHD基因的沉默通过上皮-间质转化促进了乳腺癌细胞在体外的侵袭和迁移。免疫热亚型表现出免疫热微环境,包括高t细胞浸润和上调PD-1和CTLA4。腔内和基因组不稳定亚型显示相反的巨噬细胞极化,这可能受到CD99配体-受体对的调节。个体水平多组学数据的整合为阐明乳腺癌的异质性提供了一个强有力的框架。
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引用次数: 0
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