IUBMB LifePub Date : 2024-04-23DOI: 10.1002/iub.2824
Shuning Hao, Feifei Zuo, Hongmin Zhang, Ying Wang, Liwen Huang, Fenghui Ma, Tiefeng Song, Tongcun Zhang, Xuejun Ren, Nan Wang
{"title":"LncRNA RP11-301G19.1 is required for the maintenance of vascular smooth muscle cell contractile phenotype via sponging miR-17-5P/ATOH8 axis","authors":"Shuning Hao, Feifei Zuo, Hongmin Zhang, Ying Wang, Liwen Huang, Fenghui Ma, Tiefeng Song, Tongcun Zhang, Xuejun Ren, Nan Wang","doi":"10.1002/iub.2824","DOIUrl":"10.1002/iub.2824","url":null,"abstract":"<p>Long noncoding RNAs (LncRNAs) play essential roles in regulating gene expression in various biological processes. However, the function of lncRNAs in vascular smooth muscle cell (VSMC) transformation remains to be explained. In this work, we discover that a new bone marrow protein (BMP) signaling target, lncRNA RP11-301G19.1, is significantly induced in BMP7-treated VSMCs through lncRNA microarray analysis. Addition of BMP signaling inhibitor LDN-193189 attenuates the expression of ACTA2 and SM-22α, as well as the mRNA level of RP11-301G19.1. Furthermore, lncRNA RP11-301G19.1 is critical to the VSMC differentiation and is directly activated by SMAD1/9. Mechanistically, knocking down of RP11-301G19.1 leads to the decrease of ATOH8, another BMP target, while the forced expression of RP11-301G19.1 reactivates ATOH8. In addition, miR-17-5p, a miRNA negatively regulated by BMP-7, contains predicted binding sites for lncRNA RP11-301G19.1 and ATOH8 3′UTR. Accordingly, overexpression of miR-17-5p decreases the levels of them. Together, our results revealed the role of lncRNA RP11-301G19.1 as a miRNA sponge to upregulate ATOH8 in VSMC phenotype transformation.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 9","pages":"731-744"},"PeriodicalIF":3.7,"publicationDate":"2024-04-23","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140666589","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Experimental evolution of extremotolerant and extremophilic fungi under osmotic stress","authors":"Farhad Hariri Akbari, Zewei Song, Martina Turk, Nina Gunde-Cimerman, Cene Gostinčar","doi":"10.1002/iub.2825","DOIUrl":"10.1002/iub.2825","url":null,"abstract":"<p>Experimental evolution was carried out to investigate the adaptive responses of extremotolerant fungi to a stressful environment. For 12 cultivation cycles, the halotolerant black yeasts <i>Aureobasidium pullulans</i> and <i>Aureobasidium subglaciale</i> were grown at high NaCl or glycerol concentrations, and the halophilic basidiomycete <i>Wallemia ichthyophaga</i> was grown close to its lower NaCl growth limit. All evolved <i>Aureobasidium</i> spp. accelerated their growth at low water activity. Whole genomes of the evolved strains were sequenced. No aneuploidies were detected in any of the genomes, contrary to previous studies on experimental evolution at high salinity with other species. However, several hundred single-nucleotide polymorphisms were identified compared with the genomes of the progenitor strains. Two functional groups of genes were overrepresented among the genes presumably affected by single-nucleotide polymorphisms: voltage-gated potassium channels in <i>A. pullulans</i> at high NaCl concentration, and hydrophobins in <i>W. ichthyophaga</i> at low NaCl concentration. Both groups of genes were previously associated with adaptation to high salinity. Finally, most evolved <i>Aureobasidium</i> spp. strains were found to have increased intracellular and decreased extracellular glycerol concentrations at high salinity, suggesting that the strains have optimised their management of glycerol, their most important compatible solute. Experimental evolution therefore not only confirmed the role of potassium transport, glycerol management, and cell wall in survival at low water activity, but also demonstrated that fungi from extreme environments can further improve their growth rates under constant extreme conditions in a relatively short time and without large scale genomic rearrangements.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 9","pages":"617-631"},"PeriodicalIF":3.7,"publicationDate":"2024-04-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/iub.2825","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140636855","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Imperative connotation of SODs in cancer: Emerging targets and multifactorial role of action","authors":"Biswajit Panda, Ankita Tripathy, Srimanta Patra, Bandana Kullu, Shams Tabrez, Mrutyunjay Jena","doi":"10.1002/iub.2821","DOIUrl":"10.1002/iub.2821","url":null,"abstract":"<p>Superoxide dismutase (SOD) is a crucial enzyme responsible for the redox homeostasis inside the cell. As a part of the antioxidant defense system, it plays a pivotal role in the dismutation of the superoxide radicals (<span></span><math>\u0000 <mrow>\u0000 <msup>\u0000 <msub>\u0000 <mi>O</mi>\u0000 <mn>2</mn>\u0000 </msub>\u0000 <mo>−</mo>\u0000 </msup>\u0000 </mrow></math>) generated mainly by the oxidative phosphorylation, which would otherwise bring out the redox dysregulation, leading to higher reactive oxygen species (ROS) generation and, ultimately, cell transformation, and malignancy. Several studies have shown the involvement of ROS in a wide range of human cancers. As SOD is the key enzyme in regulating ROS, any change, such as a transcriptional change, epigenetic remodeling, functional alteration, and so forth, either activates the proto-oncogenes or aberrant signaling cascades, which results in cancer. Interestingly, in some cases, SODs act as tumor promoters instead of suppressors. Furthermore, SODs have also been known to switch their role during tumor progression. In this review, we have tried to give a comprehensive account of SODs multifactorial role in various human cancers so that SODs-based therapeutic strategies could be made to thwart cancers.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 9","pages":"592-613"},"PeriodicalIF":3.7,"publicationDate":"2024-04-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140584161","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
IUBMB LifePub Date : 2024-04-10DOI: 10.1002/iub.2820
Flavia Fontanesi
{"title":"IUBMB Life special issue: Mitochondrial biology and the yeast paradigm","authors":"Flavia Fontanesi","doi":"10.1002/iub.2820","DOIUrl":"10.1002/iub.2820","url":null,"abstract":"","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 9","pages":"614-616"},"PeriodicalIF":3.7,"publicationDate":"2024-04-10","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140584140","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
{"title":"Characterization of Mitoribosomal Small Subunit unit genes related immune and pharmacogenomic landscapes in renal cell carcinoma","authors":"Zhihao Wei, Chenchen Liu, Jiaqian Liang, Xuan Zhou, Kaming Xue, Keshan Wang, Xiaoping Zhang","doi":"10.1002/iub.2818","DOIUrl":"10.1002/iub.2818","url":null,"abstract":"<p>Mitoribosomes are essential for the production of biological energy. The Human Mitoribosomal Small Subunit unit (MRPS) family, responsible for encoding mitochondrial ribosomal small subunits, is actively engaged in protein synthesis within the mitochondria. Intriguingly, MRPS family genes appear to play a role in cancer. A multistep process was employed to establish a risk model associated with MRPS genes, aiming to delineate the immune and pharmacogenomic landscapes in clear cell renal cell carcinoma (ccRCC). MRPScores were computed for individual patients to assess their responsiveness to various treatment modalities and their susceptibility to different therapeutic targets and drugs. While MRPS family genes have been implicated in various cancers as oncogenes, our findings reveal a contrasting tumor suppressor role for MRPS genes in ccRCC. Utilizing an MRPS-related risk model, we observed its excellent prognostic capability in predicting survival outcomes for ccRCC patients. Remarkably, the subgroup with high MRPS-related scores (MRPScore) displayed poorer prognosis but exhibited a more robust response to immunotherapy. Through in silico screening of 2183 drug targets and 1646 compounds, we identified two targets (RRM2 and OPRD1) and eight agents (AZ960, carmustine, lasalocid, SGI-1776, AZD8055_1059, BPD.00008900_1998, MK.8776_2046, and XAV939_1268) with potential therapeutic implications for high-MRPScore patients. Our study represents the pioneering effort in proposing that molecular classification, diagnosis, and treatment strategies can be formulated based on MRPScores. Indeed, a high MRPScore profile appears to elevate the risk of tumor progression and mortality, potentially through its influence on immune regulation. This suggests that the MRPS-related risk model holds promise as a prognostic predictor and may offer novel insights into personalized therapeutic strategies.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 9","pages":"647-665"},"PeriodicalIF":3.7,"publicationDate":"2024-03-29","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140318327","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
IUBMB LifePub Date : 2024-03-26DOI: 10.1002/iub.2817
Mazzen H. Eldeeb, Lizeth J. Camacho Lopez, Flavia Fontanesi
{"title":"Mitochondrial respiratory supercomplexes of the yeast Saccharomyces cerevisiae","authors":"Mazzen H. Eldeeb, Lizeth J. Camacho Lopez, Flavia Fontanesi","doi":"10.1002/iub.2817","DOIUrl":"10.1002/iub.2817","url":null,"abstract":"<p>The functional and structural relationship among the individual components of the mitochondrial respiratory chain constitutes a central aspect of our understanding of aerobic catabolism. This interplay has been a subject of intense debate for over 50 years. It is well established that individual respiratory enzymes associate into higher-order structures known as respiratory supercomplexes, which represent the evolutionarily conserved organizing principle of the mitochondrial respiratory chain. In the yeast <i>Saccharomyces cerevisiae</i>, supercomplexes are formed by a complex III homodimer flanked by one or two complex IV monomers, and their high-resolution structures have been recently elucidated. Despite the wealth of structural information, several proposed supercomplex functions remain speculative and our understanding of their physiological relevance is still limited. Recent advances in the field were made possible by the construction of yeast strains where the association of complex III and IV into supercomplexes is impeded, leading to diminished respiratory capacity and compromised cellular competitive fitness. Here, we discuss the experimental evidence and hypotheses relative to the functional roles of yeast respiratory supercomplexes. Moreover, we review the current models of yeast complex III and IV assembly in the context of supercomplex formation and highlight the data scattered throughout the literature suggesting the existence of cross talk between their biogenetic processes.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 8","pages":"485-504"},"PeriodicalIF":3.7,"publicationDate":"2024-03-26","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/iub.2817","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140287472","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
IUBMB LifePub Date : 2024-03-18DOI: 10.1002/iub.2816
Sara M. Elgendy, Dana M. Zaher, Nadin H. Sarg, Nour N. Abu Jayab, Dima W. Alhamad, Taleb H. Al-Tel, Hany A. Omar
{"title":"Autophagy inhibition potentiates energy restriction-induced cell death in hepatocellular carcinoma cells","authors":"Sara M. Elgendy, Dana M. Zaher, Nadin H. Sarg, Nour N. Abu Jayab, Dima W. Alhamad, Taleb H. Al-Tel, Hany A. Omar","doi":"10.1002/iub.2816","DOIUrl":"10.1002/iub.2816","url":null,"abstract":"<p>Hepatocellular carcinoma (HCC) significantly contributes to cancer-related mortality due to the limited response of HCC to current anticancer therapies, thereby necessitating more effective treatment approaches. Energy restriction mimetic agents (ERMAs) have emerged as potential therapies in targeting the Warburg effect, a unique metabolic process in cancer cells. However, ERMAs exhibit limited efficacy when used as monotherapy. Additionally, ERMAs have been found to induce autophagy in cancer cells. The role of autophagy in cancer survival remains a subject of debate. Thus, it is crucial to ascertain whether ERMA-induced autophagy is a mechanism for cell survival or cell death in HCC. Our study aims to investigate the effect of autophagy inhibition on the survival of HCC cells treated with ERMAs while also examining the potential of combining an autophagy inhibitor such as spautin-1 with ERMAs to enhance HCC cell death. Our results suggest a cytoprotective role for ERMA-induced autophagy in HCC cells, as combining the autophagy inhibitor spautin-1 with ERMAs effectively suppressed ERMA-induced autophagy and synergistically enhanced their antitumor activity. The treatment combination promoted HCC death through apoptosis, cell cycle arrest, and inhibition of AKT and ERK activation, which are known to play a key role in cellular proliferation. Collectively, our findings highlight a potential strategy to combat HCC by combining energy restriction with autophagy inhibition.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 8","pages":"577-588"},"PeriodicalIF":3.7,"publicationDate":"2024-03-18","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140143487","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
IUBMB LifePub Date : 2024-03-14DOI: 10.1002/iub.2815
{"title":"Retraction: miR-212/132 downregulates SMAD2 expression to suppress the G1/S phase transition of the cell cycle and the epithelial to mesenchymal transition in cervical cancer cells","authors":"","doi":"10.1002/iub.2815","DOIUrl":"10.1002/iub.2815","url":null,"abstract":"<p>Retraction: ‘ <span>miR-212/132 downregulates SMAD2 expression to suppress the G1/S phase transition of the cell cycle and the epithelial to mesenchymal transition in cervical cancer cells</span>’ by <span>Jian-Li Zhao</span>, <span>Le Zhang, Xu Guo</span>, <span>Jing-Hua Wang</span>, <span>Wen Zhou</span>, <span>Min Liu</span>, <span>Xin Li</span> and <span>Hua Tang</span>, <i>IUBMB Life</i> <span>2015</span>, <span>67</span>, <span>380</span>–<span>394</span>\u0000 : The above article, published online on 15 May 2015 on Wiley Online Library (https://doi.org/10.1002/iub.1381) has been retracted by agreement between the journal's Editor in Chief, Dr. Efstathios S. Gonos, and Wiley Periodicals LLC.</p><p> </p><p>The retraction has been agreed following an investigation based on allegations raised by a third party. Several flaws and inconsistencies were found, including image manipulation in Figures 3C, 4C, 5B, 6B, 7C, 7D, 8B, 8C and 8D, and the editors consider the conclusions of this article to be invalid. The authors were contacted regarding the findings and the proposed retraction, but we did not receive a response.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 6","pages":"363"},"PeriodicalIF":4.6,"publicationDate":"2024-03-14","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://onlinelibrary.wiley.com/doi/epdf/10.1002/iub.2815","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140131463","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
IUBMB LifePub Date : 2024-03-07DOI: 10.1002/iub.2813
Wen Bian, Haifeng Yu, Xiaofei Zhang, Yuxuan Wang, Bin Ni
{"title":"Particulate matters 2.5 induce tumor progression in lung cancer by increasing the activity of hnRNPA2B1 resulting in retarding mRNA decay of oxidative phosphorylation","authors":"Wen Bian, Haifeng Yu, Xiaofei Zhang, Yuxuan Wang, Bin Ni","doi":"10.1002/iub.2813","DOIUrl":"10.1002/iub.2813","url":null,"abstract":"<p>Particulate matter 2.5 (PM2.5) has been implicated in lung injury and various cancers, yet its precise mechanistic role remains elusive. To elucidate the key signaling pathways underpinning PM2.5-induced lung cancer progression, we embarked on a study examining the impact of PM2.5 both in vitro and in vivo. Lung cancer cell lines, A549 and H157, were employed for the in vitro investigations. Overexpression or knockdown techniques targeting the hnRNPA2B1 protein were implemented. Lung cancer cells were treated with a medium containing PM2.5 and subsequently prepared for in vitro evaluations. Cell growth, invasion, and migration were gauged using transwell and CCK-8 assays. Apoptosis was ascertained through flow cytometry and western blotting of pertinent proteins. Seahorse analyses probed the influence of PM2.5 on lung cancer energy metabolism. The RNA stability assay was employed to discern the impact of PM2.5 on the stability of oxidative phosphorylation-related genes in lung cancer. Our findings revealed that PM2.5 augmented cell proliferation, migration, and invasion rates. Similarly, a diminished apoptosis rate was observed in PM2.5-treated cells. Elevated expression of hnRNPA2B1 was detected in lung cancer cells exposed to PM2.5. Moreover, in cells treated with PM2.5, hnRNPA2B1 knockdown markedly curtailed cell proliferation by inducing G1–S cell cycle arrest and bolstered lung cancer cell apoptosis in vitro; it also curbed xenograft tumor growth. Mechanistically, our data suggest that PM2.5 undermines the stability of mRNA transcripts associated with oxidative phosphorylation (OXPHOS) and augments the formation of processing bodies (P-bodies), leading to an upsurge in OXPHOS levels. In conclusion, PM2.5 appears to drive lung cancer progression and migration by modulating the energy metabolism of lung cancer in a hnRNPA2B1-dependent manner.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 8","pages":"563-576"},"PeriodicalIF":3.7,"publicationDate":"2024-03-07","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140049498","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}
IUBMB LifePub Date : 2024-03-05DOI: 10.1002/iub.2814
Hamda Khan, Uzma Shahab, Ahmed Alshammari, Amjad R. Alyahyawi, Rihab Akasha, Talal Alharazi, Rizwan Ahmad, Afreen Khanam, Safia Habib, Kirtanjot Kaur, Saheem Ahmad, Moinuddin
{"title":"Nano-therapeutics: The upcoming nanomedicine to treat cancer","authors":"Hamda Khan, Uzma Shahab, Ahmed Alshammari, Amjad R. Alyahyawi, Rihab Akasha, Talal Alharazi, Rizwan Ahmad, Afreen Khanam, Safia Habib, Kirtanjot Kaur, Saheem Ahmad, Moinuddin","doi":"10.1002/iub.2814","DOIUrl":"10.1002/iub.2814","url":null,"abstract":"<p>Nanotechnology is considered a successful approach for cancer diagnosis and treatment. Preferentially, cancer cell recognition and drug targeting via nano-delivery system include the penetration of anticancer agents into the cell membrane to damage the cancer cell by protein modification, DNA oxidation, or mitochondrial dysfunction. The past research on nano-delivery systems and their target has proven the beneficial achievement in a malignant tumor. Modern perceptions using inventive nanomaterials for cancer management have been offered by a multifunctional platform based on various nano-carriers with the probability of imaging and cancer therapy simultaneously. Emerging nano-delivery systems in cancer therapy still lack knowledge of the biological functions behind the interaction between nanoparticles and cancer cells. Since the potential of engineered nanoparticles addresses the various challenges, limiting the success of cancer therapy subsequently, it is a must to review the molecular targeting of a nano-delivery system to enhance the therapeutic efficacy of cancer. This review focuses on using a nano-delivery system, an imaging system, and encapsulated nanoparticles for cancer therapy.</p>","PeriodicalId":14728,"journal":{"name":"IUBMB Life","volume":"76 8","pages":"468-484"},"PeriodicalIF":3.7,"publicationDate":"2024-03-05","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"140028040","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":3,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}