RNA Biology最新文献_第10页

Temperature-sensing riboceptors. 温度感应核糖受体

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-07-17 DOI: 10.1080/15476286.2024.2379118

Savani Anbalagan

引用次数: 0

ECT2 peptide sequences outside the YTH domain regulate its m⁶A-RNA binding. YTH 结构域外的 ECT2 肽序列可调节其与 m6A-RNA 的结合。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-09-12 DOI: 10.1080/15476286.2024.2399914

Daphné Seigneurin-Berny, Claire Karczewski, Elise Delaforge, Karen Yaacoub, Celso Gaspar Litholdo, Jean-Jacques Favory, Malene Ringkjøbing Jensen, Cécile Bousquet-Antonelli, André Verdel

{"title":"ECT2 peptide sequences outside the YTH domain regulate its m6A-RNA binding.","authors":"Daphné Seigneurin-Berny, Claire Karczewski, Elise Delaforge, Karen Yaacoub, Celso Gaspar Litholdo, Jean-Jacques Favory, Malene Ringkjøbing Jensen, Cécile Bousquet-Antonelli, André Verdel","doi":"10.1080/15476286.2024.2399914","DOIUrl":"10.1080/15476286.2024.2399914","url":null,"abstract":"The m6A epitranscriptomic mark is the most abundant and widespread internal RNA chemical modification, which through the control of RNA acts as an important factor of eukaryote reproduction, growth, morphogenesis and stress response. The main m6A readers constitute a super family of proteins with hundreds of members that share a so-called YTH RNA binding domain. The majority of YTH proteins carry no obvious additional domain except for an Intrinsically Disordered Region (IDR). In Arabidopsis thaliana IDRs are important for the functional specialization among the different YTH proteins, known as Evolutionarily Conserved C-Terminal region, ECT 1 to 12. Here by studying the ECT2 protein and using an in vitro biochemical characterization, we show that full-length ECT2 and its YTH domain alone have a distinct ability to bind m6A, conversely to previously characterized YTH readers. We identify peptide regions outside of ECT2 YTH domain, in the N-terminal IDR, that regulate its binding to m6A-methylated RNA. Furthermore, we show that the selectivity of ECT2 binding for m6A is enhanced by a high uridine content within its neighbouring sequence, where ECT2 N-terminal IDR is believed to contact the target RNA in vivo. Finally, we also identify small structural elements, located next to ECT2 YTH domain and conserved in a large set of YTH proteins, that enhance its binding to m6A-methylated RNA. We propose from these findings that some of these regulatory regions are not limited to ECT2 or YTH readers of flowering plants but may be widespread among eukaryotic YTH readers.","PeriodicalId":21351,"journal":{"name":"RNA Biology","volume":"21 1","pages":"1-13"},"PeriodicalIF":3.6,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11404569/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142294344","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}

引用次数: 0

m6A modification of RNA in cervical cancer: role and clinical perspectives. 宫颈癌中 RNA 的 m6A 修饰：作用和临床前景。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-09-30 DOI: 10.1080/15476286.2024.2408707

Yajuan Gao, Qi Guo, Liming Yu

{"title":"m6A modification of RNA in cervical cancer: role and clinical perspectives.","authors":"Yajuan Gao, Qi Guo, Liming Yu","doi":"10.1080/15476286.2024.2408707","DOIUrl":"10.1080/15476286.2024.2408707","url":null,"abstract":"N6-methyladenosine (m6A) is widely recognized as the predominant form of RNA modification in higher organisms, with the capability to finely regulate RNA metabolism, thereby influencing a series of crucial physiological and pathological processes. These processes include regulation of gene expression, cell proliferation, invasion and metastasis, cell cycle control, programmed cell death, interactions within the tumour microenvironment, energy metabolism, and immune regulation. With advancing research into the mechanisms of RNA methylation, the pivotal role of m6A modification in the pathophysiology of reproductive system tumours, particularly cervical cancer, has been progressively unveiled. This discovery has opened new research avenues and presented significant potential for the diagnosis, prognostic evaluation, and treatment of diseases. This review delves deeply into the biological functions of m6A modification and its mechanisms of action in the onset and progression of cervical cancer. Furthermore, it explores the prospects of m6A modification in the precision diagnosis and treatment of cervical cancer, aiming to provide new perspectives and a theoretical basis for innovative and advanced treatment strategies for cervical cancer.","PeriodicalId":21351,"journal":{"name":"RNA Biology","volume":"21 1","pages":"49-61"},"PeriodicalIF":3.6,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11445900/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142353017","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}

引用次数: 0

The role of dsRNA A-to-I editing catalyzed by ADAR family enzymes in the pathogeneses. ADAR 家族酶催化的 dsRNA A 到 I 编辑在病原体中的作用。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-10-24 DOI: 10.1080/15476286.2024.2414156

Wanqing Liu, Yufan Wu, Tong Zhang, Xiaobo Sun, Dean Guo, Zizhao Yang

{"title":"The role of dsRNA A-to-I editing catalyzed by ADAR family enzymes in the pathogeneses.","authors":"Wanqing Liu, Yufan Wu, Tong Zhang, Xiaobo Sun, Dean Guo, Zizhao Yang","doi":"10.1080/15476286.2024.2414156","DOIUrl":"10.1080/15476286.2024.2414156","url":null,"abstract":"The process of adenosine deaminase (ADAR)-catalyzed double-stranded RNA (dsRNA) Adenosine-to-Inosine (A-to-I) editing is essential for the correction of pathogenic mutagenesis, as well as the regulation of gene expression and protein function in mammals. The significance of dsRNA A-to-I editing in disease development and occurrence is explored using inferential statistics and cluster analyses to investigate the enzymes involved in dsRNA editing that can catalyze editing sites across multiple biomarkers. This editing process, which occurs in coding or non-coding regions, has the potential to activate abnormal signalling pathways that contributes to disease pathogenesis. Notably, the ADAR family enzymes play a crucial role in initiating the editing process. ADAR1 is upregulated in most diseases as an oncogene during tumorigenesis, whereas ADAR2 typically acts as a tumour suppressor. Furthermore, this review also provides an overview of small molecular inhibitors that disrupt the expression of ADAR enzymes. These inhibitors not only counteract tumorigenicity but also alleviate autoimmune disorders, neurological neurodegenerative symptoms, and metabolic diseases associated with aberrant dsRNA A-to-I editing processes. In summary, this comprehensive review offers detailed insights into the involvement of dsRNA A-to-I editing in disease pathogenesis and highlights the potential therapeutic roles for related small molecular inhibitors. These scientific findings will undoubtedly contribute to the advancement of personalized medicine based on dsRNA A-to-I editing.","PeriodicalId":21351,"journal":{"name":"RNA Biology","volume":"21 1","pages":"52-69"},"PeriodicalIF":3.6,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11520539/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142506997","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}

引用次数: 0

The role of SRP9/SRP14 in regulating Alu RNA. SRP9/SRP14在调控Alu RNA中的作用

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-11-19 DOI: 10.1080/15476286.2024.2430817

Daniel Gussakovsky, Nicole A Black, Evan P Booy, Sean A McKenna

引用次数: 0

RNA-containing extracellular vesicles in infection. 感染中含有 RNA 的细胞外囊泡。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-11-26 DOI: 10.1080/15476286.2024.2431781

Kayo Schemiko Almeida, Suélen Andreia Rossi, Lysangela Ronalte Alves

引用次数: 0

Interactors and effects of overexpressing YlxR/RnpM, a conserved RNA binding protein in cyanobacteria. 蓝藻中保守RNA结合蛋白YlxR/RnpM过表达的相互作用及其影响

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-12-03 DOI: 10.1080/15476286.2024.2429230

Luisa Hemm, Anna Miucci, Alexander Kraus, Matthias Riediger, Stefan Tholen, Nouha Abdelaziz, Jens Georg, Oliver Schilling, Wolfgang R Hess

{"title":"Interactors and effects of overexpressing YlxR/RnpM, a conserved RNA binding protein in cyanobacteria.","authors":"Luisa Hemm, Anna Miucci, Alexander Kraus, Matthias Riediger, Stefan Tholen, Nouha Abdelaziz, Jens Georg, Oliver Schilling, Wolfgang R Hess","doi":"10.1080/15476286.2024.2429230","DOIUrl":"10.1080/15476286.2024.2429230","url":null,"abstract":"Throughout the tree of life RNA-binding proteins play important roles, but they are poorly characterized in cyanobacteria. Overexpression of the predicted RNA-binding protein Ssr1238 in the cyanobacterium Synechocystis 6803 for 24 h led to higher levels of RNase P RNA, tRNAs, and stress-related mRNAs. Co-immunoprecipitation of proteins followed by MS analysis and sequencing of UV crosslinked, co-immunoprecipitated RNA samples identified potential interaction partners of Ssr1238. The most enriched transcript was RNase P RNA, and RnpA, the protein component of RNase P, was among the most highly enriched proteins. A second highly enriched transcript is derived from gene ssl3177, which encodes a central enzyme in cell wall remodelling during cell division. The data also showed a strong connection to the RNA maturation and modification system indicated by co-precipitation of RNA modifying enzymes, riboendonuclease E and enolase. Surprisingly, cyanophycin synthetase and urease were highly enriched as well. In conclusion, Ssr1238 specifically binds to two different transcripts and could be involved in the coordination of RNA maturation, translation, cell division, and aspects of nitrogen metabolism. Our results are consistent with recent findings that the B. subtilis YlxR protein functions as an RNase P modulator (RnpM), extending its proposed role to the phylum cyanobacteria, and suggesting additional functionalities.","PeriodicalId":21351,"journal":{"name":"RNA Biology","volume":"21 1","pages":"1-19"},"PeriodicalIF":3.6,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11622646/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"142772117","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}

引用次数: 0

Small molecule inhibition of RNA binding proteins in haematologic cancer. 小分子抑制血液肿瘤中的 RNA 结合蛋白。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-02-08 DOI: 10.1080/15476286.2024.2303558

Amit K Jaiswal, Michelle L Thaxton, Georgia M Scherer, Jacob P Sorrentino, Neil K Garg, Dinesh S Rao

引用次数: 0

Assessment of different enrichment methods revealed the optimal approach to identify bovine circRnas. 对不同富集方法的评估揭示了识别牛 circRnas 的最佳方法。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-05-26 DOI: 10.1080/15476286.2024.2356334

Yixin Wang, Jian Wang, Robert J Gruninger, Tim A McAllister, Mingzhou Li, Le Luo Guan

{"title":"Assessment of different enrichment methods revealed the optimal approach to identify bovine circRnas.","authors":"Yixin Wang, Jian Wang, Robert J Gruninger, Tim A McAllister, Mingzhou Li, Le Luo Guan","doi":"10.1080/15476286.2024.2356334","DOIUrl":"10.1080/15476286.2024.2356334","url":null,"abstract":"Although circular RNAs (circRNAs) play important roles in regulating gene expression, the understanding of circRNAs in livestock animals is scarce due to the significant challenge to characterize them from a biological sample. In this study, we assessed the outcomes of bovine circRNA identification using six enrichment approaches with the combination of ribosomal RNAs removal (Ribo); linear RNAs degradation (R); linear RNAs and RNAs with structured 3' ends degradation (RTP); ribosomal RNAs coupled with linear RNAs elimination (Ribo-R); ribosomal RNA, linear RNAs and RNAs with poly (A) tailing elimination (Ribo-RP); and ribosomal RNA, linear RNAs and RNAs with structured 3' ends elimination (Ribo-RTP), respectively. RNA-sequencing analysis revealed that different approaches led to varied ratio of uniquely mapped reads, false-positive rate of identifying circRNAs, and the number of circRNAs per million clean reads (Padj <0.05). Out of 2,285 and 2,939 highly confident circRNAs identified in liver and rumen tissues, respectively, 308 and 260 were commonly identified from five methods, with Ribo-RTP method identified the highest number of circRNAs. Besides, 507 of 4,051 identified bovine highly confident circRNAs had shared splicing sites with human circRNAs. The findings from this work provide optimized methods to identify bovine circRNAs from cattle tissues for downstream research of their biological roles in cattle.","PeriodicalId":21351,"journal":{"name":"RNA Biology","volume":"21 1","pages":"1-13"},"PeriodicalIF":3.6,"publicationDate":"2024-01-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11135877/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"141155378","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}

引用次数: 0

The catalytic activity of methyltransferase METTL15 is dispensable for its role in mitochondrial ribosome biogenesis. 甲基转移酶 METTL15 在线粒体核糖体生物发生过程中的作用离不开其催化活性。

IF 3.6 3区生物学

RNA Biology Pub Date : 2024-01-01 Epub Date: 2024-06-24 DOI: 10.1080/15476286.2024.2369374

Christian D Mutti, Lindsey Van Haute, Michal Minczuk

引用次数: 0