Wiley Interdisciplinary Reviews: RNA最新文献_第10页

Mechanisms of RNA export and nuclear retention. RNA输出和核保留机制。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-05-01 DOI: 10.1002/wrna.1755

Misbah Khan, Shuai Hou, Mo Chen, Haixin Lei

引用次数: 7

Sex and the basal mRNA synthesis machinery. 性别与基础 mRNA 合成机制

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-05-01 Epub Date: 2022-10-04 DOI: 10.1002/wrna.1765

Diane E Garsetti, Khushboo Sahay, Yue Wang, Melissa B Rogers

{"title":"Sex and the basal mRNA synthesis machinery.","authors":"Diane E Garsetti, Khushboo Sahay, Yue Wang, Melissa B Rogers","doi":"10.1002/wrna.1765","DOIUrl":"10.1002/wrna.1765","url":null,"abstract":"Evolution and change generated an incredible diversity of organisms on this earth. Yet, some processes are so central to life that change is strongly selected against. Synthesis of the eukaryotic messenger RNA is one example. The assemblies that carry out transcription and processing (capping, polyadenylation, and splicing) are so conserved that most genes have recognizable orthologs in yeast and humans. Naturally, most would conclude transcription and processing are identical in both sexes. However, this is an assumption. Men and women vastly differ in their physiologies. The incidence of pathologies, symptom presentation, disease outcome, and therapeutic response in each sex vary enormously. Despite the harm ignorance causes women, biological research has been historically carried out without regard to sex. The male mouse was the default mammal. A cultured cell's sex was considered irrelevant. Attempts to fill this knowledge gap have revealed molecular dissimilarities. For example, the earliest embryonic male and female transcriptomes differ long before fetal sex hormones appear. We used public data to challenge the assumption of sameness by reviewing reports of sex-biased gene expression and gene targeting. We focused on 120 genes encoding nonregulatory proteins involved in mRNA synthesis. Remarkably, genes with recognizable orthologs in yeast and thus LEAST likely to differ, did differ between the sexes. The rapidly growing public databases can be used to compare the expression of any gene in male and female tissues. Appreciating the principles that drive sex differences will enrich our understanding of RNA biology in all humans-men and women. This article is categorized under: RNA in Disease and Development > RNA in Development RNA Evolution and Genomics > Computational Analyses of RNA.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10070566/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9679886","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"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

Alternative splicing: An efficient regulatory approach towards plant developmental plasticity. 选择性剪接:植物发育可塑性的有效调控途径。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-05-01 DOI: 10.1002/wrna.1758

Sajid Muhammad, Xiaoli Xu, Weijun Zhou, Liang Wu

{"title":"Alternative splicing: An efficient regulatory approach towards plant developmental plasticity.","authors":"Sajid Muhammad, Xiaoli Xu, Weijun Zhou, Liang Wu","doi":"10.1002/wrna.1758","DOIUrl":"https://doi.org/10.1002/wrna.1758","url":null,"abstract":"Alternative splicing (AS) is a gene regulatory mechanism that plants adapt to modulate gene expression (GE) in multiple ways. AS generates alternative isoforms of the same gene following various development and environmental stimuli, increasing transcriptome plasticity and proteome complexity. AS controls the expression levels of certain genes and regulates GE networks that shape plant adaptations through nonsense-mediated decay (NMD). This review intends to discuss AS modulation, from interaction with noncoding RNAs to the established roles of splicing factors (SFs) in response to endogenous and exogenous cues. We aim to gather such studies that highlight the magnitude and impact of AS, which are not always clear from individual articles, when AS is increasing in individual genes and at a global level. This work also anticipates making plant researchers know that AS is likely to occur in their investigations and that dynamic changes in AS and their effects must be frequently considered. We also review our understanding of AS-mediated posttranscriptional modulation of plant stress tolerance and discuss its potential application in crop improvement in the future. This article is categorized under: RNA Processing > Splicing Regulation/Alternative Splicing RNA Processing > Splicing Mechanisms RNA-Based Catalysis > RNA Catalysis in Splicing and Translation.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-05-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9670826","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Non-coding RNAs in diseases with a focus on osteoarthritis. 非编码rna在疾病中的作用，重点是骨关节炎。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-05-01 DOI: 10.1002/wrna.1756

Aneta Pekáčová, Jiří Baloun, Xiao Švec, Ladislav Šenolt

引用次数: 2

The latest role of nerve-specific splicing factor PTBP1 in the transdifferentiation of glial cells into neurons. 神经特异性剪接因子PTBP1在胶质细胞转分化为神经元中的最新作用。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-03-01 DOI: 10.1002/wrna.1740

Xing-Dong Chen, Hui-Lin Liu, Sen Li, Kai-Bin Hu, Qing-Yun Wu, Ping Liao, Hai-Yan Wang, Zai-Yun Long, Xiu-Min Lu, Yong-Tang Wang

{"title":"The latest role of nerve-specific splicing factor PTBP1 in the transdifferentiation of glial cells into neurons.","authors":"Xing-Dong Chen, Hui-Lin Liu, Sen Li, Kai-Bin Hu, Qing-Yun Wu, Ping Liao, Hai-Yan Wang, Zai-Yun Long, Xiu-Min Lu, Yong-Tang Wang","doi":"10.1002/wrna.1740","DOIUrl":"https://doi.org/10.1002/wrna.1740","url":null,"abstract":"Central nervous system injury diseases can cause the loss of many neurons, and it is difficult to regenerate. The field of regenerative medicine believes that supplementing the missing neurons may be an ideal method for nerve injury repair. Recent studies have found that down-regulation of polypyrimidine tract binding protein 1 (PTBP1) expression can make glial cells transdifferentiate into different types of neurons, which is expected to be an alternative therapy to restore neuronal function. This article summarized the research progress on the structure and biological function of the PTBP family, the mutual regulation of PTBP1 and PTBP2, their role in neurogenesis, and the latest research progress in targeting PTBP1 to mediate the transdifferentiation of glial cells into neurons, which may provide some new strategies and new ideas for the future treatment of central nervous system injury and neurodegenerative diseases. This article is categorized under: RNA Processing > Splicing Regulation/Alternative Splicing.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9324991","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 3

Targeting DEAD-box RNA helicases: The emergence of molecular staples. 靶向DEAD-box RNA解旋酶:分子钉的出现。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-03-01 DOI: 10.1002/wrna.1738

Sai Kiran Naineni, Francis Robert, Bhushan Nagar, Jerry Pelletier

引用次数: 6

Pervasive role of the long noncoding RNA DNM3OS in development and diseases. 长链非编码RNA DNM3OS在发育和疾病中的普遍作用。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-03-01 DOI: 10.1002/wrna.1736

Sandy Fellah, Romain Larrue, Marin Truchi, Georges Vassaux, Bernard Mari, Christelle Cauffiez, Nicolas Pottier

{"title":"Pervasive role of the long noncoding RNA DNM3OS in development and diseases.","authors":"Sandy Fellah, Romain Larrue, Marin Truchi, Georges Vassaux, Bernard Mari, Christelle Cauffiez, Nicolas Pottier","doi":"10.1002/wrna.1736","DOIUrl":"https://doi.org/10.1002/wrna.1736","url":null,"abstract":"Thousands of unique noncoding RNAs (ncRNAs) are expressed in human cells, some are tissue or cell type specific whereas others are considered as house-keeping molecules. Studies over the last decade have modified our perception of ncRNAs from transcriptional noise to functional regulatory transcripts that influence a variety of molecular processes such as chromatin remodeling, transcription, post-transcriptional modifications, or signal transduction. Consequently, aberrant expression of many ncRNAs plays a causative role in the initiation and progression of various diseases. Since the identification of its developmental role, the long ncRNA DNM3OS (Dynamin 3 Opposite Strand) has attracted attention of researchers in distinct fields including oncology, fibroproliferative diseases, or bone disorders. Mechanistic studies have in particular revealed the multifaceted nature of DNM3OS and its important pathogenic role in several human disorders. In this review, we summarize the current knowledge of DNM3OS functions in diseases, with an emphasis on its potential as a novel therapeutic target. This article is categorized under: RNA in Disease and Development > RNA in Disease RNA in Disease and Development > RNA in Development.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9380059","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 3

Post-transcriptional regulation of polycistronic microRNAs. 多顺反子microrna的转录后调控。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-03-01 DOI: 10.1002/wrna.1749

Monika Vilimova, Sébastien Pfeffer

{"title":"Post-transcriptional regulation of polycistronic microRNAs.","authors":"Monika Vilimova, Sébastien Pfeffer","doi":"10.1002/wrna.1749","DOIUrl":"https://doi.org/10.1002/wrna.1749","url":null,"abstract":"An important proportion of microRNA (miRNA) genes tend to lie close to each other within animal genomes. Such genomic organization is generally referred to as miRNA clusters. Even though many miRNA clusters have been greatly studied, most attention has been usually focused on functional impacts of clustered miRNA co-expression. However, there is also another compelling aspect about these miRNA clusters, their polycistronic nature. Being transcribed on a single RNA precursor, polycistronic miRNAs benefit from common transcriptional regulation allowing their coordinated expression. And yet, numerous reports have revealed striking discrepancies in the accumulation of mature miRNAs produced from the same cluster. Indeed, the larger polycistronic transcripts can act as platforms providing unforeseen post-transcriptional regulatory mechanisms controlling individual miRNA processing, thus leading to differential miRNA expression, and sometimes even challenging the general assumption that polycistronic miRNAs are co-expressed. In this review, we aim to address the current knowledge about how miRNA polycistrons are post-transcriptionally regulated. In particular, we will focus on the mechanisms occurring at the level of the primary transcript, which are highly relevant for individual miRNA processing and as such have a direct repercussion on miRNA function within the cell. This article is categorized under: RNA Processing > Processing of Small RNAs Regulatory RNAs/RNAi/Riboswitches > Biogenesis of Effector Small RNAs RNA Interactions with Proteins and Other Molecules > RNA-Protein Complexes.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9317234","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 5

Integrating transcription and splicing into cell fate: Transcription factors on the block. 整合转录和剪接到细胞命运:转录因子在块上。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-03-01 DOI: 10.1002/wrna.1752

Panagiotis Boumpas, Samir Merabet, Julie Carnesecchi

{"title":"Integrating transcription and splicing into cell fate: Transcription factors on the block.","authors":"Panagiotis Boumpas, Samir Merabet, Julie Carnesecchi","doi":"10.1002/wrna.1752","DOIUrl":"https://doi.org/10.1002/wrna.1752","url":null,"abstract":"Transcription factors (TFs) are present in all life forms and conserved across great evolutionary distances in eukaryotes. From yeast to complex multicellular organisms, they are pivotal players of cell fate decision by orchestrating gene expression at diverse molecular layers. Notably, TFs fine-tune gene expression by coordinating RNA fate at both the expression and splicing levels. They regulate alternative splicing, an essential mechanism for cell plasticity, allowing the production of many mRNA and protein isoforms in precise cell and tissue contexts. Despite this apparent role in splicing, how TFs integrate transcription and splicing to ultimately orchestrate diverse cell functions and cell fate decisions remains puzzling. We depict substantial studies in various model organisms underlining the key role of TFs in alternative splicing for promoting tissue-specific functions and cell fate. Furthermore, we emphasize recent advances describing the molecular link between the transcriptional and splicing activities of TFs. As TFs can bind both DNA and/or RNA to regulate transcription and splicing, we further discuss their flexibility and compatibility for DNA and RNA substrates. Finally, we propose several models integrating transcription and splicing activities of TFs in the coordination and diversification of cell and tissue identities. This article is categorized under: RNA Processing > Splicing Regulation/Alternative Splicing RNA Interactions with Proteins and Other Molecules > Protein-RNA Interactions: Functional Implications RNA Processing > Splicing Mechanisms.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9324340","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 6

Mammalian proteome expansion by stop codon readthrough. 通过停止密码子读出哺乳动物蛋白质组扩增。

IF 7.3 2区生物学

Wiley Interdisciplinary Reviews: RNA Pub Date : 2023-03-01 DOI: 10.1002/wrna.1739

Lekha E Manjunath, Anumeha Singh, Saubhik Som, Sandeep M Eswarappa

{"title":"Mammalian proteome expansion by stop codon readthrough.","authors":"Lekha E Manjunath, Anumeha Singh, Saubhik Som, Sandeep M Eswarappa","doi":"10.1002/wrna.1739","DOIUrl":"https://doi.org/10.1002/wrna.1739","url":null,"abstract":"Recognition of a stop codon by translation machinery as a sense codon results in translational readthrough instead of termination. This recoding process, termed stop codon readthrough (SCR) or translational readthrough, is found in all domains of life including mammals. The context of the stop codon, local mRNA topology, and molecules that interact with the mRNA region downstream of the stop codon determine SCR. The products of SCR can have localization, stability, and function different from those of the canonical isoforms. In this review, we discuss how recent technological and computational advances have increased our understanding of the SCR process in the mammalian system. Based on the known molecular events that occur during SCR of multiple mRNAs, we propose transient molecular roadblocks on an mRNA downstream of the stop codon as a possible mechanism for the induction of SCR. We argue, with examples, that the insights gained from the natural SCR events can guide us to develop novel strategies for the treatment of diseases caused by premature stop codons. This article is categorized under: Translation > Regulation.","PeriodicalId":23886,"journal":{"name":"Wiley Interdisciplinary Reviews: RNA","volume":null,"pages":null},"PeriodicalIF":7.3,"publicationDate":"2023-03-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"9380061","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":2,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

引用次数: 9