Download or read book The Eukaryotic RNA Exosome written by John LaCava and published by Springer Nature. This book was released on 2019-11-25 with total page 514 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides a cross-section of RNA exosome research protocols, applied to a diversity of model organisms. Chapters guide readers through methods that e.g. delineate eukaryotic exosomes’ origins in prokaryotes, probe its RNA substrates, adapter complexes and macromolecular interaction of networks, and establish critical structural-function relationships. Written in the highly successful Methods in Molecular Biology series format, chapters include introductions to their respective topics, lists of the necessary materials and reagents, step-by-step, readily reproducible laboratory protocols, and tips on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, The Eukaryotic RNA Exosome: Methods and Protocols aims to ensure successful results in the further study of this vital field.
Download or read book RNA Exosome written by Torben Heick Jensen and published by Springer Science & Business Media. This book was released on 2011-06-29 with total page 161 pages. Available in PDF, EPUB and Kindle. Book excerpt: The diversity of RNAs inside living cells is amazing. We have known of the more “classic” RNA species: mRNA, tRNA, rRNA, snRNA and snoRNA for some time now, but in a steady stream new types of molecules are being described as it is becoming clear that most of the genomic information of cells ends up in RNA. To deal with the enormous load of resulting RNA processing and degradation reactions, cells need adequate and efficient molecular machines. The RNA exosome is arising as a major facilitator to this effect. Structural and functional data gathered over the last decade have illustrated the biochemical importance of this multimeric complex and its many co-factors, revealing its enormous regulatory power. By gathering some of the most prominent researchers in the exosome field, it is the aim of this volume to introduce this fascinating protein complex as well as to give a timely and rich account of its many functions. The exosome was discovered more than a decade ago by Phil Mitchell and David Tollervey by its ability to trim the 3’end of yeast, S. cerevisiae, 5. 8S rRNA. In a historic account they laid out the events surrounding this identification and the subsequent birth of the research field. In the chapter by Kurt Januszyk and Christopher Lima the structural organization of eukaryotic exosomes and their evolutionary counterparts in bacteria and archaea are discussed in large part through presentation of structures.
Download or read book Structure and Biochemistry of the Eukaryotic RNA Exosome written by Jaclyn Caye Greimann and published by . This book was released on 2009 with total page 210 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Biochemical Studies of the Eukaryotic RNA Exosome written by Matthew Alan Bratkowski and published by . This book was released on 2012 with total page 209 pages. Available in PDF, EPUB and Kindle. Book excerpt: The RNA exosome is a multi-subunit protein complex involved in RNA maturation, surveillance, and turnover of cellular RNA. It is composed of a nine subunit core that contains an RNA binding central channel and associates with the additional subunit Rrp44. Rrp44 contains a 3' to 5' processive exoribonuclease activity and an endoribonuclease activity in its N-terminal PIN domain. The exosome is present in both the nucleus and cytoplasm. In the nucleus, the exosome associates with a second nuclease, Rrp6, which is a distributive 3' to 5' exoribonuclease. Although a wealth of studies have helped to characterize the exosome, it is still not entirely clear how the exosome core functions in concert with these two nucleases to degrade RNA. In this dissertation, I present structural and biochemical studies of both the Rrp44 and Rrp6 bound exosome. In particular, I have attempted to crystallize a sub-complex of Rrp44 bound to the exosome, and present data that suggest that structured RNA can access Rrp44 without being first channeled through the exosome. Despite this conclusion, the exosome core still appears to down-regulate both the exonuclease and endonuclease activities of Rrp44, possibly by causing the protein to assume a conformation that prohibits it from promiscuous RNA degradation. Work on the Rrp6 containing exosme was conducted in attempts of obtaining an EM reconstruction of this complex. Crystallization of an RNA and Rrp6 binding exosome associated iii protein, Rrp47, was also attempted alone and in complex with Rrp6. Overall, the results that I present here will help to further characterize the function of the exosome in RNA mediated degradation. iv.
Download or read book Eukaryotic RNases and Their Partners in RNA Degradation and Biogenesis written by Guillaume F. Chanfreau and published by Academic Press. This book was released on 2012 with total page 295 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book The Phosphorolytic Activity of the Exosome Core Complex Contributes to RRNA Maturation in Arabidopsis Thaliana written by Natalia Sikorska and published by . This book was released on 2016 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: The eukaryotic RNA exosome complex is the main 3'-5' degradation machinery that plays an essential role in RNA decay, quality control and maturation. The exosome core complex (EXO9) is catalytically inert in yeast and humans, and therefore relies on the catalytic activity of associated RNases, Rrp6 and Rrp44. In this study I demonstrated that EXO9 is catalytically active in Arabidopsis. EXO9's activity is phosphate-dependent, releases nucleoside diphosphates and is reversible, meeting all criteria of a phosphorolytic activity. Importantly, EXO9's in vivo substrates include the archetypical exosome substrates, rRNA maturation by-products and 5.8S rRNA precursors. My data show that AtRRP44, EXO9 and AtRRP6L2 sequentially cooperate for the processing of 5.8S rRNA. This work sets a basis for studies aiming at further understanding the biological functions of EXO9's phosphorolytic activity in a eukaryotic organism.
Download or read book Eukaryotic RNases and their Partners in RNA Degradation and Biogenesis written by and published by Academic Press. This book was released on 2012-11-27 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This special volume of The Enzymes is targeted towards researchers in biochemistry, molecular and cell biology, pharmacology, and cancer. This thematic volume discusses Eukaryotic RNases and their partners in RNA degradation and biogenesis.
Download or read book RNA Metabolism and Gene Expression in Archaea written by Béatrice Clouet-d'Orval and published by Springer. This book was released on 2017-10-28 with total page 276 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book focuses on the regulation of transcription and translation in Archaea and arising insights into the evolution of RNA processing pathways. From synthesis to degradation and the implications of gene expression, it presents the current state of knowledge on archaeal RNA biology in 13 chapters. Topics covered include the modification and maturation of RNAs, the function of small non-coding RNAs and the CRISPR-Cas defense system. While Archaea have long been considered exotic microbial extremophiles, they are now increasingly being recognized as important model microorganisms for the study of molecular mechanisms conserved across the three domains of life, and with regard to the relevance of similarities and differences to eukaryotes and bacteria. This unique book offers a valuable resource for all readers interested in the regulation of gene expression in Archaea and RNA metabolism in general.
Download or read book Fungal Extracellular Vesicles written by Marcio Rodrigues and published by Springer Nature. This book was released on 2022-01-01 with total page 193 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book provides an in-depth overview on the manifold functions of fungal extracellular vesicles (EV) which span from cell-to-cell communication, pathogenicity and stimulation of host’s immunity to export of hundreds of biomolecules. The book summarizes the present knowledge on the impact of extracellular vesicles on fungal biology. Extracellular vesicles participate in fundamental biological processes in all living cells but only during the last 15 years the production and functions of EVs were identified and studied in fungal species too. Up to date more than 50 independent studies have shown that extracellular vesicles are produced by at least 20 fungal species. The book addresses researchers and advanced students in Microbiology, Mycology and Biotechnology.
Download or read book Mesenchymal Stem Cell Derived Exosomes written by Yaoliang Tang and published by Academic Press. This book was released on 2015-09-02 with total page 287 pages. Available in PDF, EPUB and Kindle. Book excerpt: Mesenchymal stem cell-derived exosomes are at the forefront of research in two of the most high profile and funded scientific areas – cardiovascular research and stem cells. Mesenchymal Stem Cell Derived Exosomes provides insight into the biofunction and molecular mechanisms, practical tools for research, and a look toward the clinical applications of this exciting phenomenon which is emerging as an effective diagnostic. Primarily focused on the cardiovascular applications where there have been the greatest advancements toward the clinic, this is the first compendium for clinical and biomedical researchers who are interested in integrating MSC-derived exosomes as a diagnostic and therapeutic tool. Introduces the MSC-exosome mediated cell-cell communication Covers the major functional benefits in current MSC-derived exosome studies Discusses strategies for the use of MSC-derived exosomes in cardiovascular therapies
Download or read book Untranslated Gene Regions and Other Non coding Elements written by Lucy W. Barrett and published by Springer Science & Business Media. This book was released on 2013-06-26 with total page 63 pages. Available in PDF, EPUB and Kindle. Book excerpt: There is now compelling evidence that the complexity of higher organisms correlates with the relative amount of non-coding RNA rather than the number of protein-coding genes. Previously dismissed as “junk DNA”, it is the non-coding regions of the genome that are responsible for regulation, facilitating complex temporal and spatial gene expression through the combinatorial effect of numerous mechanisms and interactions working together to fine-tune gene expression. The major regions involved in regulation of a particular gene are the 5’ and 3’ untranslated regions and introns. In addition, pervasive transcription of complex genomes produces a variety of non-coding transcripts that interact with these regions and contribute to regulation. This book discusses recent insights into the regulatory roles of the untranslated gene regions and non-coding RNAs in the control of complex gene expression, as well as the implications of this in terms of organism complexity and evolution.
Download or read book Evolution of Exosome Co factors for Selective Pre ribosomal RNA Processing in Eukaryotes written by Agnese Pisano and published by . This book was released on 2023 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Exosomes written by Larry Edelstein and published by Academic Press. This book was released on 2019-10-16 with total page 548 pages. Available in PDF, EPUB and Kindle. Book excerpt: Exosomes: A Clinical Compendium is a comprehensive and authoritative account of exosomes in the context of biomarkers, diagnostics, and therapeutics across a wide spectrum of medical disciplines, as well as their role in cell-cell communication. It is intended to serve as a reference source for clinicians, physicians, and research scientists who wish to gain insight into the most recent advances in this rapidly growing field. The exosome revolution may well be the greatest advance in physiology and medicine since antibiotics. The discovery of their epigenetic role in intercellular signaling in virtually all tissues is a major breakthrough in our understanding of how cells function. Provides readers with a broad and timely overview of exosomes in health and disease, closing with a thought-provoking chapter on transgenerational inheritance, Darwin and Lamarck. Summarizes the most recent laboratory and clinical findings on exosomes across numerous medical disciplines, thereby offering readers a broad-ranging and solid foundation for prospective investigative efforts Twenty-one chapters authored by a global team of peer-acknowledged experts, each representing a key medical disciplineProvides readers with a broad and timely overview of exosomes in health and disease, closing
Download or read book The Biology of mRNA Structure and Function written by Marlene Oeffinger and published by Springer Nature. This book was released on 2019-12-06 with total page 318 pages. Available in PDF, EPUB and Kindle. Book excerpt: The book provides an overview on the different aspects of gene regulation from an mRNA centric viewpoint, including how mRNA is assembled and self-assembles in a complex consisting of RNA and proteins, and how its ability to be translated at the right time and space depends on many processes acting on the mRNAs, leading to a properly folded complex. This book shows how new technologies have led to a better understanding of these processes and their connected diseases.The book is written for scientists in fundamental and applied biomedical research working on different aspects of gene regulation. It is also targeted to an audience that is not implicated in these fields directly, but wants to gain a better understanding of mRNA biology.
Download or read book RNA Control and Regulation written by David Johnston Steward and published by . This book was released on 2019 with total page 310 pages. Available in PDF, EPUB and Kindle. Book excerpt: Dorcas Cummings Lecture:Dorcas Cummings Lecture.
Download or read book Structural and Biochemical Characterisation of the Yeast Exosome Component Rrp40 written by Anna Oddone and published by . This book was released on 2007 with total page 131 pages. Available in PDF, EPUB and Kindle. Book excerpt: In eukaryotes, mRNA turnover, RNA quality control and 3'-end processing of several RNAs require the exosome, a multi-subunit protein complex that is conserved from yeast to human, and of which some archaeal counterparts have recently been described. The exosome core consists of six proteins homologous to bacterial RNase PH nucleases and of three S1-domain containing subunits, predicted to be involved in RNA substrate binding. Although the functional characterisation had considerably progressed since exosome first description, no structural information was available for the complex or its subunits, at the onset of this thesis. This thesis presents the first structure of a component of the eukaryotic exosome core, Rrp40 from Saccharomyces cerevisiae. The crystal structure of the N-terminal deletion construct of Rrp40 reveals that an S1 and an unusual KH domain are tightly packed against each other. The interface between the S1 and the KH domain is stabilised by a GxNG sequence, which is uniquely conserved in exosome KH domains. NMR data reveal the presence of a manganese-binding site at the interface of the two domains. Isothermal titration calorimetry shows that yeast Rrp40 and its archaeal counterpart Rrp4 have alone very low affinity for RNA, despite the fact that both S1 and KH domains are known nucleic acid-binding modules. The affinity of an archaeal core exosome for RNA, however, is significantly increased in the presence of Rrp4, indicating that multiple subunits may contribute to cooperative binding of RNA substrates by the exosome.
Download or read book The Human Exosome and PNPase written by Reinout Raijmakers and published by . This book was released on 2004 with total page 119 pages. Available in PDF, EPUB and Kindle. Book excerpt:
