Transposable Elements And Rna
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Transposable Elements And Rna
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Author : Aurelie Hua-Van
language : en
Publisher: Elsevier
Release Date : 2018-07-01
Transposable Elements And Rna written by Aurelie Hua-Van and has been published by Elsevier this book supported file pdf, txt, epub, kindle and other format this book has been release on 2018-07-01 with Medical categories.
Transposable Elements and RNA provides the latest on the main families of transposable elements, their relationship with viruses, and the regulation of their activity. When the TE world meets the RNA realm, there is a necessity to reduce TE and virus activity. The discovery of such regulations associated with the impact of epigenetic phenomena in evolution and gene regulation evolution allows us to obtain a better idea of transposable element dynamics and evolution. Presents detailed information on the transposable elements (transposons and retroelements) Includes sections on transposable elements and viruses, epigenetics regulation, small RNA and reverse transcriptase
Evolution And Impact Of Transposable Elements
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Author : Pierre Capy
language : en
Publisher: Springer Science & Business Media
Release Date : 2012-12-06
Evolution And Impact Of Transposable Elements written by Pierre Capy and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012-12-06 with Science categories.
During the last 50 years, the perception oftransposable elements (TEs) has changed considerably from selfish DNA to sequences that may contribute significantly to genome function and evolution. The recent increased interest in TEs is based on the realization that they are a major genetic component (at least 10--20%) of all organisms and a major contributor to the mutation process. It is currently estimated that 70--80% of spontaneous mutations are the result of TE-mediated insertions, deletions, or chromosomal rearrangements. Thus, it seems at least plausible that TEs may playa significant role in the adaptation and evolution of natural populations and species. The ubiquity of TEs suggests that they are an old component of genomes which have been vertically transmitted through generations over evolutionary time. However, detailed analyses carried out over the last 20 years have revealed several unusual features of TE evolution: (i) TEs can be horizontally transferred between species; (ii) TE evolutionary rates can be dramatically increased by specific inactivation processes, such as the RIP (Repeat Induced Point mutation) mechanism in fungi; (iii) TEs can influence the regulation of other TEs by insertion or deletion; (iv) different classes of TEs in even distantly related species can be remarkably similar in both structure and function.
Interactions Between Rna Binding Proteins And Transposable Elements And Their Functional Implication In Post Transcriptional Regulation
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Author : Chengyang Wang
language : en
Publisher:
Release Date : 2022
Interactions Between Rna Binding Proteins And Transposable Elements And Their Functional Implication In Post Transcriptional Regulation written by Chengyang Wang and has been published by this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022 with categories.
Gene-embedded transposable elements (TE) significantly influence RNA processing. A variety of RNA-binding proteins (RBPs) exert post-transcriptional regulation via TE binding. Transcriptome-wide identification of RBP binding sites can be accomplished by UV crosslinking and immunoprecipitation, followed by sequencing (CLIP-seq). However, the technical demands of CLIP and the repetitive nature of TEs present challenges to the large-scale investigation of the interplay between RBPs and TEs. Addressing these challenges requires the development of specialized computational approaches. In the first part of the dissertation, we present a dedicated RBP-centric computational framework for the systematic study of RBP-TE interactions. In this framework, we use both multi-mapped reads and uniquely mapped reads to recover RBP binding sites on transposable element. By applying this framework to a unified resource of 223 eCLIP-seq datasets from ENCODE, we observed extensive binding of a wide range of RNA-binding proteins to three major TE families: L1, L2 and Alu. For most RBPs, their motif frequencies in TE families with which they interact are higher than the average frequency of the motif over all TE families. Furthermore, we investigate the functional effects of RBP-TE interaction on TE exonization, a process of incorporation of intronic TEs into mature RNAs. This process usually have undesirable consequences, so mechanisms exist for repressing it. (e.g., MATR3 for repressing exonization of antisense L1 elements and HNRNPC for repressing exonization of antisense Alu elements). We identified two novel repressors for TE exonization: HNRNPM for antisense L1 and XRCC6(Ku70) for antisense Alu. XRCC6(Ku70) is previously known as a DNA-binding protein engaged in the DNA repair pathway. We found the selective repression of a set of antisense Alu exons by XRCC6(Ku70) and the strengthened XRCC6 binding in the close vicinity of 3' splice sites of these exons. More intriguingly, our analysis showed that XRCC6 can provide additional repressiveness for Alu exons which have a relatively short continuous U-tract in the proximal upstream of 3'SS, on which the effects of the global Alu repressor HNRNPC are compromised. In the second chapter, we further disclose the functional implication of RBP-TE interactions on other post-transcriptional events, including RNA editing and RNA stability. By integrating RBP binding with differential RNA editing, we found that ILF3 can suppress RNA editing at sites in inverted repeat Alu elements. Besides, we showed that UPF1, the core factor of the pathway of nonsense-mediated mRNA decay, can enable RNA decay by binding to Alu elements on 3'UTR. Taken together, our analysis improves our understanding of RBP-TE interplay and further illustrates functional implications of these interactions in post-transcriptional regulation.
Transposable Elements In Plants
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Author : Andrew Kalinski
language : en
Publisher: DIANE Publishing
Release Date : 1995-07
Transposable Elements In Plants written by Andrew Kalinski and has been published by DIANE Publishing this book supported file pdf, txt, epub, kindle and other format this book has been release on 1995-07 with Plant molecular genetics categories.
The following terms were used in this search: plant/s, transposable element/s, and mobile element/s. Includes the following information for the sponsored projects: title, investigators, performing organization, location of performing organization, objectives, and approach. The bibliography includes 129 citations from 1984 through 1991, and 162 citations 1992 through Sep. 1994. Some citations have abstracts.
Transposable Elements
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Author : Miguel R. Branco
language : en
Publisher: Springer Nature
Release Date : 2022-11-30
Transposable Elements written by Miguel R. Branco and has been published by Springer Nature this book supported file pdf, txt, epub, kindle and other format this book has been release on 2022-11-30 with Science categories.
The volume presents a small selection of state-of-the-art approaches for studying transposable elements(TE). Chapters guide readers through HTS-based approaches, bioinformatic tools, methods to studyTE protein complexes, and the functional impact on the host. Written in the 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 protocols, and notes on troubleshooting and avoiding known pitfalls. Authoritative and cutting-edge, Transposable Elements: Methods and Protocols aims to be a useful practical guide to researches to help further their study in this field.
Transposable Elements And Genome Evolution
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Author : J. F. McDonald
language : en
Publisher: Springer Science & Business Media
Release Date : 2012-12-06
Transposable Elements And Genome Evolution written by J. F. McDonald and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012-12-06 with Science categories.
Once considered merely `selfish' or `parasitic' DNA, transposable elements are today recognized as being of major biological significance. Not only are these elements a major source of mutation, they have contributed both directly and indirectly to the evolution of genome structure and function. On October 8-10, 1999, 100 molecular biologists and evolutionists representing 11 countries met on the campus of The University of Georgia in Athens for the inaugural Georgia Genetics Symposium. The topics of presentations ranged from how the elements themselves have evolved to the impact transposable elements have had on the evolution of their host genomes. The papers in this volume therefore represent state-of-the-art thinking, by leading world experts in the field, on the evolutionary significance of transposable elements.
Plant Transposable Elements
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Author : Deepu Pandita
language : en
Publisher: CRC Press
Release Date : 2023-06-30
Plant Transposable Elements written by Deepu Pandita and has been published by CRC Press this book supported file pdf, txt, epub, kindle and other format this book has been release on 2023-06-30 with Science categories.
This new volume provides an up-to-date understanding of the numerous classes of plant transposable elements, the mobile units of DNA that comprise large portions of plant genomes, which are an important contributor for gene and genome evolution. Transposable elements (TEs) are major components of large plant genomes and main drivers of genome evolution, known to produce a wide variety of changes in plant gene expression and function. Providing a systematic interpretation of protocols designed to characterize TEs and their biotechnological roles, the volume explores TEs in plant development, their architecture, their epigenetic regulation, their use in DNA repair, their evolution and speciation, while also highlighting their importance in the approaching epoch of climate change. The volume begins with introduction of transposable elements, covering their classification and transposition. It delves into protocols designed to characterize TEs and their biotechnological applications. The book includes computational approaches for prediction and analysis, retro-transposon capture sequencing, and more. The section on transposon biology focuses on its role in plant development and as natural genetic engineers of genome mutation, evolution, and speciation. The book looks further into transposon applications in genome editing, exploring tagging and mutagenesis, genome engineering, and more.
Plant Transposable Elements
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Author : Marie-Angèle Grandbastien
language : en
Publisher: Springer Science & Business Media
Release Date : 2013-01-08
Plant Transposable Elements written by Marie-Angèle Grandbastien and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2013-01-08 with Science categories.
Transposable elements are short lengths of DNA with the capacity to move between different points within a genome. This process can affect the function of genes at or near the insertion site. The present book gives an overview of the impact of transposable elements on plant genomes and explains how to recognize and study transposable elements, e.g. by using state-of-the-art strategies like “new generation sequencing.” Moreover, the impact of transposable elements on plant genome structure and function is reviewed in detail, and also illustrated in examples and case studies. The book is intended both for readers familiar with the field and for newcomers. With large-scale sequencing becoming increasingly available, more and more people will come across transposable element sequences in their data, and this volume will hopefully help to convince them that they are not just “junk DNA.”
Transposons And The Dynamic Genome
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Author : Dirk-Henner Lankenau
language : en
Publisher: Springer Science & Business Media
Release Date : 2009-06-30
Transposons And The Dynamic Genome written by Dirk-Henner Lankenau and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2009-06-30 with Science categories.
This volume gives an overview on mobile DNA and how such contradiction to the obligatory stability of genomes can be understood. Obviously, an understanding can only be achieved by cutting deeply into the evolutionary history of life.
Transposable Elements And Evolution
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Author : J. F. McDonald
language : en
Publisher: Springer Science & Business Media
Release Date : 2012-12-06
Transposable Elements And Evolution written by J. F. McDonald and has been published by Springer Science & Business Media this book supported file pdf, txt, epub, kindle and other format this book has been release on 2012-12-06 with Medical categories.
In the summer of 1992 a distinguished group of molecular, population and evolutionary geneticists assembled on the campus of the University of Georgia in Athens, USA to discuss the relevance of their research to the role played by transposable elements (TEs) in evolution. The meeting consisted of a series of informal discussions of issues brought up in papers written by the participants and distributed among them prior to the meeting. These papers and the transcripts of the ensuing discussions are presented in this volume.
