Download or read book Mobile Elements and Plant Genome Evolution Comparative Analyses and Computational Tools Volume II written by Ruslan Kalendar and published by Frontiers Media SA. This book was released on 2023-11-28 with total page 161 pages. Available in PDF, EPUB and Kindle. Book excerpt: This Research Topic is part of the Mobile Elements and Plant Genome Evolution, Comparative Analyses and Computational Tools series: Mobile Elements and Plant Genome Evolution, Comparative Analyses and Computational Tools Transposable elements are very common mobile genetic elements that are composed of several classes and make up the majority of eukaryotic genomes. The movement and accumulation of mobile genetic elements have been a major force in the formation of the genes and genomes of nearly all organisms. As dispersed and ubiquitous mobile elements, their life cycle of replicative transposition leads to genome rearrangements affecting cellular function. Transposable elements are important drivers of species diversity, and they exhibit great variety in structure, size, and mechanisms of transposition, making them important putative actors in genome evolution.
Download or read book Plant Transposable Elements written by Deepu Pandita and published by CRC Press. This book was released on 2023-06-30 with total page 376 pages. Available in PDF, EPUB and Kindle. Book excerpt: 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.
Download or read book Genome wide Transposon Analyses written by Elizabeth Marie Hénaff and published by . This book was released on 2013 with total page 167 pages. Available in PDF, EPUB and Kindle. Book excerpt: The diversity of life forms around us is astounding: a walk in the woods, or even down the street, shows us organisms of different morphologies: two legs, four legs, wings; different capacity of interaction with our environment: plants photosynthesizing while bacteria break down our garbage. How can life take on so many forms? While there is some increase of genes when comparing the most simple eukaryotes to the most complex ones it is clear that organism complexity is not the result of the number of genes. Therefore is has been postulated that the complexity of an organism arises from the complexity of its gene regulation, rather than the number of genes. This regulation must come then from the non-gene part of the genome. We now know that genes constitute but a small portion of genomes, (about 5% of the human genome). The advent of whole-genome sequencing has enabled us to get a more complete picture of what is in a genome, and with that has come the surprise that a significant part of all genomes characterized is constituted of transposable elements (TEs). Transposable elements are mobile genetic sequences, meaning that they have the capacity to change their position within the genome of a single cell. The goal of my dissertation has been to investigate the role of TEs in plants and their impact on gene and genome evolution. For this I have taken two approaches. The first is a study in the newly sequenced genome of Cucumis melo, an important crop plant in Spain. In the context of this project I have characterized the transposon landscape in the genome, and identified TE related polymorphisms between seven different varieties. This project has of interest the fact that this is an important plant for agriculture and domestication is a particularly relevant evolutionary context in which to study the impact of transposons, as the lines analyzed come from different geographic and selection backgrounds. In the context of this project I have developed a pipeline for genome annotation, and a software for detection of polymorphisms using next-generation paired-end sequencing data. This yielded insight into the dynamics of transposon evolution in this genome, and the selective forces that have shaped the transposon landscape. To our knowledge this is the first analysis that uses polymorphic TEs to investigate differential chromosomal distribution of recent and old transposons, and thus revealing at an intra-species scale the timeline of selection. The results obtained are promising for studying the contribution of mobile elements to the evolution of two genetically similar yet phenotypically different cultivated varieties. In order to study the impact of transposition on gene regulation, I investigated MITE families which have amplified a transciption factor binding site (TF BS) in the model plant Arabidopsis thaliana. This project focuses on the potential impact on gene regulation networks of the redistribution of this TFBS, a phenomenon that has been described for various master TF in animals but not yet to my knowledge in plants. This study combines in silico analysis with molecular data such as microarrays and ChIP, and is a striking example of one of the many manners in which TEs can impact gene regulation. The work in this dissertation highlights the contradictory nature of transposable elements: on one hand, they are invasive, and on the other, are the source of essential innovations. Here we provide insight as to the functions they play in plant genome evolution.
Download or read book Genomics in Plant Sciences Understanding and Development of Stress Tolerant Plants written by Yusuf Khan and published by Frontiers Media SA. This book was released on 2023-06-29 with total page 189 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book Mobile DNA III written by Michael Chandler and published by John Wiley & Sons. This book was released on 2020-07-24 with total page 1321 pages. Available in PDF, EPUB and Kindle. Book excerpt: An exploration of the raw power of genetic material to refashion itself to any purpose... Virtually all organisms contain multiple mobile DNAs that can move from place to place, and in some organisms, mobile DNA elements make up a significant portion of the genome. Mobile DNA III provides a comprehensive review of recent research, including findings suggesting the important role that mobile elements play in genome evolution and stability. Editor-in-Chief Nancy L. Craig assembled a team of multidisciplinary experts to develop this cutting-edge resource that covers the specific molecular mechanisms involved in recombination, including a detailed structural analysis of the enzymes responsible presents a detailed account of the many different recombination systems that can rearrange genomes examines the tremendous impact of mobile DNA in virtually all organisms Mobile DNA III is valuable as an in-depth supplemental reading for upper level life sciences students and as a reference for investigators exploring new biological systems. Biomedical researchers will find documentation of recent advances in understanding immune-antigen conflict between host and pathogen. It introduces biotechnicians to amazing tools for in vivo control of designer DNAs. It allows specialists to pick and choose advanced reviews of specific elements and to be drawn in by unexpected parallels and contrasts among the elements in diverse organisms. Mobile DNA III provides the most lucid reviews of these complex topics available anywhere.
Download or read book Plant Genome Diversity Volume 2 written by Johann Greilhuber and published by Springer Science & Business Media. This book was released on 2012-11-13 with total page 360 pages. Available in PDF, EPUB and Kindle. Book excerpt: This second of two volumes on Plant Genome Diversity provides, in 20 chapters, insights into the structural evolution of plant genomes with all its variations. Starting with an outline of plant phylogeny and its reconstruction, the second part of the volume describes the architecture and dynamics of the plant cell nucleus, the third examines the evolution and diversity of the karyotype in various lineages, including angiosperms, gymnosperms and monilophytes. The fourth part presents the mechanisms of polyploidization and its biological consequences and significance for land plant evolution. The fifth part deals with genome size evolution and its biological significance. Together with Volume I, this comprehensive book on the plant genome is intended for students and professionals in all fields of plant science, offering as it does a convenient entry into a burgeoning literature in a fast-moving field.
Download or read book Plant Transposons and Genome Dynamics in Evolution written by Nina V. Fedoroff and published by John Wiley & Sons. This book was released on 2013-04-15 with total page 240 pages. Available in PDF, EPUB and Kindle. Book excerpt: The transposable genetic elements, or transposons, as they are now known, have had a tumultuous history. Discovered in the mid-20th century by Barbara McClintock, they were initially received with puzzlement. When their genomic abundance began to be apparent, they were categorized as "junk DNA" and acquired the label of parasites. Expanding understanding of gene and genome organization has revealed the profound extent of their impact on both. Plant Transposons and Genome Dynamics in Evolution captures and distills the voluminous research literature on plant transposable elements and seeks to assemble the big picture of how transposons shape gene structure and regulation, as well as how they sculpt genomes in evolution. Individual chapters provide concise overviews of the many flavors of plant transposons and of their roles in gene creation, gene regulation, development, genome evolution, and organismal speciation, as well as of their epigenetic regulation. This volume is essential reading for anyone working in plant genetics, epigenetics, or evolutionary biology.
Download or read book Mobile Genetic Elements written by Yves Bigot and published by Humana Press. This book was released on 2016-08-23 with total page 308 pages. Available in PDF, EPUB and Kindle. Book excerpt: Transposable elements are used as genetic tools for dissecting the function of a specific gene and elaborating on mechanisms leading to genetic change and diversity, and the evolutionary impact of mobile DNA on the biology and evolution of organism. In, Mobile Genetic Elements: Protocols and Genomic Applications, Second Edition gathers a wide array of strategies and protocols for identifying transposable elements (TEs) and their evolutionary derivatives, and for studying genome structure, function, and evolution. Written in the highly successful Methods in Molecular BiologyTM series format, the chapters include the kind of detailed description and implementation advice that is crucial for getting optimal results in the laboratory. Through and intuitive Mobile Genetic Elements: Protocols and Genomic Applications, Second Edition aids scientists in the continuing study of in silico tools, strategies and protocols that are complementary of those described in the first volume.
Download or read book Plant Comparative Genomics written by Alejandro Pereira-Santana and published by Springer Nature. This book was released on 2022-07-11 with total page 293 pages. Available in PDF, EPUB and Kindle. Book excerpt: This detailed book presents recent methodologies for the task of inspecting the genomic world of plants, extracting valuable information, and presenting it in a readable way. With a focus on bioinformatics tools, the volume explores phylogenetics and evolution, Omics analysis, as well as experimental procedures for trait characterization. Written for the highly successful Methods in Molecular Biology series, chapters include the kind of vital expert implementation advice that will lead to successful results. Authoritative and practical, Plant Comparative Genomics serves as an ideal resource for researchers looking to implement comparative tools in order to explore their genomic data for their daily scientific work.
Download or read book Encyclopedia of Bioinformatics and Computational Biology written by and published by Elsevier. This book was released on 2018-08-21 with total page 3421 pages. Available in PDF, EPUB and Kindle. Book excerpt: Encyclopedia of Bioinformatics and Computational Biology: ABC of Bioinformatics, Three Volume Set combines elements of computer science, information technology, mathematics, statistics and biotechnology, providing the methodology and in silico solutions to mine biological data and processes. The book covers Theory, Topics and Applications, with a special focus on Integrative –omics and Systems Biology. The theoretical, methodological underpinnings of BCB, including phylogeny are covered, as are more current areas of focus, such as translational bioinformatics, cheminformatics, and environmental informatics. Finally, Applications provide guidance for commonly asked questions. This major reference work spans basic and cutting-edge methodologies authored by leaders in the field, providing an invaluable resource for students, scientists, professionals in research institutes, and a broad swath of researchers in biotechnology and the biomedical and pharmaceutical industries. Brings together information from computer science, information technology, mathematics, statistics and biotechnology Written and reviewed by leading experts in the field, providing a unique and authoritative resource Focuses on the main theoretical and methodological concepts before expanding on specific topics and applications Includes interactive images, multimedia tools and crosslinking to further resources and databases
Download or read book The Rye Genome written by M. Timothy Rabanus-Wallace and published by Springer Nature. This book was released on 2021-10-25 with total page 251 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book celebrates the dawn of the rye genomics era with concise, comprehensive, and accessible reviews on the current state of rye genomic research, written by experts in the field for students, researchers and growers. To most, rye is the key ingredient in a flavoursome bread or their favourite American whisky. To a farmer, rye is the remarkable grain that tolerates the harshest winters and the most unforgiving soils, befitting its legacy as the life-giving seed that fed the ancient civilisations of northern Eurasia. Since the mid-1900s, scientists have employed genetic approaches to better understand and utilize rye, but only since the technological advances of the mid-2010s has the possibility of addressing questions using rye genome assemblies become a reality. Alongside the secret of its unique survival abilities, rye genomics has accelerated research on a host of intriguing topics such as the complex history of rye’s domestication by humans, the nature of genes that switch fertility on and off, the function and origin of accessory chromosomes, and the evolution of selfish DNA.
Download or read book Plant Genomes written by Jean-Nicolas Volff and published by Karger Medical and Scientific Publishers. This book was released on 2008-01-01 with total page 155 pages. Available in PDF, EPUB and Kindle. Book excerpt: Recent major advances in the field of comparative genomics and cytogenomics of plants, particularly associated with the completion of ambitious genome projects, have uncovered astonishing facets of the architecture and evolutionary history of plant genomes. The aim of this book was to review these recent developments as well as their implications in our understanding of the mechanisms which drive plant diversity. New insights into the evolution of gene functions, gene families and genome size are presented, with particular emphasis on the evolutionary impact of polyploidization and transposable elements. Knowledge on the structure and evolution of plant sex chromosomes, centromeres and microRNAs is reviewed and updated. Taken together, the contributions by internationally recognized experts present a panoramic overview of the structural features and evolutionary dynamics of plant genomes.This volume of Genome Dynamics will provide researchers, teachers and students in the fields of biology and agronomy with a valuable source of current knowledge on plant genomes.
Download or read book Microbial Diversity in the Genomic Era written by Surajit Das and published by Elsevier. This book was released on 2024-03-23 with total page 840 pages. Available in PDF, EPUB and Kindle. Book excerpt: Microbial Diversity in the Genomic Era, Second Edition presents techniques used for microbial taxonomy and phylogeny, along with their applications and respective strengths and challenges. Though many advanced techniques for the identification of unknown bacterium are available in the genomic era, a far fewer number of the total microbial species have been discovered and identified to date. With that in mind, this book incorporates recently developed biosystematics methods and approaches to assess microbial taxonomy, with suitable recommendations for where to apply them across the range of bacterial identification and infectious disease research. Here, international researchers in the field first provide a broad overview of microbial genomics research and microbiome directed medicine, followed by sections on molecular tools for microbial diversity research, extremophilic microbial diversity, functional microbial diversity across application areas, microbial diversity and infectious disease research, and future directions for research. Step-by-step methodologies are provided for key techniques, along with applied case studies breaking down recent research studies into the practical components, illuminating pathways for new studies across the field. This new edition has been fully updated to address advances in the field of microbiome directed medicine, and whole genome sequencing for studying microbial diversity, considering both recent technological advances and new applications areas, from extremophile studies to the latest approaches in human microbiome analysis. Instructs in techniques used for microbial taxonomy and phylogeny, with discussions of their applications and respective pros and cons Reviews the evolving field of microbial typing and the genomic technologies that enable comparative metagenomic analysis of complex microbial environments Covers microbiome directed translational research, as well as whole genome sequencing for studying microbial diversity, with newly added research protocols and case studies Reviews future applications in the field of microbiome directed medicine Features chapter contributions from global experts in the field
Download or read book Index Medicus written by and published by . This book was released on 2004 with total page 1876 pages. Available in PDF, EPUB and Kindle. Book excerpt: Vols. for 1963- include as pt. 2 of the Jan. issue: Medical subject headings.
Download or read book Cytogenomics Structural Organization and Evolution of Genomes written by Ricardo Utsunomia and published by Frontiers Media SA. This book was released on 2022-07-04 with total page 157 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Download or read book The Maize Genome written by Jeffrey Bennetzen and published by Springer. This book was released on 2018-11-24 with total page 390 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book discusses advances in our understanding of the structure and function of the maize genome since publication of the original B73 reference genome in 2009, and the progress in translating this knowledge into basic biology and trait improvement. Maize is an extremely important crop, providing a large proportion of the world’s human caloric intake and animal feed, and serving as a model species for basic and applied research. The exceptionally high level of genetic diversity within maize presents opportunities and challenges in all aspects of maize genetics, from sequencing and genotyping to linking genotypes to phenotypes. Topics covered in this timely book range from (i) genome sequencing and genotyping techniques, (ii) genome features such as centromeres and epigenetic regulation, (iii) tools and resources available for trait genomics, to (iv) applications of allele mining and genomics-assisted breeding. This book is a valuable resource for researchers and students interested in maize genetics and genomics.
Download or read book Cumulated Index Medicus written by and published by . This book was released on 1998 with total page 1984 pages. Available in PDF, EPUB and Kindle. Book excerpt:
