Download or read book Annual Plant Reviews Plant Nuclear Structure Genome Architecture and Gene Regulation written by David Evans and published by John Wiley & Sons. This book was released on 2013-03-27 with total page 346 pages. Available in PDF, EPUB and Kindle. Book excerpt: This timely volume brings together expert reviews of the recent significant advances in our knowledge and understanding of the organisation of the higher plant nucleus, and in particular in the relationship between nuclear organisation and the regulation of gene expression. Rapid progress has been made in a number of key areas over the last five years, including description and characterization of proteins of the nuclear envelope and nuclear pore complex, novel insights into nucleoskeletal structures, as well as developments related to chromatin organization, function and gene expression. These advances open the way for new research into areas such as stress tolerance, plant-pathogen interactions and ultimately crop improvement and food security. Continued research into plant nuclear structure, genome architecture and gene regulation also enriches our understanding of the origin and evolution of the nucleus and its envelope. Edited by world-class researchers in plant cell biology, and comprising contributions from internationally-renowned academics, this latest volume in the prestigious Annual Plant Reviews series brings together a wealth of knowledge in the burgeoning field of plant nuclear structure and genetics. Annual Plant Reviews, Volume 46: Plant Nuclear Structure, Genome Architecture and Gene Regulation is a vital resource for advanced students, researchers and professionals in plant science and related disciplines. Libraries in all research establishments where plant science, biochemistry, molecular biology, genetics and genomics and agricultural science are taught and studied will find this excellent volume an essential addition to their shelf.

Download or read book Plant Nuclear Structure Genome Architecture and Gene Regulation written by David E. Evans and published by . This book was released on 2013 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Nuclear Structure and Gene Expression written by R. Curtis Bird and published by Morgan Kaufmann. This book was released on 1997 with total page 328 pages. Available in PDF, EPUB and Kindle. Book excerpt: Introduction. S. Penman, B.J. Blencowe, and J.A. Nickerson, The Nuclear Matrix: Past and Present. Nuclear Matrix Structure and Function: R. Berezney, The Nuclear Matrix: Mapping Genomic Organization and Function in the Cell Nucleus. K.A. Mattern, R. van Driel, and L. de Jong, Composition and Structure of the Internal Nuclear Matrix. T. Kohwi-Shigematsu and Y. Kohwi, High Unwinding Capability of Matrix Attachment Regions and ATC-Sequence Context-Specific MAR-Binding Proteins. R.C. Bird, The Cyclin/Cyclin-Dependent Kinase Complex: Regulation of Cell Cycle Progression and Nuclear Disassembly. Chromatin Structure and Transcritpion Complexes: G.S. Stein, A.J. van Wijnen, J. Stein, J.B. Lian, and M. Montecino, Nuclear Architecture in Developmental Transcriptional Control of Cell Growth and Tissue-Specific Genes. D.G. Wansink, L. de Jong, and R. van Driel, Transcription by RNA Polymerase II and Nuclear Architecture. Nuclear mRNP Complexes: S.A. Amero and K.C. Sorensen, Protein Disposition on ...

Download or read book Nuclear Functions in Plant Transcription Signaling and Development written by Olga Pontes and published by Springer. This book was released on 2015-06-03 with total page 187 pages. Available in PDF, EPUB and Kindle. Book excerpt: The genome is more than a linear code as depicted by its DNA sequences as several interacting factors play a crucial role in shaping its organization and function. The complete sequences of a number of plant genomes and the recent advances of high-throughput technologies has fueled research efforts in the field of Plant Nuclear Biology unveiling numerous insights about the mechanisms underlying genome regulation. Genomic information is being integrated into molecular- and cellular-level mechanisms of the plant processes. A host of nuclear processes underlie key developmental processes as well as biotic and abiotic interactions. Non-coding RNAs have been increasingly recognized as players in gene expression and genome defense and integrity. However, in vivo, genomes exist as elaborate physical structures, and their functional properties are strongly determined by their cellular organization. Various types of subcellular structure have been identified in the nucleus, which are associated with transcription factors, RNA processing proteins and epigenetic regulators. Interestingly, these nuclear bodies display different behaviors in response to the environment. This book compiles a series of landmark discussions of the recent advances in plant nuclear biology research focusing in the functional relevance of the arrangement of genomes and nuclear processes that impact plant physiology and development.

Download or read book Structure and Function of Plant Genomes written by Orio Ciferri and published by Springer. This book was released on 1983-10 with total page 522 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume contains the presentations of the principal speakers at the NATO Advanced Study Institute held at Porto Portese, Italy,23 August - 2 September, 1982. This meeting was the third in a series devoted to the molecular biology of plants. The initial meeting was held in Strasbourg, France in 1976 (J. Weil and L. Bogorad, organizers), and the second in Edinburgh, Scotland in 1979 (C. Leaver, organizer). As in these previous meetings, we have attempted to cover the major topics of plant molecular biology so as to promote the integration of information emerging at an accelerating rate from the various sub-disciplines of the field. In addition, we have introduced several topics, unique to higher plants, that have not yet been approached with the tools of molec ular biology, but that should present new and important aspects of plants amenable to study in terms of DNA -+ RNA -+ Protein. This meeting also served to inaugerate the new International Society for Plant Molecular Biology. The need for this society is, like the NATO meetings themselves, an indication of the growth, vitalitv and momentum of this field of research.

Download or read book Plant Genes Genomes and Genetics written by Erich Grotewold and published by John Wiley & Sons. This book was released on 2015-06-02 with total page 261 pages. Available in PDF, EPUB and Kindle. Book excerpt: Plant Genes, Genomes and Genetics provides a comprehensive treatment of all aspects of plant gene expression. Unique in explaining the subject from a plant perspective, it highlights the importance of key processes, many first discovered in plants, that impact how plants develop and interact with the environment. This text covers topics ranging from plant genome structure and the key control points in how genes are expressed, to the mechanisms by which proteins are generated and how their activities are controlled and altered by posttranslational modifications. Written by a highly respected team of specialists in plant biology with extensive experience in teaching at undergraduate and graduate level, this textbook will be invaluable for students and instructors alike. Plant Genes, Genomes and Genetics also includes: specific examples that highlight when and how plants operate differently from other organisms special sections that provide in-depth discussions of particular issues end-of-chapter problems to help students recapitulate the main concepts rich, full-colour illustrations and diagrams clearly showing important processes in plant gene expression a companion website with PowerPoint slides, downloadable figures, and answers to the questions posed in the book Aimed at upper level undergraduates and graduate students in plant biology, this text is equally suited for advanced agronomy and crop science students inclined to understand molecular aspects of organismal phenomena. It is also an invaluable starting point for professionals entering the field of plant biology.

Download or read book Dynamic Regulation of Genome During Cell Division and at the Nuclear Periphery written by Hyeseon Kang and published by . This book was released on 2020 with total page 115 pages. Available in PDF, EPUB and Kindle. Book excerpt: In eukaryotes, the genome is hierarchically packaged inside the nucleus. The 3D organization of chromatin regulates various biological processes such as transcription, DNA replication, and cell division. The accurate gene regulation depends on when and where chromosomal interactions take place in the nucleus. This dissertation focuses on how the genome maintains its function after passing through mitosis and how the nuclear architecture at the nuclear periphery modulates transcription regulation. A long-standing question in the field is how cells maintain genome structure and function over multiple cell divisions, despite the loss of, for example, chromatin structure and gene expression during mitosis. In the first part of this dissertation, we determine that retention of histone modification binding contributes to accurate transcriptional programs and genome organization. We characterize the role of H3K27ac in the activation of post-mitotic transcription. An increase in H3K27ac binding in anaphase/telophase also shows a positive association with the formation of domains in the genome. Together, these results clarify the mechanism through which the histone modification landscape establishes precise genome regulation across mitosis. The genome is enclosed in the nuclear envelope membrane, which contains the nuclear pore complex (NPC) components as crucial players in the dynamic organization of the genome and gene regulation. The second part of this dissertation aims to understand how NPC components interact with genomic regions for gene regulation at the nuclear periphery and identify molecular players that participate in NPC-mediated regulation of genome structure and function. We find that a subset of architecture protein CTCF is localized at the NPC and show how it acts as an interacting partner with NPC components to influence transcription. This unexpected, but exciting link provides us insights into how the structures of the nuclear periphery impact genome function.

Download or read book Nuclear Chromosomal and Genomic Architecture in Biology and Medicine written by Malgorzata Kloc and published by Springer. This book was released on 2023-11-11 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume reviews the latest research on the functional implications of nuclear, chromosomal and genomic organization and architecture on cell and organismal biology, and development and progression of diseases. The architecture of the cell nucleus and non-random arrangement of chromosomes, genes, and the non-membranous nuclear bodies in the three-dimensional (3D) space alters in response to the environmental, mechanical, chemical, and temporal cues. The changes in the nuclear, chromosomal, or genomic compaction and configuration modify the gene expression program and induce or inhibit epigenetic modifications. The intrinsically programmed rearrangements of the nuclear architecture are necessary for cell differentiation, the establishment of cell fate during development and maturation of tissues and organs including the immune, muscle, and nervous systems. The non-programmed changes in the nuclear architecture can lead to fragmentation of the nucleus and instability of the genome and thus cause cancer. Microbial and viral infections can lead to a clustering of centromeres, telomeres and ribosomal DNA and alter the properties of the nuclear membrane, allowing large immobile macromolecules to enter the nucleus. Recent advances in next-generation sequencing technologies combined with nucleus/chromosome conformation capture, super-resolution imaging, chromosomal contact maps methods, integrative modeling, and genetic approaches, are uncovering novel features and importance of nuclear, chromosomal and genomic architecture. This book is an interesting read for cell biologists, researchers studying the structure and function of chromosomes, and anyone else who wants to get an overview of the field of nuclear, chromosomal and genomic architecture.

Download or read book RNA Chromatin Interactions written by Ulf Andersson Vang Ørom and published by Humana. This book was released on 2020-07-18 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume focuses on RNAs interacting with chromatin and their function. Chapters guide readers through transcription, splicing, non-coding RNA function and manipulation of gene expression. 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, RNA-Chromatin Interactions: Methods and Protocols aims to be a starting-point to expand researchers experimental approaches towards the numerous outstanding questions in this new and expanding field.

Download or read book Molecular Biology of Plant Nuclear Genes written by Indra Vasil and published by Elsevier. This book was released on 2012-12-02 with total page 521 pages. Available in PDF, EPUB and Kindle. Book excerpt: Cell Culture and Somatic Cell Genetics of Plants, Volume 6: Molecular Biology of Plant Nuclear Genes focuses on the spectacular and rapid advances in the molecular biology and genetics of plants. This book consists of 19 chapters. Chapters 1 to 5 describe the most commonly used approaches for the genetic transformation of plants. The light-inducible and tissue-organ-specific genes are discussed in Chapters 6 to 11. In Chapters 12 to 14, the genes regulating phytohormone synthesis, heat shock proteins, and nodulation in legume roots are treated, while in Chapters 15 to 16, the relationship between chromatin structure and gene expression and molecular biology of plant RNA viruses are analyzed. The development of transgenic plants resistant to viruses, insects, and herbicides is dealt with in the last three chapters. This volume is suitable for plant molecular biologist, genetic engineers, and researchers concerned with plant cell and tissue culture.

Download or read book Plant Chromatin Dynamics written by Marian Bemer and published by Humana. This book was released on 2018-08-23 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: This volume provides a comprehensive collection of protocols that can be used to study plant chromatin structure and composition. Chapters divided into three sections detail the profiling of chromatin features in relation to epigenetic regulation, investigate the interaction between chromatin modifications and gene regulation, and explore the 3D spatial organization of the chromatin inside the nucleus. 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, Plant Chromatin Dynamics: Methods and Protocols aims to ensure successful results in the further study of this vital field.

Download or read book Architecture of Eukaryotic Genes written by Günter Kahl and published by . This book was released on 1988 with total page 540 pages. Available in PDF, EPUB and Kindle. Book excerpt:

Download or read book Regulation of Gene Expression in Plants written by Carole L. Bassett and published by Springer Science & Business Media. This book was released on 2007-02-15 with total page 216 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents some of the most recent, novel and fascinating examples of transcriptional and posttranscriptional control of gene expression in plants and, where appropriate, provides comparison to notable examples of animal gene regulation.

Download or read book Impacts of Genome and Nuclear Architecture on Molecular Evolution in Eukaryotes written by Xyrus Maurer-Alcalá and published by . This book was released on 2018 with total page pages. Available in PDF, EPUB and Kindle. Book excerpt: The traditional view of genomes suggests that they are static entities changing slowly in sequence and structure through time (e.g. evolving over geological time-scales). This outdated view has been challenged as our understanding of the dynamic nature of genomes has increased. Changes in DNA content (i.e. polyploidy) are common to specific life-cycle stages in a variety of eukaryotes, as are changes in genome content itself. These dramatic genomic changes include chromosomal deletions (i.e. paternal chromosome deletion in insects; Goday and Esteban 2001; Ross, et al. 2010), developmentally regulated genome rearrangements (e.g. the V(D)J system in adaptive immunity in mammals; Schatz and Swanson 2011) and the specialization of a distinct somatic genome through epigenetically regulate DNA elimination during development (found in protists and some animals; Coyne, et al. 2012; Prescott 1994; Wang and Davis 2014; Wyngaard, et al. 2011). What likely allows genomes to be highly flexible is the separation of germline (i.e. 'heritable') and somatic (i.e. 'functional') material, even in the context of a single nucleus. Germline-soma distinctions have been best described (and most easily seen) in lineages of multicellular eukaryotes (e.g. plants, animals and fungi) due to obvious sexual structures. Germline genomes of these taxa are restricted to specialized cells (e.g. gametes; for example, pollen grains, eggs and spores) and remain undifferentiated (and often transcriptionally inactive), whereas the somatic cells (e.g. skin, leaves, hyphae) provide the basis for ensuring organismal survival to reproductive life-stages. Sequestered germline and somatic genomes are not restricted to these well-known multi-cellular lineages but are also well-described among ciliates (the focus of this dissertation) and some foraminifera. However, in these protists, germline and somatic genomes are not isolated into distinct cells and tissues but rather are isolated into distinct nuclei that share a common cytoplasm. Ciliates are a diverse and ancient clade of eukaryotes (~1-1.2 GYA old) and their study has led to the discovery of broad uniting eukaryotic features such as telomeres (Blackburn and Gall 1978) and self-splicing RNAs (Kruger, et al. 1982). As in the "macrobial" eukaryotes, the somatic genome (macronucleus; MAC) is transcriptionally active, transcribing all the genes necessary to maintain the cell, while the germline genome (micronucleus; MIC) remains transcriptionally inactive during the asexual portions of the life cycle. While the germline chromosomes in ciliates are physically similar to other 'traditional' eukaryotic chromosomes (e.g. being multi-Mbp with centromeres), the physical structure of the somatic chromosomes is highly variable. For example, in the model ciliate Tetrahymena thermophila, the somatic genome is composed of 225 unique chromosomes (most of them being ~200-400Kbp), with each at approximately 45 copies, whereas Oxytricha trifallax's somatic genome is composed of ~16,000 gene-sized chromosomes (~2-3Kbp) with each chromosome at its own independent copy number (average copy number ~2,000). Despite dramatic differences in somatic genome architecture in ciliates, the development of a new somatic genome involves. For all ciliates studied to date, this metamorphosis from 'traditional' germline chromosomal architecture to the incredibly variable somatic genome architecture includes large-scale genome rearrangements and DNA elimination. This transformation involves the epigenetically-guided retention of somatically destined DNA from the background germline genome. While genomic rearrangements in most other eukaryotes are often fatal and are symptoms of well-known diseases (e.g. some cancers), this traditionally 'catastrophic' event is a fundamental part of ciliate life-cycles. Although studies of ciliate germline genomes have largely been restricted to only a few genera, there appear to be broad similarities in gene organization that may be phylogenetically conserved. Ciliate germline genome architecture has been categorized as either non-scrambled or scrambled, where non-scrambled architectures are often defined as possessing macronuclear destined sequences (MDSs; soma) that are separated by germline-limited DNA and remain in consecutive order (e.g. 1-2-3-4; Figure 3.1A and Figure 4.4A). Scrambled germline architectures are highly variable, but are broadly defined as MDSs being maintained in non-consecutive order (e.g. 1-3-4-2) and/or on opposing strands of DNA (Figure 3.1 B-D and Figure 4.4B). The germline genomes of Chilodonella uncinata (the main focus of this dissertation) possess a combination of scrambled and non-scrambled architectures. Before my thesis work, only those ciliates with gene-sized chromosomes have been demonstrated to have scrambled germline loci. Interestingly, previous work has implicated somatic genome architecture impacting the observable accelerated rates of protein evolution in ciliates, where the proteins of those ciliates possessing 'gene-sized' chromosomes experience the greatest evolutionary rates. These observations highlight the need for further work exploring the evolutionary impacts of different germline genome architectures, as the germline structure itself has direct impact on the development of the somatic genome. While this dissertation aims to elucidate some aspects of the evolution of germline-soma distinctions and the impact of genome and nuclear architecture (Chapters 2-4), there remain several fundamental questions that we can start addressing. For instance, in this work we observe that the most expanded gene families in Chilodonella uncinata are composed of genes that are disproportionately found at scrambled germline loci (Chapter 3). A major step future step will be to explore the functional implications of this increased paralog diversity through forward and reverse genetics techniques. Similarly, it will be incredibly valuable to better understand the nuclear architecture of the differing genomic contents of the three distinct nuclei present during ciliate development (i.e. the degrading parental MAC, the 'new' MIC, and the developing MAC). There may be observable compartmentalization that is exploitable or critical to the accurate rearrangement of the germline genome into a functional somatic genome. Finally, with the increasingly apparent utility of single-cell 'omics techniques (which we use in Chapters 3 and 4), there is opportunity to probe into taxonomic groups where physical germline-soma separations exist, which will provide a far more expansive understanding of the evolutionary and functional impacts of harboring multiple distinct genomes inside of a single cell/organism.

Download or read book Control of Plant Gene Expression written by Desh Pal S. Verma and published by CRC Press. This book was released on 1993 with total page 606 pages. Available in PDF, EPUB and Kindle. Book excerpt: Control of Plant Gene Expression is a comprehensive volume describing the regulation and control of specific plant genes expressed in different tissues during plant development. It addresses several fundamental aspects of plant gene regulation, including signal transduction mechanisms and the role of plant hormones. It also discusses the structure and regulation of important metabolic genes such as those involved in nitrogen and carbon assimilation, lipid biosynthesis, and secondary metabolism. The book provides excellent examples of genetic engineering applications to alter agronomically important traits, making it an essential reference volume for plant molecular biologists and plant biotechnologists. It also contains a wealth of information that will be valuable to students specializing in plant molecular biology, plant development, gene regulation in plants, molecular plant physiology, or plant biotechnology.

Download or read book The Tomato Genome written by Mathilde Causse and published by Springer. This book was released on 2016-11-21 with total page 260 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book describes the strategy used for sequencing, assembling and annotating the tomato genome and presents the main characteristics of this sequence with a special focus on repeated sequences and the ancestral polyploidy events. It also includes the chloroplast and mitochondrial genomes. Tomato (Solanum lycopersicum) is a major crop plant as well as a model for fruit development, and the availability of the genome sequence has completely changed the paradigm of the species’ genetics and genomics. The book describes the numerous genetic and genomic resources available, the identified genes and quantitative trait locus (QTL) identified, as well as the strong synteny across Solanaceae species. Lastly, it discusses the consequences of the availability of a high-quality genome sequence of the cultivated species for the research community. It is a valuable resource for students and researchers interested in the genetics and genomics of tomato and Solanaceae.

Download or read book Epigenetics Nuclear Organization Gene Function written by John C. Lucchesi and published by Oxford University Press. This book was released on 2018-12-19 with total page 240 pages. Available in PDF, EPUB and Kindle. Book excerpt: Epigenetics is the study of heritable changes in gene function that do not involve changes in the DNA sequence. These changes, consisting principally of DNA methylation, histone modifications, and non-coding RNAs, maintain or modulate the initial impact of regulatory factors that recognize and associate with particular genomic sequences. Epigenetic modifications are manifest in all aspects of normal cellular differentiation and function, but they can also have damaging effects that result in pathologies such as cancer. Research is continuously uncovering the role of epigenetics in a variety of human disorders, providing new avenues for therapeutic interventions and advances in regenerative medicine. This book's primary goal is to establish a framework that can be used to understand the basis of epigenetic regulation and to appreciate both its derivation from genetics and interdependence with genetic mechanisms. A further aim is to highlight the role played by the three-dimensional organization of the genetic material itself (the complex of DNA, histones and non-histone proteins referred to as chromatin), and its distribution within a functionally compartmentalized nucleus. This architectural organization of the genome plays a major role in the subsequent retrieval, interpretation, and execution of both genetic and epigenetic information.