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Genome Wide Analysis Of Nucleotide Binding Domain Leucine Rich Repeat Nlr Variation Patterns In Arabidopsis Thaliana
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Book Synopsis Genome-wide Analysis of Nucleotide-binding Domain Leucine-rich Repeat (NLR) Variation Patterns in Arabidopsis Thaliana by : Darya Karelina
Download or read book Genome-wide Analysis of Nucleotide-binding Domain Leucine-rich Repeat (NLR) Variation Patterns in Arabidopsis Thaliana written by Darya Karelina and published by . This book was released on 2019 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Expression and Functional Analysis of Nucleotide-binding Site Leucine-rich Repeat-encoding Genes in Arabidopsis by : Xiaoping Tan
Download or read book Expression and Functional Analysis of Nucleotide-binding Site Leucine-rich Repeat-encoding Genes in Arabidopsis written by Xiaoping Tan and published by . This book was released on 2006 with total page 872 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Arabidopsis Thaliana Genome Assemblies and Their Use in Hybrid Transcriptome Analyses by : Maximilian Collenberg
Download or read book Arabidopsis Thaliana Genome Assemblies and Their Use in Hybrid Transcriptome Analyses written by Maximilian Collenberg and published by . This book was released on 2023 with total page 0 pages. Available in PDF, EPUB and Kindle. Book excerpt: Arabidopsis thaliana exhibits tremendous phenotypic and genotypic variation while having a rather small, mostly homozygous genome. It was the first plant where a sequenced genome became available in 2000. However, this reference genome has its limitations especially when it comes to highly repetitive regions which currently are not well resolved. Moreover, it is widely recognized that the full spectrum of genetic diversity of a species cannot be represented by a single reference genome. Besides fundamental research, A. thaliana is also used to tackle questions that are relevant to plant breeding. Two important fields here are plant immune (R) genes and heterosis in F1 hybrids. Plant immune genes often encode intracellular nucleotide-binding leucine-rich repeat receptors (NLRs) that enable the plant to directly or indirectly sense the presence of a pathogen via its effector proteins. Thus, knowing the NLR gene repertoire of a species is key to breed novel, more pathogen resistant plants. However, NLR genes are highly diverse even within a species, they can exhibit extensive presence-absence or copy number variation, and are often located in repetitive clusters. These three factors make it unlikely that this gene family can be assessed using a single reference genome that in addition has a lower resolution in highly repetitive regions. In the first part of my work I established a robust workflow for processing the latest PacBio HiFi long-read data. This enabled me to generate high quality genome assemblies for 18 differential A. thaliana lines with a high resolution in repetitive regions. I found that the genomes differ in size which I can explain with length variation in highly repetitive centromeric regions that are absent in the current gold-standard reference. In these 18 differential lines I annotated genes with a focus on NLRs. I found variation in the NLR gene repertoire of the 18 lines. Moreover, I annotated NLR genes that were not present in the current reference genome of A. thaliana. The crossing of two inbred parents leads to the generation of F1 hybrids. Heterosis, a phenomenon where multiple explanations were proposed, describes the superiority of such hybrids compared to their parents. In contrast to this, there are inferior hybrid phenotypes such as hybrid necrosis. Biomass heterosis of F1 hybrids is widely exploited in agriculture. When analyzing transcriptomes of F1 hybrids one can compare their gene expression levels to the mean of both parents (Mid-parent value; MPV). Identifying genes that deviate from the MPV can give insights into the molecular basis of heterosis. However, F1 hybrid genomes are composed of two parental inbred genomes. Thus, having only a single reference genome available impedes hybrid transcriptome analysis. In the second part of my work I utilized full genome information of two A. thaliana inbred parents in order to analyze corresponding F1 hybrid transcriptomes. I established a computational workflow that enabled the identification of genes with significant deviation from the MPV. Moreover, for these genes I demonstrated that the degree of deviation from the MPV correlates with expression divergence between the two parents. Together the results of this thesis give an insight into intraspecies genomic and NLR gene variation of Arabidopsis thaliana while providing a large dataset for future research projects.
Author :Jean-Nicolas Volff Publisher :Karger Medical and Scientific Publishers ISBN 13 :3805584911 Total Pages :155 pages Book Rating :4.8/5 (55 download)
Book Synopsis Plant Genomes by : Jean-Nicolas Volff
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 The Barley Genome written by Nils Stein and published by Springer. This book was released on 2018-08-18 with total page 400 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents an overview of the state-of-the-art in barley genome analysis, covering all aspects of sequencing the genome and translating this important information into new knowledge in basic and applied crop plant biology and new tools for research and crop improvement. Unlimited access to a high-quality reference sequence is removing one of the major constraints in basic and applied research. This book summarizes the advanced knowledge of the composition of the barley genome, its genes and the much larger non-coding part of the genome, and how this information facilitates studying the specific characteristics of barley. One of the oldest domesticated crops, barley is the small grain cereal species that is best adapted to the highest altitudes and latitudes, and it exhibits the greatest tolerance to most abiotic stresses. With comprehensive access to the genome sequence, barley’s importance as a genetic model in comparative studies on crop species like wheat, rye, oats and even rice is likely to increase.
Book Synopsis Genetics and Molecular Breeding in Cereal Crops by : Hongwei Wang
Download or read book Genetics and Molecular Breeding in Cereal Crops written by Hongwei Wang and published by Frontiers Media SA. This book was released on 2023-11-09 with total page 400 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Observations, Botanical and Physiological, on the Potato Murrain by : Miles Joseph Berkeley
Download or read book Observations, Botanical and Physiological, on the Potato Murrain written by Miles Joseph Berkeley and published by . This book was released on 1948 with total page 128 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Communication in Plants by : František Baluška
Download or read book Communication in Plants written by František Baluška and published by Springer Science & Business Media. This book was released on 2007-02-15 with total page 450 pages. Available in PDF, EPUB and Kindle. Book excerpt: Plant neurobiology is a newly emerging field of plant sciences. It covers signalling and communication at all levels of biological organization – from molecules up to ecological communities. In this book, plants are presented as intelligent and social organisms with complex forms of communication and information processing. Authors from diverse backgrounds such as molecular and cellular biology, electrophysiology, as well as ecology treat the most important aspects of plant communication, including the plant immune system, abilities of plants to recognize self, signal transduction, receptors, plant neurotransmitters and plant neurophysiology. Further, plants are able to recognize the identity of herbivores and organize the defence responses accordingly. The similarities in animal and plant neuronal/immune systems are discussed too. All these hidden aspects of plant life and behaviour will stimulate further intense investigations in order to understand the communicative plants in their whole complexity.
Book Synopsis Plant Proteases by : Mercedes Diaz-Mendoza
Download or read book Plant Proteases written by Mercedes Diaz-Mendoza and published by Frontiers Media SA. This book was released on 2020-01-24 with total page 157 pages. Available in PDF, EPUB and Kindle. Book excerpt: Plant proteases are involved in most aspects of plant physiology and development, playing key roles in the generation of signaling molecules and as regulators of essential cellular processes such as cell division and metabolism. They take part in important pathways like protein turnover by the degradation of misfolded proteins and the ubiquitin-proteasome pathway, and they are responsible for post-translational modifications of proteins by proteolysis at highly specific sites. Proteases are also implicated in a great variety of environmentally controlled processes, including mobilization of storage proteins during seed germination, development of seedlings, senescence, programmed cell death and defense mechanisms against pests and pathogens. However, in spite of their importance, little is known about the functions and mode of actions of specific plant proteases. This Research Topic collects contributions covering diverse aspects of plant proteases research.
Book Synopsis Diseases of Edible Oilseed Crops by : Chirantan Chattopadhyay
Download or read book Diseases of Edible Oilseed Crops written by Chirantan Chattopadhyay and published by CRC Press. This book was released on 2015-10-15 with total page 484 pages. Available in PDF, EPUB and Kindle. Book excerpt: This book presents an unprecedentedly thorough collection of information on the diseases of cultivated annual oilseed crops, including peanut, rapeseed-mustard, sesame, soybean, sunflower, and safflower. It covers and integrates global literature on the subject up to 2014, setting it apart from other books that are only of regional importance. The authors are internationally recognized experts who have compiled decades of information from previously scattered research into a single volume that provides much-needed updates to oilseed crop disease research.
Book Synopsis Evolution by Gene Duplication by : Susumu Ohno
Download or read book Evolution by Gene Duplication written by Susumu Ohno and published by Springer Science & Business Media. This book was released on 2013-12-11 with total page 171 pages. Available in PDF, EPUB and Kindle. Book excerpt: It is said that "necessity is the mother of invention". To be sure, wheels and pulleys were invented out of necessity by the tenacious minds of upright citi zens. Looking at the history of mankind, however, one has to add that "Ieisure is the mother of cultural improvement". Man's creative genius flourished only when his mind, freed from the worry of daily toils, was permitted to entertain apparently useless thoughts. In the same manner, one might say with regard to evolution that "natural selection mere(y tnodifted, while redundanry created". Natural selection has been extremely effective in policing alleHe mutations which arise in already existing gene loci. Because of natural selection, organisms have been able to adapt to changing environments, and by adaptive radiation many new species were created from a common ancestral form. Y et, being an effective policeman, natural selection is extremely conservative by nature. Had evolution been entirely dependent upon natural selection, from a bacterium only numerous forms of bacteria would have emerged. The creation of metazoans, vertebrates and finally mammals from unicellular organisms would have been quite impos sible, for such big leaps in evolution required the creation of new gene loci with previously nonexistent functions. Only the cistron which became redun dant was able to escape from the relentless pressure of natural selection, and by escaping, it accumulated formerly forbidden mutations to emerge as a new gene locus.
Book Synopsis Plant Pattern Recognition Receptors by : Libo Shan
Download or read book Plant Pattern Recognition Receptors written by Libo Shan and published by . This book was released on 2017 with total page 358 pages. Available in PDF, EPUB and Kindle. Book excerpt: "This volume covers protocols on techniques ranging from MAMP isolations from diverse microorganisms, PRR identifications from different plant species, MAMP-PRR binding, and a series of signaling responses and events revealed by various biochemical, cellular, genetic and bioinformatic tools. 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 practical, Plant Pattern Recognition Receptors: Methods and Protocolsaims to ensure successful results in the further study of this vital field." -- OCLC.
Book Synopsis Molecular Aspects of Plant-Pathogen Interaction by : Archana Singh
Download or read book Molecular Aspects of Plant-Pathogen Interaction written by Archana Singh and published by Springer. This book was released on 2018-02-15 with total page 367 pages. Available in PDF, EPUB and Kindle. Book excerpt: The book offers an integrated overview of plant–pathogen interactions. It discusses all the steps in the pathway, from the microbe–host-cell interface and the plant’s recognition of the microbe to the plant’s defense response and biochemical alterations to achieve tolerance / resistance. It also sheds light on the classes of pathogens (bacteria, fungus and viruses); effector molecules, such as PAMPs; receptor molecules like PRRs and NBS-LRR proteins; signaling components like MAPKs; regulatory molecules, such as phytohormones and miRNA; transcription factors, such as WRKY; defense-related proteins such as PR-proteins; and defensive metabolites like secondary metabolites. In addition, it examines the role of post-genomics, high-throughput technology (transcriptomics and proteomics) in studying pathogen outbreaks causing crop losses in a number of plants. Providing a comprehensive picture of plant-pathogen interaction, the updated information included in this book is valuable for all those involved in crop improvement.
Book Synopsis Plant Resistance to Viruses by : David Evered
Download or read book Plant Resistance to Viruses written by David Evered and published by John Wiley & Sons. This book was released on 2008-04-30 with total page 226 pages. Available in PDF, EPUB and Kindle. Book excerpt: Concern about the environmental consequences of the widespread use of pesticides has increased, and evidence of pesticide-resistant virus vectors have continued to emerge. This volume presents a timely survey of the mechanisms of plant resistance and examines current developments in breeding for resistance, with particular emphasis on advances in genetic engineering which allow for the incorporation of viral genetic material into plants. Discusses the mechanisms of innate resistance in strains of tobacco, tomato, and cowpea; various aspects of induced resistance, including the characterization and roles of the pathogenesis-related proteins; antiviral substances and their comparison with interferon; and cross-protection between plant virus strains. Also presents several papers which evaluate the status of genetic engineering as it relates to breeding resistant plants. Among these are discussions of the potential use of plant viruses as gene vectors, gene coding for viral coat protein, satellite RNA, and antisense RNA, and practical issues such as the durability of resistant crop plants in the field.
Book Synopsis Nuclear Trafficking by : Carl Feldherr
Download or read book Nuclear Trafficking written by Carl Feldherr and published by Academic Press. This book was released on 2012-12-02 with total page 385 pages. Available in PDF, EPUB and Kindle. Book excerpt: Nuclear Trafficking is a summary of the state of knowledge in nuclear trafficking, and is organized into five parts. The book begins by discussing the diffusion and signal-mediated transport through the pores. It then looks into the detailed accounts of pore structure and composition, nuclear localization signals, signal binding proteins, RNA efflux, and biochemical factors influencing nucleocytoplasmic exchange. This book will be very useful to those people new to this field of interest.
Book Synopsis Principles of Plant Pathology by : Sydney Albert John Tarr
Download or read book Principles of Plant Pathology written by Sydney Albert John Tarr and published by Palgrave. This book was released on 2013-12-31 with total page 644 pages. Available in PDF, EPUB and Kindle. Book excerpt:
Book Synopsis Protein Kinases and Stress Signaling in Plants by : Girdhar K. Pandey
Download or read book Protein Kinases and Stress Signaling in Plants written by Girdhar K. Pandey and published by John Wiley & Sons. This book was released on 2020-12-03 with total page 560 pages. Available in PDF, EPUB and Kindle. Book excerpt: A comprehensive review of stress signaling in plants using genomics and functional genomic approaches Improving agricultural production and meeting the needs of a rapidly growing global population requires crop systems capable of overcoming environmental stresses. Understanding the role of different signaling components in plant stress regulation is vital to developing crops which can withstand abiotic and biotic stresses without loss of crop yield and productivity. Emphasizing genomics and functional genomic approaches, Protein Kinases and Stress Signaling in Plants is a comprehensive review of cutting-edge research on stress perception, signal transduction, and stress response generation. Detailed chapters cover a broad range of topics central to improving agricultural production developing crop systems capable of overcoming environmental stresses to meet the needs of a rapidly growing global population. This book describes the field of protein kinases and stress signaling with a special emphasis on functional genomics. It presents a highly valuable contribution in the field of stress perception, signal transduction and generation of responses against one or multiple stress signals. This timely resource: Summarizes the role of various kinases involved in stress management Enumerates the role of TOR, GSK3-like kinase, SnRK kinases in different physiological conditions Examines mitogen-activated protein kinases (MAPKs) in different stresses Describes the different aspects of calcium signaling under different stress conditions Examines photo-activated kinases (PAPKs) in varying light conditions Briefs the presence of tyrosine kinases in plants Highlights the cellular functions of receptor ]like protein kinases (RLKs) Possible implication of these kinases in developing stress tolerant crops Protein Kinases and Stress Signaling in Plants: Functional Genomic Perspective is an essential resource for researchers and students in the fields of plant molecular biology and signal transduction, plant responses to stress, plant cell signaling, plant protein kinases, plant biotechnology, transgenic plants and stress biology.
