Structural Variation of the Chloroplast Genome and Related Bioinformatics Tools PDF Download

Author: Tapan Kumar Mohanta
Publisher: Frontiers Media SA
ISBN: 2832548113
Category : Science
Languages : en
Pages : 141

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Book Description
The plastid genome has been the most important source of data for the reconstruction of plant phylogeny and taxonomic studies. With the rapid advancement of sequencing technology and bioinformatics, it has become laboratory routine work for obtaining plastid genomes (plastome), and population studies can be performed using chloroplast genome data. However, plastid genomes with specific characters such as pseudogenes, gene losses, gene duplications, gene rearrangements, widespread intra-individual polymorphisms, large-scale horizontal gene transfer, etc. have not been systematically studied. For example, plastomes of several saprophytic plants were confirmed to have lost many photosynthesis genes. The IR region of some plants decreased to several hundred base pairs, disappears completely, increased by dozens of kb, or repeat in the same direction. Most of these chloroplast structural variations are related to import plant evolution or special environmental adaptation, but their mechanisms are still unclear and effective analytical tools are lacking.

Author: Manuel Talon
Publisher: Woodhead Publishing
ISBN: 012812217X
Category : Technology & Engineering
Languages : en
Pages : 540

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Book Description
The Genus Citrus presents the enormous amount of new knowledge that has been generated in recent years on nearly all topics related to citrus. Beginning with an overview of the fundamental principles and understanding of citrus biology and behavior, the book provides a comprehensive view from Citrus evolution to current market importance. Reporting on new insights supported by the elucidation of the citrus genome sequence, it presents groundbreaking theories and fills in previous knowledge gaps. Because citrus is among the most difficult plants to improve through traditional breeding, citrus researchers, institutions and industries must quickly learn to adapt to new developments, knowledge and technologies to address the biological constraints of a unique fruit-tree such as citrus. Despite the challenges of working with citrus, tremendous progress has been made, mostly through advances in molecular biology and genomics. This book is valuable for all those involved with researching and advancing, producing, processing, and delivering citrus products. - Includes the most current research on citrus genomic information - Provides the first detailed description of citrus origin, a new proposal for citrus taxonomy, and a redefinition of the genus Citrus - Details citrus challenges including climate change, global disease impacts, and plant improvement strategies

Author: David Posada
Publisher: Humana Press
ISBN: 9781588299109
Category : Science
Languages : en
Pages : 354

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Book Description
The recent accumulation of information from genomes, including their sequences, has resultednotonlyinnewattemptstoansweroldquestionsandsolvelongstandingissues inbiology,butalsointheformulationofnovelhypothesesthatarisepreciselyfromthis wealth of data. The storage, processing, description, transmission, connection, and analysis of these data has prompted bioinformatics to become one the most relevant applied sciences for this new century, walking hand-in-hand with modern molecular biology and clearly impacting areas like biotechnology and biomedicine. Bioinformatics skills have now become essential for many scientists working with DNA sequences. With this idea in mind, this book aims to provide practical guidance andtroubleshootingadviceforthecomputationalanalysisofDNAsequences,covering a range of issues and methods that unveil the multitude of applications and relevance that Bioinformatics has today. The analysis of protein sequences has been purposely excludedtogainfocus.Individualbookchaptersareorientedtowardthedescriptionof theuseofspecificbioinformaticstools,accompaniedbypracticalexamples,adiscussion on the interpretation of results, and specific comments on strengths and limitations of the methods and tools. In a sense, chapters could be seen as enriched task-oriented manuals that will direct the reader in completing specific bioinformatics analyses. The target audience for this book is biochemists, and molecular and evolutionary biologiststhatwanttolearnhowtoanalyzeDNAsequencesinasimplebutmeaningful fashion. Readers do not need a special background in statistics, mathematics, or computer science, just a basic knowledge of molecular biology and genetics. All the tools described in the book are free and all of them can be downloaded or accessed throughtheweb.Mostchapterscouldbeusedforpracticaladvancedundergraduateor graduate-level courses in bioinformatics and molecular evolution.

Author:
Publisher: Academic Press
ISBN: 0128134585
Category : Science
Languages : en
Pages : 398

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Book Description
Plastid Genome Evolution, Volume 85 provides a summary of recent research on plastid genome variation and evolution across photosynthetic organisms. It covers topics ranging from the causes and consequences of genomic changes, to the phylogenetic utility of plastomes for resolving relationships across the photosynthetic tree of life. This newly released volume presents thorough, up-to-date information on coevolution between the plastid and nuclear genomes, with chapters on plastid autonomy vs. nuclear control over plastid function, establishment and genetic integration of plastids, plastid genomes in alveolate protists, plastid genomes of glaucophytes, the evolution of the plastid genome in chlorophyte and streptophyte green algae, and more. - Provides comprehensive coverage of plastid genome variation by leading researchers in the field - Presents a broad range of taxonomic groups, ranging from single and multicellular algae, to the major clades of land plants - Includes thorough, up-to-date information on coevolution between the plastid and nuclear genomes

Author: Ralph Bock
Publisher: Springer Science & Business Media
ISBN: 3540753761
Category : Science
Languages : en
Pages : 535

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Book Description
The present book provides a comprehensive overview of our current knowledge on plastid biogenesis, plastid-nuclear communication, and the regulation of plastid gene expression at all levels. It also assesses the state-of-the-art in key technologies, such as proteomics and chloroplast transformation. Written by recognized experts in the field, the book further covers crucial post-translational processes in plastid biogenesis and function, including protein processing.

Author: Pradeep Sharma
Publisher: Academic Press
ISBN: 0323885993
Category : Technology & Engineering
Languages : en
Pages : 707

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Book Description
Bioinformatics in Agriculture: Next Generation Sequencing Era is a comprehensive volume presenting an integrated research and development approach to the practical application of genomics to improve agricultural crops. Exploring both the theoretical and applied aspects of computational biology, and focusing on the innovation processes, the book highlights the increased productivity of a translational approach. Presented in four sections and including insights from experts from around the world, the book includes: Section I: Bioinformatics and Next Generation Sequencing Technologies; Section II: Omics Application; Section III: Data mining and Markers Discovery; Section IV: Artificial Intelligence and Agribots. Bioinformatics in Agriculture: Next Generation Sequencing Era explores deep sequencing, NGS, genomic, transcriptome analysis and multiplexing, highlighting practices forreducing time, cost, and effort for the analysis of gene as they are pooled, and sequenced. Readers will gain real-world information on computational biology, genomics, applied data mining, machine learning, and artificial intelligence. This book serves as a complete package for advanced undergraduate students, researchers, and scientists with an interest in bioinformatics. - Discusses integral aspects of molecular biology and pivotal tool sfor molecular breeding - Enables breeders to design cost-effective and efficient breeding strategies - Provides examples ofinnovative genome-wide marker (SSR, SNP) discovery - Explores both the theoretical and practical aspects of computational biology with focus on innovation processes - Covers recent trends of bioinformatics and different tools and techniques

Author: National Academies of Sciences, Engineering, and Medicine
Publisher: National Academies Press
ISBN: 0309676738
Category : Science
Languages : en
Pages : 201

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Book Description
One of the holy grails in biology is the ability to predict functional characteristics from an organism's genetic sequence. Despite decades of research since the first sequencing of an organism in 1995, scientists still do not understand exactly how the information in genes is converted into an organism's phenotype, its physical characteristics. Functional genomics attempts to make use of the vast wealth of data from "-omics" screens and projects to describe gene and protein functions and interactions. A February 2020 workshop was held to determine research needs to advance the field of functional genomics over the next 10-20 years. Speakers and participants discussed goals, strategies, and technical needs to allow functional genomics to contribute to the advancement of basic knowledge and its applications that would benefit society. This publication summarizes the presentations and discussions from the workshop.

Author: Jonathan Pevsner
Publisher: John Wiley & Sons
ISBN: 0471459178
Category : Science
Languages : en
Pages : 792

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Book Description
Wiley is proud to announce the publication of the first ever broad-based textbook introduction to Bioinformatics and Functional Genomics by a trained biologist, experienced researcher, and award-winning instructor. In this new text, author Jonathan Pevsner, winner of the 2001 Johns Hopkins University "Teacher of the Year" award, explains problem-solving using bioinformatic approaches using real examples such as breast cancer, HIV-1, and retinal-binding protein throughout. His book includes 375 figures and over 170 tables. Each chapter includes: Problems, discussion of Pitfalls, Boxes explaining key techniques and math/stats principles, Summary, Recommended Reading list, and URLs for freely available software. The text is suitable for professionals and students at every level, including those with little to no background in computer science.

Author: Elizabeth H. Harris
Publisher: Academic Press
ISBN: 0080919553
Category : Science
Languages : en
Pages : 483

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Book Description
Dr. Harris has played a major role in the development of this organism as a model system. Her previous version of the Chlamydomonas Sourcebook which published in 1989, has been a classic in the field and is considered required reading for anyone working with this organism. This latest edition has been expanded to include three volumes providing molecular techniques, analysis of the recently sequenced genome, and reviews of the current status of the diverse fields in which Chlamydomonas is used as a model organism. Methods for Chlamydomonas research and best practices for applications in research, including methods for culture, preservation of cultures, preparation of media, lists of inhibitors and other additives to culture media, are included. Additions to this volume also include help with common laboratory problems such as contamination, student demonstrations, and properties of particular strains and mutants. This volume is part of a 3-Volume Set (ISBN: 978-0-12-370873-1) and is also sold individually. - Expanded revision of gold standard reference - Includes latest advances in research, including completion of the genome - Provides broad perspective with studies in cell and molecular biology, genetics, plant physiology and related fields - Available as part of a 3-Volume Set or sold individually

Author: Supratim Choudhuri
Publisher: Elsevier
ISBN: 0124105106
Category : Science
Languages : en
Pages : 238

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Book Description
Bioinformatics for Beginners: Genes, Genomes, Molecular Evolution, Databases and Analytical Tools provides a coherent and friendly treatment of bioinformatics for any student or scientist within biology who has not routinely performed bioinformatic analysis. The book discusses the relevant principles needed to understand the theoretical underpinnings of bioinformatic analysis and demonstrates, with examples, targeted analysis using freely available web-based software and publicly available databases. Eschewing non-essential information, the work focuses on principles and hands-on analysis, also pointing to further study options. - Avoids non-essential coverage, yet fully describes the field for beginners - Explains the molecular basis of evolution to place bioinformatic analysis in biological context - Provides useful links to the vast resource of publicly available bioinformatic databases and analysis tools - Contains over 100 figures that aid in concept discovery and illustration