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Book
Repetitive Structures in Biological Sequences: Algorithms and Applications
Authors: --- ---
Year: 2016 Publisher: Frontiers Media SA

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Abstract

Repetitive structures in biological sequences are emerging as an active focus of research and the unifying concept of "repeatome" (the ensemble of knowledge associated with repeating structures in genomic/proteomic sequences) has been recently proposed in order to highlight several converging trends. One main trend is the ongoing discovery that genomic repetitions are linked to many biological significant events and functions. Diseases (e.g. Huntington's disease) have been causally linked with abnormal expansion of certain repeating sequences in the human genome. Deletions or multiple copy duplications of genes (Copy Number Variations) are important in the aetiology of cancer, Alzheimer, and Parkinson diseases. A second converging trend has been the emergence of many different models and algorithms for detecting non-obvious repeating patterns in strings with applications to in genomic data. Borrowing methodologies from combinatorial pattern, matching, string algorithms, data structures, data mining and machine learning these new approaches break the limitations of the current approaches and offer a new way to design better trans-disciplinary research. The articles collected in this book provides a glance into the rich emerging area of repeatome research, addressing some of its pressing challenges. We believe that these contributions are valuable resources for repeatome research and will stimulate further research from bioinformatic, statistical, and biological points of view.


Book
Transposons and the dynamic genome
Authors: ---
ISBN: 3642242529 3642020046 9786612655074 1282655078 3642020054 Year: 2009 Publisher: Dordrecht ; New York : Springer,

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There are only few major key functions that lie beneath the fundamental architecture of metabolism and life. These are multiplication, variation and heredity. Only if these factors interact synergistically can Darwinian selection power the evolution of biodiversity. Transposable elements have always played a major role in this process. The genomes of all organisms consist of chromosomes that are built up of double-stranded nucleic acid chains on whose stability and integrity the existence of cells depend. While DNA repair warrants the chemical integrity of DNA and protects it from metabolic and environmental mutagens, meiotic recombination and transposable element activity appear to counteract the molecular guardians of genome stability. Transposable elements and their kind often make up the bulk of genomic DNA, often approaching 50% of the genome. By contrast, the classic genes represent as little as 1.8% of genomic DNA, in case of the human genome. 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 along with the evolution of transposable elements and dynamic genomes. This book therefore also celebrates Charles Darwin’s 200th birthday. The reader is challenged to view the role of movable DNA along historical roots from the levels of cells to populations to biological species integrating the accompanying molecular evolution of host, cell and genome interaction. One will witness even the reactivation of a long since dead, fossil transposable element and the infection of germline cells by the first established, mobile and endogenous insect retrovirus.


Book
Plant transposable elements : impact on genome structure and function
Authors: ---
ISSN: 16102096 ISBN: 3642437591 364231841X 3642318428 1299197590 Year: 2012 Volume: 24 Publisher: Berlin ; New York : Springer,

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Transposable elements are DNA sequences with the capacity to move within a genome. Although their presence and impact has long been known, the recent genome-wide analysis of many eukaryotic genomes has uncovered their major role in genome dynamics and function. The present book explains how to recognize and study transposable elements, e.g. by using state-of-the-art strategies based on new-generation sequencing. Moreover, the impact of transposable elements on plant genome structure and function is reviewed in detail and 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 transposable elements are not just "junk" DNA, and may actually be the most interesting and fun part of their data!

Keywords

Genetic regulation -- Congresses. --- Insertion elements, DNA -- Congresses. --- Mutagens -- Congresses. --- Plant molecular genetics -- Congresses. --- Insertion elements, DNA --- Mutagens --- Plant genetic regulation --- Transposons --- Plant molecular genetics --- Interspersed Repetitive Sequences --- Genome --- DNA --- Genetic Structures --- Repetitive Sequences, Nucleic Acid --- Genome Components --- Nucleic Acids --- Nucleic Acids, Nucleotides, and Nucleosides --- Genetic Phenomena --- Base Sequence --- Chemicals and Drugs --- Phenomena and Processes --- Molecular Structure --- Biochemical Phenomena --- Chemical Phenomena --- DNA Transposable Elements --- Genome, Plant --- Biology --- Health & Biological Sciences --- Genetics --- Transposons. --- Plant molecular genetics. --- Tn elements --- Transposable elements --- Life sciences. --- Nucleic acids. --- Plant biochemistry. --- Cell biology. --- Plant genetics. --- Life Sciences. --- Plant Genetics & Genomics. --- Plant Biochemistry. --- Nucleic Acid Chemistry. --- Cell Biology. --- Molecular genetics --- Plant genetics --- Plant molecular biology --- Mobile genetic elements --- Biochemistry. --- Cytology. --- Plant Genetics and Genomics. --- Biological chemistry --- Chemical composition of organisms --- Organisms --- Physiological chemistry --- Chemistry --- Medical sciences --- Plants --- Cell biology --- Cellular biology --- Cells --- Cytologists --- Polynucleotides --- Biomolecules --- Composition --- Phytochemistry --- Plant biochemistry --- Plant chemistry --- Biochemistry --- Botany --- Phytochemicals --- Plant biochemical genetics


Book
Molecular biology techniques
Authors: --- ---
ISBN: 128331097X 9786613310972 0123855454 0123855446 9780123855459 9780123855442 6613310972 Year: 2012 Publisher: Amsterdam Boston Elsevier /Academic Press

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This manual is an indispensable tool for introducing advanced undergraduates and beginning graduate students to the techniques of recombinant DNA technology, or gene cloning and expression. The techniques used in basic research and biotechnology laboratories are covered in detail. Students gain hands-on experience from start to finish in subcloning a gene into an expression vector, through purification of the recombinant protein.The second edition has been completely re-written, with new laboratory exercises and all new illustrations and text, designed for a typical 15-week semester,


Periodical
Bioengineered
ISSN: 21655987 21655979


Book
Bioinformatics Applications Based On Machine Learning
Authors: --- --- ---
Year: 2021 Publisher: Basel, Switzerland MDPI - Multidisciplinary Digital Publishing Institute

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The great advances in information technology (IT) have implications for many sectors, such as bioinformatics, and has considerably increased their possibilities. This book presents a collection of 11 original research papers, all of them related to the application of IT-related techniques within the bioinformatics sector: from new applications created from the adaptation and application of existing techniques to the creation of new methodologies to solve existing problems.


Periodical
Artificial DNA
Author:
ISSN: 19490968 1949095X

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Abstract

Keywords

DNA --- RNA --- Genetic engineering --- DNA. --- Genetic engineering. --- RNA. --- DNA, Recombinant --- Genetic Engineering --- Antisense Elements (Genetics) --- Synthesis --- Synthesis. --- chemical synthesis --- Health Sciences --- Physiology --- Deoxyribonucleic acid --- Desoxyribonucleic acid --- Thymonucleic acid --- TNA (Nucleic acid) --- ds-DNA --- DNA, Double-Stranded --- Deoxyribonucleic Acid --- DNA, Double Stranded --- Double-Stranded DNA --- ds DNA --- Ribonucleic acid --- Ribose nucleic acid --- Designed genetic change --- Engineering, Genetic --- Gene splicing --- Genetic intervention --- Genetic surgery --- Deoxyribonucleic acid synthesis --- Anti-Sense Elements --- Anti-Sense Probes --- Antisense Probes --- Anti Sense Elements --- Anti Sense Probes --- Elements, Anti-Sense --- Probes, Anti-Sense --- Probes, Antisense --- Intervention, Genetic --- Genetic Intervention --- Genetic Interventions --- Interventions, Genetic --- Recombinant DNA Research --- Recombination Joint --- Genes, Spliced --- Recombinant DNA --- DNA Research, Recombinant --- Joint, Recombination --- Research, Recombinant DNA --- Spliced Genes --- Biotechnology --- Cloning, Molecular --- Industrial Microbiology --- Artificial Gene Fusion --- Organisms, Genetically Modified --- Animals, Genetically Modified --- Plants, Genetically Modified --- DNA Transposable Elements --- Genetic Vectors --- Genomic Library --- Gene Library --- Biopolymers --- Nucleic acids --- Ribose --- Genetic recombination --- Transgenic organisms --- Deoxyribose --- Genes --- DNA, Recombinant. --- Genetic Engineering. --- Antisense Elements (Genetics). --- chemical synthesis.


Book
Microbial megaplasmids
Authors: ---
ISBN: 3642099165 3540854665 9786611986704 1281986704 3540854673 Year: 2009 Publisher: Berlin ; Heidelberg : Springer-Verlag,

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Megaplasmids are extrachromosomal genetic elements in the size range of 100 kb and larger. They are found in physiologically and phylogenetically diverse groups of bacteria and archaea. By definition, megaplasmids are not essential for the viability of their hosts under all growth conditions, but paradoxically many megaplasmids carry the genetic information for the defining and characteristic traits of the organism in which they reside. Microbial Megaplasmids reviews our knowledge of the extensively studied representatives, such as the catabolic plasmids of the pseudomonads, the rhizobial Sym plasmids, the Ti plasmids of the genus Agrobacterium and the giant enterobacterial virulence plasmids. It also presents snapshots of more recently discovered megaplasmids. The contribution of megaplasmids to the biology of their hosts is described, highlighting the interactions between megaplasmid and chromosomal genes.


Book
Recent Advances in the Understanding of Molecular Mechanisms of Resistance in Noctuid Pests
Authors: ---
Year: 2021 Publisher: Basel, Switzerland MDPI - Multidisciplinary Digital Publishing Institute

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Abstract

This book brings together the papers published in the Special Issue "Recent advances in the understanding of molecular mechanisms of resistance in Noctuid pests" in the journal Insects in 2021. It contains 10 articles that are either original results or reviews. The focus is on insects of the noctuid family, as they are among the most devastating crop pests on the planet. Understanding the molecular mechanisms that allow these insects to become resistant to insecticides is essential for the implementation of sustainable control methods and resistance management strategies.

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