Genome Evolution

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Models and Algorithms for Genome Evolution

Cedric Chauve,Nadia El-Mabrouk,Eric Tannier
Models and Algorithms for Genome Evolution Book PDF

Author : Cedric Chauve,Nadia El-Mabrouk,Eric Tannier
Publisher : Springer Science & Business Media
Page : 329 pages
File Size : 50,7 Mb
Release : 2013-09-17
Category : Computers
ISBN : 9781447152989

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Models and Algorithms for Genome Evolution by Cedric Chauve,Nadia El-Mabrouk,Eric Tannier Pdf

This authoritative text/reference presents a review of the history, current status, and potential future directions of computational biology in molecular evolution. Gathering together the unique insights of an international selection of prestigious researchers, this must-read volume examines the latest developments in the field, the challenges that remain, and the new avenues emerging from the growing influx of sequence data. These viewpoints build upon the pioneering work of David Sankoff, one of the founding fathers of computational biology, and mark the 50th anniversary of his first scientific article. The broad spectrum of rich contributions in this essential collection will appeal to all computer scientists, mathematicians and biologists involved in comparative genomics, phylogenetics and related areas.

Polyploidy and Genome Evolution

Pamela Soltis,Douglas E. Soltis
Polyploidy and Genome Evolution Book PDF

Author : Pamela Soltis,Douglas E. Soltis
Publisher : Springer Science & Business Media
Page : 416 pages
File Size : 50,6 Mb
Release : 2012-10-03
Category : Science
ISBN : 9783642314414

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Polyploidy and Genome Evolution by Pamela Soltis,Douglas E. Soltis Pdf

Polyploidy – whole-genome duplication (WGD) – is a fundamental driver of biodiversity with significant consequences for genome structure, organization, and evolution. Once considered a speciation process common only in plants, polyploidy is now recognized to have played a major role in the structure, gene content, and evolution of most eukaryotic genomes. In fact, the diversity of eukaryotes seems closely tied to multiple WGDs. Polyploidy generates new genomic interactions – initially resulting in “genomic and transcriptomic shock” – that must be resolved in a new polyploid lineage. This process essentially acts as a “reset” button, resulting in genomic changes that may ultimately promote adaptive speciation. This book brings together for the first time the conceptual and theoretical underpinnings of polyploid genome evolution with syntheses of the patterns and processes of genome evolution in diverse polyploid groups. Because polyploidy is most common and best studied in plants, the book emphasizes plant models, but recent studies of vertebrates and fungi are providing fresh perspectives on factors that allow polyploid speciation and shape polyploid genomes. The emerging paradigm is that polyploidy – through alterations in genome structure and gene regulation – generates genetic and phenotypic novelty that manifests itself at the chromosomal, physiological, and organismal levels, with long-term ecological and evolutionary consequences.

Molecular and Genome Evolution

Dan Graur
Molecular and Genome Evolution Book PDF

Author : Dan Graur
Publisher : Sinauer
Page : 0 pages
File Size : 54,6 Mb
Release : 2015-01-01
Category : Science
ISBN : 1605354694

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Molecular and Genome Evolution by Dan Graur Pdf

This book describes the driving forces behind the evolutionary process at the molecular and genome levels, the effects of the various molecular mechanisms on the structure of genes, proteins, and genomes, the methodology and the analytical tools involved in dealing with molecular data from an evolutionary perspective, and the logic of evolutionary hypothesis testing. Evolutionary phenomena at the molecular level are detailed in a way that can be understood without much prerequisite knowledge of molecular biology, evolution, or mathematics. Numerous examples that support and clarify the theoretical arguments and methodological discussions are included.

Sequence — Evolution — Function

Eugene V. Koonin,Michael Galperin
Sequence Evolution Function Book PDF

Author : Eugene V. Koonin,Michael Galperin
Publisher : Springer Science & Business Media
Page : 482 pages
File Size : 49,8 Mb
Release : 2013-06-29
Category : Science
ISBN : 9781475737837

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Sequence — Evolution — Function by Eugene V. Koonin,Michael Galperin Pdf

Sequence - Evolution - Function is an introduction to the computational approaches that play a critical role in the emerging new branch of biology known as functional genomics. The book provides the reader with an understanding of the principles and approaches of functional genomics and of the potential and limitations of computational and experimental approaches to genome analysis. Sequence - Evolution - Function should help bridge the "digital divide" between biologists and computer scientists, allowing biologists to better grasp the peculiarities of the emerging field of Genome Biology and to learn how to benefit from the enormous amount of sequence data available in the public databases. The book is non-technical with respect to the computer methods for genome analysis and discusses these methods from the user's viewpoint, without addressing mathematical and algorithmic details. Prior practical familiarity with the basic methods for sequence analysis is a major advantage, but a reader without such experience will be able to use the book as an introduction to these methods. This book is perfect for introductory level courses in computational methods for comparative and functional genomics.

Evolution of the Human Genome II

Naruya Saitou
Evolution of the Human Genome II Book PDF

Author : Naruya Saitou
Publisher : Springer Nature
Page : 260 pages
File Size : 54,6 Mb
Release : 2021-05-27
Category : Science
ISBN : 9784431569046

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Evolution of the Human Genome II by Naruya Saitou Pdf

This two-volume set provides a general overview of the evolution of the human genome; The first volume overviews the human genome with descriptions of important gene groups. This second volume provides up-to-date, concise yet ample knowledge on the genome evolution of modern humans. It comprises twelve chapters divided into two parts discussing “Non-neutral Evolution on Human Genes” (Part I) and “Evolution of Modern Human Populations” (Part II.) The most significant feature of this book is the continent-wise discussion of modern human dispersal using human genomic data in Part II. Recent results such as introgression of paleogenomes to modern humans, new methods such as computer simulation of global human dispersals, and new information on genes for humanness will be of particular interest to the readers. Since the euchromatin regions of the human genome was sequenced in 2003, a huge number of research papers were published on modern human evolution for a variety of populations. It is now time to summarize these achievements. This book stands out as the most comprehensive book on the modern human evolution, focusing on genomic points of view with a broad scope. Primary target audiences are researchers and graduate students in evolutionary biology.

Evolutionary Biology: Genome Evolution, Speciation, Coevolution and Origin of Life

Pierre Pontarotti
Evolutionary Biology Genome Evolution Speciation Coevolution and Origin of Life Book PDF

Author : Pierre Pontarotti
Publisher : Springer
Page : 398 pages
File Size : 48,7 Mb
Release : 2014-07-25
Category : Science
ISBN : 9783319076232

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Evolutionary Biology: Genome Evolution, Speciation, Coevolution and Origin of Life by Pierre Pontarotti Pdf

This book includes the most essential contributions presented at the 17th Evolutionary Biology Meeting in Marseille, which took place in September 2013. It consists of 18 chapters organized according to the following categories: · Molecular and Genome Evolution · Phylogeography of Speciation and Coevolution · Exobiology and Origin of Life The aims of the annual meetings in Marseille, which bring together leading evolutionary biologists and other scientists using evolutionary biology concepts, e.g. for medical research, are to promote the exchange of ideas and to encourage interdisciplinary collaborations. Offering an overview of the latest findings in the field of evolutionary biology, this book represents an invaluable source of information for scientists, teachers and advanced students.

Ecological Genomics

Christian R. Landry,Nadia Aubin-Horth
Ecological Genomics Book PDF

Author : Christian R. Landry,Nadia Aubin-Horth
Publisher : Springer Science & Business Media
Page : 358 pages
File Size : 54,7 Mb
Release : 2013-11-25
Category : Science
ISBN : 9789400773479

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Ecological Genomics by Christian R. Landry,Nadia Aubin-Horth Pdf

Researchers in the field of ecological genomics aim to determine how a genome or a population of genomes interacts with its environment across ecological and evolutionary timescales. Ecological genomics is trans-disciplinary by nature. Ecologists have turned to genomics to be able to elucidate the mechanistic bases of the biodiversity their research tries to understand. Genomicists have turned to ecology in order to better explain the functional cellular and molecular variation they observed in their model organisms. We provide an advanced-level book that covers this recent research and proposes future development for this field. A synthesis of the field of ecological genomics emerges from this volume. Ecological Genomics covers a wide array of organisms (microbes, plants and animals) in order to be able to identify central concepts that motivate and derive from recent investigations in different branches of the tree of life. Ecological Genomics covers 3 fields of research that have most benefited from the recent technological and conceptual developments in the field of ecological genomics: the study of life-history evolution and its impact of genome architectures; the study of the genomic bases of phenotypic plasticity and the study of the genomic bases of adaptation and speciation.

The Origins of Genome Architecture

Michael Lynch
The Origins of Genome Architecture Book PDF

Author : Michael Lynch
Publisher : Sinauer
Page : 518 pages
File Size : 51,6 Mb
Release : 2007-06
Category : Medical
ISBN : UOM:49015003406510

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The Origins of Genome Architecture by Michael Lynch Pdf

The availability of genomic blueprints for hundreds of species has led to a transformation in biology, encouraging the proliferation of adaptive arguments for the evolution of genomic features. This text explains why the details matter and presents a framework for how the architectural diversity of eukaryotic genomes and genes came to arise.

Introduction to Evolutionary Genomics

Naruya Saitou
Introduction to Evolutionary Genomics Book PDF

Author : Naruya Saitou
Publisher : Springer Science & Business Media
Page : 476 pages
File Size : 51,6 Mb
Release : 2014-01-22
Category : Computers
ISBN : 9781447153047

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Introduction to Evolutionary Genomics by Naruya Saitou Pdf

This book is the first of its kind to explain the fundamentals of evolutionary genomics. The comprehensive coverage includes concise descriptions of a variety of genome organizations, a thorough discussion of the methods used, and a detailed review of genome sequence processing procedures. The opening chapters also provide the necessary basics for readers unfamiliar with evolutionary studies. Features: introduces the basics of molecular biology, DNA replication, mutation, phylogeny, neutral evolution, and natural selection; presents a brief evolutionary history of life from the primordial seas to the emergence of humans; describes the genomes of prokaryotes, eukaryotes, vertebrates, and humans; reviews methods for genome sequencing, phenotype data collection, homology searches and analysis, and phylogenetic tree and network building; discusses databases of genome sequences and related information, evolutionary distances, and population genomics; provides supplementary material at an associated website.

The Evolution of the Genome

T. Ryan Gregory
The Evolution of the Genome Book PDF

Author : T. Ryan Gregory
Publisher : Elsevier
Page : 768 pages
File Size : 49,6 Mb
Release : 2011-05-04
Category : Science
ISBN : 0080470521

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The Evolution of the Genome by T. Ryan Gregory Pdf

The Evolution of the Genome provides a much needed overview of genomic study through clear, detailed, expert-authored discussions of the key areas in genome biology. This includes the evolution of genome size, genomic parasites, gene and ancient genome duplications, polypoidy, comparative genomics, and the implications of these genome-level phenomena for evolutionary theory. In addition to reviewing the current state of knowledge of these fields in an accessible way, the various chapters also provide historical and conceptual background information, highlight the ways in which the critical questions are actually being studied, indicate some important areas for future research, and build bridges across traditional professional and taxonomic boundaries. The Evolution of the Genome will serve as a critical resource for graduate students, postdoctoral fellows, and established scientists alike who are interested in the issue of genome evolution in the broadest sense. Provides detailed, clearly written chapters authored by leading researchers in their respective fields Presents a much-needed overview of the historical and theoretical context of the various areas of genomic study Creates important links between topics in order to promote integration across subdisciplines, including descriptions of how each subject is actually studied Provides information specifically designed to be accessible to established researchers, postdoctoral fellows, and graduate students alike

Avian Genomics in Ecology and Evolution

Robert H. S. Kraus
Avian Genomics in Ecology and Evolution Book PDF

Author : Robert H. S. Kraus
Publisher : Springer
Page : 348 pages
File Size : 48,5 Mb
Release : 2019-06-29
Category : Science
ISBN : 9783030164775

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Avian Genomics in Ecology and Evolution by Robert H. S. Kraus Pdf

Birds catch the public imagination like no other group of animals; in addition, birders are perhaps the largest non-professional naturalist community. Genomics and associated bioinformatics have revolutionised daily life in just a few decades. At the same time, this development has facilitated the application of genomics technology to ecological and evolutionary studies, including biodiversity and conservation at all levels. This book reveals how the exciting toolbox of genomics offers new opportunities in all areas of avian biology. It presents contributions from prominent experts at the intersection of avian biology and genomics, and offers an ideal introduction to the world of genomics for students, biologists and bird enthusiasts alike. The book begins with a historical perspective on how genomic technology was adopted by bird ecology and evolution research groups. This led, as the book explains, to a revised understanding of avian evolution, with exciting consequences for biodiversity research as a whole. Lastly, these impacts are illustrated using seminal examples and the latest discoveries from avian biology laboratories around the world.

Genome Evolution

Axel Meyer,Yves van de Peer
Genome Evolution Book PDF

Author : Axel Meyer,Yves van de Peer
Publisher : Springer Science & Business Media
Page : 242 pages
File Size : 52,5 Mb
Release : 2011-06-28
Category : Science
ISBN : 9789401002639

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Genome Evolution by Axel Meyer,Yves van de Peer Pdf

In the years since the publication of Susumu Ohno's 1970 landmark book Evolution by gene duplication tremendous advances have been made in molecular biology and especially in genomics. Studies of genome structure and function prerequisite to testing hypotheses of genome evolution were all but impossible until recent methodological advances. This book evaluates newly generated empirical evidence as it pertains to theories of genomic evolutionary patterns and processes. Tests of hypotheses using analyses of complete genomes, interpreted in a phylogenetic context, provide evidence regarding the relative importance of gene duplication. The alternative explanation is that the evolution of regulatory elements that control the expression of and interactions among genes has been a more important force in shaping evolutionary innovation. This collection of papers will be of interest to all academic and industry researchers working in the fields of molecular biology, biotechnology, genomics and genome centers.

Ancestors in Our Genome

Eugene E. Harris (Professor)
Ancestors in Our Genome Book PDF

Author : Eugene E. Harris (Professor)
Publisher : Oxford University Press, USA
Page : 249 pages
File Size : 51,9 Mb
Release : 2015
Category : Science
ISBN : 9780199978038

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Ancestors in Our Genome by Eugene E. Harris (Professor) Pdf

Geneticist Eugene Harris presents us with the complete and up-to-date account of the evolution of the human genome.

Structural and Evolutionary Genomics

Giorgio Bernardi
Structural and Evolutionary Genomics Book PDF

Author : Giorgio Bernardi
Publisher : Elsevier
Page : 459 pages
File Size : 49,7 Mb
Release : 2005-12-19
Category : Science
ISBN : 9780080461878

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Structural and Evolutionary Genomics by Giorgio Bernardi Pdf

Structural genomics is the study of the DNA of living organisms. Evolutionary genomics is the study of the history of the genome. These subjects are closely interlinked. They are approached in this book using as a guideline the investigations carried out in the author's laboratory, relevant literature is critically reviewed and some general conclusions are presented. The author and his collaborators have studied a vast number of genomes, ranging from prokaryotes to human, using different approaches, including physical chemistry of DNA, viral integration and molecular cytogenetics. As the subtitle indicates the book discusses the fundamental importance of natural selection in shaping genomes. In terms of numbers, neutral and nearly neutral mutations represent most mutations, but a "regional" control is exerted by natural selection (essentially negative or purifying selection). A "neo-selectionist" model is proposed for genome evolution. · Summarizes the existing knowledge on genome organization and evolution in a self-contained book · Discusses important open problem, without refraining from criticism whenever appropriate

The Eukaryote Genome in Development and Evolution

John Bernard
The Eukaryote Genome in Development and Evolution Book PDF

Author : John Bernard
Publisher : Springer Science & Business Media
Page : 432 pages
File Size : 48,9 Mb
Release : 2012-12-06
Category : Science
ISBN : 9789401159913

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The Eukaryote Genome in Development and Evolution by John Bernard Pdf

'The mind unlearns with difficulty what has long been impressed upon it. ' Seneca Reductionism, is, without question, the most successful analytical approach available to the experimental scientist. With the advent of techniques for cloning and sequencing DNA, and the development of a variety of molecular probes for localizing macromolecules in cells and tissues, the biologist now has available the most powerful reductionist tools ever invented. The application of these new technologies has led to a veritable explosion of facts regarding the types and organization of nucleotide sequences present in the genomes of eukaryotes. These data offer a level of precision and predictability which is unparalleled in biology. Recombinant DNA techniques were initially developed to gather information about the structure and organization of the DNA sequences within a genome. The power and potential of these techniques, however, extend far beyond simple data collection of this kind. In an attempt to use the new technology as a basis for analyzing development and evolution, attention was first focused on the topic of gene regulation, an approach that had proven so successful in prokaryotes. It is now clear that this has not been an adequate approach. Lewin (1984) has quoted Brenner as stating 'at the beginning it was said that the answer to the understanding of development was going to come from a knowledge of the molecular mechanisms of gene control. I doubt whether anyone believes this any more.