Sequencing and Analysis of 10967 Full-length CDNA Clones from Xenopus Laevis and Xenopus Tropicalis PDF Download
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Author:
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Category :
Languages : en
Pages : 31
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Book Description
Sequencing of full-insert clones from full-length cDNA libraries from both Xenopus laevis and Xenopus tropicalis has been ongoing as part of the Xenopus Gene Collection initiative. Here we present an analysis of 10967 clones (8049 from X. laevis and 2918 from X. tropicalis). The clone set contains 2013 orthologs between X. laevis and X. tropicalis as well as 1795 paralog pairs within X. laevis. 1199 are in-paralogs, believed to have resulted from an allotetraploidization event approximately 30 million years ago, and the remaining 546 are likely out-paralogs that have resulted from more ancient gene duplications, prior to the divergence between the two species. We do not detect any evidence for positive selection by the Yang and Nielsen maximum likelihood method of approximating d{sub N}/d{sub S}. However, d{sub N}/d{sub S} for X. laevis in-paralogs is elevated relative to X. tropicalis orthologs. This difference is highly significant, and indicates an overall relaxation of selective pressures on duplicated gene pairs. Within both groups of paralogs, we found evidence of subfunctionalization, manifested as differential expression of paralogous genes among tissues, as measured by EST information from public resources. We have observed, as expected, a higher instance of subfunctionalization in out-paralogs relative to in-paralogs.
Author:
Publisher:
ISBN:
Category :
Languages : en
Pages : 31
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Book Description
Sequencing of full-insert clones from full-length cDNA libraries from both Xenopus laevis and Xenopus tropicalis has been ongoing as part of the Xenopus Gene Collection initiative. Here we present an analysis of 10967 clones (8049 from X. laevis and 2918 from X. tropicalis). The clone set contains 2013 orthologs between X. laevis and X. tropicalis as well as 1795 paralog pairs within X. laevis. 1199 are in-paralogs, believed to have resulted from an allotetraploidization event approximately 30 million years ago, and the remaining 546 are likely out-paralogs that have resulted from more ancient gene duplications, prior to the divergence between the two species. We do not detect any evidence for positive selection by the Yang and Nielsen maximum likelihood method of approximating d{sub N}/d{sub S}. However, d{sub N}/d{sub S} for X. laevis in-paralogs is elevated relative to X. tropicalis orthologs. This difference is highly significant, and indicates an overall relaxation of selective pressures on duplicated gene pairs. Within both groups of paralogs, we found evidence of subfunctionalization, manifested as differential expression of paralogous genes among tissues, as measured by EST information from public resources. We have observed, as expected, a higher instance of subfunctionalization in out-paralogs relative to in-paralogs.
Author: Gang Chen
Publisher:
ISBN:
Category : Developmental genetics
Languages : en
Pages : 306
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Author: Katharina Dittmar
Publisher: John Wiley & Sons
ISBN: 1118148096
Category : Science
Languages : en
Pages : 350
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Book Description
Gene duplication has long been believed to have played a major role in the rise of biological novelty through evolution of new function and gene expression patterns. The first book to examine gene duplication across all levels of biological organization, Evolution after Gene Duplication presents a comprehensive picture of the mechanistic process by which gene duplication may have played a role in generating biodiversity. Key Features: Explores comparative genomics, genome evolution studies and analysis of multi-gene families such as Hox, globins, olfactory receptors and MHC (immune system) A complete post-genome treatment of the topic originally covered by Ohno's 1970 classic, this volume extends coverage to include the fate of associated regulatory pathways Taps the significant increase in multi-gene family data that has resulted from comparative genomics Comprehensive coverage that includes opposing theoretical viewpoints, comparative genomics data, theoretical and empirical evidence and the role of bioinformatics in the study of gene duplication This up-to-date overview of theory and mathematical models along with practical examples is suitable for scientists across various levels of biology as well as instructors and graduate students.
Author: Pamela S. Soltis
Publisher: Springer Science & Business Media
ISBN: 3642314422
Category : Science
Languages : en
Pages : 417
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Book Description
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.
Author: John Noel Griffin
Publisher: Frontiers Media SA
ISBN: 2889638448
Category :
Languages : en
Pages : 209
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Book Description
Author: Jean-Nicolas Volff
Publisher: Karger Medical and Scientific Publishers
ISBN: 3805584911
Category : Medical
Languages : en
Pages : 155
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Book Description
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.
Author: Paul Denny
Publisher: Springer Science & Business Media
ISBN: 3642313167
Category : Science
Languages : en
Pages : 270
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Book Description
Mapping of animal genomes has generated huge databases and several new concepts and strategies, which are useful to elucidate origin, evolution and phylogeny. Genetic and physical maps of genomes further provide precise details on chromosomal location, function, expression and regulation of academically and economically important genes. The series Genome Mapping and Genomics in Animals provides comprehensive and up-to-date reviews on genomic research on a large variety of selected animal systems, contributed by leading scientists from around the world. Laboratory animals are those species that by accident of evolution, domestication and selective breeding are amenable to maintenance and study in a laboratory environment. Many of these species are studied as 'models' for the biology and pathology of humans. Laboratory animals included in this volume are sea-urchin, nematode worm, fruit fly, sea squirts, puffer fishes, medaka fish, African clawed frog, mouse and rat.
Author:
Publisher:
ISBN:
Category : Genetics
Languages : en
Pages : 910
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Author: Bruce Turner
Publisher: Springer Science & Business Media
ISBN: 1468446525
Category : Science
Languages : en
Pages : 651
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Book Description
It is my hope that this collection of reviews can be profitably read by all who are interested in evolutionary biology. However, I would like to specifically target it for two disparate groups of biologists seldom men tioned in the same sentence, classical ichthyologists and molecular biologists. Since classical times, and perhaps even before, ichthyologists have stood in awe at the tremendous diversity of fishes. The bulk of effort in the field has always been directed toward understanding this diversity, i. e. , extracting from it a coherent picture of evolutionary processes and lineages. This effort has, in turn, always been overwhelmingly based upon morphological comparisons. The practical advantages of such compari sons, especially the ease with which morphological data can be had from preserved museum specimens, are manifold. But considered objectively (outside its context of "tradition"), morphological analysis alone is a poor tool for probing evolutionary processes or elucidating relationships. The concepts of "relationship" and of "evolution" are inherently genetic ones, and the genetic bases of morphological traits are seldom known in detail and frequently unknown entirely. Earlier in this century, several workers, notably Gordon, Kosswig, Schmidt, and, in his salad years, Carl Hubbs, pioneered the application of genetic techniques and modes of reasoning to ichthyology. While certain that most contemporary ichth yologists are familiar with this body of work, I am almost equally certain that few of them regard it as pertinent to their own efforts.
Author: Pamela Soltis
Publisher: Springer Science & Business Media
ISBN: 3642314414
Category : Science
Languages : en
Pages : 416
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Book Description
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.
