Phylogenomic Discordance in Plant Systematics PDF Download
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Author: Stefan Wanke
Publisher: Frontiers Media SA
ISBN: 2832538991
Category : Science
Languages : en
Pages : 233
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Book Description
Phylogenetics often uncovers contradicting hypotheses regarding the relationships within the same group of organisms, a phenomenon known since the beginning of the molecular systematics era. While, historically, single marker-based analyses produced discordance, nowadays entire cellular genomes or portions of the same genomic compartment conflict with others or the rest, respectively. In contrast to the beginning of the molecular systematics era, when adding markers and taxa offered a way out of systematic errors, genome inference-based incongruences cannot be addressed and explained easily. Disagreeing phylogenomic hypotheses might originate from various evolutionary processes, including but not limited to hybridization or incomplete lineage sorting, thereby leading to gene tree-versus species tree-associated discrepancies. Today, this can be expanded to genome discordance, where phylogenomic signals of organellar genomes (plastid, mitochondrial) and the nuclear genome disagree due to intrinsically different coalescent paths or phenomena like organelle capture.
Author: Stefan Wanke
Publisher: Frontiers Media SA
ISBN: 2832538991
Category : Science
Languages : en
Pages : 233
Get Book Here
Book Description
Phylogenetics often uncovers contradicting hypotheses regarding the relationships within the same group of organisms, a phenomenon known since the beginning of the molecular systematics era. While, historically, single marker-based analyses produced discordance, nowadays entire cellular genomes or portions of the same genomic compartment conflict with others or the rest, respectively. In contrast to the beginning of the molecular systematics era, when adding markers and taxa offered a way out of systematic errors, genome inference-based incongruences cannot be addressed and explained easily. Disagreeing phylogenomic hypotheses might originate from various evolutionary processes, including but not limited to hybridization or incomplete lineage sorting, thereby leading to gene tree-versus species tree-associated discrepancies. Today, this can be expanded to genome discordance, where phylogenomic signals of organellar genomes (plastid, mitochondrial) and the nuclear genome disagree due to intrinsically different coalescent paths or phenomena like organelle capture.
Author: Walter S. Judd
Publisher: Sinauer Associates, Incorporated
ISBN:
Category : Science
Languages : en
Pages : 636
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Book Description
A comprehensive introduction to vascular plant phylogeny, the third edition of "Plant Systematics" reflects changes in the circumscription of many orders and families to represent monophyletic groups, following the most recent classification of the Angiosperm Phylogeny Group. Molecular taxonomic methods are fully presented, as are the results of many recent studies, both molecular and morphological.
Author: Gurcharan Singh
Publisher: Science Publishers
ISBN: 9781578083510
Category : Science
Languages : en
Pages : 576
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Book Description
"The book strikes a balance between classical fundamental information and the recent developments in plant systematics. Special attention has been devoted to the information on botanical nomenclature, identification and phylogeny of angiosperms with numerous relevant examples and detailed explanation of the important nomenclatural problems. An attempt has been made to present a continuity between orthodox and contemporary identification methods by working on a common example. The methods of identification using computers have been further explored to help better online identification. The chapter on cladistic methods has been totally revised, and molecular systematics discussed in considerable detail."--Jacket.
Author: Tod F. Stuessy
Publisher: Columbia University Press
ISBN: 0231518641
Category : Science
Languages : en
Pages : 566
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Book Description
The field of plant taxonomy has transformed rapidly over the past fifteen years, especially with regard to improvements in cladistic analysis and the use of new molecular data. The second edition of this popular resource reflects these far-reaching and dramatic developments with more than 3,000 new references and many new figures. Synthesizing current research and trends, Plant Taxonomy now provides the most up-to-date overview in relation to monographic, biodiversity, and evolutionary studies, and continues to be an essential resource for students and scholars. This text is divided into two parts: Part 1 explains the principles of taxonomy, including the importance of systematics, characters, concepts of categories, and different approaches to biological classification. Part 2 outlines the different types of data used in plant taxonomic studies with suggestions on their efficacy and modes of presentation and evaluation. This section also lists the equipment and financial resources required for gathering each type of data. References throughout the book illuminate the historical development of taxonomic terminology and philosophy while citations offer further study. Plant Taxonomy is also a personal story of what it means to be a practicing taxonomist and to view these activities within a meaningful conceptual framework. Tod F. Stuessy recalls the progression of his own work and shares his belief that the most creative taxonomy is done by those who have a strong conceptual grasp of their own research.
Author: E. O. Wiley
Publisher: John Wiley & Sons
ISBN: 0470905964
Category : Science
Languages : en
Pages : 444
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Book Description
The long-awaited revision of the industry standard on phylogenetics Since the publication of the first edition of this landmark volume more than twenty-five years ago, phylogenetic systematics has taken its place as the dominant paradigm of systematic biology. It has profoundly influenced the way scientists study evolution, and has seen many theoretical and technical advances as the field has continued to grow. It goes almost without saying that the next twenty-five years of phylogenetic research will prove as fascinating as the first, with many exciting developments yet to come. This new edition of Phylogenetics captures the very essence of this rapidly evolving discipline. Written for the practicing systematist and phylogeneticist, it addresses both the philosophical and technical issues of the field, as well as surveys general practices in taxonomy. Major sections of the book deal with the nature of species and higher taxa, homology and characters, trees and tree graphs, and biogeography—the purpose being to develop biologically relevant species, character, tree, and biogeographic concepts that can be applied fruitfully to phylogenetics. The book then turns its focus to phylogenetic trees, including an in-depth guide to tree-building algorithms. Additional coverage includes: Parsimony and parsimony analysis Parametric phylogenetics including maximum likelihood and Bayesian approaches Phylogenetic classification Critiques of evolutionary taxonomy, phenetics, and transformed cladistics Specimen selection, field collecting, and curating Systematic publication and the rules of nomenclature Providing a thorough synthesis of the field, this important update to Phylogenetics is essential for students and researchers in the areas of evolutionary biology, molecular evolution, genetics and evolutionary genetics, paleontology, physical anthropology, and zoology.
Author: Peter M. Hollingsworth
Publisher: CRC Press
ISBN: 9781439833278
Category : Science
Languages : en
Pages : 508
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Book Description
Molecular Systematics and Plant Evolution discusses the diversity and evolution of plants with a molecular approach. It looks at population genetics, phylogeny (history of evolution) and developmental genetics, to provide a framework from which to understand evolutionary patterns and relationships amongst plants. The international panel of contributors are all respected systematists and evolutionary biologists, who have brought together a wide range of topics from the forefront of research while keeping the text accessible to students. It has been written for senior undergraduates, postgraduates and researchers in the fields of botany, systematics, population / conservation genetics, phylogenetics and evolutionary biology.
Author: Tod F. Stuessy
Publisher:
ISBN:
Category : Science
Languages : en
Pages : 344
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Book Description
Genetics, phylogenesis, ecology.
Author: Tandy Warnow
Publisher: Springer
ISBN: 3030108376
Category : Computers
Languages : en
Pages : 410
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Book Description
This volume presents a compelling collection of state-of-the-art work in algorithmic computational biology, honoring the legacy of Professor Bernard M.E. Moret in this field. Reflecting the wide-ranging influences of Prof. Moret’s research, the coverage encompasses such areas as phylogenetic tree and network estimation, genome rearrangements, cancer phylogeny, species trees, divide-and-conquer strategies, and integer linear programming. Each self-contained chapter provides an introduction to a cutting-edge problem of particular computational and mathematical interest. Topics and features: addresses the challenges in developing accurate and efficient software for the NP-hard maximum likelihood phylogeny estimation problem; describes the inference of species trees, covering strategies to scale phylogeny estimation methods to large datasets, and the construction of taxonomic supertrees; discusses the inference of ultrametric distances from additive distance matrices, and the inference of ancestral genomes under genome rearrangement events; reviews different techniques for inferring evolutionary histories in cancer, from the use of chromosomal rearrangements to tumor phylogenetics approaches; examines problems in phylogenetic networks, including questions relating to discrete mathematics, and issues of statistical estimation; highlights how evolution can provide a framework within which to understand comparative and functional genomics; provides an introduction to Integer Linear Programming and its use in computational biology, including its use for solving the Traveling Salesman Problem. Offering an invaluable source of insights for computer scientists, applied mathematicians, and statisticians, this illuminating volume will also prove useful for graduate courses on computational biology and bioinformatics.
Author: Singh
Publisher: Oxford and IBH Publishing
ISBN: 9788120416529
Category :
Languages : en
Pages : 530
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Book Description
The book blends information on classical fundamental aspects with recent developments especially in the field of molecular systematics, cladistics and computer identifi-cation. Special attention has been given to information on botanical nomenclature, identification, molecular systematics and phylogeny of angiosperms. Contents: Taxonomy and Systematics / Historical Background of Plant Classification / Botanical Nomenclature / Descriptive Terminology / Process of Identification / Hierarchical Classification / Variation and Specification / Taxonomic Evidence / Phenetic Methods: Taxometrics / Phylogenetic Methods: Cladistics / Phylogeny of Angiosperms / Major Systems of Classification / Major Families of Angiosperms / Plant Geography / References / Index
Author: Walter S. Judd
Publisher: Sinauer Associates Incorporated
ISBN: 9780878934034
Category : Science
Languages : en
Pages : 576
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Book Description
Incorporating phylogenetic principles and methods throughout, this text moves from the careful explanation of phylogenetic methods and principles to the taxonomic survey of vascular plant families. A much expanded CD-ROM is included, containing over 2,200 colour photos illustrating the diagnostic characters of plant families covered in the text. Appropriate for any course devoted to the systematics of plants, this text assumes no prerequisites other than introductory botany or biology.
