Modern Phylogenetic Comparative Methods and Their Application in Evolutionary Biology


Book Description

Phylogenetic comparative approaches are powerful analytical tools for making evolutionary inferences from interspecific data and phylogenies. The phylogenetic toolkit available to evolutionary biologists is currently growing at an incredible speed, but most methodological papers are published in the specialized statistical literature and many are incomprehensible for the user community. This textbook provides an overview of several newly developed phylogenetic comparative methods that allow to investigate a broad array of questions on how phenotypic characters evolve along the branches of phylogeny and how such mechanisms shape complex animal communities and interspecific interactions. The individual chapters were written by the leading experts in the field and using a language that is accessible for practicing evolutionary biologists. The authors carefully explain the philosophy behind different methodologies and provide pointers – mostly using a dynamically developing online interface – on how these methods can be implemented in practice. These “conceptual” and “practical” materials are essential for expanding the qualification of both students and scientists, but also offer a valuable resource for educators. Another value of the book are the accompanying online resources (available at: http://www.mpcm-evolution.com), where the authors post and permanently update practical materials to help embed methods into practice.




The Comparative Approach in Evolutionary Anthropology and Biology


Book Description

And when new fossils are found, such as those of the tiny humans of Flores, scientists compare these remains to other fossils and contemporary humans.




Phylogenetic Comparative Methods in R


Book Description

An authoritative introduction to the latest comparative methods in evolutionary biology Phylogenetic comparative methods are a suite of statistical approaches that enable biologists to analyze and better understand the evolutionary tree of life, and shed vital new light on patterns of divergence and common ancestry among all species on Earth. This textbook shows how to carry out phylogenetic comparative analyses in the R statistical computing environment. Liam Revell and Luke Harmon provide an incisive conceptual overview of each method along with worked examples using real data and challenge problems that encourage students to learn by doing. By working through this book, students will gain a solid foundation in these methods and develop the skills they need to interpret patterns in the tree of life. Covers every major method of modern phylogenetic comparative analysis in R Explains the basics of R and discusses topics such as trait evolution, diversification, trait-dependent diversification, biogeography, and visualization Features a wealth of exercises and challenge problems Serves as an invaluable resource for students and researchers, with applications in ecology, evolution, anthropology, disease transmission, conservation biology, and a host of other areas Written by two of today’s leading developers of phylogenetic comparative methods







Analysis of Phylogenetics and Evolution with R


Book Description

This book integrates a wide variety of data analysis methods into a single and flexible interface: the R language. The book starts with a presentation of different R packages and gives a short introduction to R for phylogeneticists unfamiliar with this language. The basic phylogenetic topics are covered. The chapter on tree drawing uses R's powerful graphical environment. A section deals with the analysis of diversification with phylogenies, one of the author's favorite research topics. The last chapter is devoted to the development of phylogenetic methods with R and interfaces with other languages (C and C++). Some exercises conclude these chapters.




The Oxford Handbook of Comparative Evolutionary Psychology


Book Description

This volume brings together leading experts in comparative and evolutionary psychology. Top scholars summarize the histories and possible futures of their disciplines, and the contribution of each to illuminating the evolutionary forces that give rise to unique abilities in distantly and closely related species.




Sequence — Evolution — Function


Book Description

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.




Phylogeny, Ecology, and Behavior


Book Description

"The merits of this work are many. A rigorous integration of phylogenetic hypotheses into studies of adaptation, adaptive radiation, and coevolution is absolutely necessary and can change dramatically our collective 'gestalt' about much in evolutionary biology. The authors advance and illustrate this thesis beautifully. The writing is often lucid, the examples are plentiful and diverse, and the juxtaposition of examples from different biological systems argues forcefully for the validity of the thesis. Many new insights are offered here, and the work is usually accessible to both the practiced phylogeneticist and the naive ecologist."—Joseph Travis, Florida State University "[Phylogeny, Ecology, and Behavior] presents its arguments forcefully and cogently, with ample . . .support. Brooks and McLennan conclude as they began, with the comment that evolution is a result, not a process, and that it is the result of an interaction of a variety of processes, environmental and historical. Evolutionary explanations must consider all these components, else they are incomplete. As Darwin's explanations of descent with modification integrated genealogical and ecological information, so must workers now incorporate historical and nonhistorical, and biological and nonbiological, processes in their evolutionary perspective."—Marvalee H. Wake, Bioscience "This book is well-written and thought-provoking, and should be read by those of us who do not routinely turn to phylogenetic analysis when investigating adaptation, evolutionary ecology and co-evolution."—Mark R. MacNair, Journal of Natural History




Hyman's Comparative Vertebrate Anatomy


Book Description

The purpose of this book, now in its third edition, is to introduce the morphology of vertebrates in a context that emphasizes a comparison of structire and of the function of structural units. The comparative method involves the analysis of the history of structure in both developmental and evolutionary frameworks. The nature of adaptation is the key to this analysis. Adaptation of a species to its environment, as revealed by its structure, function, and reproductive success, is the product of mutation and natural selection–the process of evolution. The evolution of structure and function, then, is the theme of this book which presents, system by system, the evolution of structure and function of vertebrates. Each chapter presents the major evolutionary trends of an organ system, with instructions for laboratory exploration of these trends included so the student can integrate concept with example.




Comparative Primate Socioecology


Book Description

Methodologies as applied to recent primate research that will provide new approaches to comparative research.