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Ancestral Sequence Reconstruction

David A Liberles (ed.)

Published in print:
2007
Published Online:
September 2008
ISBN:
9780199299188
eISBN:
9780191714979
Item type:
book
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199299188.001.0001
Subject:
Biology, Evolutionary Biology / Genetics

Ancestral sequence reconstruction is a technique of growing importance in molecular evolutionary biology and comparative genomics. As a powerful tool for testing evolutionary and ecological ... More


Symbiomics

Jan Sapp

in Genesis: The Evolution of Biology

Published in print:
2003
Published Online:
September 2007
ISBN:
9780195156195
eISBN:
9780199790340
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780195156195.003.0019
Subject:
Biology, Evolutionary Biology / Genetics

This chapter discusses the concept of symbiosis. Although the bacteria living in our bodies have recently begun to attract some medical interest, for most of the 20th century symbiosis research had ... More


Animal phylogenetics

Alessandro Minelli

in Perspectives in Animal Phylogeny and Evolution

Published in print:
2008
Published Online:
May 2009
ISBN:
9780198566205
eISBN:
9780191713866
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198566205.003.0002
Subject:
Biology, Animal Biology, Evolutionary Biology / Genetics

The single main root of phylogenetics is Hennig's reformulation of the comparative method, but the empirical basis has increased enormously in recent years with the availability of an exponentially ... More


Ecological genomics

Jacob Höglund

in Evolutionary Conservation Genetics

Published in print:
2009
Published Online:
May 2009
ISBN:
9780199214211
eISBN:
9780191706660
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199214211.003.0007
Subject:
Biology, Biodiversity / Conservation Biology, Evolutionary Biology / Genetics

This chapter reviews advances in genomics and their applications to conservation genetics. Topics discussed include whole-genome sequencing (WGS), assembly and annotation of the massive amount of ... More


Conservation planning and priorities

Thomas Brooks

in Conservation Biology for All

Published in print:
2010
Published Online:
February 2010
ISBN:
9780199554232
eISBN:
9780191720666
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199554232.003.0012
Subject:
Biology, Ecology, Biodiversity / Conservation Biology

In this chapter, Thomas Brooks charts the history, state, and prospects of conservation planning and prioritization in terrestrial and aquatic habitats. Conservation planning and prioritization are ... More


Phylogenetics

John E. Lattke

in A Taxonomic Revision and Phylogenetic Analysis of the Ant Genus Gnamptogenys Roger in Southeast Asia and Australasia (Hymenoptera: Formicidae: Ponerinae)

Published in print:
2004
Published Online:
March 2012
ISBN:
9780520098442
eISBN:
9780520916043
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520098442.003.0003
Subject:
Biology, Animal Biology

Analysis of the phylogenetics of Gnamptogenys Roger produced two most parsimonious trees. Successive weighting selected one of the two trees of the same length and topology. The alternate topology ... More


Bayesian methods

ZIHENG YANG

in Computational Molecular Evolution

Published in print:
2006
Published Online:
April 2010
ISBN:
9780198567028
eISBN:
9780191728280
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198567028.003.0005
Subject:
Biology, Evolutionary Biology / Genetics

This chapter provides a brief introduction to the theory and computation of Bayesian statistics and its applications to molecular evolution. It uses simple examples, such as distance estimation under ... More


Molecular Evolution: A Statistical Approach

Ziheng Yang

Published in print:
2014
Published Online:
August 2014
ISBN:
9780199602605
eISBN:
9780191782251
Item type:
book
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199602605.001.0001
Subject:
Biology, Biomathematics / Statistics and Data Analysis / Complexity Studies, Evolutionary Biology / Genetics

This book summarizes the statistical models and computational algorithms for comparative analysis of genetic sequence data in the fields of molecular evolution, molecular phylogenetics, and ... More


A Critique of Experimental Phylogenetics

Todd H. Oakley

in Experimental Evolution: Concepts, Methods, and Applications of Selection Experiments

Published in print:
2009
Published Online:
March 2012
ISBN:
9780520247666
eISBN:
9780520944473
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520247666.003.0021
Subject:
Biology, Evolutionary Biology / Genetics

This chapter discusses the reasons why phylogenetics has barely grown since its inception, and reviews three primary arguments used to justify experimental phylogenetics. It first rejects the ... More


An Entangled Bank: Evolutionary Relationships and Ecological Patterns

Marc W. Cadotte and T. Jonathan Davies

in Phylogenies in Ecology: A Guide to Concepts and Methods

Published in print:
2016
Published Online:
January 2018
ISBN:
9780691157689
eISBN:
9781400881192
Item type:
chapter
Publisher:
Princeton University Press
DOI:
10.23943/princeton/9780691157689.003.0001
Subject:
Biology, Ecology

This chapter reviews the history of the use of phylogenetics in ecology, beginning with a discussion of early attempts to classify the diversity of life and the development of evolutionary theory. In ... More


Phylogenetic, ontogenetic, and functional development of the cerebral cortex

O.D. Creutzfeldt

in Cortex Cerebri: Performance, Structural and Functional Organisation of the Cortex

Published in print:
1995
Published Online:
March 2012
ISBN:
9780198523246
eISBN:
9780191724510
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198523246.003.0002
Subject:
Neuroscience, Molecular and Cellular Systems

All vertebrates have a structure corresponding to a cerebral cortex. It covers the subcortical regions of the telencephalon, hence the term pallidum cerebri. In reptiles and fish the homologue of the ... More


Signs, gestures, and signs

William C. Stokoe and Marc Marschark

in Gesture, Speech, and Sign

Published in print:
1999
Published Online:
March 2012
ISBN:
9780198524519
eISBN:
9780191689215
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780198524519.003.0009
Subject:
Psychology, Cognitive Psychology

This chapter intends to clear up several sources of confusion that have — or should have — surfaced at various points in this book about the relations among signs, gesture, and language. The chapter ... More


How Can We Reconstruct Evolutionary History?

Michel Laurin

in How Vertebrates Left the Water

Published in print:
2010
Published Online:
March 2012
ISBN:
9780520266476
eISBN:
9780520947986
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520266476.003.0001
Subject:
Biology, Evolutionary Biology / Genetics

This chapter attempts to reconstruct evolutionary history. Inferring phylogenetic relationships between taxa and character evolution requires relatively sophisticated methods. The chapter describes ... More


Not So Fast: A New Take on the Great American Biotic Interchange

Prosanta Chakrabarty and James S. Albert

in Historical Biogeography of Neotropical Freshwater Fishes

Published in print:
2011
Published Online:
March 2012
ISBN:
9780520268685
eISBN:
9780520948501
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520268685.003.0018
Subject:
Biology, Aquatic Biology

This chapter reviews evidence from research on the phylogenetics and phylogeography of Central American freshwater fishes, particularly in the Isthmus of Panama. It aims to address the question of ... More


Phylogenetic Patterns of Endemism and Diversity

Brian L. Anacker

in Serpentine: The Evolution and Ecology of a Model System

Published in print:
2011
Published Online:
March 2012
ISBN:
9780520268357
eISBN:
9780520948457
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520268357.003.0003
Subject:
Biology, Plant Sciences and Forestry

This chapter assesses how often and in which plant lineages serpentine endemism arose, and the corresponding levels of extant taxonomic and phylogenetic diversity, reviewing recent work on ... More


Molluscan Evolutionary Development

Andreas Wanninger, Demien Koop, Sharon Moshel-Lynch, and Bernard M. Degnan

in Phylogeny and Evolution of the Mollusca

Published in print:
2008
Published Online:
March 2012
ISBN:
9780520250925
eISBN:
9780520933705
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520250925.003.0016
Subject:
Biology, Animal Biology

This chapter explores evolutionary development studies of the molluscans. It reviews recent contributions of developmental studies to the understanding of the evolution of the diversity of molluscan ... More


Materials and Methods

John E. Lattke

in A Taxonomic Revision and Phylogenetic Analysis of the Ant Genus Gnamptogenys Roger in Southeast Asia and Australasia (Hymenoptera: Formicidae: Ponerinae)

Published in print:
2004
Published Online:
March 2012
ISBN:
9780520098442
eISBN:
9780520916043
Item type:
chapter
Publisher:
University of California Press
DOI:
10.1525/california/9780520098442.003.0002
Subject:
Biology, Animal Biology

Specimens of Gnamptogenys Roger were examined or deposited in various collections, including the American Museum of Natural History (New York, New York); the Australian National Insect Collection, ... More


The Evolution of Agonism: The Triumph of Restraint in Nonhuman and Human Primates

Douglas P. Fry and Anna Szala

in War, Peace, and Human Nature: The Convergence of Evolutionary and Cultural Views

Published in print:
2013
Published Online:
May 2013
ISBN:
9780199858996
eISBN:
9780199332687
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199858996.003.0023
Subject:
Psychology, Evolutionary Psychology

This chapter adopts an evolutionary perspective, placing human aggression in a phylogenetic context by considering the patterns of agonism not only in humans (focusing primarily on nomadic band ... More


Comparing genomes

Nico M. van Straalen and Dick Roelofs

in An Introduction to Ecological Genomics

Published in print:
2011
Published Online:
December 2013
ISBN:
9780199594689
eISBN:
9780191774812
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199594689.003.0042
Subject:
Biology, Ecology

The first part of this chapter gives an overview of the processes that influence dynamics of genome size, genome duplication, and the analysis of gene families using orthologous and paralogous ... More


Biogeography and Phylogenetic Community Structure of Soil Invertebrate Ecosystem Engineers: Global to Local Patterns, Implications for Ecosystem Functioning and Services and Global Environmental Change Impacts

Lijbert Brussaard, Duur K. Aanen, Maria J.I. Briones, Thibaud Decaëns, Gerlinde B. De Deyn, Tom M. Fayle, Samuel W. James, and Tânia Nobre

in Soil Ecology and Ecosystem Services

Published in print:
2012
Published Online:
December 2013
ISBN:
9780199575923
eISBN:
9780191774843
Item type:
chapter
Publisher:
Oxford University Press
DOI:
10.1093/acprof:oso/9780199575923.003.0018
Subject:
Biology, Ecology

This chapter assesses the global-to-local scale geographical patterns of the diversity of soil invertebrate ecosystem engineers, beginning with an account of macroecological patterns in soil ... More


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