American Museum of Natural History, New York, NY. Introduces the reader to the theoretical and controversial aspects of molecular techniques in systematics and evolutionary biology. For researchers and students.

List of contributors

vii

General introduction

ix

Part 1. Evolutionary analysis at different levels

Introduction to part 1

3

(2)

Cladistics, populations and species in geographical space: the case of Heliconius butterflies

5

(12)

Andrew V.Z. Brower

Species to genera: phylogenetic inference in the Hawaiian Drosophilidae

17

(14)

Patrick M. O'Grady

Higher-level systematic analysis of birds: current problems and possible solutions

31

(14)

Scott E. Stanley

Joel L. Cracraft

Relative quality of different systematic datasets for cetartiodactyI mammals: assessments within a combined analysis framework

45

(24)

John Gatesy

Phylogeny of the holometabolous insect orders based on 18S ribosomal DNA: when bad things happen to good data

69

(16)

Michael F. Whiting

Relationships among metazoan phyla as inferred from 18S rRNA sequence data: a methodological approach

85

(22)

Gonzalo Giribet

Part 2. Current problems in molecular systematics

Introduction to part 2

105

(2)

DNA multiple sequence alignments

107

(8)

Gonzalo Giribet

Ward C. Wheeler

Jyrki Muona

Theory and practice of parallel direct optimization

115

(10)

Daniel A. Janies

Ward C. Wheeler

Some statistical aspects of the maximum parsimony method

125

(16)

Mike Steel

`Pluralism' and the aims of phylogenetic research

141

(6)

Gonzalo Giribet

Rob DeSalle

Ward C. Wheeler

Molecular Systematics and the origin of species: new syntheses or methodological introgressions?

147

(16)

Paul Z. Goldstein

Andrew V.Z. Brower

Is morphology still relevant?

163

(12)

Richard H. Baker

John Gatesy

Development, homology and systematics

175

(16)

Ranhy Bang

Ted R. Schultz

Rob DeSalle

Part 3. New approaches to molecular evolution

Introduction to part 3

189

(2)

Gene family phylogenetics: Tracing protein evolution on trees

191

(18)

Joe Thornton

Evolution of spider silk proteins: insight from phylogenetic analyses

209

(16)

Cheryl Y. Hayashi

Comparative methods and evolution

225

(12)

Alfried P. Vogler

Andy Purvis

The use of physiological data to corroborate cospeciation events in symbiosis

237

(10)

Michele K. Nishiguchi

Reexamining microbial evolution through the lens of horizontal transfer

247

(24)

Paul J. Planet

References

271

(34)

Subject index

305

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