Evolutionary Biology – serie

Evolutionary Biology celebrates its Quarter-Century Anniversary! 'Evolutionary Biology occupies a unique and valuable place in the evolutionary literature...The editors are to be congratulated on their continuing ability to attract interesting articles.' --- The Journal of Evolutionary Biology

This latest volume continues the series' focus on critical reviews, commentaries, original papers, and controversies in the field of evolutionary biology.

The current volume includes articles on the conceptual relationship of ontogeny, phylogeny, and classification; correlation studies of spatial patterns of genetic variation; and the evolution of flower display and reward. about a previous volume: 'Excellent; we should all press for its maintenance in our institution's libraries.' Biologist

From reviews of the series: 'Evolutionary Biology occupies a unique and valuable place in the evolutionary literature...The editors are to be congratulated on their continuing ability to attract interesting articles.'--The Journal of Evolutionary Biology 'The scope of Evolutionary Biology is vast...This series is...excellent; we should all press for its maintenance in our institutions, libraries.'--Biologist

After volume 33, this book series was replaced by the journal "Evolutionary Biology." Please visit www.springer.com/11692 for further information.In Volume 29, internationally acclaimed researchers address a broad range of topics including the organization of eukaryotic genes, evolution of Drosophila mating systems, and evolutionary-developmental approaches to fin/limb transformation.

After volume 33, this book series was replaced by the journal "Evolutionary Biology." Please visit www.springer.com/11692 for further information. Volume 30 brings readers up to date on the investigation of eminent evolutionary biologists and paleobiologists. Contributions explore such topics as * Adaptation in Drosophila and the role of cytochrome P450s * Population genetics and species conservation of the cheetah * germ-layer theory * assymetry in the mammalian skeleton * genetic diversity of marine fish * the phenomenon of industrial melanism * the variation in lizard cranal kinesis.Other chapters focus on such issues as overdominance and its relation to higher mutation-rate estimates and the use of molecular clocks in determining the rate of nucleotide substitution in higher plants.

After volume 33, this book series was replaced by the journal "Evolutionary Biology." This volume continues bringing to readers the findings of eminent evolutionary biologists and paleobiologists. Among the topics discussed in this book are the origin of the dermal skeleton in conodont chordates, patterns of nucleotide substitution and codon usage in plasmid DNA evolution, a model to explain phenotype stability in functional systems, and inter-island speciation of Hawaiian biota.

The nature of science is to work on the boundaries between the known and the unknown. These boundaries shift as new methods are developed and as new concepts are elaborated (e.g., the theory of the gene, or more recently, the coalescence framework in population genetics). These tools allow us to address questions that were previously outside the realm of science, and, as a consequence, the boundary between the knowable and unknowable has shifted. A study of limits should reveal and clarify the boundaries and make sharper the set of questions. This book examines and analyzes these new limits as they are applied to evolutionary biology and population genetics. It does this by framing the analysis within four major classes of problems: establishing the fact of evolution; understanding the evolutionary pathways that led to today's biological world; mechanisms of evolutionary change (e.g., models of social behavior, sexual selection, macro evolution); and, finally, prediction.

This volume is the 33rd in this series, which includes 32 numbered volumes and an unnumbered supplement. Several special volumes have also been published as separate monographs. This volume, like the others in the series, has chapters devoted to a broad spectrum of topics. Indeed, the editors continue to solicit manuscripts on subjects covered by the encompassing rubric of Evolutionary Biology. `Volume 33 continues the grand tradition of Evolutionary Biology in being the most comprehensive series in the field. The chapters are always up-to-date, informative, and stimulating; sometimes infuriating. Just what good scientific literature should be Particularly attractive is the free-wheeling spirit of the series: no style or length is imposed. If you want to remain cognizant of contemporary evolutionary advances in general and have time to read only one volume a year outside your own specialty, make it Evolutionary Biology.' Jeffrey R. Powell, Ph.D., Yale University.

After volume 33, this book series was replaced by the journal "Evolutionary Biology." Please visit www.springer.com/11692 for further information. This volume is the 33rd in this series, which includes 32 numbered volumes and an unnumbered supplement. Several special volumes have also been published as separate monographs. This volume, like the others in the series, has chapters devoted to a broad spectrum of topics. Indeed, the editors continue to solicit manuscripts on subjects covered by the encompassing rubric of Evolutionary Biology. "Volume 33 continues the grand tradition of Evolutionary Biology in being the most comprehensive series in the field. The chapters are always up-to-date, informative, and stimulating; sometimes infuriating. Just what good scientific literature should be! Particularly attractive is the free-wheeling spirit of the series: no style or length is imposed. If you want to remain cognizant of contemporary evolutionary advances in general and have time to read only one volume a year outside your own specialty, make it Evolutionary Biology." (Jeffrey R. Powell, Ph.D., Yale University)

Evolutionary Biology, of which this is the twenty-second volume, continues to offer its readers a wide range of original articles, reviews, and commentaries on evolution, in the broadest sense of that term. The topics of the reviews range from anthropology, molecular evolution, and paleobiology to principles of systematics. In recent volumes, a broad spectrum of articles have appeared on such subjects as asymmetric sexual isolation, biochemical systematics in plants, species selection, DNA hybridization and phylogenetics, modes of evolution in Pleistocene rodents, and development and evolution of the vertebrate limb. We have also attempted to provide a forum for con­ flicting ideas. Articles such as these, often too long for standard journals, are the material for Evolutionary Biology. The editors continue to solicit manuscripts on an international scale in an effort to see that everyone ofthe many facets of biological evolution is covered. Manuscripts should be sent to anyone of the following: Max K. Hecht, Department of Biology, Queens College of the City University of New York, Flushing, New York 11367; Bruce Wallace, Department of Biology, Virginia Polytechnic Institute and State University, Blacks­ burg, Virginia 24061; GhilleanT. Prance, New York Botanical Garden, Bronx, New York 10458. The Editors vii Contents 1. Phylogeny of Early Vertebrate Skeletal Induction and Ossification Patterns ....................................... 1 John G. Maisey Introduction: The Fossil Record.. .. .. ...... .. .. .. .. .. .. .. .. .. .. .. .. 1 ..

Evolutionary Biology,ofwhichthisisthetwenty-thirdvolume,continues toofferitsreadersawiderangeoforiginalarticles,reviews,andcom- mentariesonevolution,inthebroadestsenseofthatterm. Thetopicsof thereviewsrangefromanthropology,molecularevolution,andpaleo- biologytoprinciplesofsystematics. Inrecentvolumes,abroadspectrumofarticleshaveappearedon suchsubjectsasbiochemicalsystematics,comparativemorphologyand embryology,evolutionaryecology,biogeography,andpaleobiology. We havealsoattemptedtoprovideaforumforconflictingideas. Articlessuch asthese,oftentoolongforstandardjournals,arethematerialfor Evo- lutionary Biology. Theeditorscontinuetosolicitmanuscriptsonaninternationalscale inanefforttoseethateveryoneofthemanyfacetsofbiologicalevolution iscovered. Manuscriptsshouldbesenttoeitherofthefollowing:Max K. Hecht,DepartmentofBiology,QueensCollegeoftheCityUniversity ofNewYork,Flushing,NewYork11367,orBruceWallace,Department ofBiology,VirginiaPolytechnicInstituteandStateUniversity,Blacks- burg,Virginia24061. TheeditorswishtocongratulateDr. GhilleanT. Pranceonhisnew appointmentatKewBotanicalGardensandthankhimforhiscollabo- rativeeffortsineditingthepastninevolumes. TheEditors vII Contents 1.MaintenanceofaHereditaryVirus:TheSigmaVirusin PopulationsofItsHost, Drosophila melanogaster 1 Annie Fleuriet Introduction 1 FrenchPopulationsof Drosophila melanogaster...2 PolymorphismofPopulations 2 CharacteristicsofWildStrainsoftheSigmaVirus 3 EffectsoftheInfectionuponCarriers...7 ExperimentalPopulations...9 MaintenanceoftheVirusinFrenchNaturalPopulations...12 GeographicalVariationofthe Drosophila-SigmaSystem 14 PolymorphismofPopulations 14 ViralCharacteristics...17 TentativeInterpretationoftheGeographicalPatternObserved 18 OtherSystemsofVerticallyTransmittedViruses 22 ExistenceofDifferentSensitivitiestotheVirus 22 CharacteristicsoftheViruses...23 MaintenanceintheVectorPopulation 24 Appendix:TransmissionofStabilizedandNonstabilized Conditions...26 Self-MaintenanceofStabilizedConditionthroughMaternal Lineage...26 NonstabilizedCondition ...27 References 28 2. Domestication:EvolutionaryChangeunderStress 31 M. J. Kohane and P. A. Parsons Introduction 31 EnvironmentalChangeandDomestication 33 Ix x Contents EcologicalPhenotypes 33 BehavioralPhenotypes...36 AdaptationtoLaboratoryConditions...37 ACaseStudy:DomesticationinFoxes 41 Discussion...43 Summary...45 References 46 3.RangeExpansionandItsGeneticConsequencesinPopulationsof theGiantToad, Bufo marinus...49 Simon Easteal Introduction 49 TheSpreadof Bufo marinus 50 TheIntroductions...50 TheAustralianRangeExpansion 52 GeneticVariationintheIntroducedPopulations...58 TheData...58 GeneticVariability...58 EffectivePopulationSize 62 Dispersal,GeneFlow,andNeighborhoodSize 63 TheGeneticEffectsofRangeExpansion 64 GeographicalPatternsofVariation 74 Conclusion 81 References 82 4. EvolutionbySocialSelection...85 Shozo Yokoyama Introduction 85 ConceptofSocialSelection...86 EvidenceforSocialSelection;...88 MultipleNeurofibromatosis 88 HuntingtonDisease 89 MentalRetardation...90 Schizophrenia 91 SocialSelectionModels...91 AutosomalGenes...92 Contents xl X-LinkedGenes...103 RandomGeneticDriftandVariableSelectionIntensity...112 MaternalEffects 115 DNAPolymorphismandSocialSelection...117 Discussion...118 Summary...121 References 122 5. TheInfluenceofTaxonomicMethodonthePerceptionofPatterns ofEvolution...-...127 Andrew B. Smith and Colin Patterson Introduction 127 TheNatureofTaxa...129 WhyNonmonophyleticGroupsAreNotRealTaxa 131 ParaphyleticTaxaasNaturalAdaptivelyUnifiedGroups., 131 NonmonophyleticGroupsasValidSamplesof Species-LevelProcesses...132 TheRedQueenHypothesis 134 TaxonDurationIsProportionaltotheNumberofSpecies IncludedintheTaxon 135 TaxonomicExtinctionsunderConsiderationAreLargely Artefactual 139 TheRedQueenasSystematist:TheProbabilityThata TaxonomistWillSplitaGroupIsInverselyProportional totheNumberofSpeciesinThatGroup 142 DecreaseinExtinctionRatethroughTime 142 PeriodicityofExtinction 143 GenericDataandLagerstatten 147 SpeciesDiversity 148 WhatDoFossilSpeciesSample? 152 AnalysisofGaps 153 Summary...

This volume is the twenty-ninth in this series, which includes twenty-eight numbered volumes and one unnumbered supplement. The editors continue to focus on critical reviews, commentaries, original papers, and controversies in of the reviews range from anthropology to evolutionary biology. The topics molecular evolution, population biology to paleobiology. Recent volumes have included a broad spectrum of chapters on such subjects as population biology, comparative morphology, paleobiology, molecular phy­ logenetics, developmental evolutionary biology, systematics, and the history of evolutionary biology. The editors continue to solicit manuscripts in all areas of evolutionary biology. Manuscripts should be sent to anyone of the following: Max K. Hecht, Department of Biology, Queens College of the City University of New York, Flushing, New York 11367; Ross 1. MacIntyre, Department of Genetics and Development, Cornell University, Ithaca, New York 14853; or Michael T. Clegg, Department of Botany and Plant Sciences, University of California, Riverside, California 92521. vii Contents 1. Homology and Embryonic Development Brian K. Hall Introduction .............................................. 1 A Brief History of the Concept of Homology ................. 1 von Baer's Laws ........................................ 4 Germ Layers and Ernst Haeckel ............................ 6 Embryology and Homology ............................... 7 Homology: An Unsolved Problem ............................ 8 Latent Homology ........................................ 8 Serial Homology ........................................ 9 Common Origins and Common Inductions ..................... 12 Mechanisms of Gastrulation ............................... 13 Origin of the Alimentary Canal............................ 14 Origin of Germ Cells . . . . . . . . . . . . . . . . . . . . . . . . . . . 14 . . . . . . . . . . Induction of Meckel's Cartilage ............................ 15 Induction of the Lens of the Eye ........................... 16 Development of Internal and External Cheek Pouches .......... 18 Selection for Increased Tail Length in Mice .................. 19 Regeneration and Homology .... . . . . . . . . . . . . . . . . . . . . 20 . . . . . . .

After volume 33, this book series was replaced by the journal "Evolutionary Biology." Please visit www.springer.com/11692 for further information.The current volume includes articles on the conceptual relationship of ontogeny, phylogeny, and classification; correlation studies of spatial patterns of genetic variation; and the evolution of flower display and reward.

After volume 33, this book series was replaced by the journal "Evolutionary Biology." Please visit www.springer.com/11692 for further information.This latest volume continues the series' focus on critical reviews, commentaries, original papers, and controversies in the field of evolutionary biology.

These boundaries shift as new methods are developed and as new concepts are elaborated (e.g., the theory of the gene, or more recently, the coalescence framework in population genetics). This book examines and analyzes these new limits as they are applied to evolutionary biology and population genetics.

After volume 33, this book series was replaced by the journal "Evolutionary Biology." Please visit www.springer.com/11692 for further information. This volume continues bringing to readers the findings of eminent evolutionary biologists and paleobiologists. Among the topics discussed in this book are the origin of the dermal skeleton in conodont chordates, patterns of nucleotide substitution and codon usage in plasmid DNA evolution, a model to explain phenotype stability in functional systems, and inter-island speciation of Hawaiian biota.

The first volume of Evolutionary Bio/ogy was published eleven years ago. Since that time eleven volumes and one supplement have appeared. As stated in earlier prefaces, we are continuing the focus of this series on critical reviews, commentaries, original papers, and controversies in evolu­ tionary biology. lt is our aim to publish papers primarily of greater length than normally published by society journals and quarterlies. We therefore invite colleagues to submit chapters that fall within the focus and standards of Evolutionary Bio/ogy. The Editors vii Contents 1. Precambrian Evolution of Photosynthetic and Respiratory Organisms lohn M. 0/son Outline . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1 Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 2 Basic Assumptions. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6 Photosynthetic Energy Conversion and Electron Transport . . . . . . . 6 Oxygen-Evolving Organisms . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 6 Photosynthetic Bacteria . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 9 Photoassimilation and Cyclic Electron Flow . . . . . . . . . . . . . . 13 . . . . . Acetate Assimilation . . . . . . . . . . . . . . . . . . . . . . . . . . 15 . . . . . . . . . . . The Common Ancestor . . . . . . . . . . . . . . . . . . . . . . . . . . 17 . . . . . . . . . . . Chlorophyll. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 18 . . . . . . . . . . . . . Quinone................................................ 19 Linear Electron Transport . . . . . . . . . . . . . . . . . . . . . . . 22 . . . . . . . . . Light-Harvesting Systems. . . . . . .. . . . . . . . . . . . . . . . . 22 . . . . . . . . . Evolution of Photosynthetic Bacteria . . . . . . . . . . . . . . . . . . 22 . . . . . . . Purpie and Green Bacteria . . . . . . . . . . . . . . . . . . . . . . . 23 . . . . . . . . . Evolution of Blue-Green Algae . . . . . . . . . . . . . . . . . . . . . . 24 . . . . . . . . Weak Electron Donors for the Protoalgae . . . . . . . . . . . . . . 25 . . . . . Evolution of Respiration . . . . . . . . . . . . . . . . . . . . . . . . . . 29 . . . . . . . . . . General Remarks . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 31 . . . . . . . . . . . . . References . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 32 . . . . . . . . . . . . . . 2. Molecular Structure and Protein Variation within and among Populations Richard K. Koehn and Waller F. Eanes Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 39 . . . . . . . . . . . . . . Molecular Properlies and Structural Variation . . . . . . . . . . . . . 45 . . . . Amino Acid Composition and Quaternary Structure . . . . . . . . 46 . . Protomer Size and Quaternary Structure . . . . . . . . . . . . . . . 47 . . . . . ix X Contents Enzyme Polymorphism and Quaternary Structure . . . . . . . . . . . 50 . . . Enzyme Polymorphism and Subunit Size . . . . . . . . . . . . . . . . 53 . . . . . . Data and Analyses . . . . . . . . . . . . . . . . . . . . . . . . . . . . 54 . . . . . . . . . . . Drosophila Enzyme Polymorphism . . . . . . . . . . . . . . . . . . 60 . . . . . . . Human Enzyme Polymorphism . . . . . . . . . . . . . . . . . . . . 63 . . . . . . . . Enzyme Polymorphism: Structure and Size . . . . . . . . . . . . . . . 67 . . . . .

The first volume of Evolutionary Biology was published twelve years ago. Since that time twelve volumes and one supplement have appeared. As stated in earlier prefaces, we are continuing the focus of this series on critical reviews, commentaries, original papers, and controversies in evolu­ tionary biology. It is our aim to publish papers primarily of greater length than normally published by society journals and quarterlies. We therefore invite colleagues to submit chapters that fall within the focus and standards of Evolutionary Biology. Manuscripts should be sent to anyone of the following: Max K. Hecht, Biology Department, Queens College of the City University of New York, Flushing, New York 11367; William C. Steere, New York Botanical Garden, Bronx, New York 10458; Bruce Wallace, Department of Genetics, Cornell University, Ithaca, New York 14850. The Editors vii Contents 1. Apparent Changes in the Diversity of Fossil Plants: A Preliminary Assessment Karl J. Niklas, Bruce H. Tiffney, and Andrew H. Knoll Introduction . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 1 The Pros and Cons of Studying Plant Diversity Changes. . . . . . 6 The Concept of Species. . . . . . . . . . . . . . . . . . . . . . . . . 11 . . . . . . . . . Choice of Taxonomic Rank. . . . . . . . . . . . . . . . . . . . . . . . . . . . . 12 . Biasing Factors in the Fossil Record. . . . . . . . . . . . . . . . . . . 13 . . . . . . The "Human Factor" . . . . . . . . . . . . . . . . . . . . . . . . . 14 . . . . . . . . . . Biological Biases . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 15 Geological Biases. . . . . . . . . . . . . . . . . . . . . . . . . . . . 22 . . . . . . . . . . . Sources, Methods, and Analyses of ApparentDiversities. . . . . . . . 26 Statistical Computations. . . . . . . . . . . . . . . . . . . . . . . . 27 . . . . . . . . . Analysis of the Data . . . . . . . . . . . . . . . . . . . . . . . . . . . . 28 . . . . . . . . Geological Explanation of Residuals. . . . . . . . . . . . . . . . . . . 34 . . . . . . Biological Explanation of Residuals . . . . . . . . . . . . . . . . . . . . . . . . . 38 The Origin and Early Evolution of the Land Plants . . . . . . . . . . 39 The Evolution of Heterospory and the Seed Habit . . . . . . . . . . . 42 _ The Angiosperms. . . . . . . . . . . . . . . . . . . . . . . . . . . . 50 . . . . . . . . . . . Large-Scale Biological Interpretations . . . . . . . . . . . . . . . . . 62 . . . . . .

The first volume of Evolutionary Biology was published thirteen years ago. Since that time thirteen volumes and one supplement have appeared. As stated in earlier prefaces, we are continuing the focus of this series on critical reviews, commentaries, original papers, and controversies in evolu­ tionary biology. It is our aim to publish papers primarily of greater length than normally published by society journals and quarterlies. We therefore invite colleagues to submit chapters that fall within the focus and standards of Evolutionary Biology. The editors regretfully announce that Dr. William C. Steere has decided to withdraw from the editorial board of Evolutionary Biology. Dr. Ghillean T. Prance will replace Dr. Steere for forthcoming volumes. Manuscripts should be sent to anyone of the following: Max K. Hecht, Department of Biology, Queens College of the City University of New York, Flushing, New York 11367; Bruce Wallace, Department of Genetics, Cornell University, Ithaca, New York 14850; Ghillean T. Prance, New York Botanical Garden, Bronx, New York 10458. The Editors vii Contents 1. Some Relationships between Density-Independent Selection and Density-Dependent Population Growth Timothy Prout Introduction ............................................ . Part I. The Basic Model: Definitions, Assumptions, and Relationships .................................... 3 Part II. Biological Aspects. . . . . . . . . . . . . . . . . . . . . . . . 10 . . . . . . . . . Introduction ... . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 10 . . . . . . . . . . . The Biological Interpretation of the Model. . . . . . . . . . . . . . 10 . . . . Experimental and Observational Aspects. . . . . . . . . . . . . . . 13 . . . . Part III. Census-Stage Theory. . . . . . . . . . . . . . .. . . . . . . 22 . . . . . . . . Introduction ...... . . . . . . . . . . . . . . . . . . . . . . . . . . 22 . . . . . . . . . . . Two-Point Census ...................................... 23 Three-Point Census: Classical Selection .. . . . . . . . . . . . . .. . . 42 . . . Summary of Two-and Three-Point Censuses. . . . . . . . . . . . . 50 . . . Part IV. Summary and Some Implications. . . . . . . . . . . . . . . . 52 . . . . Summary.............................................. 52 Some Implications. . . . . . . . . . . . . . . . . . . . . . . . . . . . 54 . . . . . . . . . . Appendix. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 59 . . . . . . . . . . . . . . References. . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . . 65 . . . . . . . . . . . . . .