2024
Metabolic complementation between cells drives the evolution of tissues and organs
Pavlicev M, DiFrisco J, Love A, Wagner G. Metabolic complementation between cells drives the evolution of tissues and organs. Biology Letters 2024, 20: 20240490. PMID: 39561800, PMCID: PMC11583983, DOI: 10.1098/rsbl.2024.0490.Peer-Reviewed Original ResearchConceptsMetabolic complementationEvolutionary transitionsCell typesSpecialized cell typesConstituent cell typesMetabolic constraintsMetabolic burdenCellular metabolismEvolution of tissuesSpecialized cellsSpecialized tissuesLevels of organizationCellsComplementOrganizationTissueNervous systemTypeMetabolismThe extension of mammalian pregnancy required taming inflammation: Independent evolution of extended placentation in the tammar wallaby
Dudley J, Renfree M, Wagner G, Griffith O. The extension of mammalian pregnancy required taming inflammation: Independent evolution of extended placentation in the tammar wallaby. Proceedings Of The National Academy Of Sciences Of The United States Of America 2024, 121: e2310047121. PMID: 39378090, PMCID: PMC11494332, DOI: 10.1073/pnas.2310047121.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBiological EvolutionEmbryo ImplantationFemaleInflammationMacropodidaeOpossumsPlacentaPlacentationPregnancyConceptsLive-bearing mammalsTammar wallabyInflammatory reactionMode of reproductionCompare gene expression changesMaternal-fetal interactionsGene expression changesMarsupial taxaPeriod of placentationIndependent evolutionMammalian pregnancyMarsupial speciesEutheriansFat-tailed dunnartExpression changesInflammatory genesInflammationPlacentationWallabyEpitheliochorial placentationThe mammary hair of Monodelphis domestica and homology of the mammary pilosebacous unit
Stadtmauer D, Wagner G. The mammary hair of Monodelphis domestica and homology of the mammary pilosebacous unit. Journal Of Morphology 2024, 285: e21769. PMID: 39188032, DOI: 10.1002/jmor.21769.Peer-Reviewed Original Research
2022
The hierarchical basis of serial homology and evolutionary novelty
DiFrisco J, Love A, Wagner G. The hierarchical basis of serial homology and evolutionary novelty. Journal Of Morphology 2022, 284: e21531. PMID: 36317664, DOI: 10.1002/jmor.21531.Peer-Reviewed Original ResearchConceptsSerial homologyWing serial homologsTree of lifeExtent of homologyParalogous genesEvolutionary noveltyPhylogenetic historyPhylogenetic conceptsGene sequencesSerial homologsEvolutionary precursorPhylogenetic interpretationMost biologistsHomologyCell typesBiological phenomenaGenetic contributionEpidermal appendagesWidespread overlapGenesNew charactersHomologLineagesAppendagesFecundity
2015
The statistical geometry of transcriptome divergence in cell-type evolution and cancer
Liang C, Forrest A, Wagner G. The statistical geometry of transcriptome divergence in cell-type evolution and cancer. Nature Communications 2015, 6: 6066. PMID: 25585899, DOI: 10.1038/ncomms7066.Peer-Reviewed Original ResearchConceptsCell typesCell type modelCell type evolutionAncestral cell typeSister cell typesNovel cell typesGene expression profilesTranscriptome divergenceOrganismal complexityTranscriptomic dataExpression profilesCancer cell linesTranscriptomeCancer cellsCell linesNormal cellsKey predictionsStatistical geometryFANTOM5Statistical modelCellsEncodesTree structureLittle understandingDivergence
2008
Pleiotropic scaling of gene effects and the ‘cost of complexity’
Wagner GP, Kenney-Hunt JP, Pavlicev M, Peck JR, Waxman D, Cheverud JM. Pleiotropic scaling of gene effects and the ‘cost of complexity’. Nature 2008, 452: 470-472. PMID: 18368117, DOI: 10.1038/nature06756.Peer-Reviewed Original ResearchConceptsQuantitative trait lociEffects of pleiotropyOrganismal complexityGenetic sequence dataHigher organismsEvolutionary biologyTrait lociMouse genomeSequence dataBiology questionsSkeletal traitsGene effectsMost mutationsCost of complexityGenetic mutationsTraitsMutationsMultiple effectsGenomeSkeletal characteristicsPleiotropyLociPleiotropicOrganismsBiology
2007
The developmental genetics of homology
Wagner GP. The developmental genetics of homology. Nature Reviews Genetics 2007, 8: 473-479. PMID: 17486120, DOI: 10.1038/nrg2099.Peer-Reviewed Original Research
2001
What is the promise of developmental evolution? Part II: A causal explanation of evolutionary innovations may be impossible
Wagner G. What is the promise of developmental evolution? Part II: A causal explanation of evolutionary innovations may be impossible. Journal Of Experimental Zoology 2001, 291: 305-309. PMID: 11754010, DOI: 10.1002/jez.1130.Commentaries, Editorials and LettersThe Topology of the Possible: Formal Spaces Underlying Patterns of Evolutionary Change
STADLER B, STADLER P, WAGNER G, FONTANA W. The Topology of the Possible: Formal Spaces Underlying Patterns of Evolutionary Change. Journal Of Theoretical Biology 2001, 213: 241-274. PMID: 11894994, DOI: 10.1006/jtbi.2001.2423.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBiological EvolutionComputational BiologyGenotypeModels, BiologicalPhenotypeProtein FoldingRNAConceptsGenotype-phenotype mapNeo-Darwinian modelGenotype-phenotype modelsPhenotypic innovationPhenotypic evolutionGenetic accessibilityEvolutionary trajectoriesEvolutionary changeNatural selectionPhenotypic charactersPhenotype spaceGenotype spaceRNA sequencesSecondary structureFitness landscapePossible phenotypesFitness considerationsRNA modelCharacter autonomyPhenotypeRecent computational workFoldingEvolutionRegionSequenceThe tetrapod limb: A hypothesis on its origin
Wagner G, Chiu C. The tetrapod limb: A hypothesis on its origin. Journal Of Experimental Zoology 2001, 291: 226-240. PMID: 11598912, DOI: 10.1002/jez.1100.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus StatementsMeSH KeywordsAdaptation, PhysiologicalAnimalsBiological EvolutionEcosystemExtremitiesFossilsGene Expression Regulation, DevelopmentalHomeodomain ProteinsVertebratesConceptsTetrapod limbsExpression domainsHoxa-13Hoxa-11Fin-limb transitionExclusive expression domainsMajor morphological adaptationsProximal-distal axisVertebrate evolutionFin developmentHoxa-11 expressionTerrestrial lifestyleFin skeletonMorphological adaptationsDevelopmental mechanismsExpression patternsLimb budPaleontological evidenceGenetic hypothesisExpressionZebrafishEvolutionHomologyAquaticGenesModeling Genetic Architecture: A Multilinear Theory of Gene Interaction
Hansen T, Wagner G. Modeling Genetic Architecture: A Multilinear Theory of Gene Interaction. Theoretical Population Biology 2001, 59: 61-86. PMID: 11243929, DOI: 10.1006/tpbi.2000.1508.Peer-Reviewed Original ResearchConceptsGenotype-phenotype mapGene interactionsQuantitative genetic variationEffects of epistasisGenetic canalizationGenetic experimentsGenetic variationGene substitutionGenetic backgroundEpistasisTractable modelComplex functionsCentral importanceLociBiologyCanalizationPhenotypeGenotypesInteractionSum of linear
2000
Is the Genotype-Phenotype Map Modular?: A Statistical Approach Using Mouse Quantitative Trait Loci Data
Mezey J, Cheverud J, Wagner G. Is the Genotype-Phenotype Map Modular?: A Statistical Approach Using Mouse Quantitative Trait Loci Data. Genetics 2000, 156: 305-311. PMID: 10978294, PMCID: PMC1461239, DOI: 10.1093/genetics/156.1.305.Peer-Reviewed Original ResearchMeSH KeywordsAllelesAnimalsBiological EvolutionGenotypeMandibleMiceModels, GeneticPhenotypeQuantitative Trait, HeritableWhat is the promise of developmental evolution? part I: Why is developmental biology necessary to explain evolutionary innovations?
Wagner G. What is the promise of developmental evolution? part I: Why is developmental biology necessary to explain evolutionary innovations? Journal Of Experimental Zoology 2000, 288: 95-98. PMID: 10931493, DOI: 10.1002/1097-010x(20000815)288:2<95::aid-jez1>3.0.co;2-5.Commentaries, Editorials and LettersPopulation dependent Fourier decomposition of fitness landscapes over recombination spaces: Evolvability of complex characters
Stadler P, Seitz R, Wagner G. Population dependent Fourier decomposition of fitness landscapes over recombination spaces: Evolvability of complex characters. Bulletin Of Mathematical Biology 2000, 62: 399-428. PMID: 10812714, DOI: 10.1006/bulm.1999.0167.Peer-Reviewed Original Research
1999
Is Hsp90 a regulator of evolvability?
Wagner G, Chiu C, Hansen T. Is Hsp90 a regulator of evolvability? Journal Of Experimental Zoology 1999, 285: 116-118. PMID: 10440722, DOI: 10.1002/(sici)1097-010x(19990815)285:2<116::aid-jez3>3.0.co;2-p.Commentaries, Editorials and LettersMeSH KeywordsAnimalsBiological EvolutionGene Expression RegulationGenetic VariationHSP90 Heat-Shock ProteinsModels, GeneticMutationPhenotype1,2,3 = 2,3,4: A solution to the problem of the homology of the digits in the avian hand
Wagner G, Gauthier J. 1,2,3 = 2,3,4: A solution to the problem of the homology of the digits in the avian hand. Proceedings Of The National Academy Of Sciences Of The United States Of America 1999, 96: 5111-5116. PMID: 10220427, PMCID: PMC21825, DOI: 10.1073/pnas.96.9.5111.Peer-Reviewed Reviews, Practice Guidelines, Standards, and Consensus Statements
1998
Genetic measurement theory of epistatic effects
Wagner G, Laubichler M, Bagheri-Chaichian H. Genetic measurement theory of epistatic effects. Genetica 1998, 102-103: 569-580. PMID: 9766965, DOI: 10.1023/a:1017088321094.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBiological EvolutionBody WeightEscherichia coliGenes, DominantGenotypeMiceModels, GeneticMutationPhenotypeQuantitative Trait, HeritableConceptsEpistatic effectsGenotype-phenotype mapMendelian genetic systemMathematical population geneticsAverage additive effectPairs of lociGenetic architecturePopulation geneticsEvolutionary changeEvolutionary phenomenaGenetic systemGenotypic varianceMetabolic fluxSecond locusEpistasisGene substitutionMutation effectsAdditive effectAdult body weightGene effectsSecond mutationLocus BLociMutationsNegative interactions
1996
Evidence for Four Hox Clusters in the KillifishFundulus heteroclitus(Teleostei)
Misof B, Wagner G. Evidence for Four Hox Clusters in the KillifishFundulus heteroclitus(Teleostei). Molecular Phylogenetics And Evolution 1996, 5: 309-322. PMID: 8728389, DOI: 10.1006/mpev.1996.0026.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SequenceAnimalsBase SequenceBiological EvolutionDNA PrimersFishesGenes, HomeoboxHomeodomain ProteinsHumansKillifishesKineticsMiceModels, GeneticMolecular Sequence DataMultigene FamilyPhylogenyPolymerase Chain ReactionProbabilitySequence Homology, Amino AcidSequence Homology, Nucleic AcidConceptsHox clustersMammalian Hox genesTeleost Fundulus heteroclitusDiploid teleostsHox genesHomeobox sequencesPCR surveySequence comparisonLower vertebratesFundulus heteroclitusCognate groupsFirst evidenceSequenceOrthologsCluster AVertebratesTeleostsGenesNumber of representativesHeteroclitusClustersHumansMiceFragmentsRepresentatives
1985
On the evolution of dominance modifiers II: a non-equilibrium approach to the evolution of genetic systems
Wagner G, Bürger R. On the evolution of dominance modifiers II: a non-equilibrium approach to the evolution of genetic systems. Journal Of Theoretical Biology 1985, 113: 475-500. PMID: 3999784, DOI: 10.1016/s0022-5193(85)80034-5.Peer-Reviewed Original ResearchMeSH KeywordsAnimalsBiological EvolutionDrosophilaGenes, DominantMathematicsModels, GeneticMothsSelection, Genetic