2010
The Distribution and Most Recent Common Ancestor of the 17q21 Inversion in Humans
Donnelly MP, Paschou P, Grigorenko E, Gurwitz D, Mehdi SQ, Kajuna SL, Barta C, Kungulilo S, Karoma NJ, Lu RB, Zhukova OV, Kim JJ, Comas D, Siniscalco M, New M, Li P, Li H, Manolopoulos VG, Speed WC, Rajeevan H, Pakstis AJ, Kidd JR, Kidd KK. The Distribution and Most Recent Common Ancestor of the 17q21 Inversion in Humans. American Journal Of Human Genetics 2010, 86: 161-171. PMID: 20116045, PMCID: PMC2820164, DOI: 10.1016/j.ajhg.2010.01.007.Peer-Reviewed Original Research
2008
The complex global pattern of genetic variation and linkage disequilibrium at catechol-O-methyltransferase
Mukherjee N, Kidd K, Pakstis A, Speed W, Li H, Tarnok Z, Barta C, Kajuna S, Kidd J. The complex global pattern of genetic variation and linkage disequilibrium at catechol-O-methyltransferase. Molecular Psychiatry 2008, 15: 216-225. PMID: 18574484, PMCID: PMC2811226, DOI: 10.1038/mp.2008.64.Peer-Reviewed Original ResearchConceptsNon-synonymous single nucleotide polymorphismsSingle nucleotide polymorphismsGenetic variationDiverse evolutionary lineagesFuture association studiesEvolutionary lineagesPromoter regionAssociation studiesGenesLinkage disequilibriumFunctional consequencesUndetected variantsNucleotide polymorphismsCommon haplotypeComplex global patternsGlobal patternsDNA samplesHaplotypesLineagesExonsHaplotypic combinationsKbDNACOMT geneOnly variation
2001
Modern African Ape Populations as Genetic and Demographic Models of the Last Common Ancestor of Humans, Chimpanzees, and Gorillas
Jensen-Seaman M, Deinard A, Kidd K. Modern African Ape Populations as Genetic and Demographic Models of the Last Common Ancestor of Humans, Chimpanzees, and Gorillas. Journal Of Heredity 2001, 92: 475-480. PMID: 11948214, DOI: 10.1093/jhered/92.6.475.Peer-Reviewed Original ResearchConceptsLast common ancestorEffective population sizeNucleotide diversityCommon ancestorStrong female philopatryStrong geographic structuringPopulation sizeHuman evolutionary historyNuclear lociGeographic structuringModern humansFemale philopatryEvolutionary historyAncestral populationsGorilla lineageMolecular dataNuclear DNAClose relativesDemographic modelsAfrican ape speciesApe populationsApe speciesNatal groupSpeciesDispersal systemMitochondrial DNA variation and biogeography of eastern gorillas
Jensen‐Seaman M, Kidd K. Mitochondrial DNA variation and biogeography of eastern gorillas. Molecular Ecology 2001, 10: 2241-2247. PMID: 11555266, DOI: 10.1046/j.0962-1083.2001.01365.x.Peer-Reviewed Original ResearchConceptsMitochondrial DNA variationDNA variationEastern gorillasD-loop haplotypesFirst hypervariable segmentPopulation bottlenecksDistinct cladesGenetic diversityControl regionD-loopHypervariable segmentCladeLast Glacial MaximumGorillasForest reductionHaplotypesGlacial MaximumBiogeographyEast AfricaGlobal coolingDiversityMutationsLow levelsVariationFragmentationA HERV-K provirus in chimpanzees, bonobos and gorillas, but not humans
Barbulescu M, Turner G, Su M, Kim R, Jensen-Seaman M, Deinard A, Kidd K, Lenz J. A HERV-K provirus in chimpanzees, bonobos and gorillas, but not humans. Current Biology 2001, 11: 779-783. PMID: 11378389, DOI: 10.1016/s0960-9822(01)00227-5.Peer-Reviewed Original ResearchConceptsTransposable genetic elementsDNA sequencing studiesHERV-K provirusesUnique insertion sitesAfrican great apesChimpanzee genomeEvolutionary separationPhylogenetic relationshipsOrthologous positionsCommon ancestorHuman genomeModern speciesPreintegration siteGenetic elementsSequencing studiesGenomeEndogenous retrovirusesHuman evolutionGreat apesLineagesGorillasSpeciesHERVInsertion siteChimpanzees
2000
Short Tandem-Repeat Polymorphism/Alu Haplotype Variation at the PLAT Locus: Implications for Modern Human Origins
Tishkoff S, Pakstis A, Stoneking M, Kidd J, Destro-Bisol G, Sanjantila A, Lu R, Deinard A, Sirugo G, Jenkins T, Kidd K, Clark A. Short Tandem-Repeat Polymorphism/Alu Haplotype Variation at the PLAT Locus: Implications for Modern Human Origins. American Journal Of Human Genetics 2000, 67: 901-925. PMID: 10986042, PMCID: PMC1287905, DOI: 10.1086/303068.Peer-Reviewed Original ResearchMeSH KeywordsAfrica South of the SaharaAllelesAlu ElementsAnimalsChromosomes, Human, Pair 8Dinucleotide RepeatsEvolution, MolecularGene FrequencyGenetic VariationHaplotypesHominidaeHumansLinkage DisequilibriumMicronesiaPapua New GuineaPhylogenyPolymorphism, GeneticSequence DeletionTandem Repeat SequencesConceptsNon-African populationsHaplotype variationGene flowLinkage disequilibriumShort tandem repeat polymorphismsHaplotype diversityPLAT locusLarge effective population sizesAncient gene flowEffective population sizeDinucleotide short tandem repeat polymorphismsRecent common ancestryAlu insertion/deletion polymorphismHuman evolutionary historyDiverse human populationsModern human originsEvolutionary historyCommon ancestryAfrican populationsPopulation substructureAlu elementsPolymorphic Alu elementsPopulation sizeRare haplotypesDinucleotide repeatsA primate genome project deserves high priority.
McConkey E, Varki A, Allman J, Benirschke K, Crick F, Deacon T, de Waal F, Dugaiczyk A, Gagneux P, Goodman M, Grossman L, Gumucio D, Insel T, Kidd K, King M, Krauter K, Kucherlapati R, Motulsky A, Nelson D, Oefner P, Palade G, Palade G, Ryder O, Stewart C, Sikela J, Stone A, Woodruff D. A primate genome project deserves high priority. Science 2000, 289: 1295-6. PMID: 10979852, DOI: 10.1126/science.289.5483.1295b.Peer-Reviewed Original ResearchEvolution of exon 1 of the dopamine D4 receptor (DRD4) gene in primates
Seaman M, Chang F, Deinard A, Quiñones A, Kidd K. Evolution of exon 1 of the dopamine D4 receptor (DRD4) gene in primates. Journal Of Experimental Zoology 2000, 288: 32-38. PMID: 10750051, DOI: 10.1002/(sici)1097-010x(20000415)288:1<32::aid-jez4>3.0.co;2-g.Peer-Reviewed Original ResearchConceptsHigh conservationOld World monkeysWorld monkeysTandem repeatsPrimate speciesExon 1Amino acid sequenceReceptor geneGreat apesRelaxed selectionEvolutionary historyD4 receptor geneHomologous exonsInterspecific differencesNew World monkeysDopamine D4 receptor geneAcid sequenceSelective pressureFirst exonTandem duplicationExonsExon 3SpeciesGenesRepeatsIdentifying conservation units within captive chimpanzee populations
Deinard A, Kidd K. Identifying conservation units within captive chimpanzee populations. American Journal Of Biological Anthropology 2000, 111: 25-44. PMID: 10618587, DOI: 10.1002/(sici)1096-8644(200001)111:1<25::aid-ajpa3>3.0.co;2-r.Peer-Reviewed Original ResearchConceptsGenetic diversityNuclear lociCaptive management programsGene poolGenetic dataPygmy chimpanzeesWild gene poolDNA sequence dataCommon chimpanzee subspeciesConservation unitsMitochondrial D-loopCaptive managementCaptive populationsChimpanzee populationsCaptive chimpanzee populationEvolutionary relationshipsDiversitySequence dataPolymorphic microsatellitesD-loopChimpanzee subspeciesMicrosatellite allelesManagement programCommon chimpanzeesLoci
1999
Tandem duplication polymorphism upstream of the dopamine D4 receptor gene (DRD4)
Seaman M, Fisher J, Chang F, Kidd K. Tandem duplication polymorphism upstream of the dopamine D4 receptor gene (DRD4). American Journal Of Medical Genetics 1999, 88: 705-709. PMID: 10581493, DOI: 10.1002/(sici)1096-8628(19991215)88:6<705::aid-ajmg22>3.0.co;2-f.Peer-Reviewed Original ResearchAllelesAnimalsCodon, InitiatorConsensus SequenceDatabases, FactualEvolution, MolecularGene FrequencyGenetic VariationGorilla gorillaHumansPan troglodytesPolymorphism, GeneticPongo pygmaeusReceptors, Dopamine D2Receptors, Dopamine D4Response ElementsSequence Homology, Nucleic AcidTandem Repeat SequencesTranscription FactorsGlobal variation in the frequencies of functionally different catechol-O-methyltransferase alleles
Palmatier M, Kang A, Kidd K. Global variation in the frequencies of functionally different catechol-O-methyltransferase alleles. Biological Psychiatry 1999, 46: 557-567. PMID: 10459407, DOI: 10.1016/s0006-3223(99)00098-0.Peer-Reviewed Original ResearchConceptsRestriction site polymorphismsSingle nucleotide polymorphismsAllele frequenciesDifferent population frequenciesControl allele frequenciesEnzyme activity levelsAncestral alleleCandidate genesPopulation-based association studyAssociation studiesSite polymorphismFirst global surveyNucleotide polymorphismsAllelesEnzyme activityPopulation frequencyPolymorphismDifferent populationsCOMT enzyme activityActivity alleleLow-activity alleleGenesProteinGlobal variationPopulationMany human endogenous retrovirus K (HERV-K) proviruses are unique to humans
Barbulescu M, Turner G, Seaman M, Deinard A, Kidd K, Lenz J. Many human endogenous retrovirus K (HERV-K) proviruses are unique to humans. Current Biology 1999, 9: 861-s1. PMID: 10469592, DOI: 10.1016/s0960-9822(99)80390-x.Peer-Reviewed Original ResearchConceptsOpen reading frameFull-length open reading frameHuman genome todayReading frameFull length HERVGenome todayGenomes of humansCis-acting sequencesHERV-K provirusesViral open reading framesGorilla genomeHuman genomePrimate evolutionMouse mammary tumor virusComplete sequencingHost genomePreintegration siteHuman endogenous retrovirus KGenomeHERV-K proteinsEndogenous retrovirusesMammary tumor virusTumor virusProvirusMultiple provirusesEvolution of the HOXB6 intergenic region: Motif conservation at the lateral plate mesoderm (LPM) enhancer element
Deinard A, Dorit R, Castiglione C, Jiang Z, Becker D, Ruddle F, Schugart K, Kidd K. Evolution of the HOXB6 intergenic region: Motif conservation at the lateral plate mesoderm (LPM) enhancer element. Journal Of Experimental Zoology 1999, 285: 170-176. PMID: 10440728, DOI: 10.1002/(sici)1097-010x(19990815)285:2<170::aid-jez9>3.0.co;2-j.Peer-Reviewed Original ResearchEvolution of a HOXB6 intergenic region within the great apes and humans
Deinard A, Kidd K. Evolution of a HOXB6 intergenic region within the great apes and humans. Journal Of Human Evolution 1999, 36: 687-703. PMID: 10330333, DOI: 10.1006/jhev.1999.0298.Peer-Reviewed Original ResearchConceptsCommon ancestorGenetic variationGenetic dataIntraspecific genetic variationHomo-Pan cladeGreat apesNuclear lociGreat ape speciesMolecular evolutionIntraspecific dataPhylogenetic reconstructionIntergenic regionIntraspecific variationDNA sequencesNucleotide substitutionsGenetic polymorphismsHomo-PanPygmy chimpanzeesApe speciesCommon chimpanzeesCladeHomo sapiens sapiensAncestorGorillasLoci
1998
Hominoid phylogeny: inferences from a sub-terminal minisatellite analyzed by repeat expansion detection (RED)
Deinard A, Sirugo G, Kidd K. Hominoid phylogeny: inferences from a sub-terminal minisatellite analyzed by repeat expansion detection (RED). Journal Of Human Evolution 1998, 35: 313-7. PMID: 9749409.Peer-Reviewed Original ResearchRepeat Expansion–Detection Analysis of Telomeric Uninterrupted (TTAGGG) n Arrays
Sirugo G, Kidd K. Repeat Expansion–Detection Analysis of Telomeric Uninterrupted (TTAGGG) n Arrays. American Journal Of Human Genetics 1998, 63: 648-651. PMID: 9683592, PMCID: PMC1377302, DOI: 10.1086/301961.Peer-Reviewed Original ResearchGenetic Structure of the Ancestral Population of Modern Humans
Ziętkiewicz E, Yotova V, Jarnik M, Korab-Laskowska M, Kidd K, Modiano D, Scozzari R, Stoneking M, Tishkoff S, Batzer M, Labuda D. Genetic Structure of the Ancestral Population of Modern Humans. Journal Of Molecular Evolution 1998, 47: 146-155. PMID: 9694663, DOI: 10.1007/pl00006371.Peer-Reviewed Original ResearchConceptsNucleotide diversityAncestral populationsNeutral DNA polymorphismsOverall nucleotide diversityPopulation-specific variantsOld polymorphismsGenetic structureAncestral stateHuman divergenceOrthologous sitesGenetic variabilityDNA polymorphismsNew allelesHuman variantsPolymorphic sitesNon-AfricansWorldwide sampleGreat apesEffective sizeModern humansHuman groupsDiversityPolymorphismDivergenceNew GuineaA Global Haplotype Analysis of the Myotonic Dystrophy Locus: Implications for the Evolution of Modern Humans and for the Origin of Myotonic Dystrophy Mutations
Tishkoff S, Goldman A, Calafell F, Speed W, Deinard A, Bonne-Tamir B, Kidd J, Pakstis A, Jenkins T, Kidd K. A Global Haplotype Analysis of the Myotonic Dystrophy Locus: Implications for the Evolution of Modern Humans and for the Origin of Myotonic Dystrophy Mutations. American Journal Of Human Genetics 1998, 62: 1389-1402. PMID: 9585589, PMCID: PMC1377140, DOI: 10.1086/301861.Peer-Reviewed Original ResearchConceptsNon-African populationsHaplotype diversityMyotonic dystrophy locusRecent African origin modelLinkage disequilibriumMyotonic dystrophy mutationModern human evolutionModern humansGlobal haplotype analysisMutation eventsStrong linkage disequilibriumNonhuman primate speciesPrimate speciesHuman evolutionHuman populationShared patternLong CAG/CTG repeats in mice
King B, Sirugo G, Nadeau J, Hudson T, Kidd K, Kacinski B, Schalling M. Long CAG/CTG repeats in mice. Mammalian Genome 1998, 9: 392-393. PMID: 9545500, DOI: 10.1007/s003359900778.Peer-Reviewed Original ResearchAnalyses of Cross Species Polymerase Chain Reaction Products to Infer the Ancestral State of Human Polymorphisms
Iyengar S, Seaman M, Deinard A, Rosenbaum H, Sirugo G, Castiglione C, Kidd J, Kidd K. Analyses of Cross Species Polymerase Chain Reaction Products to Infer the Ancestral State of Human Polymorphisms. Mitochondrial DNA Part A 1998, 8: 317-327. PMID: 10993602, DOI: 10.3109/10425179809034076.Peer-Reviewed Original ResearchConceptsSingle-strand conformational polymorphismSequence dataUntranslated regionHuman polymorphismsSingle ancestral allelePolymorphic allelesRestriction enzyme sitesAncestral stateExtant populationsGenomic regionsAncestral statusAncestral onesAncestral alleleHuman sequenceHuman allelesStrand conformational polymorphismPCR-RFLPsRestriction fragment length analysisPolymorphic sitesNumerous populationsEnzyme sitesAllelesSpeciesConformational polymorphismPolymerase chain reaction products