2014
Inferring population structure and demographic history using Y-STR data from worldwide populations
Xu H, Wang CC, Shrestha R, Wang LX, Zhang M, He Y, Kidd JR, Kidd KK, Jin L, Li H. Inferring population structure and demographic history using Y-STR data from worldwide populations. Molecular Genetics And Genomics 2014, 290: 141-150. PMID: 25159112, DOI: 10.1007/s00438-014-0903-8.Peer-Reviewed Original ResearchConceptsEffective population sizeLarge genetic distancePopulation structureDemographic historyGenetic distanceLarge effective population sizesSmall effective population sizePopulation sizeLow genetic diversitySmall geographical rangesWorldwide population structureOrigin of populationsPopulation genetic studiesClose genetic affinityRecent common ancestorNon-African populationsSerial founder modelGood genetic materialClear geographic patternWorldwide populationEvolutionary historyGenetic diversityCommon ancestorEurasian populationsFuture forensic applications
2012
High diversity and no significant selection signal of human ADH1B gene in Tibet
Lu Y, Kang L, Hu K, Wang C, Sun X, Chen F, Kidd JR, Kidd KK, Li H. High diversity and no significant selection signal of human ADH1B gene in Tibet. Investigative Genetics 2012, 3: 23. PMID: 23176670, PMCID: PMC3528464, DOI: 10.1186/2041-2223-3-23.Peer-Reviewed Original ResearchSingle nucleotide polymorphismsSelection signalsPositive selectionSignificant positive selectionMicro-evolutionary studiesPositive selection signalsLong-range haplotypesSino-Tibetan populationsDiversification historyADH1B geneGene diversityHaplotype diversityCommon ancestorHuman genesHigh diversityTibetan populationHaplogroupsGenesPolymorphic sitesNucleotide polymorphismsSmall populationDiversityAncestorSouthwest AsiaAllelesCrohn's Disease Risk Alleles on the NOD2 Locus Have Been Maintained by Natural Selection on Standing Variation
Nakagome S, Mano S, Kozlowski L, Bujnicki JM, Shibata H, Fukumaki Y, Kidd JR, Kidd KK, Kawamura S, Oota H. Crohn's Disease Risk Alleles on the NOD2 Locus Have Been Maintained by Natural Selection on Standing Variation. Molecular Biology And Evolution 2012, 29: 1569-1585. PMID: 22319155, PMCID: PMC3697811, DOI: 10.1093/molbev/mss006.Peer-Reviewed Original ResearchMeSH KeywordsAmino Acid SubstitutionCrohn DiseaseGene FrequencyGenetic Predisposition to DiseaseGenotyping TechniquesHaplotypesHumansModels, GeneticModels, MolecularNod2 Signaling Adaptor ProteinPhylogenyPolymorphism, Single NucleotideProtein Structure, SecondaryProtein Structure, TertiaryRisk FactorsSelection, GeneticSequence Analysis, DNAConceptsDisease risk allelesNatural selectionCD risk allelesGenome-wide association studiesClassical linkage analysisMost recent common ancestorPhylogenetic network analysisRecent common ancestorNOD2 proteinProtein structural predictionRecent genome-wide association studiesHigh-frequency haplotypesSerious conformational changesEuropean populationsAmino acid substitutionsRisk allelesStanding variationDeleterious haplotypesEvolutionary studiesCoalescent simulationsCommon ancestorGenomic regionsNon-European populationsEntire genomeDiploid individuals
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 systemA 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
1999
Evolution 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