Genetics, Population

• 

  Subject Areas on Research

  • "Any news?" Special issue in honor of Marcus Feldman's 75th birthday. 
  • A Segregating Inversion Generates Fitness Variation in Yellow Monkeyflower (Mimulus guttatus). 
  • A comparison of major histocompatibility complex SNPs in Han Chinese residing in Taiwan and Caucasians. 
  • A computational framework to assess genome-wide distribution of polymorphic human endogenous retrovirus-K In human populations. 
  • A duality in aging: the equivalence of mortality models based on radically different concepts. 
  • A genetic variant in the APE1/Ref-1 gene promoter -141T/G may modulate risk of glioblastoma in a Chinese Han population. 
  • A genome-wide in vitro bacterial-infection screen reveals human variation in the host response associated with inflammatory disease. 
  • A genome-wide study of common SNPs and CNVs in cognitive performance in the CANTAB. 
  • A genome-wide survey of copy number variations in Han Chinese residing in Taiwan. 
  • A global reference for human genetic variation. 
  • A high-resolution HLA reference panel capturing global population diversity enables multi-ancestry fine-mapping in HIV host response. 
  • A large-scale survey of genetic copy number variations among Han Chinese residing in Taiwan. 
  • A linkage map reveals a complex basis for segregation distortion in an interpopulation cross in the moss Ceratodon purpureus. 
  • A multi-locus assessment of connectivity and historical demography in the bluehead wrasse (Thalassoma bifasciatum). 
  • A reversible color polyphenism in American peppered moth (Biston betularia cognataria) caterpillars. 
  • A simple and improved correction for population stratification in case-control studies. 
  • A simple method for computing exact probabilities of mutation numbers. 
  • A statistical method for region-based meta-analysis of genome-wide association studies in genetically diverse populations. 
  • Abundant raw material for cis-regulatory evolution in humans. 
  • Adaptive evolution: evaluating empirical support for theoretical predictions. 
  • Allele frequency spectra in structured populations: Novel-allele probabilities under the labelled coalescent. 
  • Allele-specific gene expression in a wild nonhuman primate population. 
  • Alleles associated with physical activity levels are estimated to be older than anatomically modern humans. 
  • An integrated map of genetic variation from 1,092 human genomes. 
  • Ancestry adjustment improves genome-wide estimates of regional intolerance. 
  • Ancient West African foragers in the context of African population history. 
  • Apolipoprotein E and brain injury: implications for children. 
  • Apolipoprotein E genotype and mortality: findings from the Cache County Study. 
  • Approximating selective sweeps. 
  • Assortative mating by population of origin in a mechanistic model of admixture. 
  • Autosomal admixture levels are informative about sex bias in admixed populations. 
  • Balancing selection and trans-specific polymorphisms. 
  • Basic population and cancer genetics and their use in the assessment of cancer risk. 
  • Behavior predicts genes structure in a wild primate group. 
  • Between-site differences in the scale of dispersal and gene flow in red oak. 
  • Biogeographic distribution of polyploidy and B chromosomes in the apomictic Boechera holboellii complex. 
  • Building Statistical Models to Analyze Species Distributions 
  • Characterization of Greater Middle Eastern genetic variation for enhanced disease gene discovery. 
  • Coalescent Theory of Migration Network Motifs. 
  • Combined genotype and haplotype tests for region-based association studies. 
  • Community engagement and informed consent in the International HapMap project. 
  • Comparative analyses of clinical and environmental populations of Cryptococcus neoformans in Botswana. 
  • Comparative population structure of two deep-sea hydrothermal-vent-associated decapods (Chorocaris sp. 2 and Munidopsis lauensis) from southwestern Pacific back-arc basins. 
  • Comparison of ribosomal DNA ITS regions among geographic isolates of Cenococcum geophilum. 
  • Complex-trait analysis in plants. 
  • Conservation genomic analysis reveals ancient introgression and declining levels of genetic diversity in Madagascar's hibernating dwarf lemurs. 
  • Continental-level population differentiation and environmental adaptation in the mushroom Suillus brevipes. 
  • Contrasting quaternary histories in an ecologically divergent sister pair of low-dispersing intertidal fish (Xiphister) revealed by multilocus DNA analysis. 
  • Contribution of sickle cell disease to the occurrence of developmental disabilities: a population-based study. 
  • Cross-species microsatellite markers for elucidating population genetic structure in Arabidopsis and Arabis (Brassicaeae). 
  • Deep whole-genome sequencing of 100 southeast Asian Malays. 
  • Defining spatial and temporal patterns of phylogeographic structure in Madagascar's iguanid lizards (genus Oplurus). 
  • Defining the role of common variation in the genomic and biological architecture of adult human height. 
  • Deleterious mutations and genetic variation for flower size in Mimulus guttatus. 
  • Delimiting species without nuclear monophyly in Madagascar's mouse lemurs. 
  • Demographic study of a wild house sparrow population by DNA fingerprinting. 
  • Dense sampling of ethnic groups within African countries reveals fine-scale genetic structure and extensive historical admixture. 
  • Detection and localization of a single binary trait locus in experimental populations. 
  • Determinants of effective population size for loci with different modes of inheritance. 
  • Developing educational resources for population genetics in R: an open and collaborative approach. 
  • Differences and commonalities in the genetic architecture of protein quantitative trait loci in European and Arab populations. 
  • Different spectra of genomic deletions within the CCM genes between Italian and American CCM patient cohorts. 
  • Differential patterns of male and female mtDNA exchange across the Atlantic Ocean in the blue mussel, Mytilus edulis. 
  • Dissecting the role of a large chromosomal inversion in life history divergence throughout the Mimulus guttatus species complex. 
  • Distribution and medical impact of loss-of-function variants in the Finnish founder population. 
  • Distribution of transferrin saturations in the African-American population. 
  • Divergent population structure and climate associations of a chromosomal inversion polymorphism across the Mimulus guttatus species complex. 
  • Ecological divergence associated with mating system causes nearly complete reproductive isolation between sympatric Mimulus species. 
  • Effects of selection and mutation on mitochondrial variation and inferences of historical population expansion in a Caribbean reef fish. 
  • Effects of variation at the flower-colour A locus on mating system parameters in Ipomoea purpurea. 
  • Environmental adaptation contributes to gene polymorphism across the Arabidopsis thaliana genome. 
  • Epigenome-wide association study of kidney function identifies trans-ethnic and ethnic-specific loci. 
  • Estimating FST and kinship for arbitrary population structures. 
  • Evaluation of the genomic extent of effects of fixed inversion differences on intraspecific variation and interspecific gene flow in Drosophila pseudoobscura and D. persimilis. 
  • Evidence for sexuality in the opportunistic fungal pathogen Aspergillus fumigatus. 
  • Evidence of sexual recombination among Cryptococcus neoformans serotype A isolates in sub-Saharan Africa. 
  • Evolution and biogeography of deep-sea vent and seep invertebrates. 
  • Evolution of the segregation ratio: modification of gene conversion and meiotic drive. 
  • Evolutionary genetics in wild primates: combining genetic approaches with field studies of natural populations. 
  • Exact moment calculations for genetic models with migration, mutation, and drift. 
  • Exome sequencing identifies rare LDLR and APOA5 alleles conferring risk for myocardial infarction. 
  • Exponential distance statistics to detect the effects of population subdivision. 
  • Extrapolating weak selection in evolutionary games. 
  • Extreme selective sweeps independently targeted the X chromosomes of the great apes. 
  • Fine-scale population genetic structure in a fission-fusion society. 
  • Fine-scale variation in meiotic recombination in Mimulus inferred from population shotgun sequencing. 
  • Five anthocyanin polymorphisms are associated with an R2R3-MYB cluster in Mimulus guttatus (Phrymaceae). 
  • Functional divergence in tandemly duplicated Arabidopsis thaliana trypsin inhibitor genes. 
  • Gene conversion occurs within the mating-type locus of Cryptococcus neoformans during sexual reproduction. 
  • Gene flow between Drosophila pseudoobscura and D. persimilis. 
  • Gene flow biases population genetic inference of recombination rate. 
  • Genealogical histories in structured populations. 
  • Generalized admixture mapping for complex traits. 
  • Genetic Evidence of Importation of Drug-Resistant Plasmodium falciparum to Guatemala from the Democratic Republic of the Congo. 
  • Genetic analysis of over 1 million people identifies 535 new loci associated with blood pressure traits. 
  • Genetic architecture of gene expression traits across diverse populations. 
  • Genetic effective size of a wild primate population: influence of current and historical demography. 
  • Genetic evidence for hybridization in red oaks (Quercus sect. Lobatae, Fagaceae). 
  • Genetic evidence reveals temporal change in hybridization patterns in a wild baboon population. 
  • Genetic isolation between two recently diverged populations of a symbiotic fungus. 
  • Genetic structure and genealogy in the Sphagnum subsecundum complex (Sphagnaceae: Bryophyta). 
  • Genetic studies: look no further than your own backyard. 
  • Genetic variation in horizontally transmitted fungal endophytes of pine needles reveals population structure in cryptic species. 
  • Genetics and evolution: an iOS application to supplement introductory courses in transmission and evolutionary genetics. 
  • Genome evolution in an insect cell: distinct features of an ant-bacterial partnership. 
  • Genome-wide association study in individuals of South Asian ancestry identifies six new type 2 diabetes susceptibility loci. 
  • Genome-wide detection and characterization of positive selection in human populations. 
  • Genomewide ancestry and divergence patterns from low-coverage sequencing data reveal a complex history of admixture in wild baboons. 
  • Geographic patterns of microsatellite variation in Boechera stricta, a close relative of Arabidopsis. 
  • Global distribution, diversity hot spots and niche transitions of an astaxanthin-producing eukaryotic microbe. 
  • Great ape genetic diversity and population history. 
  • Han Chinese cell and genome bank in Taiwan: purpose, design and ethical considerations. 
  • Hardy-Weinberg testing for HLA class II (DRB1, DQA1, DQB1, and DPB1) loci in 26 human ethnic groups. 
  • Historical effects on beta diversity and community assembly in Amazonian trees. 
  • History and evolution of alpine plants endemic to the Qinghai-Tibetan Plateau: Aconitum gymnandrum (Ranunculaceae). 
  • Host genotype structures the microbiome of a globally dispersed marine phytoplankton. 
  • Human disturbance causes the formation of a hybrid swarm between two naturally sympatric fish species. 
  • Human genetic admixture through the lens of population genomics. 
  • Human genetic admixture. 
  • Identification of novel susceptibility Loci for kawasaki disease in a Han chinese population by a genome-wide association study. 
  • Identification of susceptibility loci contributing to a complex disease using conventional segregation, linkage, and association methods. 
  • Importance sampling for the infinite sites model. 
  • Increased risk for familial ovarian cancer among Jewish women: a population-based case-control study. 
  • Inductive determination of allele frequency spectrum probabilities in structured populations. 
  • Integrating statistical genetic and geospatial methods brings new power to phylogeography. 
  • Interleukin 12B (IL12B) genetic variation and pulmonary tuberculosis: a study of cohorts from The Gambia, Guinea-Bissau, United States and Argentina. 
  • Interploidal hybridization and mating patterns in the Sphagnum subsecundum complex. 
  • Large-scale GWAS identifies multiple loci for hand grip strength providing biological insights into muscular fitness. 
  • Leveraging population information in family-based rare variant association analyses of quantitative traits. 
  • Life, diversity and the pursuit of haplotypes. 
  • Likelihoods from summary statistics: recent divergence between species. 
  • Linkage disequilibrium and signatures of positive selection around LINE-1 retrotransposons in the human genome. 
  • Local adaptation and species segregation in two mussel (Mytilus edulis x Mytilus trossulus) hybrid zones. 
  • Local-scale genetic structure in the peatmoss Sphagnum fuscum. 
  • Localizing Post-Admixture Adaptive Variants with Object Detection on Ancestry-Painted Chromosomes. 
  • Long contiguous stretches of homozygosity in the human genome. 
  • Long-distance dispersal and genetic structure of natural populations: an assessment of the inverse isolation hypothesis in peat mosses. 
  • Lotka's game in predator-prey theory: linking populations to individuals. 
  • Low genetic variation and no detectable population structure in aspergillus fumigatus compared to closely related Neosartorya species. 
  • Major QTL controls adaptation to serpentine soils in Mimulus guttatus. 
  • Makers of the early Aurignacian of Europe. 
  • Mapping and characterization of structural variation in 17,795 human genomes. 
  • Measures of linkage disequilibrium among neighbouring SNPs indicate asymmetries across the house mouse hybrid zone. 
  • Microsatellite analysis of genetic diversity among clinical and nonclinical Saccharomyces cerevisiae isolates suggests heterozygote advantage in clinical environments. 
  • Minor quantitative trait loci underlie floral traits associated with mating system divergence in Mimulus. 
  • Modeling the effects of biologically incorporated radionuclides and chronic low-dose ionizing radiation exposure on both cancer and chronic non-cancer diseases. 
  • Multilocus analysis of variation and speciation in the closely related species Arabidopsis halleri and A. lyrata. 
  • Multilocus sequence typing suggests the chytrid pathogen of amphibians is a recently emerged clone. 
  • Multilocus test for introgression between the cactophilic species Drosophila mojavensis and Drosophila arizonae. 
  • Multiple colonisations of the western Indian Ocean by Pteropus fruit bats (Megachiroptera: Pteropodidae): the furthest islands were colonised first. 
  • Multiple hybrid formation in natural populations: concerted evolution of the internal transcribed spacer of nuclear ribosomal DNA (ITS) in North American Arabis divaricarpa (Brassicaceae). 
  • Multiple paternity and sporophytic inbreeding depression in a dioicous moss species. 
  • Mutation exposed: a neutral explanation for extreme base composition of an endosymbiont genome. 
  • Mutations in genes required for T-cell development: IL7R, CD45, IL2RG, JAK3, RAG1, RAG2, ARTEMIS, and ADA and severe combined immunodeficiency: HuGE review. 
  • Natural positive selection and north-south genetic diversity in East Asia. 
  • Natural variation for a hybrid incompatibility between two species of Mimulus. 
  • Natural variation in MAM within and between populations of Arabidopsis lyrata determines glucosinolate phenotype. 
  • Nearshore fish (Pholis gunnellus) persists across the North Atlantic through multiple glacial episodes. 
  • Neutral Theory Is the Foundation of Conservation Genetics. 
  • Nonlinear phenomena in the vocalizations of North Atlantic right whales (Eubalaena glacialis) and killer whales (Orcinus orca). 
  • North American origin and recent European establishments of the amphi-Atlantic peat moss Sphagnum angermanicum. 
  • Novel statistical methods for integrating genetic and stable isotope data to infer individual-level migratory connectivity. 
  • Oceanic islands are not sinks of biodiversity in spore-producing plants. 
  • On the evolutionary costs of self-incompatibility: incomplete reproductive compensation due to pollen limitation. 
  • On the origin and evolution of apomixis in Boechera 
  • On the origin of meiotic reproduction: a genetic modifier model. 
  • One haploid parent contributes 100% of the gene pool for a widespread species in northwest North America. 
  • Ordered subset analysis for case-control studies. 
  • Orion: Detecting regions of the human non-coding genome that are intolerant to variation using population genetics. 
  • Patterns and mechanisms of genetic and phenotypic differentiation in marine microbes. 
  • Phylogeny and biogeography of the American live oaks (Quercus subsection Virentes): a genomic and population genetics approach. 
  • Phylogeographic structure and cryptic speciation in the trans-Antarctic moss Pyrrhobryum mnioides. 
  • Phylogeography's past, present, and future: 10 years after Avise, 2000. 
  • Plasmodium falciparum sulfadoxine resistance is geographically and genetically clustered within the DR Congo. 
  • Pleiotropic quantitative trait loci contribute to population divergence in traits associated with life-history variation in Mimulus guttatus. 
  • Polymorphisms of FAS and FAS ligand genes involved in the death pathway and risk and progression of squamous cell carcinoma of the head and neck. 
  • Population genetic analyses reveal the African origin and strain variation of Cryptococcus neoformans var. grubii. 
  • Population genetic and phylogenetic evidence for positive selection on regulatory mutations at the factor VII locus in humans. 
  • Population genetic differentiation of the hydrothermal vent crab Austinograea alayseae (Crustacea: Bythograeidae) in the Southwest Pacific Ocean. 
  • Population genetic inference using a fixed number of segregating sites: a reassessment. 
  • Population genetic structure of Arabidopsis lyrata in Europe. 
  • Population genetics of a polyploid: is there hybridization between lineages of Hyla versicolor? 
  • Population genetics of polymorphism and divergence under fluctuating selection. 
  • Population genetics of tandem trypsin inhibitor genes in Arabidopsis species with contrasting ecology and life history. 
  • Population genetics, pleiotropy, and the preferential fixation of mutations during adaptive evolution. 
  • Population genomics and the evolution of virulence in the fungal pathogen Cryptococcus neoformans. 
  • Population genomics in South East Asia captures unexpectedly high carrier frequency for treatable inherited disorders. 
  • Population genomics reveal recent speciation and rapid evolutionary adaptation in polar bears. 
  • Population history in Arabidopsis halleri using multilocus analysis. 
  • Population structure and local selection yield high genomic variation in Mimulus guttatus. 
  • Population-genomic inference of the strength and timing of selection against gene flow. 
  • Positive selection on MMP3 regulation has shaped heart disease risk. 
  • Post-Austronesian migrational wave of West Polynesians to Micronesia. 
  • Predictors of mitochondrial DNA copy number and damage in a mercury-exposed rural Peruvian population near artisanal and small-scale gold mining: An exploratory study. 
  • Progressive island colonization and ancient origin of Hawaiian Metrosideros (Myrtaceae). 
  • QTL Mapping in Three Rice Populations Uncovers Major Genomic Regions Associated with African Rice Gall Midge Resistance. 
  • Recent divergence, intercontinental dispersal and shared polymorphism are shaping the genetic structure of amphi-Atlantic peatmoss populations. 
  • Recombination modulates how selection affects linked sites in Drosophila. 
  • Reference genome and demographic history of the most endangered marine mammal, the vaquita. 
  • Refugial isolation and range expansions drive the genetic structure of Oxyria sinensis (Polygonaceae) in the Himalaya-Hengduan Mountains. 
  • Regional management units for marine turtles: a novel framework for prioritizing conservation and research across multiple scales. 
  • Replicated Landscape Genomics Identifies Evidence of Local Adaptation to Urbanization in Wood Frogs. 
  • Review. The strength and genetic basis of reproductive isolating barriers in flowering plants. 
  • SNPselector: a web tool for selecting SNPs for genetic association studies. 
  • Saccharomyces cerevisiae: population divergence and resistance to oxidative stress in clinical, domesticated and wild isolates. 
  • Selective sweeps and intercontinental migration in the cosmopolitan moss Ceratodon purpureus (Hedw.) Brid. 
  • Self-fertilization and the escape from pollen limitation in variable pollination environments. 
  • SeqSIMLA2: simulating correlated quantitative traits accounting for shared environmental effects in user-specified pedigree structure. 
  • Sequencing studies in human genetics: design and interpretation. 
  • Sequential utilization of hosts from different fly families by genetically distinct, sympatric populations within the Entomophthora muscae species complex. 
  • Sex-biased admixture and assortative mating shape genetic variation and influence demographic inference in admixed Cabo Verdeans. 
  • SgD-CNV, a database for common and rare copy number variants in three Asian populations. 
  • Signatures of demography and recombination at coding genes in naturally-distributed populations of Arabidopsis lyrata subsp. petraea. 
  • Skin deep: The decoupling of genetic admixture levels from phenotypes that differed between source populations. 
  • Spatial Genetic Structure of the Abundant and Widespread Peatmoss Sphagnum magellanicum Brid. 
  • Spatial pattern of nucleotide polymorphism indicates molecular adaptation in the bryophyte Sphagnum fimbriatum. 
  • Speciation genetics: evolving approaches. 
  • Species delimitation in lemurs: multiple genetic loci reveal low levels of species diversity in the genus Cheirogaleus. 
  • Sporadic, Global Linkage Disequilibrium Between Unlinked Segregating Sites. 
  • Stepping-stone spatial structure causes slow decay of linkage disequilibrium and shifts the site frequency spectrum. 
  • Sympatric parallel diversification of major oak clades in the Americas and the origins of Mexican species diversity. 
  • Temporal Stability of Molecular Diversity Measures in Natural Populations of Drosophila pseudoobscura and Drosophila persimilis. 
  • The 2013 Novitski Prize: Jonathan Pritchard. 
  • The Evolution of Sex is Tempered by Costly Hybridization in Boechera (Rock Cress). 
  • The Evolution of Sexual Reproduction and the Mating-Type Locus: Links to Pathogenesis of Cryptococcus Human Pathogenic Fungi. 
  • The Marquesans at the fringes of the Austronesian expansion. 
  • The characterization of twenty sequenced human genomes. 
  • The contribution of admixture to primate evolution. 
  • The ethical and social implications of exploring African American genealogies. 
  • The evolution and diversification of the red oaks of the California Floristic Province (Quercus section Lobatae, series Agrifoliae). 
  • The evolutionary forest algorithm. 
  • The extent and genetic basis of phenotypic divergence in life history traits in Mimulus guttatus. 
  • The genetic architecture of selection at the human dopamine receptor D4 (DRD4) gene locus. 
  • The genetic epidemiology of multiple sclerosis. 
  • The genomic consequences of adaptive divergence and reproductive isolation between species of manakins. 
  • The spatial scale of genetic subdivision in populations of Ifremeria nautilei, a hydrothermal-vent gastropod from the southwest Pacific. 
  • The ties that bind: genetic relatedness predicts the fission and fusion of social groups in wild African elephants. 
  • Theories of kin and group selection: a population genetics perspective. 
  • Towards an integrated ecosystem of R packages for the analysis of population genetic data. 
  • Trans-ethnic fine-mapping of genetic loci for body mass index in the diverse ancestral populations of the Population Architecture using Genomics and Epidemiology (PAGE) Study reveals evidence for multiple signals at established loci. 
  • Transcriptional regulation and the evolution of development. 
  • VKORC1 haplotypes in five East-Asian populations and Indians. 
  • Wagner's canalization model. 
  • Waiting for two mutations: with applications to regulatory sequence evolution and the limits of Darwinian evolution. 
  • What can patterns of differentiation across plant genomes tell us about adaptation and speciation? 
  • Working at the interface of phylogenetics and population genetics: a biogeographical analysis of Triaenops spp. (Chiroptera: Hipposideridae). 
  • minotaur: A platform for the analysis and visualization of multivariate results from genome scans with R Shiny. 
• 

  Keywords of People

  • Alberts, Susan C., Robert F. Durden Distinguished Professor of Biology, Duke Science & Society
  • Mitchell-Olds, Thomas, Newman Ivey White Distinguished Professor of Biology, Biology
  • Noor, Mohamed A. F., Professor of Biology, Duke University
  • Schultz, Thomas F., Assistant Professor of the Practice of Marine Molecular Conservation, Marine Science and Conservation
  • Shinohara, Mari L., Professor of Integrative Immunobiology, Cell Biology
  • Wray, Gregory Allan, Professor of Biology, Evolutionary Anthropology