A5005328487- Forensic and Genetic Research
- Genetic diversity and population structure
- Forensic Anthropology and Bioarchaeology Studies
- Archaeology and ancient environmental studies
- Race, Genetics, and Society
- Genetic Mapping and Diversity in Plants and Animals
- Genetic Associations and Epidemiology
- Pleistocene-Era Hominins and Archaeology
- Genomics and Phylogenetic Studies
- Yersinia bacterium, plague, ectoparasites research
- Genetic and phenotypic traits in livestock
- Molecular Biology Techniques and Applications
- Evolution and Genetic Dynamics
- Chromosomal and Genetic Variations
- Zoonotic diseases and public health
- Paleopathology and ancient diseases
- Genomics and Rare Diseases
- Genomic variations and chromosomal abnormalities
- Digestive system and related health
- Bayesian Methods and Mixture Models
- Indigenous Studies and Ecology
- Animal Genetics and Reproduction
- Fractal and DNA sequence analysis
- Nutrition, Genetics, and Disease
- Historical and Archaeological Studies
Uppsala University
2016-2025
University of Johannesburg
2017-2024
Science for Life Laboratory
2014-2023
Institute for Anthropological Research
2021
Stockholm University
2016
Linköping University
2006-2012
Institut de Biologia Evolutiva
2011
Czech Academy of Sciences, Biology Centre
2011
University of Michigan–Ann Arbor
2006-2009
Washtenaw Community College
2008-2009
Abstract Motivation: Clustering of individuals into populations on the basis multilocus genotypes is informative in a variety settings. In population-genetic clustering algorithms, such as BAPS, STRUCTURE and TESS, individual are partitioned over set clusters, often using unsupervised approaches that involve stochastic simulation. As result, replicate cluster analyses same data may produce several distinct solutions for estimated membership coefficients, even though initial conditions were...
The identification of the genetic structure populations from multilocus genotype data has become a central component modern population-genetic analysis. Application model-based clustering programs often entails number steps, in which user considers different modelling assumptions, compares results across predetermined values assumed clusters (a parameter typically denoted K), examines multiple independent runs for each fixed value K, and distinguishes among belonging to substantially...
We resequenced 876 short fragments in a sample of 96 individuals Arabidopsis thaliana that included stock center accessions as well hierarchical from natural populations. Although A. is selfing weed, the pattern polymorphism general agrees with what expected for widely distributed, sexually reproducing species. Linkage disequilibrium decays rapidly, within 50 kb. Variation shared worldwide, although population structure and isolation by distance are evident. The data fail to fit standard...
Abstract Motivation: Analysis of the distribution alleles across populations is a useful tool for examining population diversity and relationships. However, sample sizes often differ populations, sometimes making it difficult to assess allelic distributions groups. Results: We introduce generalized rarefaction approach counting private combinations populations. Our method evaluates number found in each set but absent all remaining considering equal-sized subsamples from population. Applying...
We examined genetic diversity and population structure in the American landmass using 678 autosomal microsatellite markers genotyped 422 individuals representing 24 Native populations sampled from North, Central, South America. These data were analyzed jointly with similar available 54 other indigenous worldwide, including an additional five groups. The have lower greater differentiation than continental regions. observe gradients both of decreasing as a function geographic distance Bering...
The farming way of life originated in the Near East some 11,000 years ago and had reached most European continent 5000 later. However, impact agricultural revolution on demography patterns genomic variation Europe remains unknown. We obtained 249 million base pairs DNA from ~5000-year-old three hunter-gatherers one farmer excavated Scandinavia find that is genetically similar to extant southern Europeans, contrasting sharply hunter-gatherers, whose distinct genetic signature northern...
How and when the Americas were populated remains contentious. Using ancient modern genome-wide data, we found that ancestors of all present-day Native Americans, including Athabascans Amerindians, entered as a single migration wave from Siberia no earlier than 23 thousand years ago (ka) after more an 8000-year isolation period in Beringia. After their arrival to Americas, ancestral Americans diversified into two basal genetic branches around 13 ka, one is now dispersed across North South...
Southern Africa is consistently placed as a potential region for the evolution of Homo sapiens We present genome sequences, up to 13x coverage, from seven ancient individuals KwaZulu-Natal, South Africa. The remains three Stone Age hunter-gatherers (about 2000 years old) were genetically similar current-day southern San groups, and those four Iron farmers (300 500 present-day Bantu-language speakers. estimate that all modern-day Khoe-San groups have been influenced by 9 30% genetic admixture...
The history of click-speaking Khoe-San, and African populations in general, remains poorly understood. We genotyped ~2.3 million single-nucleotide polymorphisms 220 southern Africans found that the Khoe-San diverged from other ≥100,000 years ago, but population structure within dated back to about 35,000 ago. Genetic variation various sub-Saharan did not localize origin modern humans a single geographic region Africa; instead, it indicated admixture stratification. evidence adaptation...
Significance Strict laboratory precautions against present day human DNA contamination are standard in ancient studies, but is already inside many fossils from previous handling without specific precautions. We designed a statistical framework to isolate endogenous sequences contaminating using postmortem degradation patterns and were able reduce high-contamination fractions negligible levels. captured contaminated Neandertal bone Okladnikov Cave Siberia used our method assemble its...
Prehistoric population structure associated with the transition to an agricultural lifestyle in Europe remains a contentious idea. Population-genomic data from 11 Scandinavian Stone Age human suggest that hunter-gatherers had lower genetic diversity than of farmers. Despite their close geographical proximity, differentiation between two groups was greater observed among extant European populations. Additionally, Neolithic farmers exhibited degree hunter-gatherer-related admixture Tyrolean...
The New World Arctic, the last region of Americas to be populated by humans, has a relatively well-researched archaeology, but an understanding its genetic history is lacking. We present genome-wide sequence data from ancient and present-day humans Greenland, Arctic Canada, Alaska, Aleutian Islands, Siberia. show that Paleo-Eskimos (~3000 BCE 1300 CE) represent migration pulse into independent both Native American Inuit expansions. Furthermore, continuity characterizing Paleo-Eskimo period...
Significance The transition from a foraging subsistence strategy to sedentary farming society is arguably the greatest innovation in human history. Some modern-day groups—specifically Basques—have been argued be remnant population that connect back Paleolithic. We present, our knowledge, first genome-wide sequence data eight individuals associated with archaeological remains cultures El Portalón cave (Atapuerca, Spain). These emerged same group of people as other Early European farmers, and...
Archaeogenomic research has proven to be a valuable tool trace migrations of historic and prehistoric individuals groups, whereas relationships within group or burial site have not been investigated large extent. Knowing the genetic kinship would give important insights into social structures ancient cultures. Most archaeogenetic concerning restricted uniparental markers, while studies using genome-wide information were mainly focused on comparisons between populations. Applications which...
F(ST) is frequently used as a summary of genetic differentiation among groups. It has been suggested that depends on the allele frequencies at locus, it exhibits variety peculiar properties related to diversity: higher values for biallelic single-nucleotide polymorphisms (SNPs) than multiallelic microsatellites, low high-diversity populations viewed substantially distinct, and differ primarily in their profiles rare alleles. A full mathematical understanding dependence frequencies, however,...
Scandinavia was one of the last geographic areas in Europe to become habitable for humans after Last Glacial Maximum (LGM). However, routes and genetic composition these postglacial migrants remain unclear. We sequenced genomes, up 57× coverage, seven hunter-gatherers excavated across dated from 9,500–6,000 years before present (BP). Surprisingly, among Scandinavian Mesolithic individuals, data display an east–west gradient that opposes pattern seen other parts Europe. Our results suggest...
The archaeological documentation of the development sedentary farming societies in Anatolia is not yet mirrored by a genetic understanding human populations involved, contrast to spread Europe [1Bramanti B. Thomas M.G. Haak W. Unterlaender M. Jores P. Tambets K. Antanaitis-Jacobs I. Haidle M.N. Jankauskas R. Kind C.-J. et al.Genetic discontinuity between local hunter-gatherers and central Europe's first farmers.Science. 2009; 326: 137-140Crossref PubMed Scopus (363) Google Scholar, 2Skoglund...
Island Southeast Asia has recently produced several surprises regarding human history, but the region's complex demography remains poorly understood. Here, we report ∼2.3 million genotypes from 1,028 individuals representing 115 indigenous Philippine populations and genome-sequence data two ∼8,000-y-old Liangdao in Taiwan Strait. We show that islands were populated by at least five waves of migration: initially Northern Southern Negritos (distantly related to Australian Papuan groups),...