scholarly journals Reanalysis of Eurasian Population History: Ancient DNA Evidence of Population Affinities

Human Biology ◽  
2006 ◽  
Vol 78 (4) ◽  
pp. 413-440
Author(s):  
Casey C. Bennett ◽  
Frederika A. Kaestle
Keyword(s):  
Ancient Dna ◽  
Population History ◽  
Dna Evidence ◽  
Population Affinities

Ancient DNA perspectives on American colonization and population history

2011 ◽  
Vol 146 (4) ◽  
pp. 503-514 ◽  
Author(s):  
Jennifer A. Raff ◽  
Deborah A. Bolnick ◽  
Justin Tackney ◽  
Dennis H. O'Rourke
Keyword(s):  
Ancient Dna ◽  
Population History

Ancient DNA evidence reveals that the Y chromosome haplogroup Q1a1 admixed into the Han Chinese 3,000 years ago

2014 ◽  
Vol 26 (6) ◽  
pp. 813-821 ◽  
Author(s):  
Yong-Bin Zhao ◽  
Ye Zhang ◽  
Hong-Jie Li ◽  
Ying-Qiu Cui ◽  
Hong Zhu ◽  
...  
Keyword(s):  
Y Chromosome ◽  
Ancient Dna ◽  
Han Chinese ◽  
Dna Evidence

Ancient DNA evidence supports the contribution of Di-Qiang people to the han Chinese gene pool

2010 ◽  
Vol 144 (2) ◽  
pp. 258-268 ◽  
Author(s):  
Yong-Bin Zhao ◽  
Hong-Jie Li ◽  
Sheng-Nan Li ◽  
Chang-Chun Yu ◽  
Shi-Zhu Gao ◽  
...  
Keyword(s):  
Ancient Dna ◽  
Gene Pool ◽  
Han Chinese ◽  
Dna Evidence

scholarly journals Reconciling evidence from ancient and contemporary genomes: a major source for the European Neolithic within Mediterranean Europe

2017 ◽  
Vol 284 (1851) ◽  
pp. 20161976 ◽  
Author(s):  
Joana B. Pereira ◽  
Marta D. Costa ◽  
Daniel Vieira ◽  
Maria Pala ◽  
Lisa Bamford ◽  
...  
Keyword(s):  
Ancient Dna ◽  
Near East ◽  
Eastern Mediterranean ◽  
Late Glacial ◽  
Near Eastern ◽  
Dna Evidence ◽  
Late Glacial Period ◽  
Potential Source ◽  
Mediterranean Europe ◽  
Genetic Pool

Important gaps remain in our understanding of the spread of farming into Europe, due partly to apparent contradictions between studies of contemporary genetic variation and ancient DNA. It seems clear that farming was introduced into central, northern, and eastern Europe from the south by pioneer colonization. It is often argued that these dispersals originated in the Near East, where the potential source genetic pool resembles that of the early European farmers, but clear ancient DNA evidence from Mediterranean Europe is lacking, and there are suggestions that Mediterranean Europe may have resembled the Near East more than the rest of Europe in the Mesolithic. Here, we test this proposal by dating mitogenome founder lineages from the Near East in different regions of Europe. We find that whereas the lineages date mainly to the Neolithic in central Europe and Iberia, they largely date to the Late Glacial period in central/eastern Mediterranean Europe. This supports a scenario in which the genetic pool of Mediterranean Europe was partly a result of Late Glacial expansions from a Near Eastern refuge, and that this formed an important source pool for subsequent Neolithic expansions into the rest of Europe.

scholarly journals Ancient ancestry informative markers for identifying fine-scale ancient population structure in Eurasians

2018 ◽  
Author(s):  
Umberto Esposito ◽  
Ranajit Das ◽  
Mehdi Pirooznia ◽  
Eran Elhaik
Keyword(s):  
Population Structure ◽  
Ancient Dna ◽  
Principal Component ◽  
Population History ◽  
Fine Scale ◽  
Ancestry Informative Markers ◽  
Ancient Population ◽  
Human Genomes ◽  
Rapid Accumulation ◽  
Time Periods

AbstractThe rapid accumulation of ancient human genomes from various areas and time periods potentially allows the expansion of studies of biodiversity, biogeography, forensics, population history, and epidemiology into past populations. However, most ancient DNA (aDNA) data were generated through microarrays designed for modern-day populations known to misrepresent the population structure. Past studies addressed these problems using ancestry informative markers (AIMs). However, it is unclear whether AIMs derived from contemporary human genomes can capture ancient population structure and whether AIM finding methods are applicable to ancient DNA (aDNA) provided that the high missingness rates in ancient, oftentimes haploid, DNA can also distort the population structure. Here, we define ancient AIMs (aAIMs) and develop a framework to evaluate established and novel AIM-finding methods in identifying the most informative markers. We show that aAIMs identified by a novel principal component analysis (PCA)-based method outperforms all competing methods in classifying ancient individuals into populations and identifying admixed individuals. In some cases, predictions made using the aAIMs were more accurate than those made with a complete marker set. We discuss the features of the ancient Eurasian population structure and strategies to identify aAIMs. This work informs the design of population microarrays and the interpretation of aDNA results.

Ancient DNA and Stable Isotopes

2016 ◽  
Author(s):  
Dennis O'Rourke ◽  
Justin Tackney ◽  
Joan Coltrain ◽  
Jennifer Raff
Keyword(s):  
Ancient Dna ◽  
Multidisciplinary Approach ◽  
Adaptive Strategies ◽  
Population History ◽  
Isotopic Signatures ◽  
Resource Information ◽  
The North ◽  
North American Arctic ◽  
History Of ◽  
Isotope Analyses

Genetic diversity in modern Arctic communities provides a baseline from which to assess population history. This is augmented by documenting patterns of genetic variation in prehistoric populations using ancient DNA methods, and inferring dietary resource information and adaptive strategies derived from stable isotope analyses. This chapter uses this multidisciplinary approach to examine population history and colonization events in the Aleutians of South Alaska, and the origin and population history of Paleoeskimo and Neoeskimo populations of the North American Arctic. The power to identify past demographic events relies on knowledge of both genetic and isotopic signatures of demographic events, and on acquisition of securely dated and well provenienced samples for analysis.

scholarly journals Ancient DNA reconstructs the genetic legacies of pre-contact Puerto Rico communities

2019 ◽  
Author(s):  
Maria A. Nieves-Colón ◽  
William J. Pestle ◽  
Austin W. Reynolds ◽  
Bastien Llamas ◽  
Constanza de la Fuente ◽  
...  
Keyword(s):  
Puerto Rico ◽  
Native American ◽  
Indigenous Peoples ◽  
Ancient Dna ◽  
High Throughput Sequencing ◽  
Puerto Ricans ◽  
Indigenous Communities ◽  
Population History ◽  
South American ◽  
Mtdna Diversity

AbstractIndigenous peoples have occupied the island of Puerto Rico since at least 3000 B.C. Due to the demographic shifts that occurred after European contact, the origin(s) of these ancient populations, and their genetic relationship to present-day islanders, are unclear. We use ancient DNA to characterize the population history and genetic legacies of pre-contact Indigenous communities from Puerto Rico. Bone, tooth and dental calculus samples were collected from 124 individuals from three pre-contact archaeological sites: Tibes, Punta Candelero and Paso del Indio. Despite poor DNA preservation, we used target enrichment and high-throughput sequencing to obtain complete mitochondrial genomes (mtDNA) from 45 individuals and autosomal genotypes from two individuals. We found a high proportion of Native American mtDNA haplogroups A2 and C1 in the pre-contact Puerto Rico sample (40% and 44%, respectively). This distribution, as well as the haplotypes represented, support a primarily Amazonian South American origin for these populations, and mirrors the Native American mtDNA diversity patterns found in present-day islanders. Three mtDNA haplotypes from pre-contact Puerto Rico persist among Puerto Ricans and other Caribbean islanders, indicating that present-day populations are reservoirs of pre-contact mtDNA diversity. Lastly, we find similarity in autosomal ancestry patterns between pre-contact individuals from Puerto Rico and the Bahamas, suggesting a shared component of Indigenous Caribbean ancestry with close affinity to South American populations. Our findings contribute to a more complete reconstruction of pre-contact Caribbean population history and explore the role of Indigenous peoples in shaping the biocultural diversity of present-day Puerto Ricans and other Caribbean islanders.

Ancient DNA evidence of Iberian lynx palaeoendemism

2015 ◽  
Vol 112 ◽  
pp. 172-180 ◽  
Author(s):  
Ricardo Rodríguez-Varela ◽  
Antonio Tagliacozzo ◽  
Irene Ureña ◽  
Nuria García ◽  
Evelyne Crégut-Bonnoure ◽  
...  
Keyword(s):  
Ancient Dna ◽  
Iberian Lynx ◽  
Dna Evidence

scholarly journals Does the 43 bp sequence from an 800 000 year old Cretan dwarf elephantid really rewrite the textbook on mammoths?

2006 ◽  
Vol 3 (1) ◽  
pp. 58-60 ◽  
Author(s):  
Ludovic Orlando ◽  
Marie Pagés ◽  
Sébastien Calvignac ◽  
Sandrine Hughes ◽  
Catherine Hänni
Keyword(s):  
Ancient Dna ◽  
Mediterranean Region ◽  
Taxonomic Revision ◽  
Asian Elephants ◽  
The Holocene ◽  
Anatomical Characteristics ◽  
Dna Evidence ◽  
Mtdna Sequence ◽  
The Mediterranean ◽  
Woolly Mammoth

Pigmy elephants inhabited the islands from the Mediterranean region during the Pleistocene period but became extinct in the course of the Holocene. Despite striking distinctive anatomical characteristics related to insularity, some similarities with the lineage of extant Asian elephants have suggested that pigmy elephants could be most probably seen as members of the genus Elephas . Poulakakis et al. (2006) have recently challenged this view by recovering a short mtDNA sequence from an 800 000 year old fossil of the Cretan pigmy elephant ( Elephas creticus ). According to the authors of this study, a deep taxonomic revision of Cretan dwarf elephants would be needed, as the sequence exhibits clear affinities with woolly mammoth haplotypes. However, we point here many aspects that seriously weaken the strength of the ancient DNA evidence reported.

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