Traditional Mediterranean diet protects against diabetes

The Traditional Mediterranean Diet Protects Against Diabetes, Study Suggests:

ScienceDaily (May 30, 2008) — The traditional Mediterranean diet provides substantial protection against type 2 diabetes, according to a study published on British Medical Journal website.

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Current evidence suggests that such a diet has a protective role in cardiovascular disease, but little is known about its role on the risk of developing diabetes in healthy populations.

The SUN prospective cohort study involved over 13 000 graduates from the University of Navarra in Spain with no history of diabetes, who were recruited between December 1999 and November 2007, and whose dietary habits and health were subsequently tracked.

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During the follow-up period (median 4.4 years) the researchers from the University of Navarra found that participants who stuck closely to the diet had a lower risk of diabetes. A high adherence to the diet was associated with an 83% relative reduction in the risk of developing diabetes.

Interestingly, those participants who stuck strictly to the diet also had the highest prevalence of risk factors for diabetes such as older age, a family history of diabetes, and a higher proportion of ex-smokers. This group of participants was therefore expected to have a higher incidence of diabetes, but this was not the case. If fact, say the authors, they had a lower risk of diabetes, suggesting that the diet might provide substantial protection.

BMJ, doi:10.1136/bmj.39561.501007.BE (published 29 May 2008)

Adherence to Mediterranean diet and risk of developing diabetes: prospective cohort study

M Á Martínez-González, professor of epidemiology and chair¹, C de la Fuente-Arrillaga, research assistant¹, J M Nunez-Cordoba, research fellow^1,2, F J Basterra-Gortari, research fellow^1,3, J J Beunza, assistant professor¹, Z Vazquez, research assistant¹, S Benito, research assistant¹, A Tortosa, research fellow¹, M Bes-Rastrollo, assistant professor¹

¹ Department of Preventive Medicine and Public Health, Medical School-Clinica Universitaria, University of Navarra, Pamplona, Spain, ² Department of Preventive Medicine and Quality Management, Hospital Virgen del Camino, Pamplona, Spain, ³ Department of Endocrinology, Hospital of Navarra, Pamplona, Spain

Correspondence to: M Á Martínez-González mamartinez@unav.es

Objective To assess the relation between adherence to a Mediterranean diet and the incidence of diabetes among initially healthy participants.

Design Prospective cohort study with estimates of relative risk adjusted for sex, age, years of university education, total energy intake, body mass index, physical activity, sedentary habits, smoking, family history of diabetes, and personal history of hypertension.

Setting Spanish university department.

Participants 13 380 Spanish university graduates without diabetes at baseline followed up for a median of 4.4 years.

Main outcome measures Dietary habits assessed at baseline with a validated 136 item food frequency questionnaire and scored on a nine point index. New cases of diabetes confirmed through medical reports and an additional detailed questionnaire posted to those who self reported a new diagnosis of diabetes by a doctor during follow-up. Confirmed cases of type 2 diabetes.

Results Participants who adhered closely to a Mediterranean diet had a lower risk of diabetes. The incidence rate ratios adjusted for sex and age were 0.41 (95% confidence interval 0.19 to 0.87) for those with moderate adherence (score 3-6) and 0.17 (0.04 to 0.75) for those with the highest adherence (score 7-9) compared with those with low adherence (score <3). In the fully adjusted analyses the results were similar. A two point increase in the score was associated with a 35% relative reduction in the risk of diabetes (incidence rate ratio 0.65, 0.44 to 0.95), with a significant inverse linear trend (P=0.04) in the multivariate analysis.

Conclusion Adherence to a Mediterranean diet is associated with a reduced risk of diabetes.

The length of life in classical Greece

Hormones (Athens). 2008 Jan-Mar;7(1):82-3.

The length of life and eugeria in classical Greece.

Batrinos ML.

Contrary to the commonly held belief that in antiquity and as late as 1700 A.D. normal lifespan was about 35 years, there are indications that the ancient Greeks lived longer. In a study of all men of renown, living in the 5th and 4th century in Greece, we identified 83 whose date of birth and death have been recorded with certainty. Their mean +/- SD and median lengths of life were found to be 71.3+/-13.4 and 70 years, respectively. Although this cohort cannot be considered as representative of the general population, it is however indicative of a long length of life in classical Greece. Good living conditions and a mild climate at the time of intellectual and artistic excellence, the use of slaves for hard work, an animated social life in which the aged actively participated and, not least of all, the respect that aged people were accorded by the younger, all favored a longer length of life and eugeria (happy aging) or eulongevity in classical Greece.

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mtDNA haplogroup D2a1 in Paleo-Eskimo human

Ancient hair suggests multiple migrations into Americas

An ancient tuft of dark-brown human hair suggests that a tribe of humans trekked from north Asia to settle in what is now Greenland 3500 years ago – and then vanished.

A team of Danish scientists has found that DNA collected from the hair traces back to Asians, not Native Americans or the Eskimos that currently populate the region. This suggests that the first humans to colonise the American Arctic were distinct from the first people who arrived in America more than 14,000 years ago.

The hair – found in northern Greenland – may even be a relic of a steady trickle of human migrations across a harsh Arctic landscape, says evolutionary anthropologist Tom Gilbert of Copenhagen University in Denmark, who led the study. "It's bloody hard work to colonise the Arctic. It is not an easy venture," he adds.

Science DOI: 10.1126/science.1159750

Paleo-Eskimo mtDNA Genome Reveals Matrilineal Discontinuity in Greenland

M. Thomas et al.

The Paleo-Eskimo Saqqaq and Independence I cultures, documented from archaeological remains in Northern Canada and Greenland, represent the earliest human expansion into the New World’s northern extremes. However, their origin and genetic relationship to later cultures is unknown. We sequenced a mitochondrial genome from a Paleo-Eskimo human, using 3400- to 4500-year-old frozen hair excavated from an early Greenlandic Saqqaq settlement. The sample is distinct from modern Native Americans and Neo-Eskimos, falling within haplogroup D2a1, a group previously observed among modern Aleuts and Siberian Sireniki Yuit. This suggests that the earliest migrants into the New World’s northern extremes derived from populations in the Bering Sea area, and were neither directly related to Native Americans nor the later Neo-Eskimos that replaced them.

Link

Correlation of Y-haplogroups J2 and J1 with Neolithic agro-pastoral economies

Roy King and Peter Underhill had previously published on the Congruent distribution of Neolithic painted pottery and ceramic figurines with Y-chromosome lineages, in which they found that:

Only the Eu9 [Dienekes: J2-M172] haplogroup successfully predicted the distribution of both Neolithic figurines (88% accuracy) and painted pottery (80% accuracy).

From the paper:

Lifestyle differences exist between agriculturalists and pastoralists (Khazanov 1984). Sedentary agriculturalists and semi-nomadic herders often occupy different ecological niches (Cauvin 2000; Zarins 1990). Dry farming without irrigation is confined to regions of
250-400mm of annual precipitation (Bar-Yosef 1998; Buccellati 1992), while pastoral nomadism is an adaptation to regional semi-aridity (Bellwood 2005; Zarins 1990). It has been shown that the spatial variation of rainfall is important in dictating the structure of endemic flora (Kadmon & Danin 1999). Since the focus of our study is the Neolithic transition, we restrict our analysis of Y-chromosomes and rainfall to the approximate Fertile Crescent ‘homeland’ region implicated in the shift to an agro-pastoralist economy.

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As predicted, both haplogroups J1 and J2a correlated significantly with annual precipitation. The Spearman correlation tests gave the following results for each haplogroup: J1 r= −0.45, p<0.05; J2a r=0.56, p<0.01; and J2b r=0.00, p (not significant) ... As shown, haplogroup J1
frequency increases as precipitation level reduces below the 400mm per year threshold, typical of semi-arid climates. In contrast, haplogroup J2a frequency reaches a maximum at 700mm per year within the Mediterranean woodland and open parkland zone (Bar-Yosef 1998).

I wonder how these results would change if populations from the Caucasus were included where there are some very significant J1 concentrations that seem to exceed even those of Semitic speaking groups except the Arabians. It's not clear how related the J1 found in places like Daghestan is to that of the Arabian peninsula, or if it resembles the J1 with the short DYS388 alleles found in northeastern Anatolia (where there is high precipitation). Perhaps just as J2a (but not J2b) correlates with high precipitation, a yet-to-be-discovered subclade of J1 is a stronger signal linked to arid climates.

I have been thinking about J1/J2 distribution in West Asia recently; the early surveys of its variation suggested a north/south Fertile crescent dichotomy between the two, but now its distribution looks more like a cross (+) or a T, with a longitudinally constrained J1-rich zone from Arabia to the eastern Caucasus, crossed by a east-west J2-rich zone across the length of the Anatolian peninsula (and indeed into southern Europe) on the west side, and Iran, Pakistan, and India on the east side. What is strange is that both westward and eastward from the central region (the middle point of the +, places like Iraq, eastern Turkey, Syria, northern Iran) the J2/J ratio decreases, approaching ~0.9 in the Balkans, and really 1.0 on the opposite side among the J1-less Hindus.



Antiquity Volume: 82 Number: 316 Page: 281–289

Correlation of annual precipitation with human Y-chromosome diversity and the emergence of Neolithic agricultural and pastoral economies in the Fertile Crescent

Jacques Chiaroni1, Roy J. King and Peter A. Underhill

Examining the beginnings of agriculture in the ‘Fertile Crescent’, this research team has compared the distribution of rainfall with the distribution of Y-chromosome haplogroups. The extended families signalled by J1 and J2 haplogroups seem to have had different destinies in the era of agro-pastoralist experiment: J2 were the agricultural innovators who followed the rainfall, while J1 remained largely with their flocks. Acknowledging the fuzzy edges of such mapping, the authors nevertheless escort us into new realms of the possible for the early history of peoples.

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ISBA3 abstracts

Many abstracts from the International Symposium on Biomolecular Archaeology.

Various DNA / Technology

Human ancient DNA analysis within The Genographic Project: a project update and preliminary results from two powerful multiplex SBE typing methods

Wolfgang Haak1, Juan J Sanchez2, Clio Der Sarkissian1, Christina Adler1 & Alan Cooper1

1 The Australian Centre of Ancient DNA, School of Earth & Environmental Sciences, The University of Adelaide, North Terrace Campus, SA-5005 Adelaide, Australia
2 National Institute of Toxicology and Forensic Science, Canary Islands Delegation, 38320 Tenerife, Spain.

The Australian Centre of Ancient DNA (ACAD) is one of 11 Regional Centres of The Genographic Project (TGP), and the only centre dedicated solely to ancient human DNA analyses. Our aim is to provide a temporal perspective to the movements and presence of prehistoric and historic populations through ancient DNA, and establish a time depth to the detailed genetic landscape being generated from the largescale modern human population data of TGP. We will present an update on the current activities and an overview of the protocols and strategies used in the ACAD. The retrieval of authentic human ancient DNA is plagued by methodological problems, and to deal with these we are relying on state-of-the-art methods ranging from sample collection through to data generation. We are using SPEX and multiplex PCR assays followed by SBE typing to analyse both mtDNA coding region markers and nuclear NRY markers. New multiplex assays were designed to amplify highly degraded DNA with an average amplicon length of 60-80bp, targeting 22 mtDNA SNPs and 25 NRY SNPs - to match the core marker panel used within TGP. Preliminary results show that the SBE typing protocols are robust and prove to be highly efficient in targeting minute amounts of suriving aDNA. In addition, the main advantage of SBE has proven to be the detecting power of omnipresent (background) contamination. We conclude that the mtDNA and NRY SBE assays, in combination with sequence data from the mtDNA control region (backed up by cloning and SPEX), and specialised sample collecting systems, provide a powerful means to effectively generate largescale (pre-)historic population data from ancient human samples.

What colour was Attila the Hun’s horse?: genetic signatures of phenotypic traits in archaeological materials

Mim A. Bower¹, Michael G. Campana², Diane Lister¹, Mark Whitten³, Kathy M. Dominy⁴, Angela M. Murphy⁵, Paula Jenkins⁶, Richard Sabin⁶, Michael Akam⁷, Robert Asher⁷ & Matthew Binns⁵.

¹ McDonald Institute for Archaeological Research, University of Cambridge, Downing Street, Cambridge, CB2 3ER, UK.

² Department of Archaeology, University of Cambridge, Downing Street, Cambridge, CB2 3DZ, UK.

³ Comparative Population Linguistics Group, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103 Leipzig, Germany.

⁴Department of Medical and Molecular Genetics, King's College London School of Medicine, Guy's Hospital, London, SE1 9RT, UK.

⁵Department of Veterinary Basic Sciences, the Royal Veterinary College, Royal College Street, London, NW1 0TU, UK.

⁶ Department of Zoology, Natural History Museum, Cromwell Road, South Kensington, London SW7 5BD, UK

⁷Department of Zoology, University of Cambridge, Downing Street, Cambridge CB2 3EJ, UK.

Studying the phenotype, i.e. what a plant or animal looked or behaved like, is perhaps the next “Holy Grail” in ancient DNA research. If we could trace the genes responsible for particular characters in archaeological specimens, it would open the door to some highly relevant and interesting questions in archaeology; the least of which may be the elusive “domestication gene”, but could cover more basic questions, such as: did people in mediaeval Europe prefer cows that had a tendency to lay down fat or muscle? When and where did a particular genetic disorder enter a domestic population? Was the spread of agriculture influenced by adverse environmental conditions? Or what colour was Attila the Hun’s horse? We could begin to understand past approaches to animal and plant husbandry, the expression of past human choice and selection, and past understanding of biological processes such as heredity. Fortunately, molecular biology is fast uncovering the genes responsible for particular phenotypic traits – the only problem, and a significant one perhaps, is looking for these genetic signatures in ancient DNA, known to be a recalcitrant material for analysis.

Here we present the results of our research on phenotypic loci in various historic and archaeological materials (bones, teeth, parchment, hide, seeds), and discuss the potential for future of phenotypic research in archaeogenetics.

Greece & Italy

Aristophanes and Stable Isotopes: Comparing literary and isotopic evidence of diet in Classical Thebes, Greece.

Efrossini Vika ^1,2, Mike Richards^3,4, Holger Schutkowski² and Vassilis Aravantinos⁵

¹ School of Conservation Sciences, Bournemouth University, BH12 5BB, UK

² Division of Archaeological, Geographical and Environmental Sciences, University of Bradford, BD7 1DP, UK

³ Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, 04103 Leipzig, DE

⁴ Department of Archaeology, Durham University, DH1 3LE, UK

⁵ IX Ephorate of Prehistoric and Classical Antiquities, Thebes 60200, GR

The greatest advantage for an archaeologist working with historically dated material is the existence of literary sources, which can complement scientific analyses in archaeology. The present study compiles a dietary profile for the inhabitants of Classical Thebes, using δ¹³C and δ¹⁵N isotope analysis, comparing this evidence with information on diet as presented in Aristophanes’ comedies (Acharnians, Plutus, Wasps).

Aristophanes’ work is abundant in satirical scenes, which emphasize personal attributes and local characteristics. Within this realm, it is possible to extract information on dietary habits, trade and economy in the Classical times. Merchants from Thebes oftentimes appear in his work, reflecting the city’s wealth. Among the goods deriving from this region, eels feature prominently, and are praised as an exceptional delicacy.

Stable isotope analyses of bone collagen were carried out for individuals from the Classical burials of the Northeastern cemetery of Thebes. Results show a remarkable increase of the nitrogen values relative to the previous periods, which is not accompanied by an analogous enrichment of the carbon values. This profile can partly be explained by an increased consumption of freshwater sources in Thebes during the Classical times, such as Aristophanes’ famous eels.

The results demonstrate how the integration of isotopic and literary evidence can provide novel information about Classical society in Thebes.

Greek myths

Terry Brown
Faculty of Life Sciences, Manchester Interdisciplinary Biocentre, University of Manchester, M1 7DN, UK

The Greek Bronze Age is the time of the Homeric legends and the Greek myths. The work of Schliemann, Tsountas, Wace and others revealed the material remains of the Mycenaean civilisation that was dominant in the Aegean during the 17th to 12th centuries BC, these remains including human skeletons, some buried with rich grave goods. Biomolecular archaeologists have been attracted to the Greek Bronze Age because there are interesting kinship questions for the burials at several sites, and because aDNA could throw light on the impact of diseases such as malaria on these societies. Addressing these questions clearly requires that aDNA is preserved in the relevant material, and our conclusion after ten years of work is that largely it is not. We have found no indication of aDNA at Lerna, Antron Grave Circles A and B and Mycenae Grave Circle A. At Mycenae Grave Circle B, we detected mitochondrial aDNA in just four of the 22 skeletons that we studied. Only at Kouphovouno have we have obtained sufficient aDNA results to attempt any kind of archaeologically relevant study. The distinguishing feature of Kouphovouno is that we obtained skeletal samples immediately after their excavation. We used optimised PCR systems in order to maximise our chances of detecting aDNA if it was present, but we also used a high containment facility and took scrupulous care to remove surface contamination from the bone samples and to prevent cross-contamination with PCR products from previous experiments. We also confirmed that our negative results were not due to inhibition of PCRs by substances co-purifying with aDNA. Negative results tend not to get widely publicised – we would have preferred positive ones but not if they lead to new Greek myths.

Late Bronze Age Diet in the Greek Peloponnese

E.I.Petroutsa1 & M.P.Richards2

1.20 Koundouriotou str., Exarcheia, 10683 Athens, Greece

2.Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Leipzig, Germany


In this paper we present the results of an isotopic study of bone collagen samples from four Late Bronze Age cemeteries from the Northern Peloponnese in Greece: Voudeni, Aghia Triada, Almyri and Kritika. Through isotope analyses we sought to characterise the general diets in these four sites, especially the amounts of marine protein, as well as animal vs. plant proteins in diets. We also compared the isotopic results from these sites with other Bronze Age sites, including Mycenae. Despite the coastal location of most of the sites we could not find evidence of any significant consumption of marine foods. Instead, most human diets are based on a mixture of plant and animal protein, from C3 terrestrial resources.

Preliminary results of C and N isotope analyses and 14C dating of prehistoric humans and animals from the Mesolithic-Neolithic site of Grotta dell’Uzzo, Sicily, Italy

Marcello A. Mannino1, Sahra Talamo1, Rosaria Di Salvo2, Vittoria Schimmenti2, Marcello Piperno3, Sebastiano Tusa4, Antonio Tagliacozzo5, Michael P. Richards1,6

(1) Department of Human Evolution, Max Planck Institute for Evolutionary Anthropology, Deutscher Platz 6, D-04103 Leipzig (Germany)

(2) Museo Archeologico Regionale ‘Antonino Salinas’, Via Bara all’Olivella 24, 90133 Palermo (Italy)

(3) Dipartimento di Scienze Storiche, Archeologiche ed Antropologiche dell’Antichità, Sezione di Paletnologia, Università di Roma ‘La Sapienza’, Via Palestro 63, 00185 Roma (Italy)

(4) Soprintendenza del Mare, Palazzetto Mirto, Via Lungarini 9, 90133 Palermo (Italy)

(5) Museo Nazionale Preistorico Etnografico ‘L. Pigorini’, Piazzale Guglielmo Marconi 14, 00144 Roma E.U.R. (Italy)

(6) Department of Archaeology, University of Durham, South Road, DH1 3LE Durham (United Kingdom)

Grotta dell’Uzzo is one of the key sites in the Mediterranean for the study of the changes in subsistence that took place in the transition from hunter-gatherer (Mesolithic) to agro-pastoral (Neolithic) economies. The cave is also important because 13 Mesolithic humans have been unearthed from 11 burials excavated within it. In order to study the diets of these humans, C and N isotope analyses were undertaken on skeletal remains recovered in the burials and from different trenches excavated at the cave. The preliminary results of these analyses suggest that the main sources of dietary protein were terrestrial and probably originated from the consumption of mammalian herbivores such as red deer (the most commonly exploited animal for much of the cave’s occupation). The contribution of marine resources to human diet at Grotta dell’Uzzo was probably not very significant in absolute terms. This finding might appear to be in contrast with the results of the archaeozoological studies, which have demonstrated that there was an intensification in shellfish collecting and in fishing from the end of the Mesolithic to the inception of the Neolithic. However, given that on the basis of the chronological data currently available the burials predate the end of the Mesolithic, the results of the isotope analyses are in line with the findings of the archaeozoological studies and of the seasonality studies, which have shown that marine resources (mainly represented by shellfish) were not exploited throughout the year before the final stages of the Mesolithic.

Plants

Phylogeographic analysis of barley (Hordeum vulgare) landraces shows that the distribution of lineages retains an imprint from the initial patterns of agricultural spread through Europe.

Huw Jones1, James Cockram1, Lydia M Smith1, Ian MacKay1, Robin G Allaby2, Terrence A Brown3, Wayne Powell1

1 National Institute of Agricultural Botany, Huntingdon Road, Cambridge, CB3 0LE

2 Warwick HRI , Wellesbourne, Warwick , CV35 9EF

3 Faculty of Life Sciences, Manchester Interdisciplinary Biocentre, 131 Princess Street, Manchester, M1 7DN

In the 8000 years since barley was first introduced into the continent of Europe, the evolution of this crop species has been subject to selection under biotic and abiotic pressures. European farmers will have influenced the distribution of barley ecotypes by the movements of early farmers and by their selection of preferred types. The evolution of barley in Europe will also reflect the differing environments in which it has been grown. Modern barley cultivars from across Europe can be seen to differ in their morphology and growth habits. We have attempted to dissect the origins of these different forms by examining the landraces and assess the relative importance of human and environmental selection on modern barley lineages.

We have sampled barley landraces from Europe and discovered their population structure by microsatellite genotyping and statistical analysis. We have used passport data from germplasm collections to characterise the 2-row / 6-row head morphology, hulled / naked grain morphology and the spring / winter growth habit of these sub-populations. The genetic variation underlying key adaptive traits controlling flowering time has been explored by re-sequencing the photoperiod response gene Ppd-H1 and by haplotype analysis at the spring / winter vernalisation genes Vrn-H1 and Vrn-H2. These studies were designed to run alongside analysis of ancient DNA and historic DNA from barley and emmer wheat collected from across Europe.
The population structure we have discovered divides barley landraces into a number of sub-populations each with a distinct geographic distribution. Our genetic data for key adaptive traits allows us to understand the environmental influence on the geographic distribution of each lineage. Where lineages with a similar adaptive profile have distinct geographic distributions we see the imprint of early dispersal by ancient farmers.

Stable isotope evidence for the consumption of millet in Bronze Age Italy

Mary Anne Tafuri1, Oliver Craig2 & Alessandro Canci2
1 Dipartimento di Biologia Animale e dell’Uomo, Sapienza Università di Roma, P.le A. Moro, 5, 00185 Roma. Italy – email: maryanne.tafuri@uniroma1.it

2 Department of Archaeology, University of York, BioArch Biology, S Block PO Box 373 York YO10 5YW, UK

3 Dipartimento di Storia e Tutela dei Beni Culturali, Università degli Studi di Udine, Via Palladio, 8, 33100 Udine. Italy


This study presents, via carbon and nitrogen stable isotope analysis on human and animal bone collagen, new data on diet and subsistence strategies at northern and southern Italy Early and Middle Bronze Age sites, which clearly indicate the direct or indirect consumption of C4 plants. On the basis of paleobotanic data available and as suggested by previous similar studies, we argue here that the isotopic signal obtained can be associated with the consumption of millet (P. miliaceum and Setaria italica). If such an interpretation were true, while we wait for further paleobotanical and isotopic studies, we should consider the results obtained as the earliest evidence of millet consumption in prehistoric Europe. We thus suggest a possible pattern of distribution in the Peninsula of the practice of production and consumption of millet, while setting a new agenda on food security and subsistence strategies in prehistoric Italy

Cattle & Goats

A PCR system free of contaminating DNA for the amplification of bovine DNA from bovine fossils

Camille Berthelot, Sophie Champlot, Marie Liouville, Thierry Grange, Eva-Maria Geigl

Institut Jacques Monod CNRS UMR 7592, Universités Paris 6 et 7, Tour 43, 2, Place Jussieu, 75251 Paris cedex 05, France

Palaeogenetic analyses of bovine bone remains from many Neolithic sites in Europe and in Southwest Asia suffer from poor DNA preservation in these bones that increases the risk of amplification of contaminating modern bovine DNA. Indeed, trace amounts of contaminating bovine DNA occur ubiquitously. In particular, they can be found at low quantities in biochemical reagents used to extract and amplify DNA. These contaminating molecules mimic ancient DNA molecules. Indeed, the contamination rate often resembles the success rate of ancient DNA studies from bovine remains and the length of the contaminating DNA fragments is often comparable to ancient DNA fragments. We elaborated a decontamination protocol for PCR reagents combining various treatments to reduce contamination towards zero. This system significantly increases the reliability of ancient DNA results from bone remains of domesticated animals.

Detecting selection in ancient cattle remains: Pre industrial selection in Bos Taurus and SNP typing in medieval cattle remains

Emma Svensson1, Anders Götherström1

1 Evolutionary Biology, Evolution Genomics & Systematics, Uppsala University, 752 36 Uppsala, Sweden

Historic and prehistoric animal breeding is an enigmatic topic, complicated to approach with conventional genetics and osteology. Questions like when it started, and how strict it was, are of general interest, but it is also complicated to generate a suitable dataset for such questions. By tracing changes in genetic diversity with serial data we can find out how cattle has changed since the domestication of the aurochs to become the array of breeds seen today. Cattle are likely to have been subjected to selection predating the 18th century but the information is scarce. Using a 12plex SNP stream system alongside pyrosequencing we typed up to eight coding and six neutral SNPs in 142 ancient and 216 modern Bos Taurus from Northern Europe. We found a significant decrease in total heterozygosity over time for the coding SNPs which are presumably associated with phenotypic traits such as milk quality and coat colour while neutral markers on the other hand don’t show any significant change over time. This suggests that the decline in diversity is caused by artificial selection and not other genetic processes. The medieval period was a dynamic time in northern European history. The society was moving toward a higher degree of specialization in general, and a number of towns based on trade arouse in Scandinavia. Our findings of early selection fit well with the more sophisticated farming and higher degree of animal breeding that likely occurred at this time.

Using new and old approaches to study bovid systematics and evolution across Eurasia

Alan Cooper¹, Kefei Chen¹, Beth Shapiro²

¹ The Australian Centre of Ancient DNA, School of Earth & Environmental Sciences, The University of Adelaide, North Terrace Campus, SA-5005 Adelaide, Australia

² Department of Biology, The Pennsylvania State University, 326 Mueller Laboratory, University Park PA 16802, USA

Ancient DNA studies of bovid remains from Europe have detected four main taxa: Bison bonasus (the European Bison); Bison priscus (Steppe bison), Bos primigenius (Aurochs); and early Bos taurus (Daisy). Studies of bones recovered from caves in the Urals and Caucasus, and from material dredged from the North Sea, have revealed a fifth European bovid – the Caucasus bison. Previously recognised only as a sub-species of European bison, this taxon appears to represent a separate species, with more genetic diversity than Beringian populations of Bison priscus, suggesting a long evolutionary history and stable population size. It has changed ecological dominance with Bison priscus at several points in the Pleistocene, which appear to be related to climatic and environmental change.

We have been using emulsion PCR and high-throughput hybridisation-based SNP screening systems that can simultaneously analyse 50,000 bovid SNPs to explore the genomic evolution of ancient bovids during the Pleistocene and subsequent domestication. We have been concentrating on pre-domestic Bos taurus specimens, as well as representatives of the other Pleistocene bovid species. This approach holds enormous promise for fine-scale temporal analyses of evolution in response to climate and environmental change, as well as archaeology and domestication.

The process of cattle domestication during the Neolithic as revealed by a large-scale palaeogenetic study

Eva-Maria Geigl, Mélanie Pruvost, Marie Liouville, Camille Berthelot, Reinhard Schwarz, Sophie Champlot, Thierry Grange, Virginia Bessa-Correia, Hans-Peter Uerpmann, Lamys Hachem, Hitomi Hongo, Séverine Braguier

Institut Jacques Monod CNRS UMR 7592, Universités Paris 6 et 7, Tour 43, 2, Place Jussieu, 75251 Paris cedex 05, France

Several disciplines can contribute to the elucidation of the processes of animal domestication during the Neolithic, such as archaeology, archaeozoology, and, more recently, isotope and genetic studies. The processes of domestication leave genetic signatures in the genomes of the domesticated animals that can be explored via the combination of both genetic analyses of extant domesticates and palaeogenetic analyses of bone remains of the first generations of domesticated animals and of their wild ancestors. We adopted this approach to shed light on the domestication of the aurochs. We studied roughly 250 Bos bone remains from Southwest Asia, according to archaeological and archaeozoological evidence the presumed centre of cattle domestication, and from France, the region where the two Neolithic migration currents mingled. To obtain authentic palaeogenetic results, several methodological difficulties related to poor DNA preservation and reagent contamination had to be solved. We will present both the methodological challenge that we encountered and overcame and the results of our large-scale study.

Cattle domestication and the troublesome aurochs

Cecilia Anderung1, Jurgita Baubliene2, Daniel Makowiecki3, José Miguel Carratero4, Linas Daugnora2, Juan Luis Arsuaga5 and Anders Götherström6

1Palaeontology Department, Natural History Museum, Cromwell road, London SW7 5BD, Great Britain.
2Department of Anatomy and Histology, Lithuanian Veterinary Academy, Tilžes str. 18, LT-3022, Kaunas, Lithuania
3Institute of Archaeology, Nicolaus Copernicus University, Podmurna 9/11 87-100 Toruń, Poland
4Laboratorio de Evolución Humana, Departamento Ciencias Históricas y Geografía Edificio I+D+I Plaza de Misael Bañuelos s/n, 09001, Burgos, Spain
5Centro Mixto UCM-ISCIII de Evolución y Comportamiento Humanos c/ Sinesio Delgado Nº 4 Pabellón 14, 28029 Madrid, Spain
6Department of Evolutionary Biology, Evolutionary Biology Centre, Uppsala University, 75236 Uppsala, Sweden

A number of genetic studies relating to the origin of modern cattle have been published recently. In particular the extinct European aurochs (Bos primigenius), progenitor of the modern domesticated form, has attracted a lot of attention. European aurochs bones that have yielded mitochondrial DNA are genetically clearly different from modern cattle. This genetic data, in combination with the genetic patterns observed in modern cattle, has led to the suggestion that modern cattle have a single origin in the Near East, and that the European aurochs population had little to do with their domestication.

However, we ask the question: could this picture of European cattle domestication be too simple?

Here we present results from an investigation of published and novel aurochs sequences from Lithuania, Spain, Poland, and Britain, giving special attention to the Spanish sequences. We looked at the mitochondrial DNA variation in Iberian aurochs remains and searched for aurochs sequences in a domestic context. We find that cattle and aurochs mitochondrial sequences from Iberia deviate from the pattern observed in sequences from Central and Eastern Europe.

In the light of this data, we discuss the possibility of local aurochs domestication events in Europe.

High mtDNA diversity among cattle and goats from the earliest Neolithic settlements on the European continent

Amelie Scheu1,2, Norbert Benecke2 and Joachim Burger1
1 AG Palaeogenetik, Institut für Anthropologie, Johannes Gutenberg-Universität, 55099 Mainz, Germany

2 Deutsches Archäologisches Institut, Eurasienabteilung, 14195 Berlin, Germany

The process of domestication includes a decline in genetic variability. Additional homogenisation occurs due to subsequent colonisation events, such as the Neolithisation of Europe. Our previous studies have shown genetic uniformity even among early Neolithic European cattle (Bollongino et al. 2006). But modern goats also share more than 90% of the same mtDNA haplogroup.

To find out exactly when and where this genetic bottleneck arose during the Neolithisation of Central Europe, we investigated remains of early domesticates on the border between Asia and Europe, i.e. at the origin of the trans-Danubian route of Neolithisation. That region, particularly the area around the Bosphorus and the transit country of Bulgaria, plays a crucial role.

We found higher mtDNA diversity among Neolithic and Bronze Age domesticated cattle East and West of the Black Sea (haplogroups T, T2 and T3) than in Central European populations. Among goats, we found the two different mtDNA haplogroups A and G. G had previously been found among modern goats only near the Fertile Crescent (Naderi et al. 2007).

Our results argue for large and genetically more diverse herds imported to this area and/or for intense trade. Furthermore, they indicate that a second wave of expansion in the direction of Central Europe is responsible for the final loss of mtDNA diversity.

Ice man Schnidi’s trousers: insight into prehistoric goat diversity

Angela Schlumbaum1, Serge Volken 2, Marquita Volken 3, Jörg Schibler4, Peter Suter 5 Kathrin Glauser6 & Albert Hafner 7

1 Institute of Prehistory and Archaeological Science, University of Basel, Spalenring 145, 4055 Basel, Switzerland

2 Gentle Craft, Rue du Rôtillion, 10, 1001 Lausanne, Switzerland

3 Gentle Craft, Rue du Rôtillion, 10, 1001 Lausanne, Switzerland

4 Institute of Prehistory and Archaeological Science, University of Basel, Spalenring 145, 4055 Basel, Switzerland

5 Archaeological Service of the Canton Bern, Brünnenstrasse 66, 3001 Bern, Switzerland

6 Archaeological Service of the Canton Bern, Brünnenstrasse 66, 3001 Bern, Switzerland

7 Archaeological Service of the Canton Bern, Brünnenstrasse 66, 3001 Bern, Switzerland
Since 2003 more than 300 prehistoric remains were discovered in the vicinity of a melting ice patch of the Schnidejoch (2750 m; Bernese Alps, Switzerland), paralleling the finds accompanying the Iceman from the Tisenjoch (Oetztal Alps, Italy/Austria; “Oetzi”). One leg of a Neolithic leather trouser was found and 14C dated to 2900 – 2600 BC. The morphological identification of the animal skin was ambiguous because of the bad preservation of diagnostic features. Based on grain patterns of the skin the leather was made either from sheep or goat.

Because of the importance of the object, a genetic identification of the animal species was attempted. After DNA extraction with QiAmp DNA Mini Kit a 70bp fragment of the mitochondrial cytochrome b gene was amplified in the diluted extract. The leather was made of goat skin (Capra hircus). Six geographically broadly distributed goat lineages are recognized based on mitochondrial d-loop variation, of these lineage A and C were identified by others in prehistoric goat bones from France. The “trouser’s goat” however, belongs to lineage B, which is common in Asia, but extremely rare in Europe today.

An Ancient DNA study from The Farm Beneath the Sand

Martin Bay Hebsgaard1

1 Dept. of Biology, University of Copenhagen, Universitetsparken 15, Denmark
Applying ancient DNA techniques on samples from the archaeological site “The Farm Beneath the Sand” (GUS) near Nuuk in Southwest Greenland is the first attempt to extract DNA from these relative young but novel samples. The sample site highlight the dramatic landscape changes that resulted in floodplain aggradations that eventual buried the site fixing the site under perma-frozen conditions.
The Farm beneath the Sand is situated on a plain surrounded by low mountains ca. 80 km east of Nuuk. When the building remains were found they were overlain by ca. 1,5 m thick layers of sand and gravel, and today the plain in front of the farmhouse appears as a sandy dessert intersected by meandering watercourses that are draining off the icecap.

All together the samples yielded DNA from humans, cattle, sheep, goat and reindeer. Quantification shows approximately 16 times more DNA from cattle than from sheep. Goat DNA was undetectable using Quantitative PCR. The amount of cattle DNA declines over time while sheep DNA probably reflects background variation.
Thanks to thick layers of sand and gravel that may have protected the DNA in the anthropogenic layers ancient DNA is usable in an archaeological context in the reconstruction of the past. In this example ancient DNA research has helped to refine and define archaeological interpretations of the Norse life by adding information not seen by the naked eye. In the future ancient DNA have the capacity to be used more vigorously to investigate the diet of the Norse and show what function specific farms may have had during the settlement. As in this study the future research is not limited to animal DNA but DNA from plant and humans can be used to address different questions.

Horses

Pleistocene Horses genetics before and after the last glacial maximum

Sebastian Lippold¹ and Michael Hofreiter¹

¹ Dept. Evolutionary Genetics, MPI for Evolutionary Anthropology, Deutscher Platz 6, D-04103 Leipzig, Germany

We are investigating how the last glacial period affected the genetic composition of populations, particularly the horse (Equus spec.). Vast climatic changes that occurred between 30,000 and 12,000 years BP resulted in dynamic mammalian population structures. Restriction and expansion events during this period influenced both the genetic distribution and variability of a variety of mammals. We focus on western European horse populations, and try to characterize their genetic diversity and phylogeographic patterns both before and after the last glacial maximum. We sequence 600 bp of mtDNA from the mitochondrial D-Loop of different individuals obtained from different locations. Our initial results indicate tremendous genetic diversity, but no phylogeographic pattern within this marker. The genetic distribution of these ancient samples also falls within the broad diversity range apparent in recent horses. Because of this finding, we started screening the DNA samples for additional nuclear markers. Our comparison of these different markers has enabled us to reconstruct several scenarios for horse population dynamics during this period.

Investigating Eneolithic horse exploitation in northern Kazakhstan, via compound-specific stable carbon and deuterium isotope analysis of pottery.

Natalie A. Stear1, David Chivall1, Alan K. Outram2 and Richard P. Evershed1 1Organic Geochemistry Unit, School of Chemistry, University of Bristol, Clifton, BS8 1TS, UK 2 Department of Archaeology, SoGAER, University of Exeter,Laver Building, North Park Road, Exeter, EX4 4QE, UK The Eneolithic site of Botai in northern Kazakhstan has been the centre of much debate regarding its role in early horse domestication (Levine, 1999; Olsen, 2003). The faunal assemblage from this remarkable site was almost entirely comprised of horse (99%); however it has remained unknown whether any of these horses were domesticated. Horse domestication is extremely difficult to detect morphologically from skeletal remains and consequently it is necessary to establish a reliable proxy for detecting ancient domestic horse populations. Fermented mare’s milk (Kumyss) is commonly consumed in rural communities in Kazakhstan, a tradition dating back to prehistory. It is not clear if the milking of horses began (i) in the Eneolithic, during the height of the horse centred communities of the Botai culture; (ii) in the Bronze Age, in response to the milking of ruminants or, (iii) much later. If mare’s milk were identified in ancient pottery it would serve as conclusive evidence for the presence of domestic horses and enable a chronology of horse exploitation to be established. Equine fat residues can be identified in potsherds using compound-specific stable carbon isotope analysis, but unlike ruminant fats, equine milk and adipose fats are indistinguishable from one another based on δ13C values. However, we show that it is possible to further classify equine fats as either milk or adipose, based upon the δD values of their C16:0 and C18:0 fatty acids which are determined using GC-thermal conversion-IRMS (GC-TC-IRMS). This new proxy has been applied to organic residues extracted from potsherds from Botai as part of a large scale investigation of Eneolithic and Bronze Age pottery from sites in northern Kazakhstan. Using the δ13C and δD values obtained from the Botai residues we have been able to detect equine milk residues preserved within the pottery and consequently, we provide the first direct evidence for the presence of domestic horses at Botai during the Eneolithic.

Anatolia

Detecting dairying with stable calcium isotope ratios (δ44/42Ca) of bones and teeth

Linda M. Reynard^1,2, Robert E.M. Hedges¹ & Gideon M. Henderson²

¹ Research Laboratory for Archaeology and the History of Art, University of Oxford, Dyson Perrins Building, South Parks Road, Oxford, OX1 3QY, United Kingdom

² Department of Earth Sciences, University of Oxford, Parks Road, Oxford, OX1 3PR, United Kingdom

The use of dairy products in antiquity is an important part of the development of agriculture and pastoralism in Eurasia. They offer advantages of more efficient land use, improved nutrition, and more reliable and constant access to protein. Understanding the adoption of dairy, its timing, and geographical spread is relevant to developing a fuller understanding of changes in subsistence from the Neolithic.

Detecting and quantifying dairy product consumption in antiquity has, to date, relied on indirect evidence such as the age and sex structure of faunal remains and potsherd lipid residues.. To complement these methods, we have measured stable calcium isotope ratios (δ^44/42Ca) of bones and teeth which allows the direct detection of dairy consumption by prehistoric humans. Dairy products have lower δ^44/42Ca than other dietary calcium inputs, and this results in lower δ^44/42Ca of the dairy consumer. We have measured the δ^44/42Ca of human and animal bones from a range of archaeological sites by MC-ICP-MS. Results from the Mesolithic to the Neolithic at the key Near Eastern site of Abu Hureyra, Syria (11,100 –7,300 BP) show a δ^44/42Ca signal attributable to dairy consumption by ancient humans, with a changing pattern through time. Work on intra- and inter-tooth δ^44/42Ca variability is in progress as this material is expected to form a robust archive of in vivo isotope ratios.


Britain

An investigation into origins of individuals from a mass grave in Roman Gloucester, UK: strontium and stable isotope evidence

Carolyn Chenery^1,2, Gundula Müldner¹, Jane Evans², Louise Loe³, Nicholas Márquez Grant³, Hella Eckardt¹ Stephanie Leach¹, Mary Lewis¹

¹ Department of Archaeology, University of Reading, Reading, Berkshire.

² NERC Isotope Geoscience Laboratory, British Geological Survey, Keyworth, Nottingham.

³ Oxford Archaeological Unit Ltd, Janus House, Osney Mead, Oxford.

Contrary to popular assumptions, Britain under Rome was truly multi-cultural, with historical and epigraphic evidence recording the voluntary and forced migration of Gaulish, Germanic and North African individuals into the British provinces refs. This paper presents the results an isotopic investigation of population diversity in 1^st to the 4^th century Roman Gloucester; focusing on individuals found in a late 2^nd century mass burial pit and comparing them to those found in single graves.

The results suggest that the majority of the individuals buried in the London Road Cemetery were from areas within the UK. However, the isotope data has identified a number of individuals whose origins lay in a region with a warmer climate than the UK. Whether these were soldiers, their followers or merchants cannot be determined.

On Rome’s Northern Frontier: Multi-isotopic investigations into cultural diversity in Roman York

Gundula Müldner1, Carolyn Chenery1,2, Stephany Leach1, Mary Lewis1 & Hella Eckardt1

1 Department of Archaeology, University of Reading, Whiteknights, PO Box 227, Reading RG6 6AB, England

2 NERC Isotope Geoscience Laboratory, British Geological Survey, Keyworth, Nottingham, NG12 5GG, England

Britain under Rome was a multi-cultural society, with historical and epigraphic evidence attesting to the presence of migrants from continental Europe, North Africa and the Middle East. Here, we combine isotope analysis for the reconstruction of diet (C,N) and mobility (Sr, O) with skeletal (craniomorphometric) and archaeological data, in order to investigate diversity in Roman York, the political, military and administrative centre of the North. The results show a heterogenous population and highlight the varied life-histories of individuals in the northernmost provincial capital of the Empire; however, they also show that skeletal and isotopic evidence are not always easily correlated. It is suggested that a diet high in marine protein was used to demonstrate a “Roman” identity.

Investigating Marine Food Consumption in Prehistoric Humans via the δ13C values of Collagen Amino Acids

Philip Dunn1, Richard P. Evershed1 & C. Joshua Pollard2
1 School of Chemistry, University of Bristol, Organic Geochemistry Unit, School of Chemistry, Cantock's Close, Bristol, BS8 1TS, UK

2 Department of Archaeology and Anthropology, 43 Woodland Road, Clifton, Bristol BS8 1UU, UK

The current debate concerning the importance of marine foods in the diets of prehistoric peoples has stimulated interest in refining analytical approaches based on stable isotopes. An alternative to the widely bulk collagen approach is to investigate the stable carbon isotope composition of human bone collagen at the amino acid level. Our investigations of prehistoric humans from the Western Cape, South Africa, have shown that the Δ13CGlycine-Phenylalanine values for bone collagen amino acids correlate strongly with bulk δ15N values and provide a new proxy for marine food consumption. We are currently applying this new approach to human skeletal remains from northern Europe.
The tomb at Isbister lies on the south west coast of South Ronaldsay and is one of a number of Neolithic cairns found in the Orkney Islands. During excavation in 1976, the stalled main chamber and three side chambers were found to contain some 16,000 human bones and bone fragments deriving from a minimum of 341 individuals along with a wide range of faunal remains. Previous analyses of bone collagen from the human remains have shown that the tomb was in use from 4,500 to 3,800 BP and bulk collagen stable isotope values for 5 individuals lay in the range -19.9 to -21.2 ‰ indicating a predominantly terrestrial diet, which is surprising for people that lived so close to the coast.
We have now employed the recently introduced LC-IRMS technique to determine the δ13C values of bone collagen amino acids from 22 individuals from Isbister. The results will be compared to those obtained by GC/C/IRMS. The derived Δ13CGlycine-Phenylalanine values give enhanced insights into the dietary habits of the people of Isbister.

Northern Europe

Large-scale FLX-sequencing and the Swedish Neolithic

Helena Malmström1,2, Anna Linderholm3, M. Thomas P. Gilbert2, Mikael Brandström1, Jan Storå4, Petra Molnar4, Christian Bendixen5, Gunilla Holmlund6, Kerstin Lidén6, Anders Götherström1, Eske Willerslev2

1Department of Evolutionary Biology, Uppsala University, Norbyvägen 18D, SE-752 36 Uppsala, Sweden

2Ancient DNA and Evolution Group, Biological Institute, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen O, Denmark

3Archeological Research Laboratory, Stockholm University, SE-106 91 Stockholm, Sweden

4Osteoarchaeological Research Laboratory, Stockholm University, SE-106 91 Stockholm, Sweden

5Department of Genetics and Biotechnology, Danish Institute of Agricultural Sciences Research Centre Foulum, K25 PO Box 50, DK-8830 Tjele, Denmark

6National Board of Forensic Medicine, Department of Forensic Genetics and Forensic Toxicology, Artillerigatan 12, SE-587 58 Linköping, Sweden

The relationship between the contemporary hunter-gatherer Pitted Ware Culture (PWC) and the farming Funnel Beaker Culture (TRB) in Middle Neolithic (3300-2500 B.C.) Sweden has been debated for more than a century. We approach this issue by determining the genetic signatures of skeletal remains from both complexes. Initially, we generated large amounts of “cloned” ancient mitochondrial DNA (mtDNA) PCR amplicons using a single run of the Genome Sequencher FLX System, and a recently described primer tagging protocol. Our data set consisted of Hypervariable Region I (HVRI) amplicons derived from bleach pre-treated powdered bone from Neolithic humans as well as from a large number of negative controls (animal samples, extraction and PCR blanks). We compared the ‘clone’ data with sample quality indicators, such as the number of PCR starting template molecules and the degradation ratio of DNA in the sample (number of long/short fragments). The data shows distinct patterns that differ between high and low quality extracts. After establishing the efficacy of the large scale sequencing approach, additional high-quality PWC and TRB samples (based on collagen preservation) were sequenced in a second FLX run. The compiled data yielded unambiguous HVRI sequences for approximately 40 Neolithic human samples, each compiled from cloned, duplicate PCR amplicons derived from overlapping HVRI fragments. F-statistics and AMOVA revealed significant genetic differences between the PWC and TRB samples, indicating that they indeed comprise of two distinct groups.

Allele frequencies of the lactase gene in Scandinavian Neolithic populations, hunter-gatherers vs. farmers

Anna Linderholm1, Helena Malmström2, 5, Love Dalén3, Kerstin Lidén1, Jan Storå4, Petra Molnar4, M. Thomas P. Gilbert5, Eske Willerslev5, Gunilla Holmlund6, Anders Götherström2
1Archeological Research Laboratory, Stockholm University, SE-106 91 Stockholm, Sweden

2Department of Evolutionary Biology, Uppsala University, Norbyvägen 18D, SE-752 36 Uppsala, Sweden

3Marie Curie Fellow, School of Biological Sciences, University of London, United Kingdom

4Osteoarchaeological Research Laboratory, Stockholm University, SE-106 91 Stockholm, Sweden

5Ancient DNA and Evolution Group, Biological Institute, University of Copenhagen, Universitetsparken 15, DK-2100 Copenhagen O, Denmark

6National Board of Forensic Medicine, Department of Forensic Genetics and Forensic Toxicology,Artillerigatan 12, SE-587 58 Linköping, Sweden

Genetics and culture are believed to interact, but it has been difficult to find direct evidence for the process. One example that has been put forward as a candidate is lactase persistance in adulthood, i.e. the ability to continue drinking milk. This genetic trait is believed to have evolved within a short space of time in connection with the emergence of farming cultures. Here we investigate certain Scandinavian Neolithic populations and their allele status with respect to the gene responsible for lactase persistance. We find that the allele responsible for lactase persistance was common and not significantly different from modern Swedish populations among Neolithic farmers, whereas Neolithic hunter-gatherers had a lower frequency of the allele.

aDNA analysis of human population samples from the Danish past – what have we learned?

L.C. Melchior¹, N. Lynnerup² and J.Dissing¹.

¹Research Laboratory, Institute of Forensic Medicine, University of Copenhagen, Denmark, ²Laboratory of Biological Anthropology, Institute of Forensic Medicine, University of Copenhagen, Denmark.

During an ongoing survey of the Danish genetic past we analyzed mtDNA from teeth from human remains from a range of burial sites from medieval times to the Stone Age. To ensure the highest possible degree of reliability generally accepted authentication criteria (including sequencing of multiple clones and replication by different researchers) as well as additional precautions (e.g. testing of laboratory performance) were observed.

Unequivocal assignment of mtDNA haplotypes was possible for more than 50 ancient subjects; however, the success rate varies substantially between sites. The highest success rate (11 out 11) was obtained with freshly excavated Viking Age subjects (ca AD 1,000), but good results were also obtained for recently excavated Iron Age sites (AD 0-400). Poor results were found with highly manipulated subjects (contamination) and with most of the Stone Age samples (4,500-5,000 YBP).

While laboratory related contamination can effectively be prevented by the abovementioned precautions, the most serious challenge to authenticity is caused by pre-lab contamination. This problem was tackled using several approaches including analysis of DNA damage patterns, haplotyping of archaeologists, phylogenetic testing and as the most efficient measure, sampling from the ancient subjects during exhumation. We show that reliable retrieval and analysis of DNA from ancient humans is indeed a possible undertaking.

A high degree of nucleotide diversity was observed in the ancient populations, and at four out of six locations the diversity was considerable higher than among modern Danes. Also, we observed a consistently higher abundance of Hg I (10-20%) than among modern Danes (~3%).The effect of the Black Death has been suggested as a possible explanation for a similar decline in the English genetic diversity. Interestingly, we found the highest genetic diversity in a 15^th century population sample long after the major outbreak in the14^th century.

NspI typed transition within PRNP gene (A385G / Met129Val) confirms rapid shift in allele frequencies during The Second Millennium

Henryk W. Witas1, Magdalena Kołodziejczak1, Paweł P. Liberski2
1 Dept. of Molecular Biology, Medical University of Lodz, 91-738 Lodz, Sporna 36/50, Poland

2 Dept. of Molecular Pathology and Neuropathology, Medical University of Lodz, 92-216 Łódź, Pomorska 251, Poland

Although precise biological role of prion proteins (PrPC) is still a subject of extensive study and debate, a few suggestions of their involvement in cellular processes have been described, including involvement in biology of synapse, short-term memory formation and long-term memory consolidation. Prion proteins became commonly recognizable as a cause of some human transmissible spongiform encephalopathies (TSE). Among a number of SNPs, A385G / Met129Val is assumed as a factor involved in the pathogenesis of TSEs (e.g. kuru) and a marker of memory efficiency as well. Although frequency of Met129Val alleles are precisely characterised for modern populations and its significance discussed, no data for historic and prehistoric populations to compare are available.

Specimens came from seven medieval cemeteries located throughout today’s Poland, and have been excavated recently. Teeth stored at low temperature underwent procedures generally accepted for aDNA isolation, performed automatically (MagNa Pure, Roche) at least two times on different teeth of each individual. Only the samples represented by collagen quantity above 2% dry weight, negative result of appropriate mock controls throughout isolation and amplification procedures, with successfully cloned (Amersham) and sequenced (AB 310) PCR products have been considered as authentic ancient templates. Moreover, we have applied NspI restriction analysis as a method for recognition and retrieval of undamaged ancient sequences.

The results show rapid increase in PRNP allele A frequency (Met 129) since the beginning of the Second Millennium (0.51 v. 0.65), accompanied by slight drop in heterozygotes (0.49 v. 0.39) and significant rise in Met homozygotes (0.27 v. 0.45).

As compared to present Polish as well as present European PRNP alleles frequency, medieval specimens provided the data which suggest altered mode of PRNP alleles transmission within last 35-40 generations. Although the nature of mechanism leading to observed changes is unclear, the impact of demographic factors is probably the most pronounced one affecting the process of local fluctuations of Met allele spreading out. However, the effect of selection processes should also be considered. This work is being supported by grant from Ministry of Science and Higher Education

Mice and Vikings

Eleanor Jones1
1 Department of Biology, University of York, Heslington, YO10 5DD, United Kingdom
Originally native to the northern Indian subcontinent and the Middle East, house mice (Mus musculus) have spread to their current near global distribution by exploiting a commensal niche with humans, originally in agrarian settlements. Mice also owe their current distribution pattern to human movements: they have reached the areas they now inhabit by being accidentally transported with grain and livestock foods. This close association between mice and humans means we can use information from the current genetic distribution of house mice to make inferences about past human colonisations and cultural linkages. In this study, we used mitochondrial DNA sequences from modern house mice in Great Britain, France, Ireland, Iceland, the Faeroe Islands and Norway to identify patterns in the their distribution, and tie these in to historic human migrations. The mice appear to be telling us about Norse Viking colonisations, and add a useful source of information to complement archaeological and historical data.

East Asia & Pacific

Genetic relationship of Human Skeletal Remains from an archaeological cemetery

Sang Hyun Jee 1, Yun Ji Kim 1, Yong Jae Chung1 & Min Seok Seo 1

1 Conservation Science Division, National Research Institute of Cultural Heritage, 472 Munji-dong, Yuseong-gu, Daejeon, 305-380, South Korea

We carried out genetic analyses of human skeletal remains from cemetery of a historic site, Myeong-arm-ri of Asan in South Korea. According to archaeological evidences, this site had been constructed from the Neolithic Age to the Joseon Dynasty. Twenty one human skeletons excavated from thirty pit tombs that have outer coffin build up into plaster dated to the Joseon Dynasty (14-19th century). To identify the genealogy and traditional burial pattern were assessed using mitochondrial DNA (mtDNA) and Y chromosomal STRs. We take cautious to avoid erroneous recombination by the segmental and modern contaminations were derived from researchers and all experimental stages. We sequenced the segmental amplicons of the hyper variable regions (HVRs) of mtDNA, and appointed relevant haplogroups according to the sequence polymorphism using the known mtDNA database. We also applied variable short tandem repeat (STR) marker in Y chromosome to understand paternal lineage and kinship among the burials. Especially, we interested in the four burying together and examined genetic relationship more closely between two individuals.

Not quite in the bag: A systematic bioarchaeological approach to the question of South American chickens origins

Greger Larson
1 Dept. of Archaeology, Durham University, South Road, DH1 3LE, UK

Though chickens were undoubtedly introduced into the American continents by the Spanish after their arrival in the 15th century, there is an ongoing debate as to the possible that Polynesians traveling across the Pacific introduced chickens to South America before Europeans did so. A recent publication concluded on the basis of ancient DNA extracted from an archaeological Chilean chicken bone that domestic fowl were present in a pre-Columbian context and that those chickens possessed a Polynesian genetic signature. In order to test this hypothesis, we generated mitochondrial DNA control region sequences from 41 modern, native Chilean specimens and analyzed them within a database consisting of both the published ancient DNA sequences and ~1,000 globally distributed modern domestic chicken sequences. Our modern Chilean sequences cluster closely with haplotypes predominantly distributed amongst European, Indian, and Southeast Asian chickens, consistent with a European genetic origin. The previously published, apparently pre-Columbian, Chilean specimen and seven pre-European Polynesian specimens, also cluster with the same European/Indian subcontinental/Southeast Asian sequences, providing, at this stage, no support for a Polynesian introduction of chickens to South America. Ancient DNA sequences from two archaeological sites on Easter Island, however, cluster with chickens found in Island Southeast Asia, and may represent a genetic signature of an early Polynesian dispersal as far as Easter Island. Lastly, we modeled the potential marine carbon contribution to the Chilean archaeological specimen (thus revising the derived date of the specimen) which cast doubt on the pre-Columbian age of the chicken remains. Definitive proof of a pre-Columbian introduction will require excavating more chicken bones, and further analyses of ancient DNA and radiocarbon data from Chilean and Polynesian archaeological excavations.

A New Bioarchaeological Clue for the DongHu Nationality

ZHANG Quan-chao, CHANG E，ZHU Hong

( Research Center f or Chinese Frontier A rchaeology , Jilin University , Changchun , Jilin , 130012 , China)

Abstract: DongHu nationality is a branch the Hu population who acted actively in the northeast of Yan. Whilst the remains of DongHu had not been confirmed for a long time, The tombs discovered in linxi Jinggouzi site in 2002 suggested a new clue for exploring the remains of Donghu in Chifeng area. These tombs not only meet the condionons in relation to DongHu in the aspects of time and region, but also conformed to DongHu characteristics of economic style and ethic features. In this article, human remains unearthed from the Spring and Autumn-Warring states cemetery at the Jinggouzi site in Linxi county, Inner Mongolia were studied. The morphological features of Jinggouzi group crania show that the racial type is closely related to the modern North Asiatic Mongoloids, and some physical characteristics of these skulls are closer to the ancient XianBei population in the north China and the modern Mongol. Ancient DNA sequences from ancient human remains have provided very important information on human evolution, blood relationship and migration, making ancient DNA research an important field of molecular anthropology. This study illustrates ancient DNA extraction, amplification and sequencing of five individuals of an ancient population buried in the west cemetery at Jinggouzi site in Inner Mongolia. A phylogenetic tree, a two-dimensional PC plot and MDS plot are constructed using mtDNA sequences from the ancient population and several modern Eurasian populations. However, the application of the techniques of ancient DNA allows us to explore the fasten source of the ancient population. Therefore, the genetic evidence raise the important meaning for the study of archeological culture in the east of Inner Mongolia during Spring and Autumn-Warring states. In addition, this new study which based on genetics and traditional archaeology on the development of populations from the north steppes of our country during Spring and Autumn-Warring states, provides precious data. In this study, we examine Jinggouzi population paleodiet using stable isotope ratios of carbon and nitrogen in bone collagen. Nitrogen isotope ratios of bone collagen show that Jinggouzi ancient population in primarily ate animal products with only a small amount of plant products. Carbon isotope ratios of bone collagen show that most plant products come from C₄ plant.

Physical anthropology

Obtaining population genetics data via non-destructive means: a three-dimensional analysis of human craniofacial morphology

Sabrina B. Sholts1, Sebastian Wärmländer2, & Phillip L. Walker3
1 Department of Anthropology, University of California at Santa Barbara, Department of Anthropology, University of California, Santa Barbara, CA 93106, USA

2 Division of Biophysics, Arrhenius Laboratories for Natural Science, Stockholm University, 10691 Stockholm, Sweden

3 Department of Anthropology, University of California at Santa Barbara, Department of Anthropology, University of California, Santa Barbara, CA 93106, USA

In this study, shapes extracted from the human craniofacial skeleton were used to investigate the genetic heritabilities of morphological traits. Three-dimensional point data was collected from human crania with a 3D laser scanner and used to render complete 3D surface models of the original skeletal material. 3D data analysis software was used to digitally slice the cranial models with geometric planes defined by traditional craniometric landmarks. The cross-sections produced by these planes yielded contours of cranial outlines for different craniofacial features. Using elliptical Fourier transforms, the contours were parametrized into series of Fourier coefficients, which, due to their inherent orthogonality, form suitable input parameters for statistical analysis. Principal components analysis (PCA) was employed to differentiate population groups based on shape differences in various aspects of cranio-facial skeletal morphology. This method can yield population genetics data and information on probable ancestral affinity using non-destructive analysis of human remains and with greater accuracy than with traditional craniometric studies of metric and non-metric traits. The application of this method to human skeletal collections can elucidate genetic relationships in past populations and improve our understanding of their archaeological contexts. This non-invasive method also offers a viable alternative for determining ancestral affinities between groups and individuals in cases where DNA testing is not possible, due to either the necessary destruction of bone required for DNA analysis or the degraded condition of the material.

Life on horseback and skeletal pathology

This is precisely the type of skeletal evidence that advocates of early horseback riding should seek.

International Journal of Osteoarchaeology

Life on horseback: palaeopathology of two Scythian skeletons from Alexandropol, Ukraine

R. K. Wentz et al.

Abstract

In 2006, two skeletons were analysed that were previously excavated from the periphery of a Scythian burial mound, near the village of Alexandropol in southern Ukraine. Dated to ca. 325 BC, both remains are male. The first is that of a youth in his late teens who exhibits indications of biological stress and degenerative changes to the spine in the form of a Schmorl's node. The second is a middle-aged individual with extensive healed lesions due to trauma to the right humerus and clavicle with associated bony changes of the elbow and spine. Stable isotope analyses indicate a diet based on C3 plants. Their skeletons suggest a rigorous life on horseback. Both may have served as sacrificial victims. Historical records document the strangulation of attendants and their placement around the periphery of royal burial mounds. Grave goods suggest that both were warriors, although the youth lacks the traumatic injuries exhibited by the older male. The individuals from Alexandropol may have served a Scythian king in life and in death.

Link

Y chromosomes and mtDNA from Siberian Khanty and Mansi

European Journal of Human Genetics doi: 10.1038/ejhg.2008.101

Northwest Siberian Khanty and Mansi in the junction of West and East Eurasian gene pools as revealed by uniparental markers

Ville N Pimenoff et al.

Abstract

Northwest Siberia is geographically remote territory, which has been settled by indigenous human populations probably since the Upper Paleolithic. To investigate the genetic landscape of Northwest Siberians, we have analyzed mitochondrial and Y chromosome DNA polymorphisms of 169 unrelated individuals from Khanty and Mansi ethnic groups in Northwest Siberia. In addition, HVS-I sequences (N=3522) and Y chromosome SNP data (N=2175), obtained from the literature, were used to elucidate the genetic relationships among the North Eurasian populations. The results show clinal distributions of mtDNA and Y chromosome haplogroups along East–West axis of Northern Eurasia. In this context, the Ugric-speaking Khanty and Mansi appear as unique intermediate populations carrying Upper Paleolithic and more recent haplotypes typical for both West and East Eurasian gene pools. This admixture indicates that the Khanty and Mansi populations have resided in the contact zone of genetically distinguishable eastern and western Eurasia.

Link

Ancient Viking mtDNA from Denmark

Table 1 has the data from this study, Table S3 previous Danish Iron Age and Viking results.

Related:
Iron Age, Viking Age, and Eskimo mtDNA
Ancient mtDNA from Iron Age Denmark
mtDNA of an early Danish sample

UPDATE: Frequencies of mtDNA haplogroup I several populations in Quintana-Murci et al. (pdf). The higher frequencies appear in Sindhi from Pakistan (8.7%), Kurds from western Iran and Turks from eastern and western Azerbaijan (both 5%), and Mazandarians from northern Iran (4.5%). In Russians from Oryol oblast (8.3%) (Ann. Hum. Genet. (2001), 65, 63-78). Various European groups (table).

UPDATE (June 10): From a press release related to this by the University of Copenhagen:

At the beginning of the Danish iron age, the roman legions were based as far north as the river Elbe (on the border of northern Germany) and it is thought that the man of arabian descent found in the burial grounds in Southern Zealand would have either been a slave or a soldier in the roman army. It is probable that he possessed skills or special knowledge, which the people in Bøgebjerggård or Skovgaard settlements could make use of, or he could have been the descendant of a female of arabian origin, who for reasons unknown, had crossed the river Elbe and settled down with the inhabitants of Zealand.

"This discovery is comparable to the findings of a colleague of mine, who found a person of siberian origin on the Kongemarke site," continues scientist, Linea Melchior. He was buried on consecrated ground, just as the circumstances of the arab man's burial was identical to that of the locals. The discovery of the arab man indicates that people from distant parts of the world could be and were absorbed in Danish communities.

PLoS ONE 3(5): e2214. doi:10.1371/journal.pone.0002214

Evidence of Authentic DNA from Danish Viking Age Skeletons Untouched by Humans for 1,000 Years

Linea Melchior et al.

Abstract

Background

Given the relative abundance of modern human DNA and the inherent impossibility for incontestable proof of authenticity, results obtained on ancient human DNA have often been questioned. The widely accepted rules regarding ancient DNA work mainly affect laboratory procedures, however, pre-laboratory contamination occurring during excavation and archaeological-/anthropological handling of human remains as well as rapid degradation of authentic DNA after excavation are major obstacles.

Methodology/Principal Findings

We avoided some of these obstacles by analyzing DNA from ten Viking Age subjects that at the time of sampling were untouched by humans for 1,000 years. We removed teeth from the subjects prior to handling by archaeologists and anthropologists using protective equipment. An additional tooth was removed after standard archaeological and anthropological handling. All pre-PCR work was carried out in a “clean- laboratory” dedicated solely to ancient DNA work. Mitochondrial DNA was extracted and overlapping fragments spanning the HVR-1 region as well as diagnostic sites in the coding region were PCR amplified, cloned and sequenced. Consistent results were obtained with the “unhandled” teeth and there was no indication of contamination, while the latter was the case with half of the “handled” teeth. The results allowed the unequivocal assignment of a specific haplotype to each of the subjects, all haplotypes being compatible in their character states with a phylogenetic tree drawn from present day European populations. Several of the haplotypes are either infrequent or have not been observed in modern Scandinavians. The observation of haplogroup I in the present study (<2% in modern Scandinavians) supports our previous findings of a pronounced frequency of this haplogroup in Viking and Iron Age Danes.

Conclusion

The present work provides further evidence that retrieval of ancient human DNA is a possible task provided adequate precautions are taken and well-considered sampling is applied.

Link

Ancient mtDNA from Krasnoyarsk Siberians

This is a short paper; there are no new Y chromosome results, the old ones were reported here. In the current paper:

Moreover, these SNP analyses allowed us to obtain additional information regarding haplotype assignment: two samples, initially classified as belonging to haplogroup H, were found to belong to H6 and H5a, respectively. Three other samples sharing a haplotype identical with the CRS or previously classified as H were found to belong to haplogroup U.

With respect to the haplogroup U mtDNA, they were not able to assign it to a sub-haplogroup, but:

it would be necessary to design new SNPs to determine to which sub-haplogroup within haplogroup U they belong, knowing that it can not be haplogroup U2, U4 and U5a, already tested in our SNapShot assay.

Haplogroup H6 is fairly old in Central Asia (Loogvali et al. 2004, Mol. Biol. Evol. 21(11):2012–2021. 2004), so the authors focus on H5a which they link with a European origin, as suggested by Pereira et al. 2005 (http://www.genome.org/cgi/doi/10.1101/
gr.3182305). The authors mention that:

This subclade is distributed at low levels across Europe and is absent from the Caucasus and the Near East, suggesting a European origin as reported by Pereira et al. [2].

Roostalu et al. (2006) Mol. Biol. Evol. 24(2):436–448. 2007 lists several West Asian populations, although it would be interesting to see a wider sampling.

H5a occurs in Russians at a frequency of 1.8%, which is lower than Romania (7.8%), and Poland (13.2%), Czech Republic (3.2%) (Pereira et al. 2008), Slovakia (4.3%, Malyarchuck et al. 2008, doi: 10.1111/j.1469-1809.2007.00410.x), and the Balkans (10% of H which occurs at a frequency of 45% = 4.5%, Loogvali et al. 2004, Balkans=Croats+Albanians+Greeks) vs. Eastern Slavs (7/165 of H, i.e., 4.2% of H, which occurs at a frequency of 40% = 1.7%, Loogvali et al. 2004, Eastern Slavs = Russians and Ukrainians).

In conclusion, a European origin of H5a in Krasnoyarsk Siberians is consistent with its higher frequency in many European populations compared to Central Asians and Altaians (Loogvali et al. 2004); however, the higher frequency does not occur in Russia and the Ukraine, but further west, in the Balkans and Central Europe.

Forensic Science International: Genetics Supplement Series doi:10.1016/j.fsigss.2007.10.133

Tracing back ancient south Siberian population history using mitochondrial and Y-chromosome SNPs

Christine Keyser et al.

Abstract

Southern Siberian populations have been the subject of intense works attempting to shed light on the peopling of Siberia. From these works, it appeared that south Siberian populations are the reflect of the complex interactions that occurred at different times between Eastern and Western Eurasian people. According to paleoantropological and modern molecular data, European populations predominated in south Siberia during the Bronze age whereas Asian component began to increase from the Iron age. To test this hypothesis we determined the mitochondrial and Y-chromosomal haplotypes and haplogroups of 29 ancient specimens from the Krasnoyarsk area (Southern Central Siberia) dating from the Bronze and Iron ages. The data obtained supported the hypothesis of the prevalence of Western Eurasian component in Southern Central Siberia in the Bronze age. Moreover, they allowed us to propose a geographic origin of the Krasnoyarsk population during this period.

Link

Forensic Science International: Genetics Supplement Series

Forensic Science International: Genetics Supplement Series has a whole bunch of very interesting population genetics papers in press. Some very exciting ones are:

• Mitochondrial DNA genetic relationships at the ancient Neolithic site of Tell Halula
• Tracing back ancient south Siberian population history using mitochondrial and Y-chromosome SNPs
• Y chromosome J2 subtyping in an Italian sample: Population and forensic implications
• Exploring mitochondrial DNA variation in the Italian Peninsula
• Recently introduced Y-SNPs improve the resolution within Y-chromosome haplogroup R1b in a central European population sample (Tyrol, Austria)
• Population genetics and DNA preservation in ancient human remains from Eastern Spain
• Haplogroup distribution of Hungarian population and the largest minority group
• mtDNA diversity in Sudan (East Africa)
• Y-chromosome markers distribution in Northern Africa: High-resolution SNP and STR analysis in Tunisia and Morocco populations
• Haplogroup H sub-lineages with mitochondrial SNPs
• Microgeographic variation of Y-chromosome haplotypes in Italy
• NRY haplogroups distribution in sub-Saharan Africa and Bantu expansion
• Results of Y-SNP typing in three different populations
• Microgeographic genetic variation of Y chromosome in a population sample of Ravenna's area in the Emilia-Romagna region (North of Italy)

mtDNA from eastern Crete

The conclusions:

The original settlement of the Island of Crete constitutes the colonization of an empty landscape and provides a unique case study to examine the agriculturedriven
dispersal, free from archaeological and genetic signals from previous occupations. The present mtDNAdata indicates a substantial Middle Eastern genetic input within eastern Crete, which is reflected in haplogroups HV and RO (pre-HV), subhaplogroups H4, H6-H8, J1, T1, U1, and U7 as well as haplotypes H031 and H032. Altogether, these signals suggest contributions of about 15% to the Heraklion Prefecture, 33% to the Lasithi Prefecture, and over 49% to the Lasithi Plateau population from the Middle East. The European influence is evident in the overall mtDNA haplogroup profile and in a number of H-specific lineages. This collage of mtDNA imprints (of Middle Eastern and European descent) is reminiscent of the complex migratory and colonization scenarios revealed by archaeological data and previous Y-chromosome analyses. This study also underscores the genetic uniqueness of the Lasithi Plateau population supporting previous Y-chromosome findings proclaiming its role as a mountain refugium. Overall, results from both marker systems (mtDNA and Y chromosome) support the existence of both Paleolithic and Neolithic components in the Cretan population.

Interestingly, in the previous paper, they found a paucity of Y-haplogroup J in the Lasithi Plateau, compared to Lasithi Prefecture and Heraklion.

American Journal of Physical Anthropology (early view)

Middle Eastern and European mtDNA lineages characterize populations from eastern Crete

Laisel Martinez et al.

Abstract

Throughout centuries, the geographic location of the island of Crete has been one of the leading factors shaping the composition of its population. Invasions and commercial and cultural ties at various time periods with European, Middle Eastern, and North African civilizations have created a collage of genetic and/or cultural influences from each of these regions within the island. Previous Y-chromosome diversity analyses uncovered pronounced differences in the frequency distribution of haplogroups from a mountain refugium and surrounding lowland populations of eastern Crete. In this study, the current geographic stratification of mtDNA haplotypes in eastern Crete was explored to elucidate potential sources of maternal gene flow. Our work includes a comparative characterization of two lowland collections from the Heraklion and Lasithi Prefectures in eastern Crete, as well as of an isolated mountain population from the Lasithi Plateau, all three previously examined using Y-chromosome markers. In addition to the presence of European mtDNA haplogroups in all three collections, our analyses reveal a significant contribution of Middle Eastern and Central Asian genetic signatures in the island of Crete, and particularly in the two populations from the Lasithi region at the eastern-most portion of the island. Close association between these Cretan groups and the Balkans can also be discerned, which in the case of the Lasithi Plateau corroborates previously uncovered Y-chromosome affiliations with the same geographic region.

Link

First female DNA sequenced

Excerpt from ScienceDaily

ScienceDaily (May 26, 2008) — Geneticists of Leiden University Medical Centre (LUMC) are the first to determine the DNA sequence of a woman. She is also the first European whose DNA sequence has been determined. Following in-depth analysis, the sequence will be made public, except incidental privacy-sensitive findings. The results will contribute to insights into human genetic diversity.

DNA of geneticist Marjolein Kriek

The DNA is that of dr Marjolein Kriek, a clinical geneticist at LUMC. “If anyone could properly consider the ramifications of knowing his or her sequence, it is a clinical geneticist,” says professor Gert-Jan B van Ommen, leader of the LUMC team and director of the ‘Center for Medical Systems Biology’ (CMSB), a center of the Netherlands Genomics Initiative.

Van Ommen continues: “Moreover, while women don’t have a Y-chromosome, they have two X-chromosomes. As the X-chromosome is present as a single copy in half the population, the males, it has undergone a harsher selection in human evolution. This has made it less variable. We considered that sequencing only males, for ‘completeness’, slows insight into X-chromosome varialibity. So it was time, after sequencing four males, to balance the genders a bit”. He smiles: “And after Watson we also felt that it was okay to do Kriek”.

Makeup and female Caucasian attractiveness

Int J Cosmet Sci. 2003 Aug;25(4):199-205.

Do cosmetics enhance female Caucasian facial attractiveness?

Mulhern R, Fieldman G, Hussey T, Lévêque JL, Pineau P.

This study sought to investigate whether cosmetics do improve female facial attractiveness, and to determine whether the contribution of different cosmetic products are separable, or whether they function synergistically to enhance female beauty. Ten volunteers were made up by a beautician under five cosmetics conditions: (i) no make-up; (ii) foundation only; (iii) eye make-up only; (iv) lip make-up only; and (v) full facial make-up. Male and female participants were asked to view the 10 sets of five photographs, and rank each set from most attractive to least attractive. As predicted, faces with full make-up were judged more attractive than the same faces with no make-up. Sex differences within the results were also apparent. Women judged eye make-up as contributing most to the attractiveness. Men rated eye make-up and foundation as having a significant impact on the attractiveness of a full facial makeover. Surprisingly, lipstick did not appear to contribute to attractiveness independently.

Link

"First contact" between LBK farmers and foragers

From the paper:

To conclude, the following model can be put forward. During the 6th Millennium cal BC, major parts of the loess region are exploited by a low density of hunter–gatherers. The LBK communities settle at arrival in locations fitting their preferred physical characteristics, but void of hunter–gatherer activity. Evidently,
multiple processes and contact situations may have occurred simultaneously, but in general the arrival of the LBK did not attract hunter–gatherer hunting activity. Their presence rather restrained native activity to regions located farther away from the newly constructed settlements or triggered fundamental changes in the socio-
economic organisation and activity of local hunter–gatherers. Evidence for the subsequent step in the transition dates to approximately one millennium later (Crombé and Vanmontfort, 2007; Vanmontfort, 2007).

It is important to determine how long it took for indigenous populations and immigrant farmers to warm up to each other. The rate of spread (in km/year; and here) of the Neolithic may imply that by the time the farmer/forager societies started to blend, the wave of advance had already moved far away; the implication of this would be that the Neolithic bearers at the edge would have a smaller contribution from the indigenous populations of the regions they had already passed through.

There are two competing models, which I name the Rolling Snowball, and the Skipping Stone:

• In the Rolling Snowball model, the farmers pick up indigenous genetic elements as they move across space; gradually the genetic impact of the initiators of the movement is diminished.
• In the Skipping Stone model, farmers move out in search of new territories before they have started to blend with the local foragers; the genetic impact of the initiators of the movement is preserved.
  

It would be interesting to see more evidence of forager-farmer relationships in different regions.

Journal of Anthropological Archaeology doi:10.1016/j.jaa.2008.03.002

Forager–farmer connections in an ‘unoccupied’ land: First contact on the western edge of LBK territory

Bart Vanmontfort et al.

Abstract

The interaction between local foragers and incoming farmers is one of the hot topics in the study of Europe’s recent prehistory. In Central and Western Europe’s loam region, occupied by the first farmers of the Linearbandkeramik (LBK), hunter–gatherer remains are scarce and consist mostly of surface finds. Hence, the hunter–gatherer occupation and activity on the loess has never been studied in detail. This paper tackles the problem of the visibility of hunter–gatherer activity on the loess belt. An interregional comparison of microlith datasets allows identifying behavioural changes and differences in exploitation intensity. With regard to forager–farmer interaction, a mutual influence in the spatial patterning of activity or settlement is demonstrated.

Link

mtDNA and human dispersals in Southeast Asia

Yann Klimemtidis points me to this new paper. From the press release:

Prevailing theory suggests that the present-day populations of Island Southeast Asia (ISEA) originate largely from a Neolithic expansion from Taiwan driven by rice agriculture about 4,000 years ago - the so-called "Out of Taiwan" model.

However an international research team, led by the UK’s first Professor of Archaeogenetics, Martin Richards, has shown that a substantial fraction of their mitochondrial DNA lineages (inherited down the female line of descent), have been evolving within ISEA for a much longer period, possibly since modern humans arrived some 50,000 years ago.

Moreover, the lineage can be shown to have actually expanded in the opposite direction - into Taiwan - within the last 10,000 years.

Says Professor Richards: “I think the study results are going to be a big surprise for many archaeologists and linguists on whose studies conventional migration theories are based. These population expansions had nothing to do with agriculture, but were most likely to have been driven by climate change - in particular, global warming and the resulting sea-level rises at the end of the Ice Age between 15,000-7,000 years ago.”

Molecular Biology and Evolution 2008 25(6):1209-1218; doi:10.1093/molbev/msn068

Climate Change and Postglacial Human Dispersals in Southeast Asia

Pedro Soares et al.

Modern humans have been living in Island Southeast Asia (ISEA) for at least 50,000 years. Largely because of the influence of linguistic studies, however, which have a shallow time depth, the attention of archaeologists and geneticists has usually been focused on the last 6,000 years—in particular, on a proposed Neolithic dispersal from China and Taiwan. Here we use complete mitochondrial DNA (mtDNA) genome sequencing to spotlight some earlier processes that clearly had a major role in the demographic history of the region but have hitherto been unrecognized. We show that haplogroup E, an important component of mtDNA diversity in the region, evolved in situ over the last 35,000 years and expanded dramatically throughout ISEA around the beginning of the Holocene, at the time when the ancient continent of Sundaland was being broken up into the present-day archipelago by rising sea levels. It reached Taiwan and Near Oceania more recently, within the last ~8,000 years. This suggests that global warming and sea-level rises at the end of the Ice Age, 15,000–7,000 years ago, were the main forces shaping modern human diversity in the region.

Link

Human population history with a copying model

The movies of the authors' scenario can be found at the bottom of the link. This bit should be emphasized:

One potential avenue for extending the current approach to achieve this goal would be to impute chromosomes from “ancestral populations,” which would both represent populations that existed in the past and also act as efficient donors for the modern haplotypes.

Rather than seeing human variation as a network of gene exchange between the sampled populations, the goal should be to create a rich history of mankind where the named identifiable present-day populations are seen as leaves of a hidden web of interconnections between inferred, but statistically sound past populations, which in turn would be mapped to historical-archaeological entities.

PLoS Genet 4(5): e1000078. doi:10.1371/journal.pgen.1000078

Inferring Human Colonization History Using a Copying Model

Garrett Hellenthal et al.

Abstract

Genome-wide scans of genetic variation can potentially provide detailed information on how modern humans colonized the world but require new methods of analysis. We introduce a statistical approach that uses Single Nucleotide Polymorphism (SNP) data to identify sharing of chromosomal segments between populations and uses the pattern of sharing to reconstruct a detailed colonization scenario. We apply our model to the SNP data for the 53 populations of the Human Genome Diversity Project described in Conrad et al. (Nature Genetics 38,1251-60, 2006). Our results are consistent with the consensus view of a single “Out-of-Africa” bottleneck and serial dilution of diversity during global colonization, including a prominent East Asian bottleneck. They also suggest novel details including: (1) the most northerly East Asian population in the sample (Yakut) has received a significant genetic contribution from the ancestors of the most northerly European one (Orcadian). (2) Native South Americans have received ancestry from a source closely related to modern North-East Asians (Mongolians and Oroquen) that is distinct from the sources for native North Americans, implying multiple waves of migration into the Americas. A detailed depiction of the peopling of the world is available in animated form.

Link

Origin of two "pre-Columbian" Mexican crystal skulls

Excellent timing from the authors and the editor of the Journal of Archaeological Science, a perfect companion piece to the new Indiana Jones movie, albeit with a more down-to-earth message. In other movie news, a film named Olympia is in the works:

Danish helmer Asger Leth has signed on to helm "Olympia" for Columbia Pictures.

Mark Gordon ("10,000 BC") is producing the love story, which is set against the backdrop of the ancient Olympic Games in Greece as war waged between Athens and Sparta. Lawrence Inglee also produces.

One hopes that Mark Gordon doesn't bring the same level of period inaccuracy to ancient Greece as he did to the Paleolithic.

Journal of Archaeological Science http://dx.doi.org/10.1016/j.jas.2008.05.007

The origin of two purportedly pre-Columbian Mexican crystal skulls

Margaret Sax et al.

The well-known life-size rock crystal skull in the British Museum was purchased in 1897 as an example of genuine pre-Columbian workmanship, but its authenticity has been the subject of increasing speculation since the 1930s. This paper is concerned with the history, technology and material of the skull and another larger white quartz skull, donated recently to the Smithsonian Institution. Manufacturing techniques were investigated, using scanning electron microscopy to examine tool marks on the artefacts, and compared with Mesoamerican material from secure contexts. A Mixtec rock crystal goblet and a group of Aztec/Mixtec rock crystal beads show no evidence of lapidary wheels. They were probably worked with stone and wood tools charged with abrasives, some of which may have been as hard as corundum. Textual evidence for Mexican lapidary techniques during the early colonial period, supported by limited archaeological evidence, also indicates a technology without the wheel, probably based on natural tool materials. In contrast, the two skulls under consideration were carved with rotary wheels. The British Museum skull was worked with hard abrasives such as corundum or diamond, whereas X-ray diffraction revealed traces of carborundum (SiC), a hard modern synthetic abrasive, on the Smithsonian skull. Investigation of fluid and solid inclusions in the quartz of the British Museum skull, using microscopy and Raman spectroscopy, shows that the material formed in a mesothermal metamorphic environment equivalent to greenschist facies. This suggests that the quartz was obtained from Brazil or Madagascar, areas far outside pre-Columbian trade networks. Recent archival research revealed that the British Museum skull was rejected as a modern artefact by the Museo Nacional de Mexico in 1885, when offered for sale by the collector and dealer, Eugène Boban. These findings lead to the conclusion that the British Museum skull was worked in Europe during the nineteenth century. The Smithsonian Institution skull was probably manufactured shortly before it was bought in Mexico City in 1960; large blocks of white quartz would have been available from deposits in Mexico and the U.S.A.

Link

Exploring Y chromosome haplogroup frequencies in Greece

The samples:



Note that haplogroup J2-(DYS413<=18) should be fairly close to J-M410, and J2-(xDYS413<=18) should be fairly close to J-M12, since there seem to be few J-M410's with the "long" DYS413 alleles. The correlation analysis:

The only correlation that reaches significance (and at the 1%) level is between the aforementioned J2 groups; this may point to a differential representation of J2a and J2b in Greek sub-populations.

A dendrogram of the 19 populations:



The principal components plot:

As it appears, J2-(DYS413<=18) is positively correlated with PC1, while J2-(xDYS413<=18) is negatively correlated with it. On the other hand PC2 contrasts haplogroup DE on the one hand with mainly R1 on the other; indeed, the correlation between DE and the combined frequency of R1a and P*(xR1a) -which mostly corresponds to R1b and indeed R-M269 in Greece- is almost significant at the 5% level. Ratio of J2*(xDYS413<=18)/J2 in Greece: A north-west "Epirotic" concentration of high ratios is, I think, evident, contrasted with a south-western "Aegean" concentration of low ratios.

ESHG 2008 abstracts

The European Society of Human Genetics conference is coming up, and there are some very interesting abstracts.

Note: The ESHG site has updated with a notice that the abstracts are embargoed until their presentation time. Therefore, I have decided to remove the body of this post until then, although I think it is a bit weird to embargo something that one places on the public web. In any case, you can find the abstracts easily by going to the site above. (June 1): post restored.

The peopling of North Asia: Y and X perspectives

V. A. Stepanov, V. Kharkov, I. Khitrinskaya, O. Medvedeva, M. Spiridonova, A. Marusin, V. Puzyrev; Institute for Medical Genetics, Tomsk, Russian Federation.

Presentation Number: P07.056

To reconstruct the origin and evolution of human populations in North Asia we investigated the genetic diversity in 50 population samples (about 2000 individuals totally) using Y and X chromosome lineages. Y-chromosomal haplotypes were constructed with unique event polymorphisms (UEP) and STR markers according to Y Chromosome consortium (YCC) classification. SNP markers in a single 60 kb linkage disequilibrium region of ZFX gene was used to trace the X chromosomal population history. The genetic diversity of Y haplogroups was quite high (0.70 - 0.95) in most populations except few very isolated groups. The proportion of inter-population differences in the total genetic variability measured by Fst statistics is 17% for binary haplogroups and 19% for YSTR. Multidimensional scaling and principal component analysis revealed four major components in North Asian Y gene pool, reflecting the presence of Paleoasiatic (Q), Proto-Uralic (N3, N2), Eastern Asian (O, C), and Western Eurasian (R1, I, J) lineages. X-chromosomal haplotypes in North Asia are less divers (gene diversity within populations 0.65 - 0.80) and less differentiated (Fst = 4%) compared to Y lineages. The population clustering by X and Y gives, to a first approximation, a similar picture, and matrixes of genetic distances between populations for X and Y haplotypes significantly correlates. The age of genetic diversity generation and time of population differentiation demonstrates the Upper Paleolithic origin of major Y and X lineages and post-glacial population expansions. This work is supported by RFBR grants ##06-04-48274 and 07-04-01629.

The following seems to be a very important study; in particular the notion that particular Y chromosome/mtDNA haplogroups may be associated with higher or lower fertility may have implications about their distribution.

UPDATE (May 21): I did a quick and dirty analysis of the Y-haplogroup and mtDNA-haplogroup data from Bosch et al. (2006) (Ann Hum Genet. 2006 Jul;70(Pt 4):459-87.), and there is a -0.43 correlation between Y-haplogroup I and mtDNA-haplogroup H and a +0.46 correlation between Y-haplogroup R1 and mtDNA-haplogroup H. While not significant (with only 10 populations), this is definitely in the right direction for a selection effect for/against specific Y-DNA/mtDNA combinations.

... on the other hand, another quick and dirty analysis of 23 populations from Rootsi's survey on Y-haplogroup I and mtDNA frequencies from AJHG Volume 80, Issue 4, April 2007, Pages 759-768 didn't turn up any correlation. Perhaps, someone can look at possible correlations between Y-chromosome and mtDNA haplogroups in Europe to see if anything interesting turns up.

Male infertility induced by mtDNA/Y unfavorable combination? An association study on human mitochondrial DNA

S. C. Gomes1, S. Fernandes2, R. Gonçalves1, A. T. Fernandes1, A. Barros3, H. Geada4, A. Brehm1; 1Human Genetics Laboratory, University of Madeira, Funchal, Portugal, 2Genetics Department, Faculty of Medicine, University of Porto, Porto, Portugal, 3Centre of Reproductive Genetics A Barros, Porto, Portugal, 4Faculty of Medicine, University of Lisbon, Lisboa, Portugal.

Presentation Number: P07.084

There is growing evidence that certain mtDNA haplogroups determine a genetic susceptibility to various disorders bringing out the interest in the possible role of mtDNA background on the phenotype expression of mitochondrial genetic disorders. An association between haplogroup T and asthenospermia has been reported and several sublineages of haplogroup U were associated with differences in sperm motility and vitality. The deletion of some DAZ copies gene in 10-15% of azoospermic and oligospermic patients has been reported but also present in fertile men belonging to certain Y-haplogroups. The findings of one study have rarely been replicated by studies in other populations and conflicting associations have been reported. Our focus in this case-control study is to investigate the existence of other influences, besides a weak mtDNA background, promoting male infertility. The occurrence of a specific mtDNA variant associated to a certain Y-chromosome haplogroup could represent a vital link that will compromise the sperm function and be responsible for male infertility. A group of 99 infertile men and other one composed by 90 subjects with proven fertility were selected and analysed. The frequency of the combination mtDNA-haplogroup H (especially with the CRS sequence) and Y-haplogroup R was higher in fertile than in infertile men seemingly to be favorable to fertility. On the other hand, a considerable number of infertile men belonging to mtDNA-haplogroup H (CRS) and to Y-haplogroup I, associated to a specific DAZ gene deletion pattern- 2+4d, suggests a non favorable combination to male fertility.

The Bayash Roma: phylogenetic dissection of Eurasian paternal genetic elements

I. Martinovic Klaric, M. Pericic Salihovic, L. Barac Lauc, B. Janicijevic; Institute for Anthropological Research, Zagreb, Croatia.

Presentation Number: P07.110

The Bayash consist of numerous and small Romani groups speaking different dialects of the Romanian language and living dispersedly in Croatia, Hungary, Bosnia and Herzegovina, Serbia, Romania, Bulgaria, and to the lesser extent in Macedonia, Greece, Ukraine, Slovakia and Slovenia. Larger Bayash groups migrated to Croatia most likely during the 19th century, after abolition of slavery in Romania. Molecular architecture and the origin of the Croatian Bayash paternal gene pool was addressed by analysing 151 Bayash Y chromosomes from two Croatian regions, 332 Y chromosomes from Romani populations across Europe, 814 Y-chromosomes from non-Romani host populations living in Southeastern, Southern and Eastern Europe as well as with 1680 Y-chromosomes from South Asian populations. The Bayash in Croatia represent one population of largely shared paternal genetic history characterized by substantial percentage (44%) of common H1-M82 and E3b1-M78 lineages. Relatively ancient expansion signals and limited diversity of Indian specific H1-M82 lineages imply descent from closely related paternal ancestors who could have been settled in the Indian subcontinent between 7th and 9th centuries AD. Minimal time divergence of the Bayash subpopulations is consistent with their putative migratory split within Romania towards Wallachia and Transilvania. Substantial percentage of E3b1 lineages and high associated microsatellite variance in the Bayash men is a reflection of significant admixture with majority populations from the Vardar-Morava-Danube catchment basin - possibly a common paternal signature of Romani populations in Southeastern Europe. Additional traces of admixture are evident in the modest presence of typical European haplogroups.

Are the Moravian Valachs of Czech Republic the Aromuns of Central Europe? Model population for isolation and admixture

E. Ehler1,2, V. Vančata2; 1Department of Anthropology and Human Genetics, Charles University in Prague, Faculty of Science, Prague, Czech Republic, 2Department of Biology and Ecological Education, Charles University in Prague, Faculty of Education, Prague, Czech Republic.

Presentation Number: P07.129

Moravian Valachs of Czech Republic are one of the most distinct ethnic groups from Central Europe. Related to similar populations in Poland and Slovakia, they emerge at the end of 15th century, as the north-westernmost prominence of migration that started 250 years earlier in northern Romania. Being predominately highland sheep herders and of putative Romanian origin, they represent a Central European analogue of Balkan Aromanian populations. We have gathered Y-chromosomal, linguistic, ethnographic and historical data for this population and compared them with surrounding as well as with east European populations. Linguistic data show specific parts of shared vocabulary of Romanian origin between several pastoral groups in Central and Eastern Europe. Comparing genetic and linguistic pairwise distance matrices (Mantel test) in these populations did not revealed any significant correlation. Thus we confirmed that plain geographical distance still plays the major role in genetic distances between populations in Europe. From our further analysis it is clear, that the Moravian Valachs, after at least five centuries of admixture, are not overly genetically different from surrounding populations. On the other hand, from the point of view of intra-population diversity, they are much more similar to isolated Balkan populations (e.g. Aromuns) than to Central European populations.

Phylogeography of the human Y chromosome haplogroup E3a

F. Cruciani1, B. Trombetta1, D. Sellitto2, C. Nodale1, R. Scozzari1; 1Sapienza Università di Roma, Rome, Italy, 2Consiglio Nazionale delle Ricerche, Rome, Italy.

Presentation Number: P07.134

The Y chromosome specific biallelic marker DYS271 defines the most common haplogroup (E3a) currently found in sub-Saharan Africa. A sister clade, E3b (E-M215), is rare in sub-Saharan Africa, but very common in northern and eastern Africa. On the whole, these two clades represent more than 70% of the Y chromosomes of the African continent. A third clade belonging to E3 (E3c or E-M329) has been recently reported to be present only in eastern Africa, at low frequencies. In this study we analyzed more than 1,600 Y chromosomes from 55 African populations, using both new and previously described biallelic markers, in order to refine the phylogeny and the geographic distribution of the E3a haplogroup. The most common E-DYS271 sub-clades (E-DYS271*, E-M191, E-U209) showed a non uniform distribution across sub-Saharan Africa. Most of the E-DYS271 chromosomes found in northern and western Africa belong to the paragroup E-DYS271*, which is rare in central and southern Africa. In these latter regions, haplogroups E-M191 and E-U209 show similar frequency distributions and coalescence ages (13 and 11 kyr, respectively), suggesting their involvement in the same migratory event/s. By the use of two new phylogenetically equivalent markers (V38 and V89), the earlier tripartite structure of E3 haplogroup was resolved in favor of a common ancestor for haplogroups E-DYS271 (formerly E3a) and E-M329 (formerly E3c). The new topology of the E3 haplogroup is suggestive of a relatively recent eastern African origin for the majority of the chromosomes presently found in sub-Saharan Africa.

Y-chromosome lineages in Xhosa and Zulu Bantu speaking populations

R. P. A. Gonçalves, H. Spínola, A. Brehm; Human Genetics Laboratory, Funchal, Portugal.

Presentation Number: P07.137

Y-chromosome Single Nucleotide Polymorphisms have been analysed in Zulu and Xhosa, two southern Africa Bantu speaking populations. These two ethnic groups have their origin on the farmer’s Bantu expansion from Niger-Congo border towards sub-Sahel regions on the southern tip of the continent, during the past 3000 years. Seven different Y-chromosome haplogroups were found in Zulu contrasting with only two in Xhosa. E3a, a common haplogroup among West sub-Saharans associated to Bantu migration was the most prevalent in both populations (56.9% in Zulu and 90% in Xhosa). The second most common haplogroup was E2 (29.3% in Zulu and 10% in Xhosa), present both in West and East African populations. The present-day Zulu and Xhosa paternal legacy is essentially of West sub-Saharan origin. Zulu population shows a most diverse genetic influence comparing to Xhosa, revealing some pre-Bantu expansion markers and East African influences. Zulu presents 8.6% Y-chromosome haplogroups (A, B, J1) of non-Bantu influence that could indicate gene flow from other populations, particularly Khoisan.

Human genetic population structure: Patterns and underlying processes

Presentation Time: Tuesday, 9:15 a.m. - 9:45 a.m.

G. Barbujani; University of Ferrara, Department of Biology and Evolution, Ferrara, Italy.

Presentation Number: S15.2

Classical studies of genetic diversity in humans consistently showed that the largest proportion of human diversity occurs among members of the same population. On average, differences among different populations in the same continent represent 5% of the global human variance, and differences among continents another 10%. Genetic variation is largely discordant across the genome, meaning that different loci show different spatial patterns, and implying that a good description of population structure can only be based on the analysis of multiple loci. Studies of single loci are also unlikely to reasonably identify an individual’s place of origin. A general decline of genetic of genetic diversity with distance from Africa, and a parallel increase in linkage disequilibrium, can be accounted for by the effects of a series of founder effects accompanying the spread of anatomically-modern humans from Africa. Recent DNA analyses at the global level show that most allelic variants are cosmopolitan and only a small percentage are continent-specific, whereas a clearer continental structure emerges when considering composite haplotypes. This suggests that, at the global level, gene flow has had a strong impact on genetic diversity, through both directional dispersal and successive short-range migratory exchanges. At the local level, several factors have contributed to genetic differentiation, and, in particular, language barriers have been shown to be associated with small but non-negligible increases of the genetic differences between neighboring populations.

Hierarchical analysis of 28 Y-chromosome SNP’s in the population of the Republic of Macedonia

P. Noveski, S. Trivodalieva, G. D. Efremov, D. Plaseska-Karanfilska;
Macedonian Academy of Sciences and Arts, Research Centre for Genetic Engineering and Biotechnology, Skopje, Macedonia, The Former Yugoslav Republic of.

Presentation Number: P05.211

Analysis of Y-chromosome haplogroups, defined by single nucleotide polymorphisms (SNP’s), has become a standard approach for studying the origin of human populations and measuring the variability among them. Furthermore, Y-SNP’s represent a new forensic tool, because their population specificity may allow to determine the origin of any male sample of interest for forensic purposes. The aim of this study was to develop a strategy for rapid, simple and inexpensive Y-chromosome SNP’s typing in the population of R. Macedonia. We have studied a total of 343 DNA male samples; 211 Macedonians, 111 Albanians and 21 of other ethnic origin (Roma, Serbs and Turks). Methodology included multiplex PCR and single nucleotide extension reaction by SNaPshot multiplex kit. The set of 28 markers has been grouped in 5 multiplexes in order to determine the most frequent haplogroups using only 1 or 2 multiplexes. Twenty different Y haplogroups were determined among 343 male DNA samples. The finding that five haplogroups (E3b1, I1b1, J2b1a, R1a and R1b) comprise more than 70% of the Y chromosomes is consistent with the typical European Y chromosome gene pool. The distribution of the Y-haplogroups differs between Macedonians and Albanians. The most common Y haplogroup among Macedonians is I1b1 (27.5%), followed by three haplogroups present with similar frequencies E3b1 (15.6%), R1a (14.2%) and R1b (11.4%). Among Albanians the most frequent Y haplogroup is E3b1 (28.8%), followed by R1b (18.0%), J2b1a (13.5%) and R1a (12.6%).

The following paper (probably) refers to a recent study, according to which:

One of the most elevated values of 35delG prevalence corresponds to Greece (1/28); the pattern of various 35delG prevalences is interpretated in the present meta-analysis as the result of Ancient Greek colonizations of the "Magna Grecia" in historical times.

Strong linkage disequilibrium for the frequent GJB2 35delG mutation in the Greek population
H. Kokotas¹, L. Van Laer², M. Grigoriadou¹, V. Iliadou³, J. Economides⁴, S. Pomoni¹, A. Pampanos¹, N. Eleftheriades⁵, E. Ferekidou⁶, S. Korres⁶, A. Giannoulia-Karantana⁷, G. Van Camp², M. B. Petersen¹;
¹Institute of Child Health, Athens, Greece, ²University of Antwerp, Antwerp, Belgium, ³AHEPA Hospital, Thessaloniki, Greece, ⁴‘Aghia Sophia’ Children’s Hospital, Athens, Greece, ⁵St. Loukas Hospital, Thessaloniki, Greece, ⁶Athens University, Athens, Greece, ⁷Athens University Medical School, Athens, Greece.

Presentation Number: P06.080

Approximately one in 1,000 children is affected by severe or profound hearing loss at birth or during early childhood (prelingual deafness). Up to forty percent of autosomal recessive, congenital, severe to profound hearing impairment cases result from mutations in a single gene, GJB2. The 35delG mutation accounts for the majority of GJB2 mutations detected in Caucasian populations and represents one of the most frequent disease mutations identified so far. Some previous studies have assumed that the high frequency of the 35delG mutation reflects the presence of a mutational hot spot, whilst other studies support the theory of a common founder. Greece is amongst the countries presenting high frequency of the 35delG mutation (3.5%), and a recent study raised the hypothesis of the origin of this mutation in ancient Greece. We genotyped 60 Greek deafness patients homozygous for the 35delG mutation for six single nucleotide polymorphisms (SNPs) and two microsatellite markers, mapping within or flanking the GJB2 gene, as compared to 60 Greek hearing controls. A strong linkage disequilibrium was found between the 35delG mutation and markers inside or flanking the GJB2 gene, at distances of 34 kb on the centromeric and 90 kb on the telomeric side of the gene, respectively. Our study supports the hypothesis of a founder effect and we further propose that ethnic groups of Greek ancestry could have propagated the 35delG mutation, as evidenced by historical data beginning from the 15^th century BC.

TPCN2 and ASIP and hair/skin color

Nature Genetics, Published online: 18 May 2008 | doi:10.1038/ng.160

Two newly identified genetic determinants of pigmentation in Europeans

Patrick Sulem et al.

We present results from a genome-wide association study for variants associated with human pigmentation characteristics among 5,130 Icelanders, with follow-up analyses in 2,116 Icelanders and 1,214 Dutch individuals. Two coding variants in TPCN2 are associated with hair color, and a variant at the ASIP locus shows strong association with skin sensitivity to sun, freckling and red hair, phenotypic characteristics similar to those affected by well-known mutations in MC1R.

Link

Arabidopsis thaliana accompanied the spread of agriculture in Europe

PLoS Genet. 2008 May 16;4(5):e1000075.

Demographic History of European Populations of Arabidopsis thaliana.

François O, Blum MG, Jakobsson M, Rosenberg NA.

The model plant species Arabidopsis thaliana is successful at colonizing land that has recently undergone human-mediated disturbance. To investigate the prehistoric spread of A. thaliana, we applied approximate Bayesian computation and explicit spatial modeling to 76 European accessions sequenced at 876 nuclear loci. We find evidence that a major migration wave occurred from east to west, affecting most of the sampled individuals. The longitudinal gradient appears to result from the plant having spread in Europe from the east approximately 10,000 years ago, with a rate of westward spread of approximately 0.9 km/year. This wave-of-advance model is consistent with a natural colonization from an eastern glacial refugium that overwhelmed ancient western lineages. However, the speed and time frame of the model also suggest that the migration of A. thaliana into Europe may have accompanied the spread of agriculture during the Neolithic transition.

Link

Paternal genetic affinity between western Austronesians and Daic populations

BMC Evol Biol. 2008 May 15;8(1):146.

Paternal genetic affinity between western Austronesians and Daic populations.

Li H, Wen B, Chen SJ, Su B, Pramoonjago P, Liu Y, Pan S, Qin Z, Liu W, Cheng X, Yang N, Li X, Tran D, Lu D, Hsu MT, Deka R, Marzuki S, Tan CC, Jin L.

ABSTRACT: BACKGROUND: Austronesian is a linguistic family spread in most areas of the Southeast Asia, the Pacific Ocean, and the Indian Ocean. Based on their linguistic similarity, this linguistic family included Malayo-Polynesians and Taiwan aborigines. The linguistic similarity also led to the controversial hypothesis that Taiwan is the homeland of all the Malayo-Polynesians, a hypothesis that has been debated by ethnologists, linguists, archaeologists, and geneticists. It is well accepted that the Eastern Austronesians (Micronesians and Polynesians) derived from the Western Austronesians (Island Southeast Asians and Taiwanese), and that the Daic populations on the mainland are supposed to be the headstream of all the Austronesian populations. RESULTS: In this report, we studied 20 SNPs and 7 STRs in the non-recombining region of the 1,509 Y chromosomes from 30 China Daic populations, 23 Indonesian and Vietnam Malayo-Polynesian populations, and 11 Taiwan aboriginal populations. These three groups show many resemblances in paternal lineages. Admixture analyses demonstrated that the Daic populations are hardly influenced by Han Chinese genetically, and that they make up the largest proportion of Indonesians. Most of the population samples contain a high frequency of haplogroup O1a-M119, which is nearly absent in other ethnic families. The STR network of haplogroup O1a* illustrated that Indonesian lineages did not derive from Taiwan aborigines as linguistic studies suggest, but from Daic populations. CONCLUSION: We show that, in contrast to the Taiwan homeland hypothesis, the Island Southeast Asians do not have a Taiwan origin based on their paternal lineages. Furthermore, we show that both Taiwan aborigines and Indonesians likely derived from the Daic populations based on their paternal lineages. These two populations seem to have evolved independently of each other. Our results indicate that a super-phylum, which includes Taiwan aborigines, Daic, and Malayo-Polynesians, is genetically educible.

Link

Greek men continue to grow taller

Related: The evolution of adult height in Europe.

Acta Paediatr. 2008 May 12 [Epub ahead of print]

Greek young men grow taller.

Papadimitriou A, Fytanidis G, Douros K, Papadimitriou DT, Nicolaidou P, Fretzayas A.

Aim: To examine whether a secular trend for greater height is still observed in young Greek men. Method: Height and weight of 3982 Greek conscripts, aged 18-26 years, were measured and correlated with the level of education and place of residence. Our data were collected from May 2006 to May 2007 from pre-selected army camps all over Greece. The data were compared with those of a similar study performed in 1990. Results: Mean height (+/-SD) of the conscripts was 178.06 (+/-7.05) cm. From 1990 until 2006, mean height increased from 175.7 cm to 178.06 cm (p < p =" 0.007)"> Conclusions: Our data show a further increase in the stature of young Greek men in the last 16 years. It appears that the male Greek population has still not exhausted its growth potential.

Link

New alleles for hair and skin pigmentation

Gnxp points me to this new paper on hair and skin color pigmentation alleles.

PLoS Genet 4(5): e1000074. doi:10.1371/journal.pgen.1000074

A Genome-Wide Association Study Identifies Novel Alleles Associated with Hair Color and Skin Pigmentation

Jiali Han et al.

Abstract

We conducted a multi-stage genome-wide association study of natural hair color in more than 10,000 men and women of European ancestry from the United States and Australia. An initial analysis of 528,173 single nucleotide polymorphisms (SNPs) genotyped on 2,287 women identified IRF4 and SLC24A4 as loci highly associated with hair color, along with three other regions encompassing known pigmentation genes. We confirmed these associations in 7,028 individuals from three additional studies. Across these four studies, SLC24A4 rs12896399 and IRF4 rs12203592 showed strong associations with hair color, with p = 6.0×10⁻⁶² and p = 7.46×10⁻¹²⁷, respectively. The IRF4 SNP was also associated with skin color (p = 6.2×10⁻¹⁴), eye color (p = 6.1×10⁻¹³), and skin tanning response to sunlight (p = 3.9×10⁻⁸⁹). A multivariable analysis pooling data from the initial GWAS and an additional 1,440 individuals suggested that the association between rs12203592 and hair color was independent of rs1540771, a SNP between the IRF4 and EXOC2 genes previously found to be associated with hair color. After adjustment for rs12203592, the association between rs1540771 and hair color was not significant (p = 0.52). One variant in the MATP gene was associated with hair color. A variant in the HERC2 gene upstream of the OCA2 gene showed the strongest and independent association with hair color compared with other SNPs in this region, including three previously reported SNPs. The signals detected in a region around the MC1R gene were explained by MC1R red hair color alleles. Our results suggest that the IRF4 and SLC24A4 loci are associated with human hair color and skin pigmentation.

Link

Paleogenetics of cattle domestication

Research on modern cattle had suggested the Neolithic Near Eastern origin of domesticated cattle, but also that some of the European aurochsen transmitted their mtDNA to European cattle. By looking at prehistoric mtDNA, the researchers were able to discover that the Neolithic to Bronze Age cattle of Europe lacked the native aurochs mtDNA and were exclusively descended from the domesticated animals brought into Europe from the Near East.

From the paper:

Therefore, it is of utmost importance to control the PCR. This is possible when using a quantitative approach, and, in particular, quantitative real-time PCR (QPCR), which allows for online monitoring of the PCR and quantification of the amplified DNA thanks to the use of fluorescent probes [49].

...

Therefore, QPCR is, to my mind, the best method for amplification of ancient DNA. Up until now, however, it has rarely been used and not a single study of the genetics of ancient populations or of a domestication process has been conducted using this method. We have adapted QPCR to ancient DNA research and used it for our study of the domestication process of the aurochs in Southwest Asia with a so far unequalled success rate. We have thus been able to appreciate better:

• DNA conservation, during and after burial;
• contamination with modern DNA;
• base modifications and amplification errors.

The method has proved to be a key asset in the study of DNA preserved in fossilising bones that have been subjected to climatic and/or chemical conditions that are
unfavourable to DNA preservation. This will be discussed hereafter.

...

The combination of the use of freshly unearthed, unwashed fossil remains and our quantitative high-fidelity and high-sensitivity PCR approach allowed us to obtain some 60 authenticated mitochondrial sequences from between 9500- and 3000-year-old bovine remains, 30 from Southwest Asia and 30 from western Europe (mainly France) (Pruvost et al., in preparation).

...

The result of this large-scale analysis proves on the genetic level that it was the aurochs population from the Upper Euphrates and Tigris Basin that had been domesticated almost 10,000 years ago and then spread into Europe, since Neolithic and Bronze Age cattle in western Europe show a mitochondrial signature that is a subset of that of their ancestral populations in Southwest Asia (Pruvost et al., in preparation). They also gave rise to the extant cattle populations all over the world, although modern-day cattle in continental Europe represent only a small subset of the original populations (Pruvost et al., in preparation). In contrast, the western European aurochsen did not leave a mitochondrial signature in extant European cattle, which indicates that female western European aurochsen were not domesticated in Europe, but rather maintained their status as hunted game until at least the Bronze Age (Pruvost et al., in preparation).

Comptes Rendus Palevol doi:10.1016/j.crpv.2008.02.001

Palaeogenetics of cattle domestication: Methodological challenges for the study of fossil bones preserved in the domestication centre in Southwest Asia


Eva-Maria Geigl

Abstract

Recently, palaeogenetics encountered enormous success when parts of the nuclear genomes of mammoth and Neanderthal man were analysed. Their bones, however, had been preserved in environments favourable to DNA preservation, i.e., permafrost regions
and caves in temperate regions. Few studies have tackled archaeological bones from hot, arid regions, although they bear great significance for the study of evolution of humans and the precursors of modern societies. According to archaeological evidence, a key event in neolithisation, the domestication of cattle, took place around 10,000 years ago in Southwest Asia. Genetic data from prehistoric bovine bones preserved in this region might shed light on this process, but the palaeogenetic approach has been hampered by poor DNA preservation. Here, I discuss various aspects of DNA preservation in fossils and the production of reliable palaeogenetic data and present methodological improvements that have enabled us to shed light on the process of cattle domestication in Southwest Asia and its spread into western Europe.

Link

Complete mtDNA genomes of Bos taurus and Bos indicus

Cytogenet Genome Res. 2008;120(1-2):150-156. Epub 2008 Apr 30.

Complete mitochondrial genomes of Bos taurus and Bos indicus provide new insights into intra-species variation, taxonomy and domestication.

Hiendleder S, Lewalski H, Janke A.

The taurine and zebuine cattle breeds comprise the majority of the world cattle population but their taxonomic status is still controversial. The two forms of cattle are currently classified as Bos taurus and Bos indicus species and are differentiated primarily by the presence or absence of a hump. However, these two species hybridize readily, producing fully fertile offspring. We have determined and analyzed complete B. taurus and B. indicus mitochondrial genome sequences to investigate the extent of sequence divergences and to study their taxonomic status by molecular dating. The sequences encompassed 16,338 and 16,339 nucleotides, respectively, and differed at 237 positions. Estimated divergence times indicated that the two cattle lineages separated 1.7-2.0 million years ago. Combined phylogenetic analyses of 18 new and 130 previously reported extant B. taurus and B. indicus control region sequences with data from 32 archaeological specimens of the extinct wild aurochs (Bos primigenius) identified four major maternal lineages. B. primigenius haplotypes were present in all but the B. indicus lineage, and one B. taurus sequence clustered with B. primigenius P haplotypes that were not previously linked with domestic cattle. The B. indicus cluster and a recently reported new B. primigenius haplotype that represents a new lineage were approximately equidistant from the B. taurus cluster. These data suggest domestications from several differentiated populations of B. primigenius and a subspecies status for taurine (B. primigenius taurus) and zebuine (B. primigenius indicus) cattle.

Link

Craniofacial shape variation and Native American origins

American Journal of Physical Anthropology

The peopling of America: Craniofacial shape variation on a continental scale and its interpretation from an interdisciplinary view

Rolando González-José et al.

Abstract

Twenty-two years ago, Greenberg, Turner and Zegura (Curr. Anthropol. 27,477-495, 1986) suggested a multidisciplinary model for the human settlement of the New World. Since their synthesis, several studies based mainly on partial evidence such as skull morphology and molecular genetics have presented competing, apparently mutually exclusive, settlement hypotheses. These contradictory views are represented by the genetic-based Single Wave or Out of Beringia models and the cranial morphology-based Two Components/Stocks model. Here, we present a geometric morphometric analysis of 576 late Pleistocene/early Holocene and modern skulls suggesting that the classical Paleoamerican and Mongoloid craniofacial patterns should be viewed as extremes of a continuous morphological variation. Our results also suggest that recent contact among Asian and American circumarctic populations took place during the Holocene. These results along with data from other fields are synthesized in a model for the settlement of the New World that considers, in an integrative and parsimonious way, evidence coming from genetics and physical anthropology. This model takes into account a founder population occupying Beringia during the last glaciation characterized by high craniofacial diversity, founder mtDNA and Y-chromosome lineages and some private autosomal alleles. After a Beringian population expansion, which could have occurred concomitant with their entry into America, more recent circumarctic gene flow would have enabled the dispersion of northeast Asian-derived characters and some particular genetic lineages from East Asia to America and vice versa.

Link

Paternal genetic structure of Hainan Islanders

Hainan Island on Wikipedia.

PLoS ONE. 2008 May 14;3(5):e2168.

Paternal genetic structure of Hainan aborigines isolated at the entrance to East Asia.

Li D, Li H, Ou C, Lu Y, Sun Y, Yang B, Qin Z, Zhou Z, Li S, Jin L.

BACKGROUND: At the southern entrance to East Asia, early population migration has affected most of the Y-chromosome variations of East Asians. METHODOLOGY/PRINCIPAL FINDINGS: To assess the isolated genetic structure of Hainan Island and the original genetic structure at the southern entrance, we studied the Y chromosome diversity of 405 Hainan Island aborigines from all the six populations, who have little influence of the recent mainland population relocations and admixtures. Here we report that haplogroups O1a* and O2a* are dominant among Hainan aborigines. In addition, the frequency of the mainland dominant haplogroup O3 is quite low among these aborigines, indicating that they have lived rather isolated. Clustering analyses suggests that the Hainan aborigines have been segregated since about 20 thousand years ago, after two dominant haplogroups entered East Asia (31 to 36 thousand years ago). CONCLUSIONS/SIGNIFICANCE: Our results suggest that Hainan aborigines have been isolated at the entrance to East Asia for about 20 thousand years, whose distinctive genetic characteristics could be used as important controls in many population genetic studies.

Link

The true face of Julius Caesar

Divers find bust of Julius Caesar in Rhone River

"The culture ministry said that the life-sized bust is believed to be the oldest of the Roman emperor ever discovered.

It portrays the Roman ruler at an advanced age, with wrinkles and hollows in his face."

Y chromosomes from European part of Russia

Not really anything we didn't already know, and it's unfortunate that they didn't type some informative downstream markers, e.g., in haplogroup I, but a good source of data nonetheless. See also the other recent survey on Russian Y chromosomes.

American Journal of Physical Anthropology

Boundaries and clines in the West Eurasian Y-chromosome landscape: Insights from the European part of Russia

Angela Fechner et al.

Abstract

Previous studies of Y chromosome variation have revealed that western Europe, the Volga-Ural region, and the Caucasus differ dramatically with respect to Y-SNP haplogroup composition. The European part of Russia is situated in between these three regions; to determine if these differences reflect clines or boundaries in the Y-chromosome landscape, we analyzed 12 Y-SNPs in 545 males from 12 populations from the European part of Russia. The majority of Russian Y chromosomes (from 74% to 94%) belong to three Y chromosomal lineages [I-M170, R1a1-M17, and N3-TAT] that are also frequent in the rest of east Europe, north Europe, and/or in the Volga-Ural region. We find significant but low correlations between haplogroup frequencies and the geographic location of populations, suggesting gradual change in the Y chromosome gene pool across western Eurasia. However, we also find some significant boundaries between populations, suggesting that both isolation and migration have influenced the Y chromosome landscape.

Link

mtDNA phylogeny in Eastern and Western Slavs

Molecular Biology and Evolution, doi:10.1093/molbev/msn114

Mitochondrial DNA phylogeny in Eastern and Western Slavs

B. Malyarchuk et al.

To resolve the phylogeny of certain mitochondrial DNA (mtDNA) haplogroups in Eastern Europe and estimate their evolutionary age, a total of 73 samples representing mitochondrial haplogroups U4, HV*, and R1 were selected for complete mitochondrial genome sequencing from a collection of about 2000 control-region sequences sampled in Eastern (Russians, Belorussians, Ukrainians) and Western (Poles, Czechs and Slovaks) Slavs. On the basis of whole-genome resolution, we fully characterized a number of haplogroups (HV3, HV4, U4a1, U4a2, U4a3, U4b, U4c, U4d, and R1a) that were previously described only partially. Our findings demonstrate that haplogroups HV3, HV4, and U4a1 could be traced back to the pre-Neolithic times ( 12,000-19,000 YBP) in Eastern Europe. In addition, an ancient connection between the Caucasus/Europe and India has been revealed by analysis of haplogroup R1 diversity, with a split between the Indian and Caucasus/European R1a lineages occurring about 16,500 years ago. Meanwhile, some mtDNA subgroups detected in Slavs (such as U4a2a, U4a2*, HV3a, R1a1) are definitely younger being dated between 6,400-8,200 YBP. However, robust age estimations appear to be problematic due to the high ratios of non-synonymous to synonymous substitutions found in young mtDNA subclusters.

Link

IL1RAPL1 and human cognitive ability

Neurosci Lett. 2008 Apr 8 [Epub ahead of print]

A study on the correlation between IL1RAPL1 and human cognitive ability.

Gao X, Xi G, Niu Y, Zhang S, Fu R, Zheng Z, Zhang K, Lv S, He H, Xue M, Zhang F.

This study aimed to investigate the effects of IL1RAPL1 on the human cognitive ability. Four genetic marker sites, i.e., DXS1218, DXS9896, rs6526806 and rs12847959 on IL1RAPL1 were genotyped in 332 Qinba Mountain Area children. Meanwhile, a cognition test with a C-WISC scale was performed to study the relationship of genotype with cognition test scores. Results indicated that genotypes of DXS1218, DXS9896 and rs12847959 were associated with memory/concentration factor intelligence quotient (IQ) (P=0.027, 0.042, 0.029, respectively). DXS1218 also associated with full IQ, verbal IQ, and performance IQ (P=0.006, 0.014, 0.006, respectively). rs12847959 were related to verbal comprehension factor and perceptual organization factor IQ (P=0.021, 0.043, respectively). Further study on rat brain revealed that Il1rapl was mainly expressed in memory/concentration-associated encephalic regions, such as hippocampus, dentate fascia, osmesis perithelium, and piriform cortex. mRNA expression levels of Il1rapl in brains of rats with different learning and memory abilities showed significant difference. Combined data suggested that IL1RAPL1 affected human cognitive ability to some extent, especially the memory and concentration capability.

Link

Iron Age, Viking Age, and Eskimo mtDNA

Thule culture Inuit was A2, Roman Iron Age Denmark (2000BP) was T2, and three Viking Age Icelanders were J, K, and H.

See also mtDNA from Iron Age Denmark.

Journal of Archaeological Science
Volume 35, Issue 6, June 2008, Pages 1445-1452

On the elimination of extraneous DNA in fossil human teeth with hypochlorite

Jørgen Dissing, Margrét A. Kristinsdottir and Camilla Friis

Abstract

Elimination of extraneous DNA in fossil specimens is of paramount importance for the successful isolation and analysis of authentic DNA; this is especially true when the specimens are of human origin. Bones and teeth are commonly decontaminated with bleach containing the powerful oxidising hypochlorite ion. The procedures involve either submersion in or wiping with the chlorine agent. Using the radioactive isotope Cl³⁶ we showed that submersion of fossil teeth in solutions of small ions such as Cl⁻ or hypochlorite, ClO⁻, cause that they migrate right into the pulp. This may lead to the unwanted destruction of authentic DNA. However, using pairs of teeth from the remains of four ancient Europeans (1000–2000 YBP) as well as tooth and hair from an Inuit skull (>300 YBP) we provide evidence that at least some endogenous human fossil DNA survives in powdered pulp/dentin that has been submersed in 2% hypochlorite. Further, we show that powdered pulp/dentin deliberately contaminated with huge amounts of a 414 bp PCR product is effectively decontaminated by suspension in 2% hypochlorite for 5 min. Decontamination of fossil material from teeth may therefore be accomplished by a short direct action of hypochlorite on the powdered specimen rather than less controllable and less efficient external treatments of the whole specimen.

Link

Scythians of the North Pontic region

Archaeology, Ethnology, and Anthropology of Eurasia, vol. 4 (32), 2007, pp. 143-157

SCYTHIANS OF THE NORTH PONTIC REGION: BETWEEN-GROUP CRANIAL VARIATION, AFFINITIES, AND ORIGINS

A.G. Kozintsev

(no abstract)

"First of all, the variation between the Scythian groups must be assessed in order to compare it with the total variation. The average distance between all the 22 Scythian groups is 6.30; that between the 17 steppe groups, 5.25; that between the five forest-steppe groups, 5.88; and that between the steppe and the forest-steppe groups, 8.04. As will be seen below, these values are not at all small by the general standard."

...

"Our results agree with the conclusions made by A.Yu. Alekseyev (1993), who speaks of two Scythian cultures, separated by a sharp gap: one archaic, distributed mostly in the forest-steppe and in the northern Caucasus, another classical, distributed in the steppe. It appears reasonable to assume that the two cultures were associated with tribes differing in origin, and that the term “Scythians” can be used with regard to the forest-steppe people only in a broad sense."

...

"Therefore, contrary to a widely held belief, which, until quite recently, was shared by all physical anthropologists, not a single biological fact (at least insofar as craniometry is concerned) suggests that the only, or at least the principal ancestors of the steppe Scythians were people of the Timber-grave culture. Now that this culture is represented by numerous populations from various parts of its distribution area, the above statement can be made with certainty not only with regard to the steppe Scythians in general, but also with regard to the vast majority of local steppe populations as well."

...

"The hypothesis formulated by Kovalev (see above) does not contradict the fact that gracilization began in the southern part of the Caucasoid distribution range. At the same time, this hypothesis agrees with the theory of two Indo-European homelands – the early one, Near Eastern, and the late one, European, situated in regions from the Balkans (Diakonov, 1982) to Central or even Northern Europe (Safronov, 1989; Klein, 1990 and in print), i.e., areas covered by the depigmentation process."

...

"Craniometrical findings indirectly support the theory that the forest-steppe Scythians were autochthonous. Both for this group as a whole and for its local populations, including the earliest one, from Medvin, the most distinct ties are those with people of the Timber-grave culture of the Ukraine, especially with the group from the ground burials of that culture. No less relevant are ties with the Belozerskaia group. The isolated position of certain forest-steppe Scythian groups, which reveal no ties with other populations, may point to a key role of microevolutionary (especially random) processes.

4. Parallels between the steppe Scythians and people of the Timber-grave culture evidently do not attest to the local origin of the former. They are less distinct than parallels with earlier Bronze Age populations (those associated with the Pit-grave and Catacomb cultures) and therefore point not so much to the local roots of the steppe Scythians as to the fact that their ancestors were Indo-Europeans (most likely Indo-Iranians), some groups of which migrated during the Bronze Age as far east as Eastern Central Asia. The return of their descendants to the North Pontic steppes in the Early Iron Age was apparently the key factor in the origin of the steppe Scythians (at least of the relatively late populations represented in our database)."

DNA from Neolithic and Bronze Age Greek sites

Unfortunately no actual DNA results are in the article, and a whole lot of bad news.

Journal of Archaeological Science doi:10.1016/j.jas.2008.04.019

Ancient DNA in human bones from neolithic and bronze age sites in greece and crete

Elizabeth R. Chilversa, Abigail S. Bouwmana, Keri A. Browna, Robert G. Arnottb, A. John N.W. Pragc and Terence A. Brown

Abstract

Attempts were made to detect ancient DNA (aDNA) in samples of 88 human skeletons from eight Neolithic and Bronze Age sites in Greece and Crete. Ancient DNA was absent in specimens from Nea Nikomedia, Lerna, Karaviádena (Zakro), Antron Grave Circle A and Mycenae Grave Circle A. For each of three skeletons from Antron Grave Circle B that were sampled, polymerase chain reactions (PCRs) gave products for nuclear but not mitochondrial DNA, but amplicon yield was low and inconsistent with replicate PCRs failing to give reproducible results. With specimens from Mycenae Grave Circle B, evidence for mitochondrial aDNA was obtained for four of the 22 skeletons that were studied, and at Kouphovouno evidence for mitochondrial and/or nuclear aDNA was obtained with eight of the 20 skeletons that were examined. We conclude that, although aDNA might be present in some Eastern Mediterranean skeletons from later centuries of the Bronze Age, it is not commonly found in material from this period and is likely to be absent from older material.

Link

Domestication of reindeer

Proc Biol Sci. 2008 May 6 [Epub ahead of print]

Genetic analyses reveal independent domestication origins of Eurasian reindeer.

Røed KH, Flagstad O, Nieminen M, Holand O, Dwyer MJ, Røv N, Vilà C.

Although there is little doubt that the domestication of mammals was instrumental for the modernization of human societies, even basic features of the path towards domestication remain largely unresolved for many species. Reindeer are considered to be in the early phase of domestication with wild and domestic herds still coexisting widely across Eurasia. This provides a unique model system for understanding how the early domestication process may have taken place. We analysed mitochondrial sequences and nuclear microsatellites in domestic and wild herds throughout Eurasia to address the origin of reindeer herding and domestication history. Our data demonstrate independent origins of domestic reindeer in Russia and Fennoscandia. This implies that the Saami people of Fennoscandia domesticated their own reindeer independently of the indigenous cultures in western Russia. We also found that augmentation of local reindeer herds by crossing with wild animals has been common. However, some wild reindeer populations have not contributed to the domestic gene pool, suggesting variation in domestication potential among populations. These differences may explain why geographically isolated indigenous groups have been able to make the technological shift from mobile hunting to large-scale reindeer pastoralism independently.

Link

The Druze as a population genetic refugium of the Near East

Table S2 has the data.

PLoS ONE 3(5): e2105. doi:10.1371/journal.pone.0002105

The Druze: A Population Genetic Refugium of the Near East

Liran I. Shlush et al.

Abstract

Background

Phylogenetic mitochondrial DNA haplogroups are highly partitioned across global geographic regions. A unique exception is the X haplogroup, which has a widespread global distribution without major regions of distinct localization.

Principal Findings

We have examined mitochondrial DNA sequence variation together with Y-chromosome-based haplogroup structure among the Druze, a religious minority with a unique socio-demographic history residing in the Near East. We observed a striking overall pattern of heterogeneous parental origins, consistent with Druze oral tradition, together with both a high frequency and a high diversity of the mitochondrial DNA (mtDNA) X haplogroup within a confined regional subpopulation. Furthermore demographic modeling indicated low migration rates with nearby populations.

Conclusions

These findings were enabled through the use of a paternal kindred based sampling approach, and suggest that the Galilee Druze represent a population isolate, and that the combination of a high frequency and diversity of the mtDNA X haplogroup signifies a phylogenetic refugium, providing a sample snapshot of the genetic landscape of the Near East prior to the modern age.

Link

Hair/Skin color and Hair Length and Female Attractiveness in

Scand J Psychol. 2008 Apr 28 [Epub ahead of print]

The influence of skin tone, hair length, and hair colour on ratings of women's physical attractiveness, health and fertility.

Swami V, Furnham A, Joshi K.

The present study investigated the role of skin tone, hair colour and hair length in perceptions of women's physical attractiveness, health and fertility. One-hundred and thirty men and 112 women rated a series of 12 line drawings that varied in three levels of skin tone, two levels of hair colour and two levels of hair length. Results showed a number of interactions between the three variables, suggesting that these phenotypes are highly intercorrelated. However, there were also significant main effects of each of the variables, with hair colour generally explaining the greatest amount of variance. In general, light-toned figures were rated the most positively. Contrary to expectations, however, brunettes were rated more positively than blondes, and hair length had only a weak effect on ratings of attractiveness. Implications of these findings and the limitations of the use of line drawings are discussed in conclusion.

Link

mtDNA from Grave Circle B in Mycenae

A new preprint on mitochondrial DNA from Grave Circle B in Mycenae. Unfortunately, the authors report that they could not get any autosomal or Y chromosome DNA, however they did manage to obtain four mtDNA sequences (out of 22 individuals) which appear to be authentic, and which belonged to haplogroups UK ("heart-shaped face" individuals Γ55 and Γ58, possibly brother and sister), U5a1 or U5a1a ("long-faced" individual Ζ59) and the Cambridge Reference Sequence ("heart-shaped face" individual Α62), which is "compatible in the region sequenced
with various haplogroups including H, HV1, J, U, U3 and U4 (but not UK, U5a1 or U5a1a)." The pictures of the individuals are from Making faces : using forensic and archaeological evidence, by John Prag and Richard Neave, College Station : Texas A & M University Press, 1997 (ISBN 0890967849), first row: Γ55, Γ58, second row: Ζ59, Α62.

UPDATE: Certainly, the brother-sister inference is plausible, but strangely there was an observed case of a married couple from Sicily which also happened to be both in haplogroup U5a1a. Perhaps we'll never know.

UPDATE 2: I think this woman will be pleasantly surprised.

UPDATE 3: A nice podcast with Keri Brown, where she talks a lot about ancient DNA and its challenges (not about the Mycenaean work though). Also, a previous publication by the same group on the challenges of authentication of ancient DNA.

In the current paper they were able to distinguish some of the contaminant DNA of the lead author who handled the work because it had one of her unusual mutations, and conclude that while it is possible that the discovered sequences may be contaminants, it is more likely that they are not. It would certainly make a good detective story to try to find out the mtDNA sequence of the late J. Lawrence Angel who handled the remains extensively, or any other individuals associated with them.

UPDATE 4 (From the supplementary material). This confirms that by UK the authors mean the haplogroup more commonly known as K:

Γ55: "Positions 16224 and 16311 characterise haplogroup UK. Position 16093 is not characteristic of any haplogroup so may be either an artefact or a private mutation."
Γ58: "The endogenous DNA that is not AB therefore belongs to a haplogroup that differs from the CRS at 16224. The only possibilities are Z, which should also display mutations within MtC at 16185, 16223 and 16260, and UK. We therefore conclude that Γ58 contains endogenous DNA of haplogroup UK."
Z59: "MtF sequences were also obtained from the second Ζ59 extraction, and all six of these
differ from the CRS at 16256, 16266 and 16270 (highlighted in red in sequences 2f77, 2f78, 2f79,
2f80, 2f81, 2f82). Position 16266 is associated with haplogroup Y, and positions 16256 and 16270
with U5a1 and U5a1a. ... On balance, we conclude that Ζ59 contains endogenous DNA of
one of either haplogroup U5a1 or U5a1a, although Y remains a possibility."
A62: "The single MtC sequence that could be obtained (2c49) lacked the mutation at 16172 suggesting that this bone was not contaminated with AB DNA. Elsewhere the sequences conformed with the CRS, consistent in the region sequenced with various haplogroups (e.g. H, HV1, J, U, U3 and U4). None of the positions within this region diagnostic of UK (16224, 16311), U5a1 (16192, 16256, 16270), U5a1a (16256, 16270) or Y (16231, 16266) were mutated: hence there is no evidence for the presence of endogenous DNA of these haplogroups."

Journal of Archaeological Science doi:10.1016/j.jas.2008.04.010

Kinship between burials from Grave Circle B at Mycenae revealed by ancient DNA typing

Abigail S. Bouwmana, Keri A. Browna, N. W. Prag A.Johnb and Terence A. Brown

The richness of the burials in Grave Circle B at Mycenae, Greece, indicate that the 35 people interred there held elite status during their lifetimes 3500 years ago. It has been speculated that the groups of burials represent different dynasties or branches of the same family. To test this hypothesis, we carried out an exhaustive ancient DNA (aDNA) study of 22 of the skeletons. We
were unable to identify nuclear aDNA in any specimen, but we obtained authentic mitochondrial aDNA sequences for four individuals. The results were compared with facial reconstructions and interpreted within the archaeological context represented by the organisation of the graves and the positions of the burials within the graves. We conclude that the contemporaneous male Γ55 and female Γ58 skeletons, which both possess the UK mitochondrial haplogroup, were brother and sister. The implication is that Γ58 was buried in Grave Circle B not because of a marital connection but because she held a position of authority by right of birth. The results illustrate the difficulty in using aDNA to study kinship relationships between archaeological specimens, but also show that aDNA can advance understanding of kinship when used to test hypotheses constructed from other evidence.

Link

SNP tests from ancient Egyin Gol Mongolians

From the doctoral thesis of Elizabet Petkovski, "Polymorphismes ponctuels de séquence
et identification génétique", She is referring to Keyser-Tarcqui et al. (2003).

mtDNA from Neolithic Androrra

The freely available paper is in French, but the tables of mtDNA frequencies in various populations don't really need translation.

Determination genétique de l’individu Néolithique de Segudet (Ordino), les restes humains les plus anciens d’Andorre

Díaz N. et al.

Human remains analyzed in this study come from a prehistoric burial from Segudet, Ordino, Andorra. The skeleton was diagnosed as a female of between 30-35 years of age at death. C14 analysis results in 5350±40 BP; this date and the funerary furnishings found in the burial set it in the ancient Neolithic Age, specifically in the Epicardial period. These are the most ancient human remains found in Andorra. Genetic determination was performed by mitochondrial haplogroup analysis and sequencing the control region. Both analysis enable us to classify this individual within the European haplogroup K. Although population interpretation cannot be carried out, it is interesting to notice the antiquity of this haplogroup in Europe and the strategic location of the country of Andorra as a pass to enter the Iberian Peninsula.

Link (pdf)

Littoral distribution of "Neolithic" haplogroups in the Finistére

From P268 / 476. ANALYSE DE POLYMORPHISMES DU CHROMOSOME
Y DANS LA POPULATION FINISTÉRIENNE K. Rouault, C. Férec (large pdf):

Résultats : En Europe Occidentale, l’haplogroupe majoritaire est l’haplogroupe R1, défini par le marqueur M173. L’analyse de ce polymorphisme sur la cohorte permet de constater que l’haplogroupe R1 est représenté à 87,93 % dans la population finistérienne. Les marqueurs SRY10831.2 et P25 permettent d’affiner l’arborescence de cet haplogroupe et révèlent une prépondérance de l’haplogroupe R1b dans notre cohorte (82,18 %). Au total, notre étude de génétique des populations est basée sur l’analyse de 19 marqueurs Y-SNPs. Ainsi, l’haplogroupe I, défini par le marqueur M170 et observé majoritairement dans les pays de l’Est de l’Europe, en particulier les pays scandinaves, est représenté à 6,03 % dans la population finistérienne. L’haplogroupe E3b, caractéristique des populations d’Afrique et d’Asie Mineure, est retrouvé à 1,15 % dans notre cohorte. Les haplogroupes G et J, représentatifs des populations du Moyen Orient, sont observés respectivement à des fréquences de 1,15 % et 3,16 % au sein du département du Finistère. Il est intéressant de noter que les haplogroupes caractéristiques des populations d’Asie Mineure sont exclusivement retrouvés sur le pourtour littoral du département. Cette observation suggère que les ports bretons ont contribué à l’hétérogénéité génétique du Finistère en favorisant les mouvements migratoires en Bretagne. Conclusion : Une étude des marqueurs Y-STRs (Short Tandem Repeat) sur notre cohorte a permis d’extraire un haplotype majoritaire retrouvé en Irlande et au sein de populations méditerranéennes (Espagne, Italie, Portugal). L’analyse des marqueurs Y-SNPs a permis de confirmer la prédominance de l’haplogroupe R1b, majoritaire en Europe Occidentale. La présence des haplogroupes I, J et G dans la population finistérienne est le témoin de migrations de populations du berceau indoeuropéen vers l’Europe Occidentale. Les évènements migratoires, mis en évidence par l’analyse du chromosome Y, sont en corrélation avec le contexte historique de la Bretagne.

Hair color measurement and variation

From the paper:

Although hair color can be perceived as a continuum (as seen in Fig. 1), it can be divided into categories or clusters based on spectrophotometric measurements in the CIE L*a*b* color space and these clusters can be well discriminated from each other. The discrepancies between self-reported hair color and observer-reported hair color and the poor separation of observer-reported color groups compared to those defined by clustering analysis emphasize the importance for objective measurement of individuals to be included in research studies. For repeatability and validity
of studies, phenotypes must be defined as well as possible and the objective measurement methods and analysis strategies presented here may be of assistance

American Journal of Physical Anthropology

Hair color measurement and variation

Michelle Vaughn et al.

Abstract

Pigmentation of hair in humans has been investigated by medical scientists, anthropologists and, more recently, by forensic scientists. In every investigation, hair color must first be defined by the researchers. Subjective color assessment inhibits the reproducibility of experiments and the direct comparison of results. The aim of this study was to objectively measure human hair color and examine the variation found in a population with European ancestry, using the CIE L*a*b* color space. Observer-perceived hair colors were compared with self-reported hair colors and the color as measured by reflective spectrophotometry of 132 subjects of European ancestry. The presented data show that self-reported hair colors and observer-reported colors are similar; however, these categories are not necessarily the best way to categorize hair color for quantitative research. Using a two-step cluster analysis, hair color can be divided into categories or clusters based on spectrophotometric measurements in the CIE L*a*b* color space and these clusters can be well discriminated from each other. This separation is primarily based on the b* (yellow) color component and the clusters show agreement to observer-reported colors. This study illustrates the possibilities for and necessity of objectively defining the hair color phenotype for various downstream applications.

Link

mtDNA of Arctic Siberians

The American Journal of Human Genetics, doi:10.1016/j.ajhg.2008.03.019

Mitochondrial Genome Diversity in Arctic Siberians, with Particular Reference to the EvolutionaryHistory of Beringia and Pleistocenic Peopling of the Americas

Natalia V. Volodko1,Elena B. Starikovskaya1,Ilya O. Mazunin1,Nikolai P. Eltsov1,Polina V. Naidenko1,Douglas C. Wallace2andRem I. Sukernik1,

Abstract

Through extended survey of mitochondrial DNA (mtDNA) diversity in the Nganasan, Yukaghir, Chuvantsi, Chukchi, Siberian Eskimos, and Commander Aleuts, we filled important gaps in previously unidentified internal sequence variation within haplogroups A, C, and D, three of five (AD and X) canonical mtDNA lineages that defined Pleistocenic extension from the Old to the New World. Overall, 515 mtDNA samples were analyzed via high-resolution SNP analysis and then complete sequencing of the 84 mtDNAs. A comparison of the data thus obtained with published complete sequences has resulted in the most parsimonious phylogenetic structure of mtDNA evolution in Siberia-Beringia. Our data suggest that although the latest inhabitants of Beringia are well genetically reflected in the Chukchi-, Eskimo-Aleut-, and Na-Dene-speaking Indians, the direct ancestors of the Paleosiberian-speaking Yukaghir are primarily drawn from the southern belt of Siberia when environmental conditions changed, permitting recolonization the high arctic since early Postglacial. This study further confirms that (1) Alaska seems to be the ancestral homeland of haplogroup A2 originating in situ approximately 16.0 thousand years ago (kya), (2) an additional founding lineage for Native American D, termed here D10, arose approximately 17.0 kya in what is now the Russian Far East and eventually spread northward along the North Pacific Rim. The maintenance of two refugial sources, in the Altai-Sayan and mid-lower Amur, during the last glacial maximum appears to be at odds with the interpretation of limited founding mtDNA lineages populating the Americas as a single migration.

Link

Selfishness as second-order altruism

Science Daily explains it all quite well.

Proc. Natl. Acad. Sci. USA, 10.1073/pnas.0712173105

Selfishness as second-order altruism

Omar Tonsi Eldakar, and David Sloan Wilson

Abstract

Selfishness is seldom considered a group-beneficial strategy. In the typical evolutionary formulation, altruism benefits the group, selfishness undermines altruism, and the purpose of the model is to identify mechanisms, such as kinship or reciprocity, that enable altruism to evolve. Recent models have explored punishment as an important mechanism favoring the evolution of altruism, but punishment can be costly to the punisher, making it a form of second-order altruism. This model identifies a strategy called "selfish punisher" that involves behaving selfishly in first-order interactions and altruistically in second-order interactions by punishing other selfish individuals. Selfish punishers cause selfishness to be a self-limiting strategy, enabling altruists to coexist in a stable equilibrium. This polymorphism can be regarded as a division of labor, or mutualism, in which the benefits obtained by first-order selfishness help to "pay" for second-order altruism.

Link

Cruciani et al. (2008) on Y chromosome haplogroup E3b phylogeny

Am J Hum Biol. 2008 Apr 30 [Epub ahead of print]

Recurrent mutation in SNPs within Y chromosome E3b (E-M215) haplogroup: A rebuttal.

Cruciani F, Trombetta B, Novelletto A, Scozzari R.

In a previous issue of AJHB, Fernandes et al. (2008. Am J Hum Biol 20:185-190.) describe instances of identity by state at multiple short tandem repeat loci between human Y chromosomes belonging to different E-M35 sub-haplogroups. They interpret these findings as evidence for multiple mutational events in at least two loci (M78 and M81). Here, we introduce a novel polymorphic marker (V68), potentially useful to investigate the issue. This marker and sequence data, reported here for the first time, reinforce our previous interpretations on the phylogenetic structure of the E3b haplogroup. We discuss these results in the frame of general approaches to attain robust phylogenetic inferences based on biallelic polymorphism data.

Link

Behar et al. (2008) on mtDNA of Jewish diaspora

After the recent paper by Behar et al. on the 100,000 year-long mitochondrial split between the Khoi-San and everyone else, a new study in PLoS One on Jewish mtDNA. The same author had addressed the problem of Ashkenazi Jewish mtDNA in 2006.

PLoS ONE. 2008 Apr 30;3(4):e2062.

Counting the founders: the matrilineal genetic ancestry of the jewish diaspora.

Behar DM, Metspalu E, Kivisild T, Rosset S, Tzur S, Hadid Y, Yudkovsky G, Rosengarten D, Pereira L, Amorim A, Kutuev I, Gurwitz D, Bonne-Tamir B, Villems R, Skorecki K.

The history of the Jewish Diaspora dates back to the Assyrian and Babylonian conquests in the Levant, followed by complex demographic and migratory trajectories over the ensuing millennia which pose a serious challenge to unraveling population genetic patterns. Here we ask whether phylogenetic analysis, based on highly resolved mitochondrial DNA (mtDNA) phylogenies can discern among maternal ancestries of the Diaspora. Accordingly, 1,142 samples from 14 different non-Ashkenazi Jewish communities were analyzed. A list of complete mtDNA sequences was established for all variants present at high frequency in the communities studied, along with high-resolution genotyping of all samples. Unlike the previously reported pattern observed among Ashkenazi Jews, the numerically major portion of the non-Ashkenazi Jews, currently estimated at 5 million people and comprised of the Moroccan, Iraqi, Iranian and Iberian Exile Jewish communities showed no evidence for a narrow founder effect, which did however characterize the smaller and more remote Belmonte, Indian and the two Caucasus communities. The Indian and Ethiopian Jewish sample sets suggested local female introgression, while mtDNAs in all other communities studied belong to a well-characterized West Eurasian pool of maternal lineages. Absence of sub-Saharan African mtDNA lineages among the North African Jewish communities suggests negligible or low level of admixture with females of the host populations among whom the African haplogroup (Hg) L0-L3 sub-clades variants are common. In contrast, the North African and Iberian Exile Jewish communities show influence of putative Iberian admixture as documented by mtDNA Hg HV0 variants. These findings highlight striking differences in the demographic history of the widespread Jewish Diaspora.

Link

The DNA Fund

Via the Genetic Genealogist, a link to the new DNA Fund:

Mission

The mission of The DNA Fund is to advance public knowledge through the funding of human genetics testing and research. The DNA Fund will achieve this by providing funding for ancestral DNA studies that will directly benefit the public by:

* Providing DNA testing grants
* Coordinating DNA testing scholarships by private donors
* Obtaining grant funding for designated ancestral DNA studies

Proposed genetics studies for which funding is needed:

* Eastern/Balkans/Middle East R1b 67-100 STR marker haplotypes of a small sample of the rarer clades via upgrades and also fully SNP tested.
* Mitochondrial DNA analysis of Punjabi population of Pakistan.
* Hungarian-Bukovina Y-chromosome testing.
* Investigating the Phylogeny of mtDNA Haplogroup T based on Full mtDNA Sequences
* SNP research of internal branching within Haplogroup F, along branches leading to [IJ] and G

It looks like an "open-source" grass roots Genographic-like project, which has the potential for solving a lot of interesting problems. For example, with respect to the last bullet, haplogroup F according to the latest tree has 8 different branches; one of them, IJ united two previously separate branches, but that may not be the whole story. In 2000, Semino et al. suggested (pdf):

Haplotypes Eu9, Eu10, and Eu11share the 49a,f haplotype 8 or its derivatives, which are not observed in any of the other 16 Eu haplotypes (19), suggesting a shared common ancestry.

So, perhaps G and IJ remain to be united by a yet-undiscovered internal node of the phylogeny. Finding internal nodes is not really interesting for genealogy, but is important for prehistory, since they help us fine-tune ancient population movements.

Not included in the list, but a problem that really needs to be addressed is the phylogenetic structure within haplogroup R1a1. As Derenko et al. noted in 2005:

Yet, our data on Y-chromosome STRs variation (Table 4, Fig. 4) demonstrate the clear differences between South Siberian and Eastern European (Russian) R1a1-lineages, which can be best explained by apparently ancient than very recent events in South Siberian population history.

Similarly, Sengupta et al. noted:

A PC plot of R1a1-M17 Y-microsatellite data (Figure 4) shows several interesting features: (a) one tight population cluster comprising S. Pakistan, Turkey, Greece, Oman and West Europe, (b) one loose cluster comprising all the Indian tribal and caste populations, with the tribal populations occupying an edge of this cluster, and (c) Central Asia and Turkey occupy intermediate positions. The upper and lower bounds of the divergence time between the two clusters is 12 kya and 8 kya, respectively.

There are many such loose ends in Population Genetics, and hopefully the DNA Fund will do its part to tie some of them.

Ancient Y chromosome studies

(Last Updated August 4, 2009)

I was looking at my ancient DNA archives, and, while still not as common as mtDNA, there have been quite a few archaeogenetic studies involving human Y chromosomes.

Prehistoric Alaskan [Q3]
Prehistoric South Siberians from Krasnoyarsk and here [10 R1a1, 1 C(xC3)]
Ancient Chinese from the Yangtze River [14 O1, 3 O2a, 7 O3*, 5 O3d, 1 O3e, 18 undetermined]
Bronze Age Lichtenstein Cave in Germany [estimated presence I1b2*, R1a1, R1b1c]
Ancient Mongolian [presence of Tat-C in Yakut and Xiongnu]
Ancient Egyin Gol Mongolians and here and here [Y-STR in Table 2 of second study; N3, Q, C]
Aboriginals from Canary Islands [E-M78, E-M81, J-M267, E-M33, I-M170, K-M9, P-M45, R-M269]
Late Antique Basques [4 I, 2 R1b3d, 19 R1(xR1a1), 2 R-M173]
Medieval Hungarians [Two Tat-C out of four]
Eneolithic Corded Ware Germans [3 related R1a]
Medieval Germans from Ergolding, Bavaria [4 R1b (two siblings), 2 G2a]