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Thread: DISCUSSION THREAD FOR "Genetic Genealogy and Ancient DNA in the News"

  1. #1451
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    Quote Originally Posted by rozenfeld View Post
    Not an ancient DNA, but may be of interest for you: http://www.pnas.org/content/early/2018/05/15/1721372115 ...[cut]...
    Hopefully some researcher will explore DNA testing of the remains at some point (and the sooner, the better). I would personally be very interested in the Y-DNA results, to see if U106 (and hopefully which subclades of U106) is found.
    Gedmatch DNA: M032736 Gedcom: 6613110.
    Gedmatch Genesis: WH4547538
    co-administrator: Y-DNA R-U106 Haplogroup Project

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  3. #1452
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    England Scotland Germany Palatinate France-Ile-de-France
    Iceland's founding fathers underwent a rapid, 1000-year genetic shift
    http://www.sciencemag.org/news/2018/...dgenomes-19689
    architectural historian/material culture historian
    specialty: East/West interaction 17th to 19th centuries

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  5. #1453
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    Quote Originally Posted by rozenfeld View Post
    https://www.nature.com/articles/s41598-018-27325-0

    Article | Open | Published: 12 June 2018

    Investigating Holocene human population history in North Asia using ancient mitogenomes

    Gülşah Merve Kılınç, Natalija Kashuba, Reyhan Yaka, Arev Pelin Sümer, Eren Yüncü, Dmitrij Shergin, Grigorij Leonidovich Ivanov, Dmitrii Kichigin, Kjunnej Pestereva, Denis Volkov, Pavel Mandryka, Artur Kharinskii, Alexey Tishkin, Evgenij Ineshin, Evgeniy Kovychev, Aleksandr Stepanov, Aanatolij Alekseev, Svetlana Aleksandrovna Fedoseeva, Mehmet Somel, Mattias Jakobsson, Maja Krzewińska, Jan Storå & Anders Götherström

    Abstract

    Archaeogenomic studies have largely elucidated human population history in West Eurasia during the Stone Age. However, despite being a broad geographical region of significant cultural and linguistic diversity, little is known about the population history in North Asia. We present complete mitochondrial genome sequences together with stable isotope data for 41 serially sampled ancient individuals from North Asia, dated between c.13,790 BP and c.1,380 BP extending from the Palaeolithic to the Iron Age. Analyses of mitochondrial DNA sequences and haplogroup data of these individuals revealed the highest genetic affinity to present-day North Asian populations of the same geographical region suggesting a possible long-term maternal genetic continuity in the region. We observed a decrease in genetic diversity over time and a reduction of maternal effective population size (Ne) approximately seven thousand years before present. Coalescent simulations were consistent with genetic continuity between present day individuals and individuals dating to 7,000 BP, 4,800 BP or 3,000 BP. Meanwhile, genetic differences observed between 7,000 BP and 3,000 BP as well as between 4,800 BP and 3,000 BP were inconsistent with genetic drift alone, suggesting gene flow into the region from distant gene pools or structure within the population. These results indicate that despite some level of continuity between ancient groups and present-day populations, the region exhibits a complex demographic history during the Holocene.

    The 14.865 to 14.590 (cal.) BC sample Yak25 was mtDNA R1. Considering the R3 in AG3 and the fact that R1 is found in India in some UP Brahmins, in some NW Caucasian people and some Russians and Poles, this is interesting. The sample could possibly be ANE. That would extend ANE to beyond lake Baikal. Khaiyrgas Cave at the Lena rive.

    EDIT: O yeah. I missed Kurds. The list is admittedly from Wikipedia
    Last edited by epoch; 06-14-2018 at 02:21 PM.

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  7. #1454
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    R1b1a1a2a2c1a1a1

    Also Yamna
    RISE786 (YamnayaKaragash_EMBA), Yamnaya, 3018-2887 BC
    mtDNA: R1a1a
    Y-DNA: R-CTS1843 (R1b1a2a2c1)

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    Hopefully Yak25 gets some autosomal testing later down the line. It looks like they had great mt-dna coverage (at least compared to other samples), so hopefully there's a good amount of autosomal to work with.
    So far we have mt-R1 is AfontovaGora3, KO1, and bunch of samples from the recent Caucasus paper.
    PM me for d-stats. If I have the samples I will run them. Also, here is a collection of 14,000. Part 1: Hidden Content Part 2: Hidden Content Part 3: Hidden Content Looking for: Tianyuan and Sunghirs in plink/eigenstrat, 1240k snp panel

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  11. #1456
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    In the amidst Kurds and Pakistanis are gentlemen R1b-CTs8722.
    Their ancestor is RISE786 (YamnayaKaragash_EMBA)
    Last edited by Mis; 06-14-2018 at 07:02 PM.

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    Anyone heard of any new ancient DNA papers about Europe, Near East or Central Asia that may be coming out soon?

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  15. #1458
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    Qiaomei Fu is testing animal remains from Southern China for DNA: https://news.nationalgeographic.com/...ology-science/

    I guess that's preliminary study before studying human remains from the same region.

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  17. #1459
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    New paper from Max Planck Institute, this time it's ancient syphilis: https://www.eurekalert.org/pub_relea...-fas061818.php

    First ancient syphilis genomes decoded

    Researchers recovered three genomes of the bacterium Treponema pallidum from skeletal remains from colonial-era Mexico, and were able to distinguish the subspecies that causes syphilis from the subspecies that causes yaws

    Max Planck Institute for the Science of Human History

    http://journals.plos.org/plosntds/ar...l.pntd.0006447

    Historic Treponema pallidum genomes from Colonial Mexico retrieved from archaeological remains

    Verena J. Schuenemann , Aditya Kumar Lankapalli , Rodrigo Barquera , Elizabeth A. Nelson, Diana Iraíz Hernández, Víctor Acuña Alonzo, Kirsten I. Bos, Lourdes Márquez Morfín , Alexander Herbig , Johannes Krause

    Published: June 21, 2018
    https://doi.org/10.1371/journal.pntd.0006447

    Abstract

    Treponema pallidum infections occur worldwide causing, among other diseases, syphilis and yaws. In particular sexually transmitted syphilis is regarded as a re-emerging infectious disease with millions of new infections annually. Here we present three historic T. pallidum genomes (two from T. pallidum ssp. pallidum and one from T. pallidum ssp. pertenue) that have been reconstructed from skeletons recovered from the Convent of Santa Isabel in Mexico City, operational between the 17th and 19th century. Our analyses indicate that different T. pallidum subspecies caused similar diagnostic presentations that are normally associated with syphilis in infants, and potential evidence of a congenital infection of T. pallidum ssp. pertenue, the causative agent of yaws. This first reconstruction of T. pallidum genomes from archaeological material opens the possibility of studying its evolutionary history at a resolution previously assumed to be out of reach.

    Author summary

    Among the worldwide prevalent treponemal diseases syphilis is a global threat that is currently re-emerging. The origins of syphilis and other treponemal diseases are as yet unresolved and are subject to an intensive scholarly debate. Until now, assumptions on its origins and evolutionary history could only be drawn from osteological analyses of past cases and genetic analysis of contemporary T. pallidum genomes; contributions from ancient DNA are very rare and have so far failed to provide genome-level data. The ancient T. pallidum genomes presented here allow us, for the first time, to perform genome-wide comparative analyses and to assess a connection between osteological manifestations of past treponemal cases and specific T. pallidum species. Our study demonstrates the possibility of retrieving ancient T. pallidum genomes from archeological material and thereby establishes a new method that could greatly contribute to uncover the mystery regarding the origins of treponemal diseases.

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  19. #1460
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    So, the titles of presentations for 24th Annual Meeting of the European Association of Archaeologists are now available online: https://www.e-a-a.org/EAA2018/Progra...rganizerCommon

    Unfortunately it's only titles, I couldn't find abstracts. Some of the titles are interesting:

    A spectre is haunting Europe… The impact of Archaeogenetics as seen from Iberia
    Dying in the Neolithic: an isotopic and palaeogenetic analysis of a Late Neolithic mass grave from Barcelona
    Using haplotypes to extract additional ancestral information out of ancient DNA resources
    Kinship relationships and genomic origins of the peoples buried in an early medieval cemetery in central Europe
    Keeping it Local: A case study in regionalised approaches to palaeogenomics using prehistoric populations from the Burren, Co. Clare
    Dutch population history from a genetic perspective
    UNTANGLING FUNERARY PALIMSEPTS: THE RADIOCARBON CHRONOLOGY OF THE MEGALITHIC PHENOMENON IN SOUTHEASTERN IBERIA
    Life and Death on the Way of Stars: Osteological, isotopes and aDNA analyses on the medieval Camino de Santiago
    The complex approaches of artefact-archaeogenetics
    Ancient DNA elucidates sex-biased cultural practices through differences in population sizes and ancestries
    DNA from the Wine Dark Sea: Searching for Ancient DNA on Mediterranean Shipwrecks
    Ancient DNA, RNA, and proteins… oh my! An overview of state-of-the-art analyses of archaeological biomolecules
    Plague and pestilence in medieval Denmark: genome sequencing of historical Yersinia pestis
    What happened to my aDNA?
    Preliminary results of a mtDNA study on human remains from Çine-Tepecik, Southwest Anatolia
    IsAAC Project. ADN et Isotopes: Proposing new methods for the identification of medieval Jewish cemeteries
    The spread of the Neolithic in Europe: simulations versus archaeological and genetic data
    The first inhabitants of southern Norway and the transition to agrarian society
    Who are you? Evidences of phylogenetic signal in the Neolithic impresso-cardial complex
    Unpacking domestication in the Near East using ancient domestic animal genomes
    Tracing identities at the Iberian Early Neolithic: a funerary and molecular approach
    Palaeogenomic Investigation of 50,000 years of the Human Oral Microbiome in the Iberian Mediterranean
    Biological affinity and social identity: Ancient DNA analysis of Anglo-Saxons at Barrington A (Edix Hill), Cambridgeshire.
    Chronology, demography and immigration in Ireland during the last 1200 years: insight from population genetics and ‘big data’ archaeology
    Ancient DNA sheds light into the kinship structure of early 2nd millennium BC Trzciniec Circle groups from East-Central Europe
    Investigating the evolution of lactase persistence in Europe
    The Archaeology of Mobile Pastoralism in the Eastern Steppe: the state of the art in 2018
    The study of the formation of the social structure of ancient Russian cities based on archaeological, anthropological and genetic data
    Transects in time: A multidisciplinary approach to investigate Neolithic megalithic tombs through genomics, isotopes, and radiocarbon dating
    Genetic structure and affinities of people buried in Megalithic Burials at the Fringes of of Europe

    Already published:

    Between Central and Southern Europe: an archaeogenetic investigation of the French Neolithic necropolis of Gurgy (Paris Basin, 5000-4000 BC)
    Terminal Pleistocene Alaskan genome reveals first founding population of Native Americans
    Mitogenomic data of medieval individuals “dumped” in a common burial pit from Southeastern Romania
    A palaeogenomic study investigating Early Medieval migration in southern Germany and the peculiar phenomenon of artificial skull deformation
    A high-resolution time transect through the Lech Valley, Bavaria: populations – families – individuals
    Southern African ancient genomes – sampling, DNA preservation and pushing back modern human population divergence time


    Probably already published:

    The genetic history of El Argar and contemporaneous groups of the southern Iberian Peninsula
    Novel statistical tools bring to light complex interactions during prehistoric demographic turnovers: The case of Lepenski Vir.


    Preprint available:

    Genome-Wide Ancient DNA Exposes the Turning Points of the Finnish Population History


    Not DNA:
    Life in the margins: A bioarchaeological approach to studying human adaptation strategies in the prehistoric Central Tian Shan
    The Golden Burial Masks from Central Asia – Migration of Ideas or Evolution of Local Traditions?
    The subsistence economy of the Eneolithic Dereivka culture of the Ukrainian North-Pontic region through lipid residues analysis of pottery vessels
    Investigating the nature and timing of the earliest human occupation of North America using a lipid biomarker approach
    The Early Neolithic of the Upper Don
    New Aspects of Neolithization in the Steppe Zone of Inner Eurasia
    The Role of Environment in the Socio-Cultural Changes along the Historical Silk Road in Central Asia
    Understanding Ancient Mongolian Dairying through Shotgun Proteomics of Dental Calculus

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