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Thread: Dodecad & Eurogenes admixture for Yamna genomes

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    3 out of 3 members found this post helpful.

    Post Dodecad & Eurogenes admixture for Yamna genomes

    I should have done this a long time ago, but never found the time among the many things on my to-do list.

    I ran a Yamna genome in the Dodecad and Eurogenes calculators just to see what would come out of it, and to help interpret the maps I created from the Dodecad calculators.

    Keep in mind that the component names for the Eurogenes K36 admixture are not accurate and do not represent the region of origin, nor even the region where it is the most common today. One of the reasons fro comparing ancient genomes is to try to determine what these components really mean. For more information check the analysis of the K36 components.


    Yamna genome (I0231 - R1b-Z2103, U4a1, c. 2900 BCE Russia)

    Eurogenes K36

    1.86% Amerindian
    0.00% Arabian
    0.00% Armenian
    0.00% Basque
    0.00% Central_African
    1.95% Central_Euro
    0.00% East_African
    0.00% East_Asian
    0.00% East_Balkan
    0.00% East_Central_Asian
    10.16% East_Central_Euro
    0.00% East_Med
    14.49% Eastern_Euro
    18.04% Fennoscandian
    0.00% French
    0.00% Iberian
    0.00% Indo-Chinese
    0.00% Italian
    0.00% Malayan
    0.00% Near_Eastern
    0.00% North_African
    7.50% North_Atlantic
    17.10% North_Caucasian
    12.90% North_Sea
    0.00% Northeast_African
    0.00% Oceanian
    0.00% Omotic
    0.00% Pygmy
    0.00% Siberian
    0.00% South_Asian
    12.49% South_Central_Asian
    0.00% South_Chinese
    3.51% Volga-Ural
    0.00% West_African
    0.00% West_Caucasian
    0.00% West_Med

    What's interesting here is that some European admixture scored 0% (French, Italian, Iberian, Basque, East_Balkans, West_Med, East_Med), which means that they probably represent the Neolithic and Mesolithic elements correlating with those regions.

    I think that the North_Atlantic corresponds to the Proto-Celtic admixture linked to R1b-L21 and R1b-DF27 in particular. North_Sea would be the Germanic R1b-U106, while Central_Euro and East_Central_Euro could be R1b-U152. The rest would be essentially R1a-derived. I am not about this and it doesn't necessarily correlate so neatly. Fennoscandian could be both R1a-Z282 and R1b-U106.


    Dodecad Dv3 (aka K12)

    23.63% East_European
    48.38% West_European
    0.22% Mediterranean
    0.09% Neo_African
    17.90% West_Asian
    8.19% South_Asian
    1.59% Northeast_Asian
    0.00% Southeast_Asian
    0.00% East_African
    0.00% Southwest_Asian
    0.00% Northwest_African
    0.00% Palaeo_African

    I had noticed that Indian and Siberian/Mongolian people all carried a mix of East_European, West_European and West_Asian with this calculator. Now we have a better idea of the proportions that came from Yamna. That also explains why so many Europeans scored a bit of South Asian. Clearly these admixtures do not segregate well the ancient components.


    Dodecad K12b

    27.21% Gedrosia
    1.78% Siberian
    0.00% Northwest_African
    0.00% Southeast_Asian
    3.51% Atlantic_Med
    62.56% North_European
    1.64% South_Asian
    0.00% East_African
    0.00% Southwest_Asian
    0.00% East_Asian
    3.15% Caucasus
    0.17% Sub_Saharan

    This calculator is already more accurate in tracing back Proto-Indo-European ancestry. As I expected when the calculator was released in 2012, Yamna R1b people were essentially a blend of North_European and Gedrosia. Once again that explains why within Europe Gedrosia peaks in Northwest Europe, and especially in Scotland. Haak et al. 2015 later confirmed that the highest Yamna ancestry today was found among the Scots and Norwegians.


    Eurogenes Steppe K10

    0.74% Near_Eastern
    0.00% East_Asian
    0.01% Siberian
    0.70% Oceanian
    14.00% WHG-UHG
    0.23% Sub-Saharan
    8.69% Hindu_Kush
    72.44% Steppe
    3.20% Amerindian
    0.00% Southeast_Asian

    This is the calculator that caused so much confusion because the Steppe apparently only took into account the European component of Yamna genomes. Now it's clear that Yamna were a blend of Steppe + Hindu Kush, but also of WHG-SHG. So the Steppe results alone are not even all the European ancestry, and surely include some 'Gedrosian' ancestry too, as the 8.7% of Hindu_Kush are just not enough.


    EDIT:

    Here is another Yamna genome for comparison.

    Yamna genome (RISE552, I2a2a, T2a1a, c. 2550 BCE Russia)

    Eurogenes K36

    0.19% Amerindian
    0.00% Arabian
    0.00% Armenian
    0.00% Basque
    0.00% Central_African
    0.07% Central_Euro
    0.00% East_African
    0.00% East_Asian
    0.00% East_Balkan
    0.00% East_Central_Asian
    9.40% East_Central_Euro
    0.00% East_Med
    15.32% Eastern_Euro
    11.18% Fennoscandian
    0.00% French
    0.00% Iberian
    0.00% Indo-Chinese
    0.00% Italian
    0.00% Malayan
    0.00% Near_Eastern
    0.00% North_African
    10.57% North_Atlantic
    24.14% North_Caucasian
    10.15% North_Sea
    0.00% Northeast_African
    0.00% Oceanian
    0.00% Omotic
    0.00% Pygmy
    0.00% Siberian
    0.00% South_Asian
    16.03% South_Central_Asian
    0.00% South_Chinese
    2.95% Volga-Ural
    0.00% West_African
    0.00% West_Caucasian
    0.00% West_Med

    This one has substantially more (+10%) North_Caucasian and South_Central_Asian.

    Dodecad dv3 (aka K12)

    20.54% East_European
    47.19% West_European
    0.00% Mediterranean
    0.52% Neo_African
    21.95% West_Asian
    8.54% South_Asian
    0.89% Northeast_Asian
    0.00% Southeast_Asian
    0.00% East_African
    0.00% Southwest_Asian
    0.08% Northwest_African
    0.29% Palaeo_African

    Nearly 1% of African admixture. Otherwise very similar. Just a bit less East_European and a bit more West_Asian.

    Dodecad K12b


    32.19% Gedrosia
    1.43% Siberian
    0.00% Northwest_African
    0.08% Southeast_Asian
    1.48% Atlantic_Med
    60.13% North_European
    0.22% South_Asian
    0.00% East_African
    0.00% Southwest_Asian
    0.00% East_Asian
    3.61% Caucasus
    0.86% Sub_Saharan


    The 5% more of Gedrosia reflect the 10% of North_Caucasian and South_Central_Asian in K36. Oddly this calculator is the only one to detect over 1% of Siberian admixture.


    And here is an Afanasevo sample contemporary to Yamna, but in the Altai region.

    Afanasevo genome (RISE507, U5a1a1, c. 3100 BCE, Altai)

    0.00% Amerindian
    0.00% Arabian
    0.00% Armenian
    0.00% Basque
    0.00% Central_African
    0.00% Central_Euro
    0.00% East_African
    0.00% East_Asian
    0.00% East_Balkan
    0.00% East_Central_Asian
    16.29% East_Central_Euro
    0.00% East_Med
    0.03% Eastern_Euro
    14.70% Fennoscandian
    2.50% French
    0.00% Iberian
    0.00% Indo-Chinese
    0.00% Italian
    0.00% Malayan
    0.00% Near_Eastern
    0.00% North_African
    16.47% North_Atlantic
    23.74% North_Caucasian
    26.10% North_Sea
    0.00% Northeast_African
    0.00% Oceanian
    0.00% Omotic
    0.00% Pygmy
    0.00% Siberian
    0.00% South_Asian
    0.00% South_Central_Asian
    0.00% South_Chinese
    0.00% Volga-Ural
    0.18% West_African
    0.00% West_Caucasian
    0.00% West_Med

    The admixture components are the same as in Yamna (without the foreign Amerindian and Volga-Ural) except for the Central_Euro and Eastern_Euro, but with a bit of "French".


    Dodecad dv3 (aka K12)

    13.14% East_European
    62.52% West_European
    0.03% Mediterranean
    0.15% Neo_African
    17.84% West_Asian
    5.06% South_Asian
    0.00% Northeast_Asian
    0.00% Southeast_Asian
    0.00% East_African
    0.00% Southwest_Asian
    1.25% Northwest_African
    0.00% Palaeo_African

    This Afanasevo sample has higher West_European and lower East_European than the two Yamna samples above. South Asian is slightly lower.

    Dodecad K12b


    26.84% Gedrosia
    0.00% Siberian
    2.24% Northwest_African
    0.00% Southeast_Asian
    9.77% Atlantic_Med
    61.12% North_European
    0.00% South_Asian
    0.00% East_African
    0.00% Southwest_Asian
    0.00% East_Asian
    0.03% Caucasus
    0.00% Sub_Saharan

    Afanasevo has more Atlantic_Med than Yamna, but no Caucasus. This suggests that Neolithic farmers from the Balkans moved into the Steppe first, and were only followed later by Caucasian farmers, as the Afanasevo branch had already migrated from the Pontic-Caspian region to the Altai by the Yamna period.

    African admixture is found in all three samples, but is highest in this one. Proto-Indo-European people could be the source of that "African" admixture (whatever it really is) in Scandinavian/Germanic people.
    Last edited by Maciamo; 13-11-16 at 06:56.
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    this K10 doesn't seem to useful indeed.

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    Quote Originally Posted by MOESAN View Post
    this K10 doesn't seem to useful indeed.
    Totally agree, if it's true that Davidski got his K10 samples from actual archeological remains then I'm curious to see how European HG and Oceanian admixtures got into the Proto Indoeuropean mix.

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