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Thread: 4500-year-old Ethiopian - Y-DNA E1b1, mtDNA L3, and considerable Eurasian admixture

  1. #131
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    Quote Originally Posted by Lank View Post
    It seems unlikely that Mota has notable Eurasian admixture, especially if South Sudanese do not. In the updated formal stats, Mota shows just 2% Eurasian relative to Yoruba. Admixture estimates for Africans (using formal stats) are nearly unchanged when using Mota instead of Yoruba.

    ADMIXTURE should not be used as evidence for Eurasian admixture, as opposed to African structure. Before we had South Sudanese samples, they used to show 10% Eurasian in ADMIXTURE (and then it was mainly W Eurasian, although D stats tell a different story). Of course, Mota is even more Eurasian-shifted than South Sudanese, let alone Yoruba. Non-negligible Eurasian admixture in Mota is not likely unless it is also found in South Sudanese, and if it is then it's not probable that it's from the Neolithic wave.
    Hey, do you have any idea what's causing the drop in LBK-like ancestry in East Africans? The Mota run isn't surprising IMHO, it's the Yoruba run that doesn't make much sense?

  2. #132
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    Quote Originally Posted by gihanga.rwanda View Post
    Hey, do you have any idea what's causing the drop in LBK-like ancestry in East Africans? The Mota run isn't surprising IMHO, it's the Yoruba run that doesn't make much sense?
    I'm no expert on the nature of the statistics, but Yoruba do have significant ancient East African ancestry. So they're not really an outgroup to ancestral East Africans. Furthermore, East Africans themselves had significant "divergent African" (not Y-DNA E or mtDNA L3) admixture, prior to Eurasian gene flow. Some of divergent mtDNA lineages shared with West Africans are dated to the Holocene.

    I think the large difference between using Druze or LBK estimates is surprising. Druze might have 3% SSA, or something like that, which should not result in the ~10% difference we're seeing.

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  4. #133
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    Quote Originally Posted by Lank View Post
    I think the large difference between using Druze or LBK estimates is surprising. Druze might have 3% SSA, or something like that, which should not result in the ~10% difference we're seeing.
    And again, we've seen stats where the likes of Anuaks or Yorubas have been used before with a population other than the Druze who don't really show any SSA element autosomally (like Sardinians) and these results are not what to expect. Also makes no sense given where Tigrinyas or Somalis cluster in a global PCA when compared to Yorubas (Tigrinyas would seriously cluster where the off-spring of a somewhat West Eurasian admixed Yoruba and a full-blown Sardinian would plot... Roughly anyway...), also makes no sense when compared to dozens of ADMIXTURE runs. Funky stuff is all I can say.

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  6. #134
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    Quote Originally Posted by gihanga.rwanda View Post
    Hey, do you have any idea what's causing the drop in LBK-like ancestry in East Africans? The Mota run isn't surprising IMHO, it's the Yoruba run that doesn't make much sense?
    The crux of the argument for a significant back migration event(s) into Africa post Mota was that Eurasian levels are much higher now in the Mota area than during Mota's time, thus indicating Mota types were replaced with groups (Somalis Ethiopians, etc) which are much more Eurasian admixed. This is shown in formal stats. The other claim made was that these back migrations also had a significant event on sub-saharans also, because even stats show them also more Eurasian shifted than Mota.

    All of this of course is based on a Mota genome that was flawed to begin with. Apparently, ~250K homozygous positions were not called in Mota's genome, which IMO would significantly affect the outcome of any analysis, since I expect a substantial portion of those positions to be homozygous for the minor allele (MAF=100%). The updated genome will most likely show Eurasian admixture in Mota, which of course will negated the argument for widespread sub-saharan influence of the back migrations, and also reduce the magnitude of the Eurasian geneflow due to back migrations post Mota on E Africans.

    As for the drop in LBK in E Africans, I believe that the back-migrants shared more drift with Anatolians (ENF) than with LBK, hence the decreased affinity of E Africans to LBK vs Anatolians. These stats illustrate this. You can clearly see that Somalis and Ethiopian Jews share far more drift with Anatolians than either LBK or Druze. If I have time later I will do a run comparing Druze to LBK, and also one using transversions only.

    L1 L2 R1 OUT D Z SNPs
    Anatolia_Neolithic Druze Ethiopian_Je Karitiana 0.0071 5.15 168435
    Anatolia_Neolithic Druze Somali Karitiana 0.006 4.406 168437
    Anatolia_Neolithic LBK_EN Ethiopian_Jew Karitiana 0.0048 2.839 168429
    Anatolia_Neolithic LBK_EN Somali Karitiana 0.0039 2.303 168431
    Anatolia_Neolithic LBK_EN Khomani Karitiana 0.0036 2.001 168428
    Anatolia_Neolithic LBK_EN Yoruba Karitiana 0.0034 1.95 168430
    Anatolia_Neolithic LBK_EN Masai_Kinyawa Karitiana 0.0032 1.892 168433
    Anatolia_Neolithic LBK_EN MbutiPygmy Karitiana 0.0027 1.385 168432
    Anatolia_Neolithic Druze Masai_Kinyaw Karitiana 0.0015 1.043 168439
    Anatolia_Neolithic Druze Khomani Karitiana 0.0011 0.783 168434

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  8. #135
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    manica admit
    about the mistake her team made the west euroasian genefloiw was limited to
    east africa not west central africa http://www.scientificamerican.com/ar...frican-genome/
    regards
    adam

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