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Thread: A Rare Deep-Rooting D0 African Y-Chromosomal Haplogroup and Its Implications

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    A Rare Deep-Rooting D0 African Y-Chromosomal Haplogroup and Its Implications

    A Rare Deep-Rooting D0 African Y-Chromosomal Haplogroup and Its Implications for the Expansion of Modern Humans out of Africa

    Abstract

    Present-day humans outside Africa descend mainly from a single expansion out ∼50,000-70,000 years ago, but many details of this expansion remain unclear, including the history of the male-specific Y chromosome at this time. Here, we re-investigate a rare deep-rooting African Y-chromosomal lineage by sequencing the whole genomes of three Nigerian men described in 2003 as carrying haplogroup DE* Y-chromosomes, and analyzing them in the context of a calibrated worldwide Y-chromosomal phylogeny. We confirm that these three chromosomes do represent a deep-rooting DE lineage, branching close to the DE bifurcation, but place them on the D branch as an outgroup to all other known D chromosomes, and designate the new lineage D0. We consider three models for the expansion of Y lineages out of Africa ∼50,000-100,000 years ago, incorporating migration back to Africa where necessary to explain present-day Y-lineage distributions. Considering both the Y-chromosomal phylogenetic structure incorporating the D0 lineage, and published evidence for modern humans outside Africa, the most favored model involves an origin of the DE lineage within Africa with D0 and E remaining there, and migration out of the three lineages (C, D and FT) that now form the vast majority of non-African Y chromosomes. The exit took place 50,300-81,000 years ago (latest date for FT lineage expansion outside Africa - earliest date for the D/D0 lineage split inside Africa), and most likely 50,300-59,400 years ago (considering Neanderthal admixture). This work resolves a long-running debate about Y-chromosomal out-of-Africa/back-to-Africa migrations, and provides insights into the out-of-Africa expansion more generally.
    https://www.genetics.org/content/ear...ics.119.302368

    I havenít had any time to read through the study but wanted to be the first one to post about it. Iosif Lazaridis has already tweeted about it.

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    D0 might as well be a back migration to Africa from Levant along with E. There's a real DE* from Syria among ftdna customers -- one that diverged before D and E split.

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    About bloody time!

    Quote Originally Posted by thejkhan View Post
    D0 might as well be a back migration to Africa from Levant along with E. There's a real DE* from Syria among ftdna customers -- one that diverged before D and E split.
    How do you know this? Has his Big Y been completed and the results made public?
    Last edited by Megalophias; 06-14-2019 at 10:09 PM. Reason: blurp

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    At a minimum, they have Y-111

    DE-M145

    https://www.familytreedna.com/public...ction=yresults

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    Quote Originally Posted by Megalophias View Post
    About bloody time!


    How do you know this? Has his Y-Full been completed and the results made public?
    He has been previously tested for 4 mutations only (Big-Y pending) -- M145+, M203+, M174-, M96-

    Being both M174- and M96-, he was assigned DE*.

    On a second thought, I shouldn't assume his line diverged before D, E split. It could be a pre-D or a pre-E, with certain clade defining mutations missing (-ve).

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    Quote Originally Posted by thejkhan View Post
    He has been previously tested for 4 mutations only (Big-Y pending) -- M145+, M203+, M174-, M96-

    Being both M174- and M96-, he was assigned DE*.

    On a second thought, I shouldn't assume his line diverged before D, E split. It could be a pre-D or a pre-E, with certain clade defining mutations missing (-ve).
    His whole sequence would need to be analyzed. Syrians and other groups in the Levant can have minor West/Central African ancestry due to the slave trade and other historic events.

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    Quote Originally Posted by thejkhan View Post
    On a second thought, I shouldn't assume his line diverged before D, E split. It could be a pre-D or a pre-E, with certain clade defining mutations missing (-ve).
    Yes, D0 is also M174-, so the Syrian guy could be D0 as well, or not. His Big Y is being processed now, I believe.

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    Netherlands
    We consider sharing of a single SNP as
    a recurrent mutation in different lineages and interpret
    the Nigerian chromosomes as lying on the D lineage,
    diverging from other D chromosomes at 71,400 years
    ago
    (Figure 1C), very soon after its divergence from E at
    73,200 years ago
    (...)
    The three D0 chromosomes are distinguishable from one
    another, and have a coalescence time of ~2,500 years
    (Figure 1C), consistent with their collection from
    different villages, languages, ethnic backgrounds, and
    paternal birthplaces (Weale et al. 2003).
    That's quite some time of wandering around..

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    Quote Originally Posted by Pylsteen View Post
    That's quite some time of wandering around..
    Exactly why I don't think this really tells us much about where DE or CT formed. Hopefully these guys or some other group tests those Tibetan DEs some time soon.

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    It will be funny if the few Chinese DE's turn out to be E0.

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