Prepublication of Y phylogenies by G. Magoon and al-2013


Posts: 143
Joined: Sun Mar 18, 2012 6:26 pm
Location: Paris region
YDNA:
G2a2b2a1b1a2a-CT4803
MtDNA:
H2a2a1 (rCRS)
PostPosted: Mon Dec 23, 2013 9:47 am
In the newsletter of the haplogroup G, Ray Banks said "In our prepublication paper involving 1000 Genomes Project samples and a few other samples, "
http://biorxiv.org/content/biorxiv/earl ... 2.full.pdf

The figure 1 is a cladogram overview of the automatic-constructed demonstration tree based on 1292-sample dataset.

In this overview, 3 branches start at the root of the tree : A0a, A0b and A1-T , then A1a and A1b-T, then A1b and BT branches off from A1b-T

There is a paragraph for haplogroup A :

"The tree reflects the new recognition of multiple branches from the root which share the traditional designation of A, though they do not constitute a monophyletic clade. Although the very earliest branch, A00 , is not represented in the dataset considered here, members of A0a1 and A0b are fortunately included, and one of these was selected as outgroup sample for construction of the tree.

The Gambian A0a1 sample was found to be ancestral for all the previously known SNPs defining A0a1a and A0a1b. Because it is a singleton, a new clade cannot yet be clearly defined, but this westernmost known representative of A0a1, with its many new SNPs, is indicative of a new branch to be discovered as additional samples come to light.

The lone A0b sample is from Barbados; no African sample belonging to this extremely rare clade has yet been located, as it was first identified from a Barbadian participant in Thomas Krahn’s “Walk Through the Y” sequencing project in 2012. These two A0b samples seem to share virtually the same SNPs, and are likely related.

In A1a, a clade which has in the past been lacking in internal structure, we have identified a new subclade identified by 128 new SNPs (Z11345-Z11472). Samples HG02666 and HG02645 belong to this new branch. All three A1a samples are from the Gambia
"

It is to compare to the ISOGG tree http://www.isogg.org/tree/ISOGG_HapgrpA.html

Y Root (Y-Adam)
• A00
• A0-T
• • A0
• • • A0* -
• • • A0a
• • • • A0a* -
• • • • A0a1
• • • • • A0a1* -
• • • • • A0a1a
• • • • • A0a1b
• • • • A0a2
• • • A0b
• • A1
• • • A1* -
• • • A1a
• • • A1b
• • • • A1b* -
• • • • A1b1
• • • • • A1b1a
..............................................................................................
• • • • • A1b1b
..............................................................................................
• • • • BT

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