Global Contour Map for the Dual ADMIXTURE Components.

Below is a contour map representing the African ADMIXTURE component at K=2 for the Global data set (V2) which  can be downloaded here, and population specific percentages that can be seen here. 

Contour map generated using Mapviewer7, Kriging method was used for gridding. ADMIXTURE outputs for all New World, Jewish, Singapore-Chinese and Singapore-Indian populations were removed before the generation of the map.

African cline from ADMIXTURE, K=2 . Black dots represent locations of sampled populations

 Some things to note,

• Since this is a K2 run, the OOA or the 'other' component has a complete mirror distribution relative to the distribution of the African component seen in the above.
• The regions where the brown color dominates (20-35% African ) are the same regions that are later on absorbed by the new component that arises @ K=3, which finds its peaks in West Eurasians and has an F_ST that is intermediate between those of the African and East Asian/Amerindian components.
• It is notable to observe the congruence of the above with the distribution of global genetic as well as phenotypic diversity (below)1

Global phenotypic and genetic Diversity 

1.The effect of ancient population bottlenecks on human phenotypic variation

African Sahel YDNA

Multiple and differentiated contributions to the male gene pool of pastoral and farmer populations of the African Sahel

ABSTRACT

The African Sahel is conducive to studies of divergence/admixture genetic events as a result of its population history being so closely related with past climatic changes. Today, it is a place of the co-existence of two differing food-producing subsistence systems, i.e., that of sedentary farmers and nomadic pastoralists, whose populations have likely been formed from several dispersed indigenous hunter-gatherer groups. Using new methodology, we show here that the male gene pool of the extant populations of the African Sahel harbors signatures of multiple and differentiated contributions from different genetic sources. We also show that even if the Fulani pastoralists and their neighboring farmers share high frequencies of four Y chromosome subhaplogroups of E, they have drawn on molecularly differentiated subgroups at different times. These findings, based on combinations of SNP and STR polymorphisms, add to our previous knowledge and highlight the role of differences in the demographic history and displacements of the Sahelian populations as a major factor in the segregation of the Y chromosome lineages in Africa. Interestingly, within the Fulani pastoralist population as a whole, a differentiation of the groups from Niger is characterized by their high presence of R1b-M343 and E1b1b1-M35. Moreover, the R1b-M343 is represented in our dataset exclusively in the Fulani group and our analyses infer a north-to-south African migration route during a recent past.

Closed Access

Y(x CF)  Phylogeny, Red = SNPs Tested, Blue =Presumed Tested 

CF Phylogeny, Red = SNPs Tested, Blue =Presumed Tested

Geno 2.0 YDNA SNP Pathways.

The Geno 2.0 chip tests some 13,000 SNPs on the Y-Chromosome, by far the largest from all commercial DNA companies, in addition, a lot of these SNPs do not have a place assigned in the YDNA phylogeny, no official phylogeny has been published yet either.

However, the customers of this project get the option to transfer the SNPs to FTDNA and thereby join the numerous grouped projects under the FTDNA umbrella, which then displays the results of which SNPs they tested positive for.

Although we don't know where most of these SNPs belong on the YDNA tree, we do know where some of them belong, and by utilizing the most rudimentary operations of set mathematics (union, intersection and set difference), in addition to the positions of the known SNPs in the current YDNA phylogeny tree (ISOGG 2013) it is possible to segregate these SNPs that appear on the project pages into phylogenetic pathways.

This posting will change frequently as more and more kits appear in the FTDNA project pages.

The first thing to realize is that the following list of 101 SNPs are either erroneous or erroneously reported and need to be discarded if they appear on any of the results until FTDNA , NATGEO or whoever else is responsible fixes them,

CTS1034+ CTS10436+ CTS10713+ CTS10738+ CTS11085+ CTS11454+ CTS11844+ CTS12173+ CTS2080+ CTS2223+ CTS230+ CTS2447+ CTS295+ CTS3234+ CTS335+ CTS3647+ CTS3763+ CTS3914+ CTS4276+ CTS4623+ CTS4714+ CTS477+ CTS5458+ CTS5580+ CTS6010+ CTS6353+ CTS6384+ CTS6891+ CTS7453+ CTS7492+ CTS7859+ CTS7951+ CTS8133+ CTS8178+ CTS8244+ CTS9096+ CTS947+ CTS9512+ CTS9548+ F1173+ F1221+ F1300+ F1327+ F1369+ F1707+ F1754+ F1831+ F1833+ F1842+ F1870+ F1882+ F2000+ F2137+ F2150+ F2177+ F2223+ F2494+ F2503+ F2546+ F2631+ F2845+ F2887+ F2932+ F3035+ F3039+ F317+ F3187+ F3225+ F3394+ F3397+ F3455+ F375+ F3948+ F3965+ F4131+ F4277+ F830+ F842+ F869+ F889+ F910+ F942+ F943+ F969+ L366+ L477+ L493+ L515+ L516+ L517+ L552+ L594+ M263+ PF4208+ PF4330+ PF5061+ PF6868+ PF7392+ Z148+ Z191+ Z365+  

Notes : Unions will be listed without symbol, ex Set ABC = Set ( (A ∪ B) ∪ C)
            Known SNP identification is all based on ISOGG 2013 only.

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Pathway from root to CT-M168 (=Set # A)

Set1 : Kit #B1137, E-M191+

Set2 : Kit # N94262, R-M343+

Binary Operation: Set1 ∩ Set2

Number of SNPs: 77

CTS10362+ CTS109+ CTS11358+ CTS11575+ CTS125+ CTS1996+ CTS3331+ CTS3431+ CTS3662+ CTS4364+ CTS4368+ CTS4740+ CTS5318+ CTS5457+ CTS5532+ CTS6383+ CTS6800+ CTS6907+ CTS7922+ CTS7933+ CTS8243+ CTS8980+ CTS9828+ L566+ L781+ M139+ M168+ M294+ M42+ M94+ PF1016+ PF1029+ PF1031+ PF1040+ PF1046+ PF1061+ PF1092+ PF1097+ PF110+ PF1203+ PF1269+ PF1276+ PF15+ PF192+ PF210+ PF212+ PF223+ PF234+ PF258+ PF263+ PF272+ PF278+ PF292+ PF316+ PF325+ PF342+ PF500+ PF601+ PF667+ PF719+ PF720+ PF725+ PF779+ PF796+ PF803+ PF815+ PF821+ PF840+ PF844+ PF892+ PF937+ PF951+ PF954+ PF970+ V189+ V52+ V9+

Identified as same level as BT

Identified as same level as CT-M168
Identified as same level as P <---- Looks unreliable and maybe a false positive report.