Ancient ancestry - K11 Ancients Common and rarer Alleles, and a fresh assessment

Emmanuel Benner - Prehistoric Man Hunting Bears

Above image by Emmanuel Benner the Younger [Public domain], via Wikimedia Commons

The new K11 Ancients Common and Rarer Alleles tests are being run by Dilawer Khan, creator of the Gedrosia stable of admixture calculators available on GEDMatch.com, and of the EurasianDNA.com website.  This new test uses a new set of principles, based on using ADMIXTURE to produce more reliable ancient results.  I commissioned him to run my own 23andMe file through the tests, to produce the following results and PCA's/

PCA for Common Alleles (my position "Norfolk"):

PCA for Rarer Alleles (my position "Norfolk"):

The K11 Ancients common Alleles results should reflect the older ancestry most accurately.  In summary, that gave me:

  1. 48.6% Neolithic Farmer
  2. 26.5% Copper Age Steppe Pastoralist
  3. 24.9% Western Hunter-Gatherer

Thank you Dilawer.

How have other tests seen similar admixture?

I previously commissioned David Wesolowski (Eurogenes stable on GEDMatch and of Eurogenes Blog) to run my raw file through his K7 Basal-rich test.  He produced the following results:

  1. 57.1% Villabruna-related
  2. 28.8% Basal-rich
  3. 14% Ancient North Eurasian.

These are two very different tests, of admixture between different sets of population, of different time periods.  What I do find interesting is the 14% percentage of ANE (Ancient north Eurasian) relates quite favourably to what I understand it's admixture percentage is to Yamna or Steppe pastoralist.  Dilawer gives me 26.5% Steppe.   I have previously heard that the Yamna were circa 50% ANE, and the remainder of mixture of other Western Eurasian Hunter-Gatherer groups, including Caucasus Hunter-Gatherers.

The K11 Ancients test does suggest that I have a surprisingly high amount of ancestry from the Neolithic Farmers, that were in Europe previous to the arrival of the Steppe migrants around 4,900 years ago.  This is actually consistent with my other Ancient admixture test results.  The K7 Basal-rich test for example, had given me 28.8% Basal.  The Basal Eurasians are a hypo-theoretical "ghost" population that was among the founding admixture of the Neolithic Farmers, in a similar way that the ANE were among the founding admixture of the Steppe Pastoralists.  Again then, the two tests do tally reasonably well in determining where my personal percentages of ancient DNA  originate.

Why do I have so high percentages of Neolithic Farmer and Basal Eurasian I do not know.  My DNA flavour is a slight extreme, and atypical even for an English person, and more so for a Briton.  My recorded genealogy is all SE English, mainly East Anglian.  I would love to see the results of other East Anglians, as I suspect to them, that I am not such an extreme.  However, even if this was the case, it doesn't explain why modern East Anglians would have lower Steppe, and more Neolithic than either West British, Scandinavians, or even ancient DNA from Anglo-Saxons.  Higher percentages of Neolithic ancestry today are usually found to the South, peaking in Sardinia, then Iberia.  A favoured explanation is that the SE English could have had a lot of input from the South, via the French during Norman and Medieval periods.  I'm not totally convinced - yet.

A third new ancient admixture test that I might use here in the MDLP Project Modern K11.  On GEDMatch Oracle, it proposes a number of genetic distances to ancient DNA samples:

1 British_Celtic @ 6.948432
2 Bell_Beaker_Germany @ 8.143357
3 Alberstedt_LN @ 8.426399
4 British_IronAge @ 9.027687
5 Halberstadt_LBA @ 10.273615
6 Bell_Beaker_Czech @ 12.190828
7 Hungary_BA @ 12.297826
8 Nordic_MN_B @ 12.959966
9 British_AngloSaxon @ 12.993559
10 Nordic_BA @ 13.170285

Using 4 populations approximation:
1 Bell_Beaker_Germany + Bell_Beaker_Germany + Corded_Ware_Germany + Hungary_CA @ 1.085814
2 BenzigerodeHeimburg_LN + BenzigerodeHeimburg_LN + Corded_Ware_Estonia + Hungary_CA @ 1.089547
3 Alberstedt_LN + Bell_Beaker_Germany + Corded_Ware_Germany + Hungary_CA @ 1.117882
4 Bell_Beaker_Germany + BenzigerodeHeimburg_LN + Hungary_CA + Srubnaya_LBA @ 1.149613
5 Bell_Beaker_Germany + British_IronAge + Hungary_CA + Karsdorf_LN @ 1.185312
6 Alberstedt_LN + BenzigerodeHeimburg_LN + Hungary_CA + Sintashta_MBA @ 1.226794
7 Nordic_BattleAxe + Hungary_BA + Hungary_CA + Karsdorf_LN @ 1.234930
8 Nordic_BattleAxe + BenzigerodeHeimburg_LN + Hungary_CA + Unetice_EBA @ 1.238376
9 Alberstedt_LN + Hungary_BA + Hungary_CA + Yamnaya_Samara_EBA @ 1.247371
10 Bell_Beaker_Germany + Hungary_CA + Nordic_LN + Srubnaya_LBA @ 1.268124

If I look at four population distances, then based on the samples available in the test, I'm looking pretty European Bell Beaker, with Corded Ware and Yamna appearing. My closest single population in the samples is a surprising British Celtic!  More samples from the European Neolithic might turn those results around.

Celebrating my Ice Age ancestors

Ice Age Genealogy

The MDLP K11 Modern and K13 Modern calculators were released on Gedmatch.com today.  I thought that I'd celebrate by taking the opportunity to post more on ancient origins, as suggested by personal DNA calculators.

The below calculators do sometimes conflict.  Perhaps they are a long, long way from perfect.  However, one issue is that they tend to be built to look at different populations, and a different times.  Nonetheless, I feel that they are starting to tell us something.

A major revelation to myself, is that go back, say towards the end of the last Ice Age, 13,000 years ago, and the ancestors of this present day Englishman were scattered in the most unexpected places, over a wide area.

My Y ancestor at the time was most likely an ibex hunter in the area of Iran and Iraq, possibly in the Zagros mountains.  My mitochondrial ancestor, was most likely a woman in a band of hunter-gatherers in Central or Western Asia.

most likely at that time, had mammoth hunting ancestors in Siberia (Ancient North Eurasian).  I had hunter-forager ancestors in the Middle East or Arabia (Basal Eurasian).  I may have had ancestors in the Caucasus themselves.  I may have even had some hunter-gatherer ancestors in Southern Europe.

My Ancient Ancestors 13,000 years ago, were most likely, scattered in small hunter-gatherer bands, from Southern Europe, across to Central Asia, and from Siberia, down to Arabia.  That's the Late Ice Age ancestry of this Englishman.  I'm a Eurasian.  The idea that my Upper Palaeolithic ancestors were cave men in the British Isles, or even in North-West Europe, is an illusion.

The other factor is that, perhaps in slightly different percentages - all Western Eurasians today share the very same Ice Age ancestors - English, Iranian, French, German, Pakistani, Spanish, Armenian, Russian, or Norwegian.  We are all pretty closely related cousins in one post Ice Age family, that has literally exploded with agriculture, then industrialisation.

Ancient Origins 

Neanderthal Ancestry

23andMe V4 chip

Neanderthal ancestry 2.9% DNA (82nd percentile)  23andMe average European tester is 2.7%

WeGene analysis of above 23andMe raw data

3.325% Neanderthal proportion of more than 81.94% of the users WeGene (Chinese based DNA service).

Upper Palaeolithic and Mesolithic Hunter-Gatherer ancestry

My Y line as we have seen, was most likely in the area of modern day Iran or Iraq, perhaps in the Euphrates and Tigris valleys, or perhaps in the Zagros Mountains, hunting animals such as the Ibex.  My mt-DNA line was most likely in a hunter-gatherer band somewhere in Asia.  Perhaps Central Asia.  What about my other Ice Age ancestors?

David Wesolowski's K7 Basal-rich test

Villabruna-related

The Villabruna cluster represents the DNA found in 13 individuals in Europe from after 14,000 years ago.  They were Late Ice Age hunter-gatherers.  They appear to have links with the Near East.  The current thought is that they replaced earlier groups of hunter-gatherers in Europe.  The DNA of people in the Middle East and Europe pulled together at this time, and they may represent an expansion from the South-East.  Much of the Aegean Sea would have been dry, with low sea levels (glaciation), so the migration may have been easy.  It is believed that they had dark skin, and blue eyes.  They were possibly, the last hunter-gatherers of Europe and the Middle East.  They may have contributed to our DNA both through or either, later Asian or European admixtures.

David gives the English average as 56.7%.  My result is 57.1%

Basal-rich

The Basal Eurasians are a hypothetical "ghost" population derived from DNA studies.  It is suggested that they splintered from other modern humans 45,000 years ago, presumably outside of Africa, somewhere around the Middle East.  They significantly contributed DNA to the Early Neolithic Farmers of the Fertile Crescent and Anatolia, and consequently, on to all of us modern West Eurasians.  

 David gives the English average as 26.5%.  My result is 28.8%

Ancient North Eurasian

Another Ice Age hunter-gatherer "Ghost" population, but this one has been associated with human remains and an Upper Palaeolithic culture (Mal'ta-Buret') at Lake Baikal, Siberia.  We know that it significantly contributes to modern West Eurasians, through earlier admixture on the Eurasian Steppes.  Copper Age pastoralists then carried it westwards into Europe with their later expansion.

David gives the English average as 16.6%.  My result is 14.0%

Neolithic and Bronze Age mix ancestry

My Y line at this time as we have seen, may well been Early Neolithic Farmers in the Fertile Crescent of Mesopotamia.  My mtDNA line would have most likely have been women of the Yamnaya culture on the Eurasian Steppes, in Copper Age pastoralist tribes.

Global 10 Test

The recent Global 10 test, run by my friend Helgenes50 of the Anthrogenica board, resulted in:

  • 55% Baalberge_MN (European Middle Neolithic)
  • 38% Yamna_Samara (Eurasian Steppe Pastoralist)
  • 7% Loschbour:Loschbour (Late Eurasian hunter-gatherer)

That is 55% European Neolithic Farmer, 38% Yamnaya Steppe Pastoralist, and 7% European hunter-gatherer.

Alternatively, the FT-DNA test, although many in the population genetics community feel that it is unreliable:

FT-DNA My Ancient Origins

  • 9% Metal Age Invader
  • 47% Farmer
  • 44% Hunter-Gatherer
  • 0% Non European

GEDMatch Ancient Calculators

My MDLP K16 Modern Admixture
  • 31% Neolithic (modeled on genomes of first neolithic farmers of Anatolia)
  • 25% Northeast European (ancestry in North-Eastern Europe based on older type of ancestry (WHG, west European Hunter-Gatherer)
  • 22% Steppe (sourced from ancient genome of European Bronze Age pastoralists)
  • 22% Caucasian (derived from genomes of mesolithic Caucasian Hunter-gatherers)

My Eurasia K9 ASI Oracle:

  • 39% Western Hunter-Gatherer
  • 27% Early Neolithic Farmer
  • 15% Eastern Hunter-Gatherer
  • 12% Caucasus Hunter-Gatherer
  • 7% SW Asian
  • 1% Siberian East Asian

My MDLP Modern K11 Oracle:

Admix Results (sorted):


# Population Percent
1 Neolithic 37.33
2 WHG 33.26
3 EHG 23.19
4 Iran-Mesolithic 3.25
5 Basal 2.66

Least-squares method.

Using 1 population approximation:
1 British_Celtic @ 6.948432
2 Bell_Beaker_Germany @ 8.143357
3 Alberstedt_LN @ 8.426399
4 British_IronAge @ 9.027687
5 Halberstadt_LBA @ 10.273615
6 Bell_Beaker_Czech @ 12.190828
7 Hungary_BA @ 12.297826
8 Nordic_MN_B @ 12.959966
9 British_AngloSaxon @ 12.993559
10 Nordic_BA @ 13.170285

Using 4 populations approximation:
1 Bell_Beaker_Germany + Bell_Beaker_Germany + Corded_Ware_Germany + Hungary_CA @ 1.085814
2 BenzigerodeHeimburg_LN + BenzigerodeHeimburg_LN + Corded_Ware_Estonia + Hungary_CA @ 1.089547
3 Alberstedt_LN + Bell_Beaker_Germany + Corded_Ware_Germany + Hungary_CA @ 1.117882
4 Bell_Beaker_Germany + BenzigerodeHeimburg_LN + Hungary_CA + Srubnaya_LBA @ 1.149613
5 Bell_Beaker_Germany + British_IronAge + Hungary_CA + Karsdorf_LN @ 1.185312
6 Alberstedt_LN + BenzigerodeHeimburg_LN + Hungary_CA + Sintashta_MBA @ 1.226794
7 Nordic_BattleAxe + Hungary_BA + Hungary_CA + Karsdorf_LN @ 1.234930
8 Nordic_BattleAxe + BenzigerodeHeimburg_LN + Hungary_CA + Unetice_EBA @ 1.238376
9 Alberstedt_LN + Hungary_BA + Hungary_CA + Yamnaya_Samara_EBA @ 1.247371
10 Bell_Beaker_Germany + Hungary_CA + Nordic_LN + Srubnaya_LBA @ 1.268124

My Gedrosia K15 Oracle:

  • 40% Western Hunter-Gatherer
  • 25% Early European Farmer
  • 21% Caucasus
  • 5% Burusho
  • 5% SW Asian
  • 3% Balochi
  • 1% Siberian

Ancient Eurasia K6 Oracle:

  • 40% West European Hunter-Gatherer
  • 39% Natufian
  • 21% Ancient North Eurasian
  • 1% East Asian