The K12 Ancient Admixture Calculator

By Dilawer Khan, and available on GenePlaza.

My K12 results and populations

ANCIENT FARMERS 58.9%

West European Farmers (4000-5000 years)  25.2%  References include Neolithic genomes from Portugal, and Chalcolithic genomes from Spain. The similarity between these farmers and other Mediterranean farmers points to a rapid spread of agriculture in Europe around 7000 years ago.

East European Farmers (5000-8000 years)  22.9%  References consist of genomes from Turkey, Greece, and other parts of SE Europe from the Neolithic period. These represent descendants of the first farmers to colonize Europe from the Near East.

Neolithic-Chalcolithic Iran-CHG (5000-12000 years)  6.7%  Based on Neolithic and chalcolithic period samples recovered from Northwest Iran. The farmers from the Zagros mountain Iran region descended from one of multiple, genetically differentiated hunter-gatherer populations in southwestern Asia.  They are estimated to have separated from Early Neolithic farmers in Anatolia some 46,000 to 77,000 years ago, and show affinities to modern-day Kurd, Iranian, Pakistani and Afghan populations.  The Neolithic Iranian references used for this component, were recovered from the Kurdistan region of Iran, and appear to be around 9000 years old. The Chalcolithic Iranian references have been dated to around 5000 years old. The Caucasus Hunter Gatherers (CHG) appear to have genetically contributed to present day Europeans, W Asians, and S Asians.

Levant (4000-8000 years)  4.1%  Based on neolithic and bronze-age period samples recovered from the Levant area in the Middle-East. The references for the bronze age Levant farmer (BA) samples were recovered from the Ain Ghazal, Jordan area and were dated to about 4300 years ago.  The first farmers of the southern Levant (Israel and Jordan) and Zagros Mountains (Iran) were strongly genetically differentiated, and each descended from local hunter-gatherers. By the time of the Bronze Age, these two populations and Anatolian-related farmers had mixed with each other and with the hunter- gatherers of Europe to drastically reduce genetic differentiation. The impact of the Near Eastern farmers extended beyond the Near East: farmers related to those of Anatolia spread westward into Europe; farmers related to those of the Levant spread southward into East Africa; farmers related to those from Iran spread northward into the Eurasian steppe; and people related to both the early farmers of Iran and to the pastoralists of he Eurasian steppe spread eastward into South Asia.

STEPPE CULTURES 30.8%

Andronovo-Srubnaya (3000-4000 years)  14.3%  The Andronovo culture, which are believed to have aided in the spread of Indo_European languages, is a collection of similar local Bronze Age cultures that flourished around 3000-4000 years ago in western Siberia and the west Asiatic steppe. This culture overlapped with the Srubna culture in the Volga-Ural region of Russia.

Yamnaya-Afanasievo-Poltavka (4000-5000 years)  10.1%  Believed to be among the first Indo-European language speakers. The Yamnaya genetically appear to be a fusion between the Eastern European Hunter Gatherers that inhabited the western Siberian steppe, and a populations from the Caucasus region. Descendants of the Yamnaya would later change the genetic substructure of indigenous Neolithic Europeans via invasions of Europe from the Eurasian steppe.

Karasuk-E Scythian (2000-3000 years)  6.4%  This cluster is based on ancient genomes from the Karasuk culture, supplemented with two Iron-Age Eastern Scythian samples. The Karasuk percentage should be interpreted as a diffusion of DNA from the Eastern Eurasian Steppe populations post Bronze Age, via Turkic expansions, as well as more subtle diffusions via NE Caucasus populations.

WESTERN EUROPEAN & SCANDINAVIAN HUNTER GATHERERS (4000-5000 years)  8.8%

These were the indiginous populations of Europe that substantially contributed to the genetics of modern Europeans. It is believed that these hunter gatherers arrived in Europe around 45000 years ago from the Near East.

EASTERN NON AFRICANS (modern)  1.5%

Eastern Non Africans are one of the earliest splits from humans that migrated out of Africa to the Near East around 100,000 years ago. It is believed that ENAs split from the population in the Near East around 50,000 years ago. Populations such as Papuans and Aboriginal Australians are modern descendants of ENAs. The ENA component here is based on Papuan and Aboriginal Australian references.

AFRICAN - 0%
SOUTH EAST EURASIAN - 0%


K7 Basal-rich comparison charts

Davidski published a spreadsheet of his K7 Basal-rich ancient admixture calculator results.  I've harvested some of those test results to compare to my own.

Sorted to three admixtures.

1. Villabruna (component of Western Hunter-Gatherer) sorted:

2. Basal-rich (component of Early Neolithic Farmer) sorted:

3. Ancient North Eurasian (component of Copper Age Steppe) sorted:

Discussion.

1. Villabruna.

I was surprised just how much Villabruna I had in my results, but clearly, this component is found not only in Villabruna, but also in Iceman / Sardinia (Neolithic Farmer) at 53-55%, and in Steppe Yamna (Bronze Age Steppe) at 34%.  Therefore I have inherited substantial Villabruna not perhaps directly, but from early admixtures via Neolithic and Bronze Age settlement of Western Europe.

On Villabruna sorted, my closest neighbours are indeed other British - English, Scottish, and also Dutch and Anglo-Saxon ancient.  I'm correctly positioned.

2. Basal-rich.

This one is an enigma, but it repeats in other calculators.  I receive more Southern European / Neolithic than do most British or indeed North West Europeans. I do have one Swiss 3 x great grandparent, but otherwise, all of my recorded genealogy is South East English.  I have more Basal-rich than do other "British" results in the spreadsheet.  Why is that?  Could have the randomness of genetic recombination given me just a little more of that Swiss line than I should normally expect, or do I have another ancestor from the South within the past several generations, that I'm not yet aware of?  Living DNA suggests Tuscan in their test.

My neighbours in Basal-rich are East French, Dutch, and Swiss.

3. Ancient north Eurasian.

This trades with my Basal-rich results.  I usually have less Steppe than I would normally expect as a Brit or as a North West European.  More Neolithic, less Bronze Age Steppe.  It does suggest some unknown Southern European ancestry.

My ANE neighbours are East French, Swiss, and North Italian.  One ancient British result not too far away is Romano-British 6DT18.  He was a young male (aged 16 to 18 years at death), in a multiple grave with three other men, at Driffield Terrace, York.  He carried Y haplogroup R1b1a2a1a.

In summary, for a Brit, even for an Englishman, I have just about expected percentages of Villabruna and Western Hunter-Gatherer ancestry.  However, something is atypical in the other two founder mixes.  I look more like French or Swiss, with more Basal-rich (Neolithic) and less ANE (Steppe) than the average British or even English.

 

mt DNA Haplogroup H6a1 Resource Page

Above image by Marta D. Costa, Joana B. Pereira, Maria Pala, Verónica Fernandes, Anna Olivieri, Alessandro Achilli, Ugo A. Perego, Sergei Rychkov, Oksana Naumova, Jiři Hatina, Scott R. Woodward, Ken Khong Eng, Vincent Macaulay, Martin Carr, Pedro Soares, Luísa Pereira & Martin B. Richards [CC BY 3.0], via Wikimedia Commons

I'm gathering here, data on H6a1a, in preparation for my expected FT-DNA mtFull Sequence test results later this month.  23andMe has previously tested me to H6a1.  The James Lick and Wegene analysis services both predict me to be H6a1a8. What will FT-DNA say?

A collection of ancient references for mitochondrial DNA haplogroup H6 so far (2017-01-02) harvested from Ancestral Journeys

Palaeolithic Western Eurasian aDNA

No mtDNA H6 so far found.  Mainly U

Mesolithic Western Eurasian aDNA

No mtDNA H6 so far found.  Mainly U.  Other H found in Russia, Georgia, and Sweden.

Near Eastern Neolithic aDNA

No mtDNA H6 so far found.  Some H.

European Neolithic aDNA

No mtDNA H6 so far found.  Many other H.

Copper and Bronze Age aDNA

  • H6.  Israel Wadi el Makkukh. 4240-4065 BC
  • H6a1b.  Yamnaya.  Russia Kutuluk River, Samara. 3300-2700 BC
  • H6a2.  Potavka.  Russia Kutuluk River, Samara.2867-2484 BC
  • H6a1a.  Corded Ware.  Germany.  Esperstedt.  2465-2395 BC
  • H6a1b.  Okunevo.  Russia.  Verkhni Askiz.  2201-2036 BC
  • H6a1b3.  Unetice.  Germany.  Leau.  2200-1550 BC
  • H6a1a.  Srubnaya.  Russia.  Spiridonovka, Samara River.  1913-1629 BC

Iron Age aDNA

No mtDNA H6 yet found.  Many other H.

Ancient Roman aDNA

  • H6a1a.  Romano-British.  England.  York.  100-400 AD
  • H6a1b2. Romano-British.  England.  York. 100-400 AD.

Medieval and later European and Western Asian aDNA

  • H6a1b1.  Lombard.  Italy.  600-800 AD
  • H6.  Viking.  Oppland, Norway.
  • H6a1a.  Magyar.  Karos-Eperjesszög, Hungary. 800-850 AD
  • H6a1b. Magyar.  Karos-Eperjesszög, Hungary. 900-950 AD
  • H6a1a.  Medieval English.  East Smithfield, London, England.  1347–1351 AD.

Discussion

Above image by User:Dbachmann [GFDL or CC-BY-SA-3.0], via Wikimedia Commons

Although this is based on limited samples (albeit rapidly growing samples over the past year), there is of mt haplogroup H spread across Western Eurasia, certainly by the Mesolithic period.  Today, it is the most common haplogroup in Europe, found in 41% of Europeans.

H6 however, is less certain.  It has been suggested that it is more frequent in Eastern Europe, and the Caucasus.  The above ancient DNA references, collected so far, might suggest that H6a1 arrived into Europe with the Yamnaya expansion off of the Eurasian Steppes, carried by Steppe pastoralists migrating westwards, during the Copper Age / Early Bronze Age.  H6a1a itself, first appears in the Corded Ware Culture, which has recently been recognised as a fusion culture, that developed in Eastern / Central Europe, as a result of the arrival of the Steppe pastoralists.

The samples above suggest that H6a1a was present in Britain previous to the Anglo-Saxon period, and was also present in Medieval London.

H6a1a Today

Harvested from the FT-DNA MT-DNA H6 Haplogroup Project (2017-01-02).  These samples are most likely affected by a bias in sampling, to people of European heritage.

H6a1a - T11253C.  Britain, Ireland, Netherlands, Central Europe, Italy, Iberia, Balkans.  A cluster in SW Britain probably caused by sampling bias.

  • H6a1a* - G16526A.  Czech Rep.  Poland.
  • H6a1a* - T3548C.  Sweden, and Sicily.
  • H6a1a2a - C41T, G16482A.  Lithuania
  • H6a1a2a* - A297G, A14970G.  England
  • H6a1a3 - T5785C.  England (Norfolk), Germany, Poland, and Ukraine.
  • H6a1a3* - T7094C.  Finland.
  • H6a1a3a - A827G.  Scotland
  • H6a1a4 - T10237C.  Norway, Poland, England, and Ukraine.
  • H6a1a5 - C10936T.  Very Eastern Europe - Russia, Belarus, Ukraine, Moldovia, and Romania.
  • H6a1a5* - T5302C.  Russia.
  • H6a1a6 - A288G.  Poland.
  • H6a1a8a - T6185C, G16145A.  Wales.

Haplogroup.org.

The Haplogroup.org website proposes the following dates:

H6a1

Age: 8,669.7 ± 1,905.2; CI=95% (Behar et al., 2012b)

Origin: Undetermined
Mutations: A4727G

H6a1a

Age: 7,139.5 ± 1,993.2; CI=95% (Behar et al., 2012b)
Origin: Undetermined
Mutations: T11253C

H6a1a8

Age: 2,023.7 ± 1,898.9; CI=95% (Behar et al., 2012b)
Origin: Undetermined
Mutations: T16298C

Facebook Group



2017-01-04 UPDATE


I received my FT-DNA mtDNA Full Sequence test results.

Confirmed H6a1a8.


Matches mainly North America and Australasia without many Old World provenances.  However, I'm getting the distinct impression that it's been in the British Isles for some time.  I'm starting to research, but I'm seeing England, Ireland, Wales, maybe Finland.

Using the above Behar et al dating of H6a1a8, I age this haplotype to between 1970 BC and 1825 AD.  It's not old, although most likely late prehistoric.  It must have formed after Corded Ware, Unetice, etc.  Might date towards the end of the Bell Beaker Culture at a stretch, but most likely later - Iron Age perhaps?

My main interest is origins, with genealogy only as a bonus. I'm interested in knowing where H6a1a8 originates! H6a1 has been found in Yamna context. H6a1 and H6a1a have been found in Corded Ware context. No earlier H6a1 found in European atDNA. So it appears likely, that H6a1/a was an mt DNA type that followed the many Y-DNA types of the Copper Age Steppe migration across Europe - despite the usual dominance of Steppe Y haplogroups in Western Europe that indicate a male sex bias. 

Behar et al., 2012b, dates H6a1 to 8,669.7 ± 1,905.2; CI=95%, H6a1a to 7,139.5 ± 1,993.2; CI=95%, and H6a1a8 to 2,023.7 ± 1,898.9; CI=95% So I see H6a1a8 as pretty young, most likely Bronze Age or Iron Age. I'm curious as to when it distributed through Europe, and when it likely entered the British Isles. My mt-line has been in Norfolk, England for at least 290 years, when my earliest mt ancestor, Susannah Briting was born. She married my ancestor at Bunwell, Norfolk in 1747. I'd say that the probability is that it had been here in East Anglia long before that paper trail. So when did it likely move here?

23andMe had previously tested me to H6a1. Both the James Lick mthap analyser, and WeGene, looking at the 23andMe raw data, took that to H6a1a8. They were correct:

The FT-DNA mtFull Sequence confirmed my mt haplogroup to be H6a1a8.

My HRV1 mutations are: A16129G, T16187C, C16189T, T16223C, G16230A, T16278C, T16298C, C16311T, T16362C, A16482G, C16519T
My HRV2 mutations are: G73A, C146T, C152T, C195T, T239C, A247G, 522.1A, 522.2C, 309.1C, 309.2C, 315.1C
Extra mutations are: 309.1C309.2C315.1C522.1A522.2CC16519T

HRV1 matches are:

England 3
Hungary 1
Ireland 4
UK 1
USA 1

HRV1 + 2 matches are:

England 2
Hungary 1
Ireland 3

I have a "HRV1, HRV2, and Coding Region" exact match: Ireland 2

On Matches I get four GD0, but all appear USA/Aus, etc. I have emailed them. Three replied. No paper or geographical correlations. They can't follow their mt lines previous to emigration. They could come from anywhere in Europe, although English surnames keep dominating on their maternal sides.

On Matches map, a little more hope:



I've joined the H6 project, but being a development of the pretty massive mt hg H Project, it is drowned in submissions, with a long waiting queue of "ungrouped". The only other H6a1a8 on the results is USA. There is a H6a1a8a ungrouped as private located as "Finland", and another H6a1a8a located to Wales.

Other Links


H6a1a/H6a1b linked to reduced risk of Alzheimer's Disease