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Monday, June 19, 2017

Polish aDNA PCA


Below is a Principal Component Analysis (PCA) that I put together for an upcoming presentation on Polish ancient DNA (aDNA). The five RISE samples are from Allentoft et al. 2015, including RISE569, the early Slavic genome from the Czech Republic, which was initially wrongly labeled as a Czech Bell Beaker (see here). PL_N17 is an Early Bronze Age (EBA) sample from Gustorzyn, Northern Poland (see here).


I also organized f3 outgroup statistics of the form f3(European_pop,Test,Yoruba) for each of these samples to compare their genetic affinities to present-day European populations. Although f3 outgroup statistics aren't as sensitive as haplotype tests, I think these results look interesting and useful, with both PL_N17 and RISE569 seemingly showing strong links to modern-day West Slavs. The full output is available in a zip file here.

Poland_EBA PL_N17
Lithuanian 0.175778
Ukrainian_West 0.174866
Sorb 0.174334
Estonian 0.174313
Icelandic 0.17397
Irish 0.173863
Polish_West 0.173743
Polish_East 0.173549
Czech 0.173545
Norwegian 0.173533

Early Slav RISE569
Sorb 0.169171
Lithuanian 0.168945
Estonian 0.168819
Polish_West 0.168267
Polish_East 0.168143
Irish 0.168092
Czech 0.167941
Norwegian 0.167787
Icelandic 0.167696
Finnish 0.167685

See also...

Testing for genetic continuity in Poland from the Bronze Age to the present

17 comments:

Twasztar said...

Why do we have so little crucial ancient DNA from Poland? Where does that strange reluctance to research Polish territory further come from?

Lukasz M said...

Davidski, if I read it well? RISE569 is near modern German sample (blue triangle). It means this particular German is Slavic shifted, or RISE569 is "Slavo-German", or both is true?

Davidski said...

Those Germans on the eastern edge of the German cluster have Slavic ancestry. But RISE569 is probably also mixed.

Samuel Andrews said...

Btw, the mtDNA H28, H1b1, and H1b2 find in Globular Amphora directly link them to modern Eastern Europeans. It's definitely a EEF/WHG ancestor.

Antoni Małkowski said...

Można Pana prosić o włączenie do wykresu I2787 BB_Central_Europe Węgry R1b1a1a2a2

Davidski said...

Nie mam jeszcze dostepu do probek z Olalde et al. 2017.

mickeydodds1 said...

David, what exactly is the genetic relation between these ancient Polish samples and the modern Irish?
Are Irish origins ultimately in central Europe?

Davidski said...

Eastern and Central Europe.

And the relationship between these Polish samples and modern Irish is very close.

Szkx said...

Eurogenes K13 PCA with 30 Czechs and Moravians + some Slovaks, Slovak Hungarians and RISE569 + 577.
http://jpeg.cz/images/2017/06/28/UMDOd.png
Thanks for this great calculator.

Arza said...

Lukasz M on Anthrosomething said...
Niemcza_18 gedmatch: M279138

Using 3 populations approximation:
1 50% Orcadian +25% Orcadian +25% Tubalar @ 24.852737

Probably they were German


Population,X,X,Orcadian,Tubalar,D statistic
Tatar_Kryashen,0,0,72,28,0.0052
Tatar_Lipka,0,0,55,45,0.0107
Tatar_Mishar,0,0,72,28,0.0067

Arza said...

Lukasz M on Anthrosomething said...
Kowalewko_45
File 125 mb. But rather biased...

Guys, we have Spaniard here With Slavic admix...

nMonte restricted
Spain_La-Rioja 64.50
Lithuanian 35.45
Bosnian 0.05
PL_Sudovia 0.00


This sample will plot like Polish/Icelandic shifted towards Hungary_BA.

mkot said...

Hello,

I am Polish and I just have got results from 23andme and various from GedMatch. I was looking for a contact to you but can't find any information on the blog.

Which tool is the best to receive the most detailed ethnicity results, especially ones with countries? 23andme generally showed my background us Eastern European (52%), Balkan, Scandinavian.

Thank you,

Antoni Małkowski said...

Jeżeli Pan prof. Przemysław Urbańczyk twierdz że stosy pogrzebowe płonęły na terenie Polski jeszcze w trzynastym wieku, to mamy problem. Znalezienie szkieletu z "słowiańską haplogrupą" będzie graniczyć z cudem.

Antoni Małkowski said...

Z ciekawości spojrzałem w jaki sposób chowali swych bliskich Celtowie.
Okazuje się że większość plemion Celtyckich preferowała stosy pogrzebowe.
Tu też powinien wystąpić kłopot z DNA.

Anuj Agarwal said...

Hi Polishgenes Team,

My name is Anuj Agarwal. I'm Founder of Feedspot.

I would like to personally congratulate you as your blog Polishgenes has been selected by our panelist as one of the Top 50 DNA Blogs on the web.

http://blog.feedspot.com/dna_blogs/

I personally give you a high-five and want to thank you for your contribution to this world. This is the most comprehensive list of Top 50 DNA Blogs on the internet and I’m honored to have you as part of this!

Also, you have the honor of displaying the badge on your blog.

Best,
Anuj

Robbie JK said...

Davidski, I guess Charlemagne had some point when he moved the Saxons out of East Central Germany and moved Slavs in.

Creative Proteomics said...

Creative Proteomics also offer professional PCA service. Besides, Protein labeling also is available for scientists to check and get!+