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Thread: Request: Y-DNA haplogroup results from Allentoft 2015

  1. #41
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    Quote Originally Posted by David Mc View Post
    Hi jdean. On page 42 of the Supplementary Information from Allentoft.
    Cheers David : )

  2. #42
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    You can find it here, if you don't already have it: http://www.nature.com/nature/journal...re14507-s1.pdf

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  4. #43
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    Quote Originally Posted by David Mc View Post
    You can find it here, if you don't already have it: http://www.nature.com/nature/journal...re14507-s1.pdf
    I had it but apparently the txt search didn't reach into PDF files : )

  5. #44
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    Quote Originally Posted by Chad Rohlfsen View Post
    That corded ware can be ancestral. We have L51 and P310 in Beakers.
    Are they P310* and L51*?

  6. #45
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    Still waiting on that. I wouldn't doubt it.

  7. #46
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    H4a1-T152C!

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    Quote Originally Posted by Krefter View Post
    I heard from Richard Rocca he's L23(xL11, Z2103), and L51 didn't get a call. Anyways he can't be ancestral to Bell Beaker P312 and U152, because he was xL11. There's no way L51 became U152 in 500 years or so, and all his L51* brothers died out. There's still L23(xL51) and L51(xL11) in Central-East Europe today. They're more likely to be descendants of this Corded Ware R1b.
    Since the Corded Ware samples are extremely low coverage, I started manually looking at haplogroup R equivalent SNPs that are not found on the ISOGG tree (see below) Unfortuntely, it has muddied the classification substantially. In fact, most of the samples look like they are R1a and the only one that may be R1b (RISE1) is one of the worse quality samples in the dataset. I'll keep looking at more SNPs and see what else turns up.

    R-M207 Equivalents:
    SAMEA3325374 RISE431 = 15594523 ALT->REF (A->G); # of mutations in tree = 2 (weighted = 70); ['F295', 'M685'] <<< POSITIVE
    SAMEA3325374 RISE431 = 17722802 ALT->REF (G->A); # of mutations in tree = 1 (weighted = 35); SITEOF(['CTS7876', 'PF6052']) <<< POSITIVE
    SAMEA3325375 RISE434 = 9889199 ALT->REF (G->A); # of mutations in tree = 1 (weighted = 35); ['M651'] <<< POSITIVE
    SAMEA3325375 RISE434 = 17334694 ALT->REF (G->T); # of mutations in tree = 1 (weighted = 35); ['M718'] <<< POSITIVE
    SAMEA3325375 RISE434 = 17722802 ALT->REF (G->A); # of mutations in tree = 1 (weighted = 35); SITEOF(['CTS7876', 'PF6052']) <<< POSITIVE

    R1b Equivalents:
    SAMEA3325334 RISE1 = 21558298 ALT->REF (G->T); # of mutations in tree = 1 (weighted = 35); ['L1345', 'PF6266', 'YSC0000224'] <<< POSITIVE
    SAMEA3325377 RISE436 = 23403749 ALT->REF (G->A); # of mutations in tree = 1 (weighted = 35); ['CTS11985', 'PF6523'] <<< NEGATIVE
    SAMEA3325377 RISE436 = 22722580 ALT->REF (T->C); # of mutations in tree = 1 (weighted = 35); ['L1349', 'PF6268', 'YSC0000231'] <<< POSITIVE
    SAMEA3325374 RISE431 = 22889018 ALT->REF (G->A); # of mutations in tree = 1 (weighted = 35); ['L754', 'PF6269', 'YSC0000022'] <<< POSITIVE
    SAMEA3325375 RISE434 = 17400785 ALT->REF (G->A); # of mutations in tree = 1 (weighted = 35); ['L388', 'PF6468'] <<< NEGATIVE
    SAMEA3325375 RISE434 = 7375015 ALT->REF (C->T); # of mutations in tree = 2 (weighted = 70); ['L774', 'PF6245', 'YSC0000277'] <<< NEGATIVE

    R-L23 Equivalents:
    SAMEA3325374 RISE431 = 14435818 REF->ALT (T->C); # of mutations in tree = 2 (weighted = 70); SITEOF(['CTS2704', 'PF6100']) <<< NEGATIVE
    SAMEA3325377 RISE436 = 8149348 ALT->REF (A->G); # of mutations in tree = 2 (weighted = 70); ['L265', 'PF6431'] <<< NEGATIVE
    SAMEA3325377 RISE436 = 8667179 ALT->REF (A->G); # of mutations in tree = 1 (weighted = 35); ['PF6435'] <<< NEGATIVE

    R1a Equivalents:
    SAMEA3325374 RISE431 = 13590915 REF->ALT (G->A); # of mutations in tree = 1 (weighted = 35) <<< Positive
    SAMEA3325374 RISE431 = 14613372 REF->ALT (C->T); # of mutations in tree = 1 (weighted = 35); ['CTS3004', 'M669'] <<< Positive
    SAMEA3325374 RISE431 = 16414608 REF->ALT (A->G); # of mutations in tree = 1 (weighted = 35); ['CTS5648', 'M695'] <<< Positive
    SAMEA3325374 RISE431 = 16563407 REF->ALT (G->T); # of mutations in tree = 1 (weighted = 35); ['CTS5936', 'M698', 'PF6192'] <<< Positive
    SAMEA3325374 RISE431 = 17883019 REF->ALT (AGGGGGG->AGGGGG); # of mutations in tree = 1 (weighted = 35) <<< Positive
    SAMEA3325374 RISE431 = 18158155 REF->ALT (G->A); # of mutations in tree = 1 (weighted = 35); ['CTS8710', 'M737'] <<< Positive
    SAMEA3325374 RISE431 = 18920886 REF->ALT (A->G); # of mutations in tree = 1 (weighted = 35); ['F2901', 'M742', 'PF6204'] <<< Positive
    SAMEA3325374 RISE431 = 23050018 REF->ALT (C->G); # of mutations in tree = 1 (weighted = 35); ['F3398', 'PF7532'] <<< Positive
    SAMEA3325374 RISE431 = 22803327 REF->ALT (G->C); # of mutations in tree = 1 (weighted = 35); ['CTS10847', 'M791', 'PF6221'] <<< Positive
    SAMEA3325375 RISE434 = 16563407 REF->ALT (G->T); # of mutations in tree = 1 (weighted = 35); ['CTS5936', 'M698', 'PF6192'] <<< Positive
    SAMEA3325375 RISE434 = 21225537 REF->ALT (C->A); # of mutations in tree = 1 (weighted = 35); ['F3159', 'M761'] <<< Positive
    SAMEA3325375 RISE434 = 22897863 REF->ALT (C->T); # of mutations in tree = 1 (weighted = 35); ['F3364', 'M794', 'PF6222'] <<< Positive
    SAMEA3325375 RISE434 = 24454540 REF->ALT (T->G); # of mutations in tree = 1 (weighted = 35); ['F3644', 'M810'] <<< Positive
    SAMEA3325377 RISE436 = 15686890 REF->ALT (T->C); # of mutations in tree = 1 (weighted = 35); ['CTS4509', 'M687'] <<< Positive
    SAMEA3325377 RISE436 = 16414608 REF->ALT (A->G); # of mutations in tree = 1 (weighted = 35); ['CTS5648', 'M695'] <<< Positive
    Paternal: R1b-U152 >> L2 >> FGC10543 >> PR5365, Pietro Rocca, b. 1559, Agira, Sicily, Italy
    Maternal: H4a1-T152C!, Maria Coto, b. ~1864, Galicia, Spain
    Mother's Paternal: J1+ FGC4745/FGC4766+ PF5019+, Gerardo Caprio, b. 1879, Caposele, Avellino, Campania, Italy
    Father's Maternal: T2b-C150T, Francisca Santa Cruz, b.1916, Garganchon, Burgos, Spain
    Paternal Great (x3) Grandfather: R1b-U106 >> L48 >> CTS2509, Filippo Ensabella, b.~1836, Agira, Sicily, Italy

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  9. #47
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    https://genetiker.wordpress.com/2015...asian-genomes/

    RISE512 Russia Andronovo R1a1a1b-S224/Z645
    RISE94 Sweden Battle Axe R1a1a1-Page7
    RISE566 Czech Republic Bell Beaker R1b1a2a1a-P310/PF6546/S129
    RISE560 Germany Bell Beaker R1b1a2-L150.1/PF6274.1/S351.1
    RISE563 Germany Bell Beaker R1b1a2a1a2b-PF6570/S28/U152
    RISE564 Germany Bell Beaker R1b1a2a1-L51/M412/PF6536/S167
    RISE434 Germany Corded Ware R1a1a1
    RISE436 Germany Corded Ware R1a1a1
    RISE446 Germany Corded Ware R1a1a1-M417(xZ647)
    RISE1 Poland Corded Ware P
    RISE431 Poland Corded Ware R1a1a1
    RISE555 Russia EBA R1b1a2a2-CTS7340/Z2107
    RISE492 Russia Iron Age R1a1a1(xZ283)
    RISE600 Russia Iron Age Q1a1b-M25
    RISE601 Russia Iron Age Q1a1b-M143
    RISE602 Russia Iron Age J2a
    RISE494 Russia Karasuk R1a1a1-Page7
    RISE397 Armenia LBA R1b1a2a2-Y4371/Z8128
    RISE408 Armenia LBA J2b2f
    RISE598 Lithuania LBA R1a1a1
    RISE553 Russia LBA R1a1a1
    RISE554 Russia LBA IJK
    RISE374 Hungary Maros G2a2a1a-PF6308
    RISE413 Armenia MBA R1b1a2
    RISE416 Armenia MBA E1b1b1
    RISE423 Armenia MBA E1b1b1b2a1-PF2020/Z1153
    RISE524 Russia Meshovskaya R1b1a2-PF6494
    RISE525 Russia Meshovskaya R1a1a1-Page7(xZ283)
    RISE21 Denmark Nordic BA ?
    RISE47 Denmark Nordic BA R1b1a2-M520/PF6410
    RISE175 Sweden Nordic BA I1a3a2
    RISE207 Sweden Nordic BA I1-M450/S109
    RISE276 Denmark Nordic LBA R1b1a2a
    RISE42 Denmark Nordic LN R1a1a1
    RISE179 Sweden Nordic LN I1a3a2
    RISE61 Denmark Nordic MN B R1a1a1-Page7
    RISE546 Russia Pit Grave R1b1a2-PF6482/YSC0000203
    RISE547 Russia Pit Grave R1b1a2a2-CTS9416
    RISE548 Russia Pit Grave R1b1a2a2-Z2105
    RISE550 Russia Pit Grave R1b1a2(xL51)
    RISE486 Italy Remedello I2a1a1a-L672/S327
    RISE487 Italy Remedello I2a1a
    RISE489 Italy Remedello I2a1a1a-L672/S327
    RISE386 Russia Sintashta R1a1a1b2a2-Z2124
    RISE392 Russia Sintashta R1a1a1b-S224/Z645
    RISE139 Poland Unetice ?
    RISE247 Hungary Vatya I2a2a-L368
    RISE254 Hungary Vatya I2a2a-L59

    All of Sintashta and Andronovo may turn out to be Z93 since at least one is now confirmed Z2124.

    We can see it there even now:


    Almost at the exact same area:
    Last edited by parasar; 06-14-2015 at 04:50 AM.

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  11. #48
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    According to genetiker RIS416 is male, and the Nordic Bronze Age samples seem different from the results in the paper.
    YDNA: R1b-BY50830 Stepney, London, UK George Wood b. 1782 English <-> Bavarian cluster 1100 BC
    m gf YDNA: ?? Gurr, James ~1740, Smarden, Kent, England.
    m gm YDNA: R1b-P311+ Beech, John Richard b. 1780, Lewes, England
    m ggf YDNA R1b-U106 Thomas, Edward b 1854, Sittingbourne, Kent
    p ggf YDNA: R1b-Z17901. Gould, John Somerset England 1800s.
    p ggf YDNA: R1b-L48. Scott, William Hamilton Ireland(?) 1800s

    other:
    Turner: R-U152
    Field: R-U106
    Welch: early 1800s E-M84 Kent, England.

  12. #49
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    Allentoft sent me these informations:
    In this study we focus more on genome-wide data, so we haven't spent much effort on the Y-chromosome. But I attach here a list for the individuals where it could be determined.
    sampleId groupA hg1
    RISE1 baCw R1b
    RISE47 baSca R1b
    RISE61 baSca R1a
    RISE94 baCw R1a
    RISE98 baSca R1b
    RISE175 baSca I1a
    RISE179 baSca NA
    RISE207 baSca I1
    RISE247 baHu I2a
    RISE254 baHu I2
    RISE276 baSca R1b
    RISE374 baHu G2a
    RISE386 baSin R1a
    RISE392 baSin R1a
    RISE397 baArm R1b
    RISE408 irArm J2b
    RISE413 baArm R1b
    RISE416 baArm NA
    RISE423 baArm E1b
    RISE431 baCw R1a
    RISE434 baCw R1a
    RISE436 baCw R1
    RISE446 baCw R1a
    RISE479 baHu I2
    RISE486 baRem I2
    RISE487 baRem I2
    RISE489 baRem I2a
    RISE492 baKarasuk R1a
    RISE493 baKarasuk Q1a
    RISE494 baKarasuk R1a
    RISE495 baKarasuk R1a
    RISE504 irRus J2
    RISE512 baAndrov R1a
    RISE524 baMezh R1b
    RISE525 baMezh R1a
    RISE546 baYam R1b
    RISE547 baYam R1b
    RISE548 baYam R1b
    RISE550 baYam R1b
    RISE552 baYam I2a
    RISE553 baAfGo R1a
    RISE554 baAfGo NA
    RISE555 baStq R1b
    RISE560 baBb R1b
    RISE563 baBb R1b
    RISE564 baBb R1b
    RISE566 baBb R1b
    RISE600 irAltai Q1a
    RISE601 irAltai Q1a
    RISE602 irAltai J2a

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  14. #50
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    I added Allentoft's and Geneticker's analysis to my spreadsheet.

    https://docs.google.com/spreadsheets...gid=1630708280

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