[ Raw: I ] [ With Maf / LD Pruning: II ] [ With Maf / LD Pruning / Geno: III: K 2 ] [ III: K 11 ] [ III: K 20 ] [ III: K 40 ] [ III: K 50 ] [ III: K 64 ] [ III: K Overclustering ] [ With SGDP Plus: IV: K 40, 50, 64 ]
I. Adding Samples to SGDP
SGDP = Mallick et al. 2016, "The Simons Genome Diversity Project. 300 genomes from 142 diverse populations", in: "Nature", 2016 Oct 13, Vol. 538, No. 7624, pp. 201-206, doi: 10.1038/nature18964, pubmed.ncbi.nlm.nih.gov.
AADR = Mallick et al. 2024, "The Allen Ancient DNA Resource (AADR) a curated compendium of ancient human genomes", in: "Sci Data", Vol. 11, No. 182, dataverse.harvard.edu.
345 samples (129 females, 179 males, 37 ambiguous; 345 founders) loaded from sgdp/cteam_extended.v4.maf0.1perc.psam. 34418131 variants loaded from sgdp/cteam_extended.v4.maf0.1perc.pvar.
Adding Erfurt_ME
"We used K-means to cluster the EAJ individuals based on their PC1 and PC2 coordinates into two groups. One group, which we call 'Erfurt-EU', falls closer to individuals from European populations, while the other, which we call 'Erfurt-ME', is closer to Middle Eastern populations" (Waldman et al. 2022, "Genome-wide data from medieval German Jews show that the Ashkenazi founder event pre-dated the 14th century", in: "Cell", Volume 185, Issue 25, 8 December 2022, Pages 4703-4716.e16).
Solo: Total genotyping rate is 0.377819. 1232738 variants and 13 people pass filters and QC.
Integration: 34548187 variants loaded from .bim file. 358 people (182 males, 139 females, 37 ambiguous) loaded from .fam. Total genotyping rate is 0.958619.
Data S2, Table 1: The characteristics of the Erfurt samples (only Erfurt-ME)
| Sample | Grave | SNPs on autosomes | Sex | Estimated age | Subgroup | Family | Y chromosome - a | Y terminal (YFull) - b | Nearest common AJ Y lineage | mtDNA haplogroup | mtDNA terminal (YFull) b | 14C dates (95.4% probability) |
|---|---|---|---|---|---|---|---|---|---|---|---|---|
| I13861 | 25 | 325256 | F | 25-35 | Erfurt-ME | No | - | K1a1b1a | K1a1b1a | |||
| I13863 | 21 | 263504 | F | 18-25 | Erfurt-ME | No | - | K1a9 | K1a9 | - | ||
| I13864 | 36 | 674768 | M | 35-50 | Erfurt-ME | No | J2a1a1a2b2(xJ2a1a1a2b2a1) | J-Y15223 | J-Y15234 | H3p | H3p1 | - |
| I13865 | 44 | 548027 | M | 18-25 | Erfurt-ME | No | R1b1a1b1b | R-Y19847 (xY143993) | R-Y19869 | L2a1l2a | L2a1l2a | - |
| I13867 | 45 | 777554 | F | 50+ | Erfurt-ME | No | - | K1a1b1a | K1a1b1a | - | ||
| I13870 | 5 | 363232 | M | 45-60 | Erfurt-ME | No | J2a1a1a2b2a | J-Y95077 | J-L556 | K1a1b1a | K1a1b1a | - |
| I14736 | 68 | 681500 | F | - | Erfurt-ME | No | - | K1a1b1a | K1a1b1a | - | ||
| I14737 | 57 | 383429 | F | 8-11 | Erfurt-ME | No | - | N1b1b1 | N1b1b1 | 1296-1394 calCE | ||
| I14739 | 60 | 326400 | F | 40-60 | Erfurt-ME | No | - | H5c2 | H5c2a1 | - | ||
| I14741 | * | 123772 | F | 16-20 | Erfurt-ME | No | - | K1a1b1a | K1a1b1a | 1285-1389 calCE | ||
| I14851 | 20 | 435908 | F | 12-15 | Erfurt-ME | No | - | K1a1b1a | K1a1b1a | 1301-1397 calCE | ||
| I14852 | 41 | 250663 | F | 60+ | Erfurt-ME | No | - | H6a1a1a | H6a1a1a1 | - | ||
| I14903 | 47 | 598350 | F | 35-50 | Erfurt-ME | No | - | K1a1b1a | K1a1b1a | - |
* 13/133-140 (Grave marked as possible stray find).
Adding German / Irish-Norman
ADN001.A bis ADN015.A = Lower Saxony, Hannover-Anderten, ENA-Project: PRJEB54899, aus: Gretzinger et al 2022: "The Anglo-Saxon migration and the formation of the early English gene pool", in: "Nature", Vol. 610, No. 112-119, 2022, doi.org/10.1038/s41586-022-05247-2.
Nach aadr_v54.1.p1_1240K_public.ind (The Allen Ancient DNA Resource AADR, Dataverse 8.0, March 6 2023): 11x Germany_Anderten_Saxon_Medieval.
KIL001.B_noUDG bis KIL047.B_noUDG = Ireland, Kliteasheen, ENA-Project: PRJEB54899.
Nach aadr_v54.1.p1_1240K_public.ind (The Allen Ancient DNA Resource AADR, Dataverse 8.0, March 6 2023): 38x Ireland_Kilteasheen_AngloSaxon_EMedieval_Norman.
Solo: Total genotyping rate is 0.523189. 1233013 variants and 49 people pass filters and QC.
Integration: 34547912 variants loaded from .bim file. 407 people (218 males, 152 females, 37 ambiguous) loaded from .fam. Total genotyping rate is 0.845471.
Adding Tàrrega
"In the Roquetes necropolis of Tàrrega, six communal graves containing at least sixty-nine individuals, with signs of violence, were dated to the mid-14th century. Based on the hypothesis that Iberian medieval Jewish communities preserve genetic similarities to other ancient and modern Jewish communities, our study aims to provide genomic information on medieval Iberian communities, which to date have been unknown" (Pallarés-Viña et al. 2026, "Uncovering a Medieval Pogrom: Genetic History of a Jewish Community in Catalonia (Spain)", in: "Genes" 2026, Vol. 17, No. 3, p. 358).
Zurück zum Inhaltsverzeichnis
E-Mail kriswagenseil [at] gmx [point] de