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Thread: New DNA Papers - General Discussion Thread

  1. #2111
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    Quote Originally Posted by alexfritz View Post
    any idea why some turkmen_iraq (3/102) are of I2a1a(M26), are there any folk-tales in connection to times immemorial anatolia or sardinia directly? they are the only mesopotamian group that score it and its a very rare/>non-existing line outside of sardinia altogether;
    Samples from northern Iraq that have been predicted by Whit Athey's algorithm to belong to haplogroup I on the basis of 17-loci Y-STR haplotypes:

    Ar-M-014
    Whit Athey Haplogroup Assignment: I2b1
    Fitness Score: 47
    Probability: 100.0%

    NevGen Haplogroup Assignment: I2a2a
    Fitness Score: 34
    Probability: 99.9%

    Ar-M-018 (17-loci Y-STR haplotype is identical to that of Ar-M-014.)
    Whit Athey Haplogroup Assignment: I2b1
    Fitness Score: 47
    Probability: 100.0%

    NevGen Haplogroup Assignment: I2a2a
    Fitness Score: 34
    Probability: 99.9%

    Kr-M-019
    Whit Athey Haplogroup Assignment: I2a1
    Fitness Score: 56
    Probability: 82.5%

    NevGen Haplogroup Assignment: I2c2 Y16419
    Fitness Score: 42
    Probability: 60.6%

    Kr-M-041
    Whit Athey Haplogroup Assignment: I2a1
    Fitness Score: 30
    Probability: 80.5%

    NevGen Haplogroup Assignment: G2a2b2a1a U1
    Fitness Score: 25
    Probability: 14.5%

    Kr-M-089
    Whit Athey Haplogroup Assignment: I2a xI2a1
    Fitness Score: 34
    Probability: 67.3%

    NevGen Haplogroup Assignment: I2a1 Isles
    Fitness Score: 17
    Probability: 0.2%

    Kr-M-090 (17-loci Y-STR haplotype is identical to that of Kr-M-089.)
    Whit Athey Haplogroup Assignment: I2a xI2a1
    Fitness Score: 34
    Probability: 67.3%

    NevGen Haplogroup Assignment: I2a1 Isles
    Fitness Score: 17
    Probability: 0.2%

    Sy-M-004
    Whit Athey Haplogroup Assignment: I1
    Fitness Score: 45
    Probability: 68.2%

    NevGen Haplogroup Assignment: I1
    Fitness Score: 32
    Probability: 43.1%

    Sy-M-080 (17-loci Y-STR haplotype is identical to that of Sy-M-004.)
    Whit Athey Haplogroup Assignment: I1
    Fitness Score: 45
    Probability: 68.2%

    NevGen Haplogroup Assignment: I1
    Fitness Score: 32
    Probability: 43.1%

    Tm-M-018
    Whit Athey Haplogroup Assignment: I2a1
    Fitness Score: 70
    Probability: 100.0%

    NevGen Haplogroup Assignment: I2a1a Sardinian M26
    Fitness Score: 50
    Probability: 100.0%

    Tm-M-084
    Whit Athey Haplogroup Assignment: I2a xI2a1
    Fitness Score: 75
    Probability: 99.9%

    NevGen Haplogroup Assignment: I2a1b3 Carpathian-Dinaric & Disles L621
    Fitness Score: 55
    Probability: 100.0%

    Tm-M-086
    Whit Athey Haplogroup Assignment: I2a1
    Fitness Score: 22
    Probability: 98.7%

    NevGen Haplogroup Assignment: I2a1a Sardinian M26
    Fitness Score: 17
    Probability: 11.1%

    Tm-M-097 (17-loci Y-STR haplotype is identical to that of Tm-M-086.)
    Whit Athey Haplogroup Assignment: I2a1
    Fitness Score: 22
    Probability: 98.7%

    NevGen Haplogroup Assignment: I2a1a Sardinian M26
    Fitness Score: 17
    Probability: 11.1%

    Tm-M-108
    Whit Athey Haplogroup Assignment: I1
    Fitness Score: 34
    Probability: 90.3%

    NevGen Haplogroup Assignment: I1
    Fitness Score: 28
    Probability: 46.5%

    Yz-M-028
    Whit Athey Haplogroup Assignment: I2a xI2a1
    Fitness Score: 56
    Probability: 77.8%

    NevGen Haplogroup Assignment: E1b1b
    Fitness Score: 25
    Probability: 51.8%

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  3. #2112
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    Quote Originally Posted by rozenfeld View Post
    http://onlinelibrary.wiley.com/doi/1...23324/abstract

    Genetic diversity in Svaneti and its implications for the human settlement of the Highland Caucasus

    Yardumian A1,2, Shengelia R3, Chitanava D4, Laliashvili S4, Bitadze L4, Laliashvili I4, Villanea F5, Sanders A2, Azzam A2, Groner V2, Edleson K2, Vilar MG2,5, Schurr TG2.

    First published: 27 October 2017

    DOI: 10.1002/ajpa.23324

    Abstract

    Objectives

    In this study, we characterized genetic diversity in the Svans from northwestern Georgia to better understand the phylogeography of their genetic lineages, determine whether genetic diversity in the highland South Caucasus has been shaped by language or geography, and assess whether Svan genetic diversity was structured by regional residence patterns.

    Materials and Methods

    We analyzed mtDNA and Y-chromosome variation in 184 individuals from 13 village districts and townlets located throughout the region. For all individuals, we analyzed mtDNA diversity through control region sequencing, and, for males, we analyzed Y-chromosome diversity through SNP and STR genotyping. The resulting data were compared with those for populations from the Caucasus and Middle East.

    Results

    We observed significant mtDNA heterogeneity in Svans, with haplogroups U1-U7, H, K, and W6 being common there. By contrast, ∼78% of Svan males belonged to haplogroup G2a, with the remainder falling into four other haplogroups (J2a1, I2, N, and R1a). While showing a distinct genetic profile, Svans also clustered with Caucasus populations speaking languages from different families, suggesting a deep common ancestry for all of them. The mtDNA data were not structured by geography or linguistic affiliation, whereas the NRY data were influenced only by geography.

    Discussion

    These patterns of genetic variation confirm a complex set of geographic sources and settlement phases for the Caucasus highlands. Such patterns may also reflect social and cultural practices in the region. The high frequency and antiquity of Y-chromosome haplogroup G2a in this region further points to its emergence there.
    The three svan samples assigned mtDNA U6 are not U6... So I question the seriousness of this study.

    91 SV091 Svan F Etseri U6 110 C16071T-G16129A-C16355T-T16357C A73G-C150T-T152C-A263G-A283G-309.1C-315.1C
    71 SV071 Svan F Becho U6 111 C16355T-T16357C A73G-T146C-C150T-T152C-A234G-A263G-309.1C-315.1C
    72 SV072 Svan M Becho U6 112 G16129A-C16355T-T16357C A73G-T146C-C150T-T152C-A234G-A263G-309.1C-315.1C
    Last edited by Bernard; 12-07-2017 at 01:20 PM.

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  5. #2113
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    Quote Originally Posted by Bernard View Post
    The three svan samples assigned mtDNA U6 are not U6... So I question the seriousness of this study.

    91 SV091 Svan F Etseri U6 110 C16071T-G16129A-C16355T-T16357C A73G-C150T-T152C-A263G-A283G-309.1C-315.1C
    71 SV071 Svan F Becho U6 111 C16355T-T16357C A73G-T146C-C150T-T152C-A234G-A263G-309.1C-315.1C
    72 SV072 Svan M Becho U6 112 G16129A-C16355T-T16357C A73G-T146C-C150T-T152C-A234G-A263G-309.1C-315.1C
    One Georgian sample on Ian Logan site (KM245134(Georgia) Fregel) seems to be (nearly) the same as the first Svan sample, ie. R2. I wonder if all of them belong to R2.
    http://www.ianlogan.co.uk/sequences_..._sequences.htm

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