GENEALOGY-DNA-L Archives

Archiver > GENEALOGY-DNA > 2004-07 > 1089234452


From: "Ken Nordtvedt" <>
Subject: Re: [DNA] I1a and Distribution of DYS Values
Date: Wed, 7 Jul 2004 15:07:32 -0600
References: <5.1.0.14.2.20040707115344.022f78d8@mail.psu.edu>


Gordon, I enjoyed your report on I1a in Sorenson database. I'm reading and
studying it right now. I meant to tell you that one of our Hamiltons --- I
believe 007 --- has a Norse modal haplotype. I finally found one among our
Hamilton I1a. I believe the rest of us have an Anglo-Saxon male ancestor.

Ken


----- Original Message -----
From: "Gordon Hamilton" <>
To: <>
Sent: Wednesday, July 07, 2004 1:06 PM
Subject: [DNA] I1a and Distribution of DYS Values


> Recently there has been some interest and discussion regarding the
> distribution of various DYS values for the I1a haplogroup. An estimate of
> these distributions can be obtained using the SMGF database and methods
> similar to those previously reported for the distribution of YCAIIa,b for
> this haplotype (see
> http://archiver.rootsweb.com/th/read/GENEALOGY-DNA/2004-06/1086169717).
> These results are reported here.
>
> As in the previous analysis, the SMGF database
> (http://smgf.org:8081/pubgen/site28.jsp) was searched using information on
> the more common I1a haplotypes given by Dennis Garvey
> (http://freepages.genealogy.rootsweb.com/~dgarvey/DNA/RelGen/YSTR.htm)
that
> he obtained from the YSTR.org database
(http://www.ystr.org/index_gr.html).
>
> Of the top 30 most common haplotypes listed by Garvey, 5 are considered to
> be I1a. It will be noted that at 6 markers the values are identical for
all
> 5 of these common haplotypes. The 6 loci (DYS#) and the repeat values at
> each (given in parentheses) are as follows: 19 (14), 389i (12), 389ii
(28),
> 391 (10), 392 (11), 393 (13). Since it appears that virtually all I1a
> haplotypes have a repeat value of 8 at DYS 455, an initial search of the
> SMGF database was performed using these 7 loci and repeat values (this 7
> loci haplotype is referred to as the Garvey Universal I1a [or GU I1a]
> haplotype). The GU I1a haplotype has 475 exact matches (7/7) in the SMGF
> database that contains a total of 8,735 genotypes (as of 24 June 2004).
>
> A search was then conducted plugging in various repeat values for each of
> the various other DYS loci in addition to the above and looking for 8/8
> matches. In each of the following the number of repeats for each DYS locus
> is given followed by the frequency of an exact match in parentheses. In a
> few cases the frequencies do not add up to exactly 475 presumably because
> of some outliers.
>
> DYS 385a,b: 12,15 (1); 12,14 (16); 13,13 (26); 13,14 (190); 14,14 (113);
> 13,15 (32); 14,15 (62); 15,15 (14); 13,16 (13); 13,17 (2); 15,16 (3);
15,17
> (1).
>
> DYS 388: 12 (2); 13 (6); 14 (434); 15 (17); 16 (16).
>
> DYS 390: 21 (4); 22 (262); 23 (192); 24 (17)
>
> DYS 426: 9 (0); 10 (2); 11 (469); 12 (3); 13 (0).
>
> DYS 437: 15 (22); 16 (436); 17 (17).
>
> DYS 438: 7 (0); 8 (3); 9 (7); 10 (460); 11 (4); 12 (0).
>
> DYS 439: 9 (1); 10 (18); 11 (358); 12 (74); 13 (23); 14 (1).
>
> DYS 447: 20 (0); 21 (10); 22 (108); 23 (291); 24 (57); 25 (4); 26 (0).
>
> DYS 448: 18 (4); 19 (29); 20 (409); 21 (31); 22 (2).
>
> DYS 449: 24 (0); 25 (6); 26 (31); 27 (41); 28 (191); 29 (133); 30 (55); 31
> (16); 32 (1); 33 (1).
>
> DYS 454: 10 (4); 11 (460); 12 (11).
>
> DYS 458: 12 (2); 13 (2); 14 (58); 15 (306); 16 (90); 17 (16); 18 (1).
>
> DYS 459a,b: 7,8 (1); 7,9 (17); 8,8 (16); 8,9 (417); 8,10 (9); 9,9 (14);
> 9,10 (1).
>
> DYS 460: 9 (10); 10 (355); 11 (107); 12 (3).
>
> DYS 461: 10 (71); 11 (362); 12 (40); 13 (2).
>
> DYS 462: 9 (1); 11 (4); 12 (322); 13 (142); 14 (6).
>
> GGAAT1B07: 9 (1); 10 (10); 11 (453); 12 (11).
>
> YCAIIa,b: 17,21 (1); 19,19 (9); 18,21 (6); 19,20 (6); 19,21 (424); 19,22
> (13); 20,21 (4); 21,21 (9); 19,23 (1); 18.22 (0).
>
> Y-GATA-A10: 11 (4); 12 (55); 13 (337); 14 (55); 15 (24).
>
> Y-GATA-C4: 20 (5); 21 (174); 22 (199); 23 (71); 24 (20); 25 (6).
>
> Y-GATA-H4: 10 (62); 11 (389); 12 (23); 13 (1).
>
> As noted by others and as indicated above, virtually all (about 99%) of
> these I1a haplotypes have 11 repeats for locus DYS 426. In order to obtain
> an estimate of the distribution of those DYS loci present in the GU I1a
> haplotype, further searches were performed using in each case 11 for DYS
> 426 and the GU I1a haplotype but allowing in turn one of the DYS loci in
> the GU I1a haplotype to vary. In each case 8/8 exact matches were
recorded.
>
> DYS 19/394: 12 (0); 13 (6); 14 (469); 15 (101); 16 (16); 17 (4); 18 (0).
>
> DYS 391: 8 (0); 9 (5); 10 (469); 11 (42); 12 (1).
>
> DYS 392: 10 (0); 11 (469); 12 (10); 13 (5); 14 (0).
>
> DYS 393: 11 (1); 12 (13); 13 (469); 14 (47); 15 (8); 16 (0).
>
> DYS 455: 8 (469); 9 (1); 10 (0); 11 (2).
>
> DYS 389i,ii: 12,26 (1); 11,29 (2); 11,27 (2); 12,27 (12); 12,28 (469);
> 12,29 (82); 13,29 (36); 13,30 (14); 12,30 (8); 14,30 (3).
>
> These latter results confirm that there is very little, if any,
> distribution in the repeat value of 8 for DYS 455 in these I1a haplotypes.
> They also indicate that for I1a haplotypes there is very little
> distribution in the repeat value of 11 for DYS 392 as well. However, there
> is enough variance in repeats for the other loci (19/394, 391, 393,
> 389i,ii) that there are clearly considerably more I1a individuals in the
> SMGF database than the 475 found using the GU I1a haplotype.
>
> The repeat patterns for several of the DYS loci indicate a bimodal
> distribution suggesting that the I1a haplotypes being sampled are derived
> from at least 2 different subclades. However, for other DYS loci it
appears
> that all of the I1a haplotypes sampled started from a single repeat value.
> Those more statistically sophisticated than I am could therefore
presumably
> calculate at least relative values for the mutation rates at these DYS
> loci. Or assuming a specific time when the SNP mutation leading to the I1a
> haplogroup occurred, estimates of the actual mutation rates at these DYS
> loci could presumably be made.
>
> Gordon Hamilton
>
>
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