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View Full Version : Selina Brace, Yoan Diekmann 2019 - summary and Y-chr exploration - mesolithic samples



artemv
08-18-2019, 06:12 PM
Ancient genomes indicate population replacement in Early Neolithic Britain

https://www.nature.com/articles/s41559-019-0871-9


The roles of migration, admixture and acculturation in the European transition to farming have been debated for over 100 years. Genome-wide ancient DNA studies indicate predominantly Aegean ancestry for continental Neolithic farmers, but also variable admixture with local Mesolithic hunter-gatherers. Neolithic cultures first appear in Britain circa 4000 BC, a millennium after they appeared in adjacent areas of continental Europe. The pattern and process of this delayed British Neolithic transition remain unclear. We assembled genome-wide data from 6 Mesolithic and 67 Neolithic individuals found in Britain, dating 8500–2500 BC. Our analyses reveal persistent genetic affinities between Mesolithic British and Western European hunter-gatherers. We find overwhelming support for agriculture being introduced to Britain by incoming continental farmers, with small, geographically structured levels of hunter-gatherer ancestry. Unlike other European Neolithic populations, we detect no resurgence of hunter-gatherer ancestry at any time during the Neolithic in Britain. Genetic affinities with Iberian Neolithic individuals indicate that British Neolithic people were mostly descended from Aegean farmers who followed the Mediterranean route of dispersal. We also infer considerable variation in pigmentation levels in Europe by circa 6000 BC.


Free preprint available:
https://www.biorxiv.org/content/10.1101/267443v1

Topics on the main forum:
https://anthrogenica.com/showthread.php?13518-Population-Replacement-in-Early-Neolithic-Britain
https://anthrogenica.com/showthread.php?16874-Stonehenge-DNA-reveals-origin-of-builders

Here is the table, that includes only mesolithic samples in from the paper:


ID
Harvard I-ID
location (lat., long.)
C14, cal. 95%
British Phase
MT
sex
Y-chromosome (original)
Y-chromosome (detailed)


Aveline_3
I6745
(51.324706, -2.753248)
8750-8459 cal. BCE (934050 BP)
Early_Mesolithic
B5 / H13 / HV
XX




Aveline_9
I6744
(51.324706, -2.753248)
8596-8302 cal. BCE (923050 BP)
Early_Mesolithic
U5b1
XY
IJK
pre-I


KentCavern_1
I3025
(50.4682, -3.5030)
7478-7146 cal. BCE (827045 BP)
Late_Mesolithic
U5a2
XX




Cheddar_man
I6767
(51.281679, -2.765746)
8607-7982 cal. BCE (9100100 BP)
Early_Mesolithic
U5b1
XY
I2a2
I2-Y10705 (pre-L38)


CnocCoig_1
I3065
(56.011625, -6.240016)
4256-3803 cal. BCE (549236 BP)
Late_Mesolithic
V / HV
XX




Ogof_yr_ychen_1
I6754
(51.63253, -4.692903)
7593-7204 cal. BCE (859754 BP)
Late_Mesolithic
U5b
XY
I2a2
I2-CTS616



I made a check for detailed Y-happlogroups myself, using ISOGG tree (April 2019).
Some details:
Aveline_9
I guess everybody thought that he was I2 like almost all mesolithic Europeans, and IJK just because of low quality aDNA. But he is definitely not I2, and not "regular" I.
Under spoiler there is additional info on SNPs.

M2684(IJK)+

He has some, but not all of I SNPs!
CTS2387-(3 reads)
CTS4848-(14 reads)
PF3627.2+(87 reads!)(this is a C->T SNP, but here we have 87 reads, all 87 T and none is C, so I guess we can trust this SNP)
PF3742-(4 reads)

I have also checked he is negative to J SNPs:
CTS10858-
F1826-
F2839-
FGC1599-
L778-
PF4530-
PF4591-

Cheddar_man
Cheddar Man is I2a1b*(ISOGG 2019) he has some, but not all SNPs defining I2a1b2(ISOGG 2019).
On y-full this is https://www.yfull.com/tree/I-Y10705/
+ some SNPs from L38.

Details:

S2501+
S2525+
S11727+
FGC29626+
S26067+
S2490+
S2555+
S2558+
S10750+
SK1262+
Y11317+
All are synomims for I-Y10705.

Cheddar man has some, but not all SNP's from L38:
FGC29578 -
FGC29581 + (this is a C->T SNP, so we cannot be 100% sure here and only 2 reads for this position)
FGC29704 -
S2497 +
S2592 +
FGC29582 +
S2532 -


Ogof_yr_ychen_1
He is positive for CTS9139, on Y-full it is listed as a synonim for CTS616. FGC3554 is in the list of possible synonims for CTS616.
We cannot be sure he has all of CTS616 SNPs. So he is either CTS616 or some M223 pre-CTS616 branch.

He is positive for the following SNPs (Isogg April 2019):
CTS8799 I2a1b
FGC3527 I2a1b
L181 I2a1b
P216 I2a1b
CTS429 I2a1b1~
CTS1616 I2a1b1~
CTS4536 I2a1b1~
CTS5279 I2a1b1~
CTS6331 I2a1b1~
CTS7272 I2a1b1~
CTS7391 I2a1b1~
CTS7865 I2a1b1~
FGC3536 I2a1b1~
FGC3554 I2a1b1~ (just 1 read)
FGC3557 I2a1b1~
CTS9139 I2a1b1a~ (just 1 read)

Here are downstream negatives:
Y4907 I2a1b1a1b1b1~
S14548 I2a1b1a2b2~
S24151 I2a1b1a2b2~
Y13419 I2a1b1a2b2~
S14548 I2a1b1a2b2~
Y15493 I2a1b1a2b2a~
Y30846 I2a1b1a2b2b~
Y5211 I2a1b1a2b3~
Y5328 I2a1b1a2b3~
Y10672 I2a1b1a2b3a~