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View Full Version : Feldman et al 2019 (Iron Age Philistines) summary and Y-chromosome exploration



artemv
08-18-2019, 04:34 PM
Ancient DNA sheds light on the genetic origins of early Iron Age Philistines
https://advances.sciencemag.org/content/5/7/eaax0061


The ancient Mediterranean port city of Ashkelon, identified as “Philistine” during the Iron Age, underwent a marked cultural change between the Late Bronze and the early Iron Age. It has been long debated whether this change was driven by a substantial movement of people, possibly linked to a larger migration of the so-called “Sea Peoples.” Here, we report genome-wide data of 10 Bronze and Iron Age individuals from Ashkelon. We find that the early Iron Age population was genetically distinct due to a European-related admixture. This genetic signal is no longer detectible in the later Iron Age population. Our results support that a migration event occurred during the Bronze to Iron Age transition in Ashkelon but did not leave a long-lasting genetic signature.

Main discussion topic:
https://anthrogenica.com/showthread.php?17701-Ancient-DNA-sheds-light-on-the-genetic-origins-of-early-Iron-Age-Philistines



ID
Analyzis group
Carbon date
Archeological date
Genetic sex
mt
Ychr(original)
Ychr(detailed)


ASH029.A0101
ASH_LBA
1622–1522
MBIIC–LBII
F
H66a




ASH033.A0101
ASH_LBA
1746–1643
MBIIC–LBII
F
N




ASH034.A0101
ASH_LBA
NA
MBIIC–LBII
F
U3b1a




ASH066.A0101
ASH_IA1
1371–1129
Iron I–Post Ramses III
M
T2c1c
J
J1-Z2331


ASH067.A0101
ASH_IA1
1379–1131
Iron I–Post Ramses III
M
H92
R1
R1b-M269 (not L151)


ASH002/3.A0101
ASH_IA1
1378–1134
Iron I–Post Ramses III
F
I1




ASH068.A0101
ASH_IA1
1284–1126
Iron I–Post Ramses III
F
T1a1




ASH008.A0101
ASH_IA2
1257–1042
Iron IIA
M
H2c
BT
J1-Z2331


ASH087.A0101
ASH_IA2
NA
Iron IIA
M
H4a1c
L



ASH135.A0101
ASH_IA2
NA
Iron IIA
F
JT





I have checked the *.bam files myself and used most recent version of ISOGG tree (July 2019).

Some details about investigation:
ASH066.A0101 is positive for PF4849 - one of J1-Z2331 synonimes.
Upstream positives:
PF4849 J1a2a1a2d2b2~
PF4858 J1a2a1a2d2b~
FGC1677 J1a2a1a2d2~
CTS7920 J1a2a1a2d~
AM01348 J1a2a1a2~
AM01307 J1a2a~
PF4659 J1
PF4664 J1
PF4672 J1
PF4780 J1
CTS5280 J
CTS5545.1 J
PF4519 J
PF4521 J

Downstream negatives:
FGC20890
ZS2601
Z28190
Z28238
ZS237
ZS10440
ZS4340
PF4879
ZS1517
ZS1582
FGC17155
ZS6324
ZS7411
ZS1542
ZS1707
ZS6362
CTS1922
FGC30566
ZS2095
ZS2074
FGC39461.1
BY4060
ZS10270
ZS4227
FGC19199
AD0000002
FGC1705
BY9086
FGC40057
FGC16638
ZS4757
ZS4759
ZS8311
FGC23912
FGC23917
SK2161
ZS10707
FGC14436
Z18247

ASH067.A0101 is positive for PF6426, PF6430 and PF6436 - all synonimes of R1b-M269. Found an importand downstram negative - L151.
Upstream positives:

A702 R1b1
CTS3063 R1b1
CTS916 R1
CTS2565 R1
P238 R1
CTS7876 R
CTS11075 R
F652 R

Full list of downstream negatives:

L151
L217.1
Z378
FGC20727
L782
JFS0008
FGC6184
Z159
Z160
CTS6353
S18461
FGC33321
CTS9369
FGC12993
S5627
FGC17415
L217.2
CTS2509
L188
S506
CTS8234
S22641
FGC404
M228.1
Z274
DF17
BY132
L2
S255
L196
FGC22503
CTS5531
PF6584
F1493.2
BY247
S471
BY188
DF105
A9885
L744
L745
Z16846
BY23955
FGC9798
Z16334
Z17815
BY2570
S7822
Z17836
Z21269
Z16348
Z16855
CTS11954
FGC13409
Z23534
L1333
CTS4466
A7653
FGC12295
FGC36542
ZS5732^^
FGC15494
L1402
Z16318
Z16541^^
FGC33060
BY35675
L1336
FGC11320
FGC11334
A6496
BY8978
BY9408
L1315
A92
BY2596
A7911
ZZ38
L216
A11713
GG460
GG729


ASH008.A0101 is positive for CTS6161 - one of J1-Z2331 synonimes.
Upstream positives:

CTS11050 J1a2a1a2d2b~
PF4850 J1a2a1a2d2b~
CTS7920 J1a2a1a2d~
AM01339 J1a2a1a2~
AM01347 J1a2a1a2~
PF4663 J1a2a1a2~
AM01325 J1a2a1~
AM01331 J1a2a~
AM01336 J1a2a~
FGC1642 J1a2a~
L826 J1a2a~
L255 J1
CTS1138 J1
CTS3210 J1
CTS7412 J1
CTS7598 J1
CTS12948 J1
CTS12950 J1
F4289 J1
FGC1617 J1
PF4649 J1
PF4655 J1
PF4659 J1
PF4666 J1
PF4672 J1
PF4695 J1
PF4724 J1
PF4774 J1
PF4780 J1
CTS687 J
CTS4204 J
CTS10446 J
CTS10858 J
CTS11750 J
F1168 J
F1181 J
F2114 J
F2839 J
F3176 J
FGC1599 J
FGC3271 J
PF4513 J
PF4521 J
PF4591 J
PF4594 J


Downstream negatives:
ZS2601
ZS4293
ZS4303
Z28253
Z28255
Z44807
Z44812
FGC13877
S8223
S20001
FGC13883
FGC13889
FGC13884
ZS5275
ZS10440
ZS10442
ZS2379
FGC4745
ZS9415
ZS9431
FGC4737
FGC4756
FGC4758
FGC4760
FGC4770
FGC4784
Y20901
FGC4799
SK1304
ZS5606
ZS5603
FGC17150
ZS4008
ZS7411
FGC30108
L1253
L823
ZS4858
ZS1767
ZS1775
Z28268
ZS1682
ZS1682
PF7266
CTS1746
ZS1468
ZS1470
FGC5230
FGC5218
FGC5227
FGC5237
FGC30544
ZS1366
FGC3716
FGC1701
ZS2167
FGC1723
FGC1731
ZS2096
ZS2120
BY3722
SK1294
ZS11989
ZS11994
SK1236
ZS4083
ZS4085
Y21750
BY4060
ZS9188
Y22084
Y22088
Y22489
FGC19899
FGC19910
Y13101
ZS4227
FGC10375
FGC10378
FGC10398
FGC10376
FGC42781
ZS4204
FGC4708
FGC4423
FGC4708
M6661
FGC12532
ZS5836
AD0000002
FGC1707
FGC46407
FGC40063
FGC40057
FGC43392
FGC43293
FGC46301
FGC13092
FGC13092
FGC41767
ZS8332
Y32108
ZS10670
ZS10676
ZS3856
F2526
FGC19121
FGC16658
ZS10349
FGC7936
FGC4340
FGC4318
BY261
ZS4754
ZS4754
Y19261
Y16182
Y16185
Y16401
FGC1712
FGC1719
FGC1729
ZS4710
ZS9251
Y19869
FGC23917
ZS8569
FGC49889
FGC41888
AD0000009
ZS5616
ZS11883
ZS9364
ZS7048
ZS4752
ZS12058
ZS9689
Y16903
Y20114
Y16899
ZS10465
ZS10842
ZS10593
ZS10594
ZS6416
ZS6415
FGC5419
FGC22261
FGC4481
FGC4487

grumpydaddybear
08-23-2019, 01:17 AM
Artem

This is great. Any chance you can do the Harney paper? - Ancient DNA from Chalcolithic Israel reveals the role of population mixture in cultural transformation

https://www.nature.com/articles/s41467-018-05649-9

The bam files are here:

https://www.ebi.ac.uk/ena/data/view/PRJEB27215

I've tried to get this to work, but been way too distracted with work and family.

Thanks in advance!

Caspian
05-06-2020, 12:10 AM
Is there any subclade information about sample "ASH087.A0101" which belongs to haplogroup L?

Edit: Sorry, I did not see the main discussion topic of this paper. You can delete this post or move to the main topic.