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Table 1 List of breeds, their abbreviations and sample sizes as used in the study

From: Efficiency of different strategies to mitigate ascertainment bias when using SNP panels in diversity studies

Breed and abbreviation

Array data (n)

WGS data (n)

Commercial breeds:

 WL_A – White Leghorn line A

20a

10a

 BL_A – Rhode Island Red line A

20a

15a

 BL_D – White Rock line D

20a

15a

Wild populations:

 GGg – Gallus Gallus Gallus

10 (10)

10

 GGsc – Gallus Gallus spadiceus

9 (10)

9

European populations:

 ABwa – Barbue d’Anvers quail

10 (10)

10

 ARsch – Rumpless Araucana black

9 (11)

9

 BAsch – Rosecomb Bantam black

10 (10)

10

 BKschg – Bergische Crower

10 (22)

10

 DZgh – German Bantam gold partridge

10 (10)

10

 FZgpo – Booted Bantam millefleur

10 (10)

10

 HOxx – Dutch White Crested

10 (7)

10

 ITrh – Leghorn brown

10 (10)

10

 KAsch – Castilians black

9 (11)

9

 KRsch – Creeper black

10 (20)

10

 KRw – Creeper white

10 (20)

10

 LER11- White Leghorn line R11

9 (13)

9 (1)

 OMsschg - East Friesian Gulls silver penciled

10 (10)

10

 PAxx - Poland any colour

11 (12)

11

 SBsschs - Sebright Bantam silver

10 (10)

10

 WTs - Westphalian Chicken silver

10 (10)

10

Asian populations:

 ASrb – Aseel red mottled

10 (10)

10

 BHrg – Brahma gold

10 (10)

10

 CHgesch – Japanese Bantam black tailed buff

10 (12)

10

 CHschw – Japanese Bantam black mottled

10 (19)

10

 COsch – Cochin black

10 (11)

10

 DLIa – German Faverolles salmon

10 (10)

10

 KSgw – Ko Shamo black-red

9 (13)

9

 MAxx – Malay black red

10 (21)

10

 MRschk – Marans copper black

10 (10)

10

 NHL68 – New Hampshire line 68

9 (14)

9 (1)

 OFrbx – Orloff red spangled

10 (15)

10

 OHsh - Ohiki silver duckwing

10 (10)

10

 ORge - Orpington buff

10 (10)

10

 SAsch - Sumatra black

9 (11)

9

 SEw - Silkies white

10 (10)

10

 SHsch - Shamo black

9 (11)

9

 SNwsch - Sundheimer light

10 (10)

10

 TOgh - Toutenkou black breasted red

10 (11)

10

 WYw - Wyandotte white

10 (9)

10

 YOwr - Yokohama red saddled white

10 (10)

10

 ZCw - Pekin Bantam white

10 (10)

10

  1. n is number, in brackets () are additional individuals added to the population (not present in the other data type)
  2. acompletely different individuals in the two data sets