Table 1. Information on the genotyped breeds.
| Breed name | # ind1 | Hp2 | Origin3 | Breed groups4 | ||||
| Junglefowls | G. lafayetii | 11 | 0.04 | Sri Lanka | Outgroup | |||
| G. g. gallus 5 | 30 | 0.37 | Thailand | NDM | ||||
| G. g. spadiceus 5 | 30 | 0.36 | Thailand | NDM | ||||
| Broiler | Broiler sire 1 | 75 | 0.42 | commercial | DM | CM | BR | BRS |
| sire line | Broiler sire 2 | 75 | 0.43 | commercial | DM | CM | BR | BRS |
| Broiler sire 3 | 75 | 0.43 | commercial | DM | CM | BR | BRS | |
| Broiler sire 4 | 75 | 0.42 | commercial | DM | CM | BR | BRS | |
| Broiler sire 5 | 75 | 0.39 | commercial | DM | CM | BR | BRS | |
| Broiler sire 6 | 75 | 0.41 | commercial | DM | CM | BR | BRS | |
| Broiler sire 7 | 75 | 0.42 | commercial | DM | CM | BR | BRS | |
| Broiler sire 8 | 48 | 0.39 | commercial | DM | CM | BR | BRS | |
| Broiler | Broiler dam 1 | 75 | 0.36 | commercial | DM | CM | BR | BRD |
| dam line | Broiler dam 2 | 75 | 0.35 | commercial | DM | CM | BR | BRD |
| Broiler dam 3 | 75 | 0.40 | commercial | DM | CM | BR | BRD | |
| Broiler dam 4 | 75 | 0.41 | commercial | DM | CM | BR | BRD | |
| Broiler dam 5 | 75 | 0.42 | commercial | DM | CM | BR | BRD | |
| White | White layer 1 | 75 | 0.24 | commercial | DM | CM | LR | WL |
| egg-layer | White layer 2 | 75 | 0.27 | commercial | DM | CM | LR | WL |
| White layer 3 | 75 | 0.26 | commercial | DM | CM | LR | WL | |
| White layer 4 | 75 | 0.25 | commercial | DM | CM | LR | WL | |
| White layer 5 | 75 | 0.28 | commercial | DM | CM | LR | WL | |
| White layer 6 | 75 | 0.21 | commercial | DM | CM | LR | WL | |
| White layer 7 | 75 | 0.26 | commercial | DM | CM | LR | WL | |
| White layer 8 | 75 | 0.29 | commercial | DM | CM | LR | WL | |
| White layer 9 | 75 | 0.27 | commercial | DM | CM | LR | WL | |
| White layer 10 | 75 | 0.22 | commercial | DM | CM | LR | WL | |
| White layer 11 | 75 | 0.28 | commercial | DM | CM | LR | WL | |
| Brown | Brown layer 1 | 75 | 0.31 | commercial | DM | CM | LR | BL |
| egg-layer | Brown layer 2 | 75 | 0.32 | commercial | DM | CM | LR | BL |
| Brown layer 3 | 75 | 0.32 | commercial | DM | CM | LR | BL | |
| Brown layer 4 | 75 | 0.31 | commercial | DM | CM | LR | BL | |
| Brown layer 5 | 75 | 0.37 | commercial | DM | CM | LR | BL | |
| Brown layer 6 | 75 | 0.31 | commercial | DM | CM | LR | BL | |
| Brown layer 7 | 75 | 0.32 | commercial | DM | CM | LR | BL | |
| Brown layer 8 | 75 | 0.35 | commercial | DM | CM | LR | BL | |
| Brown layer 9 | 75 | 0.32 | commercial | DM | CM | LR | BL | |
| Brown layer 10 | 75 | 0.34 | commercial | DM | CM | LR | BL | |
| Brown layer 11 | 75 | 0.32 | commercial | DM | CM | LR | BL | |
| Dutch | Groninger mew bantam | 21 | 0.30 | the Netherlands | DM | NCM | DU | DCF |
| Groninger mew | 22 | 0.28 | the Netherlands | DM | NCM | DU | DCF | |
| Lakenvelder | 46 | 0.27 | the Netherlands | DM | NCM | DU | DCF | |
| Drente fowl | 13 | 0.33 | the Netherlands | DM | NCM | DU | DCF | |
| Assendelf fowl | 22 | 0.28 | the Netherlands | DM | NCM | DU | DCF | |
| Friesian fowl | 9 | 0.33 | the Netherlands | DM | NCM | DU | DCF | |
| Hamburgh | 50 | 0.30 | the Netherlands | DM | NCM | DU | DCF | |
| Polish bearded | 30 | 0.24 | the Netherlands | DM | NCM | DU | DPB | |
| Owl-bearded Dutch | 8 | 0.33 | the Netherlands | DM | NCM | DU | DPB | |
| Polish non-bearded | 49 | 0.16 | the Netherlands | DM | NCM | DU | DPB | |
| Breda fowl | 13 | 0.33 | the Netherlands | DM | NCM | DU | DPB | |
| Brabanter | 50 | 0.34 | the Netherlands | DM | NCM | DU | DPB | |
| Dutch bantam | 23 | 0.32 | the Netherlands | DM | NCM | DU | DPB | |
| Booted bantam | 12 | 0.32 | the Netherlands | DM | NCM | DU | DPB | |
| Barnevelder | 11 | 0.29 | the Netherlands | DM | NCM | DU | DNB | |
| Welsumer | 41 | 0.31 | the Netherlands | DM | NCM | DU | DNB | |
| North-Holland blue | 34 | 0.33 | the Netherlands | DM | NCM | DU | DNB | |
| Kraienkoppe | 48 | 0.32 | the Netherlands | DM | NCM | DU | DNB | |
| Schijndelaar | 12 | 0.33 | the Netherlands | DM | NCM | DU | DNB | |
| Chinese | Bian | 21 | 0.41 | China (Inner Mongolia) | DM | NCM | CH | |
| Chahua | 34 | 0.33 | China (Yunnan) | DM | NCM | CH | ||
| Chongren Ma | 40 | 0.35 | China (Jiangxi) | DM | NCM | CH | ||
| Henan Game | 25 | 0.33 | China (Henan) | DM | NCM | CH | ||
| Gushi | 29 | 0.36 | China (Henan) | DM | NCM | CH | ||
| Luyuan | 30 | 0.38 | China (Jiangsu) | DM | NCM | CH | ||
| Wenchang | 35 | 0.42 | China (Hainan) | DM | NCM | CH | ||
| Wahui | 32 | 0.41 | China (Jiangxi) | DM | NCM | CH | ||
| Xianju | 48 | 0.36 | China (Zhejiang) | DM | NCM | CH | ||
| Xiaoshan | 32 | 0.38 | China (Zhejiang) | DM | NCM | CH | ||
1
) Number of individuals in genotyped DNA pool.
2
) Average Hp based on all markers.
3
) Name of country (province) of origin.
4
) Breed groups for the breeds, DM = domesticated, NDM = non-domesticated, CM = commercial, NCM = non-commercial, BR = broiler, LR = layer, DU = Dutch, CH = Chinese, BRS = broiler sire line, BRD = broiler dam line, WL = white egg-layer, BL = brown egg-layer, DCF = Dutch countryfowls, DPB = Dutch polish and bearded, and DNB = Dutch new breeds.
5
) These breeds are part of the AvianDiv project [6]. G. g. gallus = Aviandiv102 and G. g. spadiceus = Aviandiv101.