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. 2023 Mar 5;55:1–16. doi: 10.1016/j.jare.2023.02.016

Fig. 2.

Fig. 2

Population genetic diversity and demographic history inference. (A) PCA plot with 21 chicken breeds/lines. Different shapes indicate purebred broiler, local chicken, and GGS, respectively. (B) Population structure analysis of three types of chickens, where number of ancestral clusters were set from K = 2–4, the comprehensive result was shown in Figure S3. (C) Neighbor-joining tree constructed by genetic distance (1-IBS method) among 21 chicken breeds/lines. (D) LD decay in purebred broilers, typical local chickens, and GGS. (E) ROH length and genome coverage for 21 chicken breeds/lines. The size of each dot indicated the ROH number of corresponding chicken breed/line. BRp: broiler paternal line, BJY: Beijing You chicken, CH: Chahua chicken, DWS: Daweishan mini chicken, GGS: Gallus gallus spadiceus, HBM: Huaibei Ma chicken, HT: Hetian chicken, HX: Huxu chicken, JH: Jianghan chicken, JXY: Jingxing Yellow chicken, ND: Ningdu chicken, PC: Piao chicken, SH: Sanhuang chicken, TBC: Tibetan chicken, WC: Wenchang chicken, WD: Wuding chicken, XH: Xianghuang chicken, YB: Yuanbao chicken, ZY: Zhengyang chicken. (For interpretation of the references to color in this figure legend, the reader is referred to the web version of this article.)