Table 1.

Samples and their genomic diversity statistics

Breed	Abbreva	Origin	Ecotype	No.	N snp b	$P_N$ c	$H_o$ d	$\pi$ e	$r_{0.3}^2$(kb)f
Chinese pigs
Erhualian	EHL	Wuxi, Jiangsu	ECN	15	706,396	0.69	0.22	0.23	22.53
Jinhua	JH	Jinhua, Zhejiang	ECN	15	579,283	0.57	0.19	0.19	46.34
Jiangquhai	JQH	Taizhou, Jiangsu	ECN	17	673,930	0.66	0.22	0.21	36.10
Jiaxinghei	JXH	Jiaxing, Zhejiang	ECN	15	446,347	0.44	0.15	0.16	160.73
Lepinghua	LEP	Leping, Jiangxi	ECN	15	779,871	0.77	0.23	0.24	25.26
Mi	MI	Jintan, Jiangsu	ECN	15	555,469	0.55	0.19	0.18	46.44
Putianhei	PTH	Putian, Fujian	ECN	15	759,239	0.75	0.23	0.24	25.54
Shengxianhua	SHX	Shengxian, Zhejiang	ECN	15	730,131	0.72	0.21	0.23	24.79
Wannanhua	WNH	Wannan, Anhui	ECN	15	739,545	0.73	0.23	0.24	17.00
Yushanhei	YSH	Yushan, Jiangxi	ECN	15	755,333	0.74	0.24	0.24	17.85
Bamaxiang	BMX	Bama, Guangxi	SCN	15	686,959	0.68	0.21	0.23	24.46
Congjiangxinag	CJX	Congjiang, Guizhou	SCN	15	647,202	0.64	0.20	0.22	37.01
Dahuabai	DHB	Xingfeng, Guangdong	SCN	15	656,012	0.65	0.22	0.22	44.42
Diannan	DN	Dehong, Yunnan	SCN	15	845,070	0.83	0.23	0.27	10.80
Dongshanxiang	DSX	Quanzhou, Guangxi	SCN	15	663,112	0.65	0.21	0.22	27.09
Lantang	LT	Heyuan, Guangdong	SCN	15	677,088	0.67	0.22	0.22	27.53
Luchuan	LUC	Luchuan, Guangxi	SCN	15	651,926	0.64	0.20	0.21	26.39
Huai (Fujian)	S‐HUAI	Longyan, Fujian	SCN	15	712,552	0.70	0.21	0.22	27.22
Tunchang	TUNC	Tunchang, Hainan	SCN	15	793,669	0.78	0.22	0.24	16.97
Wuzhishan	WZS	Wuzhishan, Hainan	SCN	15	866,526	0.85	0.25	0.28	9.39
Daweizi	DWZ	Changsha, Hunan	CCN	15	842,014	0.83	0.23	0.27	10.80
Ningxiang	NX	Ningxiang, Hunan	CCN	15	775,095	0.76	0.23	0.25	15.14
Saziling	SZL	Xiangtan, Hunan	CCN	15	833,079	0.82	0.23	0.27	9.44
Tongcheng	TC	Tongcheng, Hubei	CCN	19	769,237	0.76	0.23	0.25	14.11
Xiangxihei	XXH	Yuanjiang, Hunan	CCN	15	823,924	0.81	0.26	0.28	21.36
Bamei	BAM	Huzhu, Shannxi	SWCN	15	808,656	0.80	0.24	0.26	17.66
Baoshan	BS	Baoshan, Yunnan	SWCN	9	824,475	0.81	0.27	0.29	9.87
Dahe	DH	Fuyuan, Yunnan	SWCN	10	781,705	0.77	0.25	0.26	11.79
Tibetan (Gansu)	GST	Hezuo, Gansu	SWCN	17	885,966	0.87	0.24	0.27	11.56
Hangjianghei	HJH	Hanzhong, Shaanxi	SWCN	15	775,749	0.76	0.26	0.25	14.26
Mingguang Xiaoer	MG	Tengchong, Yunnan	SWCN	13	892,523	0.88	0.26	0.29	8.73
Neijiang	NJ	Neijiang, Sichuan	SWCN	9	634,626	0.62	0.20	0.22	24.75
Qingping	QP	Dangyang, Hubei	SWCN	15	866,684	0.85	0.26	0.27	12.95
Rongchang	RC	Rongchang, Chongqing	SWCN	15	746,372	0.73	0.23	0.25	13.34
Saba	SB	Chuxiong, Yunnan	SWCN	15	792,654	0.78	0.26	0.27	10.37
Hetao Daer	HT	Wuyuan, Inner Mongolia	NCN	15	854,014	0.84	0.28	0.28	13.08
Laiwu	LWU	Laiwu, Shandong	NCN	15	774,599	0.76	0.24	0.25	22.61
Mashen	MAS	Datong, Shanxi	NCN	15	699,126	0.69	0.24	0.23	28.31
Min	MIN	Lanxi, Heilongjiang	NCN	15	789,547	0.78	0.26	0.27	21.40
Huai (Jiangsu)	N‐HUAI	Donghai, Jiangsu	NCN	15	757,704	0.74	0.25	0.24	22.45
Wei	WEI	Xuancheng, Anhui	NCN	15	748,846	0.74	0.24	0.24	28.88
Lichahei	LIC	Jiaohe, Shandong	Hybrid	15	907,509	0.89	0.30	0.32	14.43
Sutai	SUT	Suzhou, Jiangsu	Hybrid	15	861,324	0.85	0.28	0.29	21.56
Wild boar	WB	Jiangxi	—	14	807,875	0.79	0.24	0.27	5.76
European pigs
Duroc	DU	U.S.A	—	15	611,487	0.60	0.18	0.19	62.79
Landrace	LR	Denmark	—	15	736,241	0.72	0.23	0.24	34.20
Large White	LW	U.K	—	15	680,676	0.67	0.23	0.23	53.56
Pietrain	PI	Belgium	—	16	680,833	0.67	0.22	0.22	49.38

Abbreviations: CCN, Central China; ECN, East China; NCN, North China; SCN, South China, SWCN, Southwest China.

^aAbbreviations of breeds.

^bThe number of qualified SNPs after filtering process.

^cThe proportion of polymorphic markers.

^dObserved heterozygosity.

^eNucleotide diversity.

^fLinkage disequilibrium values of r ² = .3.