BMC Genomic Data

Table 3 Genetic diversity, alternative inbreeding measures and characterization of runs of homozygosity in Canadian pig breeds

From: Genetic diversity, extent of linkage disequilibrium and persistence of gametic phase in Canadian pigs

Parameter		Breed
		Duroc	Landrace	Yorkshire	Crossbred
H_E ± SD		0.37 ± 0.12	0.38 ± 0.12	0.37 ± 0.12	0.37 ± 0.11
H_O ± SD		0.36 ± 0.12	0.37 ± 0.12	0.36 ± 0.11	0.42 ± 0.14
D_ST		0.30	0.31	0.30	0.28
MAF ± SD		0.28 ± 0.13	0.29 ± 0.13	0.28 ± 0.13	0.29 ± 0.13
Inbreeding coefficients
F_PED	mean ± SD	0.07 ± 0.03	0.04 ± 0.04	0.05 ± 0.04	0.00 ± 0.00
	min	0.00	0.00	0.00	0.00
	max	0.27	0.33	0.29	0.00
F_ROH	mean ± SD	0.03 ± 0.01	0.05 ± 0.02	0.05 ± 0.02	0.01 ± 0.01
	min	0.01	0.01	0.00	0.00
	max	0.06	0.14	0.18	0.07
F_EH	mean ± SD	0.04 ± 0.06	0.03 ± 0.06	0.03 ± 0.06	−0.10 ± 0.04
	min	−0.23	−0.17	−0.31	−0.17
	max	0.37	0.33	0.32	0.16
F_VR	mean ± SD	0.04 ± 0.08	0.03 ± 0.07	0.03 ± 0.08	−0.11 ± 0.09
	min	−0.12	−0.13	−0.12	−0.19
	max	0.38	0.32	0.33	0.03
Runs of homozygosity
NSEG	mean ± SD	16.72 ± 3.66	23.19 ± 6.80	25.88 ± 5.71	8.25 ± 3.92
	min	2	0	0	2
	max	28	45	45	38
KB	mean ± SD	67,468 ± 18,889	112,729 ± 46,956	119,948 ± 42,314	26,519 ± 17,652
	min	5,393	0	0	5,050
	max	138,427	353,376	445,224	178,955
KB_AVG	mean ± SD	4,033 ± 745	4,808 ± 1,519	4,584 ± 1,269	3,204 ± 1,047
	min	2,573	0	0	2,262
	max	9,345	13,110	13,492	12,194
NSNP		91.24	113.80	108.60	76.38
Density		43.68	41.67	41.59	41.72

F _EH, F _VR, F _ROH and F _PED inbreeding coefficients based on excess of homozygosity, VanRaden, runs of homozygosity and pedigree, respectively, NSEG Average number of segments for the individual declared homozygous, KB Average of total number of kb contained within homozygous segments, KB _AVER Average size of homozygous segments, NSNP average number of SNPs in run, min minimum, max maximum; SD standard deviation

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