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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
HE ± SD 0.37 ± 0.12 0.38 ± 0.12 0.37 ± 0.12 0.37 ± 0.11
HO ± SD 0.36 ± 0.12 0.37 ± 0.12 0.36 ± 0.11 0.42 ± 0.14
DST 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
 FPED 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
 FROH 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
 FEH 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
 FVR 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
 KBAVG 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
  1. 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