Distribution of the number of SNPs in each haplotype block along the genome.

<p>*denotes mean number of SNPs.</p

Distributions of SNPs after quality control and the average distance between adjacent SNPs on each chromosome.

<p>SNP, single nucleotide polymorphisms; SSC, Sus scrofa chromosome</p><p>¹The physical size is based on Sus scrofa Build 9 (<a href="http://www.ensembl.org/Sus_scrofa/Info/Index" target="_blank">http://www.ensembl.org/Sus_scrofa/Info/Index</a>)</p><p>²The linkage map is based on USDA-MARC v2 (A) (<a href="http://www.thearkdb.org/" target="_blank">http://www.thearkdb.org/</a>).</p><p>Distributions of SNPs after quality control and the average distance between adjacent SNPs on each chromosome.</p

IBS similarity matrix.

<p>IBS similarity matrix.</p

Distribution of haplotype length along the genome.

<p>*denotes mean length.</p

Genome-wide significant SNPs and closest genes for D100 and FCR traits.

<p>SNP, single nucleotide polymorphisms; D100, days to 100 KG; FCR, feed conversion ratio; WT1, Wilms’ tumor 1; FBXO3, F-box only protein 3; DOCK7, Dedicator of cytokinesis 7; TBX15, T-box 15; IVL, involucrin; MAP2, microtubule-associated protein 2</p><p>¹Sus scrofa chromosome</p><p>²Derived from the current porcine genome sequence assembly (Sscrofa10.2) (<a href="http://www.ensembl.org/Sus_scrofa/Info/Index" target="_blank">http://www.ensembl.org/Sus_scrofa/Info/Index</a>)</p><p>+/-: The SNP located in the upstream/downstream of the nearest gene; NA: not assigned.</p><p>Genome-wide significant SNPs and closest genes for D100 and FCR traits.</p

Haplotype blocks for significant SNPs.

<p>The black line indicated the identified blocks. 6A: A haplotype block composed of suggestive D100 SNPs located in SSC8; 6B: A haplotype block composed of suggestive FCR SNPs located in SSC15; 6C: A haplotype block composed of suggestive FCR SNPs located in SSC16; 6D: A haplotype block composed of suggestive ADG SNPs located in SSC10.</p

Manhattan plots of genome-wide association studies for three production traits in male Duroc pigs.

<p>The inserted quantile–quantile (Q–Q) plots show the observed versus expected log p-values.</p