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Table 4 Top 15 SNVs ranked by significance for the GWAS analysis of Salmonella seropositivity from end of nursery to end of finisher

From: Identification of single-nucleotide variants associated with susceptibility to Salmonella in pigs using a genome-wide association approach

SNV ID SSCa Location (bp)b Variant type Genec Gene locationb p-valued
rs81241392 17 28,616,449 intron RALGAPA2 17: 28394827–28,679,538 7.6 × 10− 5
rs323410857 1 201,886,813 intron HACD4 1: 201886332–201,910,664 8.2 × 10− 5
rs81459294 16 1,133,302 intron CTNND2 16: 508245–1,521,550 1.0 × 10− 4
rs80868434 7 30,048,501 intergenic MLN 7: 30003291–30,013,128 1.2 × 10− 4
rs80849858 1 77,472,299 intergenic TRAF3IP2 1: 77484191–77,523,887 1.2 × 10− 4
rs336677749 17 28,600,733 intron RALGAPA2 17: 28394827–28,679,538 1.3 × 10− 4
rs330020208 6 89,629,789 intron PHC2 6: 89574035–89,685,278 1.3 × 10− 4
rs81370878 3 56,211,114 intergenic VWA3B 3: 55950591–56,171,826 1.4 × 10− 4
rs323186575 6 91,486,462 intron ZMYM4 6: 91455778–91,623,818 1.4 × 10−4
rs80970182 17 28,210,436 intron CFAP61 17: 28111660–28,372,543 1.4 × 10−4
rs80930168 1 77,338,889 intron REV3L 1: 77195253–77,401,051 1.9 × 10−4
rs80801203 17 28,465,351 intron RALGAPA2 17: 28394827–28,679,538 2.1 × 10−4
rs338087144 14 77,361,157 intergenic KAT6B 14: 77404443–77,597,673 2.4 × 10−4
rs81241392 17 28,616,449 intron RALGAPA2 17: 28394827–28,679,538 2.6 × 10−4
rs81290595 15 6,253,250 intron ENSSSCG00000036561 15: 6222423–6,266,771 2.8 × 10−4
  1. aSSC = Sus scrofa chromosome
  2. bLocation in Ensembl Sscrofa11.1
  3. cIf the variant was intergenic, the closest gene within a 1 Mbp window was indicated
  4. dSNVs under the suggestive significance threshold of 1.0 × 10−5 in bold [39]
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