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Table 2 The top 15 SNVs ranked by significance (p value) for the GWAS analysis of Salmonella shedding from weaning 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
rs324041697 2 14,596,159 intron PTPRJ 2: 14549537–14,726,715 6.6 × 10−6
rs81476180 6 136,607,113 intergenic ST6GALNAC3 6: 136633437–137,201,213 9.9 × 10−6
rs81259485 16 3,248,143 intron DNAH5 16: 3116189–3,364,956 6.6 × 10− 5
rs81458700 16 36,370,940 intergenic ACTBL2 16: 36470503–36,471,633 9.9 × 10− 5
rs80889714 4 104,920,198 intron CASQ2 4: 104918501–104,982,852 1.0 × 10− 4
rs81346930 17 44,032,145 intergenic LPIN3 17: 43993710–44,006,188 1.2 × 10−4
rs330624049 15 90,476,754 intergenic ENSSSCG00000034554 15: 90309385–90,309,702 1.2 × 10−4
rs81403742 8 117,467,555 intergenic TACR3 8: 117661792–117,721,591 1.2 × 10−4
rs80947769 7 19,456,263 upstream KIAA0319 7: 19386111–19,451,666 1.2 × 10−4
rs339478050 1 188,917,080 intron RTN1 1: 188704139–188,926,054 1.9 × 10−4
rs81237965 3 3,693,136 intron RADIL 3: 3618093–313,033 1.9 × 10−4
rs81344023 6 153,022,279 intron FGGY 6: 152754730–153,213,125 2.1 × 10−4
rs81349902 1 188,903,236 intron RTN1 1: 188704139–188,926,054 2.3 × 10−4
rs318950111 3 43,561,730 downstream ZNF169 3: 43513397–43,558,613 2.5 × 10−4
rs81452423 15 32,935,177 intergenic DLGAP2 15: 33173120–33,264,155 3.0 × 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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