SNP data for Swedish domestic pigs and wild boar
Data files
Mar 30, 2026 version files 20.80 MB
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hampshire_b.bed
376.90 KB
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hampshire_b.bim
2.02 MB
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hampshire_b.fam
678 B
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lantras_b.bed
642.04 KB
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lantras_b.bim
2.07 MB
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lantras_b.fam
730 B
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linderod_b.bed
244.89 KB
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linderod_b.bim
1.97 MB
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linderod_b.fam
299 B
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README.md
3.17 KB
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unclear_b.bed
122.40 KB
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unclear_b.bim
1.97 MB
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unclear_b.fam
154 B
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wild_boar_b.bed
744.67 KB
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wild_boar_b.bim
1.84 MB
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wild_boar_b.fam
994 B
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yorkshire_b.bed
2.07 MB
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yorkshire_b.bim
1.96 MB
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yorkshire_b.fam
2.83 KB
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yorkshire_cross_b.bed
230.74 KB
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yorkshire_cross_b.bim
1.86 MB
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yorkshire_cross_b.fam
247 B
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yorkshire_landrace_b.bed
631.95 KB
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yorkshire_landrace_b.bim
2.04 MB
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yorkshire_landrace_b.fam
722 B
Abstract
Wild boar (Sus scrofa) had been extinct in Sweden since the 17th century when it reemerged after escapees from enclosures in the 1970s and 1980s. This study focused on investigating the genetic diversity and origin of the Swedish wild boars. We generated SNP chip genotypes for wild boar populations from four Swedish regions (Skåne, Blekinge, Södermanlad, and Uppland) as well as from Swedish domestic pigs. The genotyping was done with the GeneSeek Genomic profiler Porcine 80K chip. Our results show that the investigated Swedish wild boar populations are genetically distinct from Swedish domestic pigs. We also show that the wild boar populations from Skåne and Blekinge are genetically very similar.
Dataset DOI: 10.5061/dryad.xwdbrv1sg
Description of the data and file structure
SNP chip genotypes for Swedish domestic pigs and wild boar populations from four Swedish regions. The data is in the PLINK binary format with one set of three files for each population (one fam file one bim file and one bed file). All three files for each population need to be used together with the software PLINK. The purebred domestic pig breeds included are: Hampshire (a breed often used as the father of pigs in production herds in Sweden), Yorkshire (this breed is sometimes called Large White in the scientific literature, one of the breeds used to create the mothers of piglets in commercial pig production in Sweden), Landrace (the other breed used in crosses to create the mothers of piglets in commercial pig production in Sweden), Linderöd (a Swedish heritage breed used for small scale farming). The other domestic pig populations genotyped here are crosses between breeds. All domestic pigs genotyped here are from herds in Sweden.
The genotyping was done with the GeneSeek Genomic profiler Porcine 80K chip. The genotypes provided here are the samples and markers that remained after quality control.
Files and variables
File: hampshire_b.bed
File: hampshire_b.fam
File: hampshire_b.bim
Description: files with data from the domestic breed Hampshire.
File: yorkshire_landrace_b.bed
File: yorkshire_landrace_b.fam
File: yorkshire_landrace_b.bim
Description: Files with data from crosses between Landrace and Yorkshire.
File: linderod_b.bed
File: linderod_b.fam
File: linderod_b.bim
Description: Files with data from the domestic breed Linderöd.
File: yorkshire_cross_b.bed
File: yorkshire_cross_b.fam
File: yorkshire_cross_b.bim
Description: Files with data from crosses with Yorkshire.
File: lantras_b.bed
File: lantras_b.fam
File: lantras_b.bim
Description: Files with data from the domestic breed Landrace (Lantras in Swedish).
File: wild_boar_b.bed
File: wild_boar_b.fam
File: wild_boar_b.bim
Description: Files with data from Swedish wild boar. The sample IDs starting with the letter J are from the region Blekinge. The sample IDs starting with the letter R are from the region Södermanland. The sample IDs starting with the letter W are from the region Uppland. The sample IDs starting with the letters WA are from the region Skåne.
File: yorkshire_b.fam
File: yorkshire_b.bed
File: yorkshire_b.bim
Description: Files with data from the domestic breed Yorkshire.
File: unclear_b.bed
File: unclear_b.fam
File: unclear_b.bim
Description: Files with data from undefined crosses.
Code/software
The data files are in one of the formats that can be used with the program PLINK. The software and the manual can be found here https://www.cog-genomics.org/plink/1.9/