DOI: 10.5061/dryad.s4mw6m9k6
title: Genomic diversity and selection in the racing greyhound of Great Britain

description: The Greyhound, originally used for hunting, has been selected for
 competitive racing. Here, we present the first comprehensive population
 genomic analysis of racing Greyhounds (n=54) in the context of 14 other
 dog breeds (n=352) using 473K SNP genotypes. Inbreeding in the Greyhound
 (FROH = 0.47) was higher than most other breeds, reflecting positive
 selection for athletic traits but also raising concerns about potential
 health impacts. Although very long runs of homozygosity (ROH) were less
 common in the Greyhound than some breeds, large ROH islands suggest that
 selection for advantageous traits is relatively recent. Genomic regions
 under strong selection overlapped with ROH islands on CFA2, CFA4, CFA9,
 CFA10, CFA25, and CFA28, and contained candidate genes with marked allele
 frequency differences relative to other breeds. Notably, the strongest
 selection signal on CFA25 overlapped with the longest ROH island,
 encompassing the SLC46A3, POLR1D, FLT3, SLC7A1, MTUS2, LHFPL6, USPL1, and
 USP12 genes that have biological functions in vision, craniofacial
 morphology, neurological adaptability, and skeletal, cardiac, and muscle
 biology, implicating them in shaping the Greyhound’s morphological and
 athletic phenotype. This study provides insights into the population
 genetic structure and selection pressures in the racing Greyhound,
 identifying key genomic regions and candidate genes that may underlie
 racing capabilities. Importantly for animal welfare, these results provide
 a framework for managing inbreeding to optimise health and performance for
 future generations.
description: # Genomic diversity and selection in the racing greyhound of Great Britain
 Han, H., T.A. Blackett, M.L.H. Campbell, A.R. Holtby, B.A. McGivney, E.W.
 Hill Dataset DOI:
 [10.5061/dryad.s4mw6m9k6](https://doi.org/10.5061/dryad.s4mw6m9k6)
 **Dataset** This repository contains genotype datasets in **PLINK binary
 format** (.bed, .bim, .fam). Two datasets are provided: 1.
 **69_GB_Greys_GP99** 2. **Combined_Final** Each dataset consists of three
 coordinated files sharing the same filename prefix: \.bed  
 # Binary genotype file \.bim   # Variant information file
 \.fam   # Sample information file These three files must
 always be used together. * The .bed file contains the genotype matrix in
 compressed binary format and **cannot be opened as plain text**. * The
 .bim and .fam files contain variant and sample metadata, respectively, and
 **can be opened as plain text** using a text editor. The .bim file
 describes the variants (e.g., chromosome, position, alleles), and the .fam
 file describes the individuals (e.g., sample ID, sex, phenotype). The
 order of variants in .bim and individuals in .fam corresponds directly to
 the genotype data stored in .bed. Detailed specifications of the PLINK
 binary file format are available at:\
 [https://www.cog-genomics.org/plink/1.9/input#bed](https://www.cog-genomics.org/plink/1.9/input#bed) **Using PLINK** Basic summary statistics: Plink --dog --bfile 69_GB_Greys_GP99 --freq plink --dog --bfile Combined_Final –missing **File list** * 69_GB_Greys_GP99.bed * 69_GB_Greys_GP99.bim * 69_GB_Greys_GP99.fam * Combined_Final.bed * Combined_Final.bim * Combined_Final.fam **File descriptions** **69_GB_Greys_GP99:** * 69 Great Britain racing greyhounds * Approximately 34 million SNPs * Derived from imputed low-pass whole-genome sequencing after quality control for genotype probability (GP) scores &gt; 0.99 * Imputed genotypes converted to hard genotype calls for PLINK export * This dataset represents high-density genome-wide variation for Great Britain (GB) racing greyhounds and was generated to enable comparative population genomics analyses through  merging with the other dog breeds datasets **Combined_Final:** * 547,156 SNPs * Generated after merging: * 69_GB_Greys_GP99 * Public dog dataset from **Morrill et al., 2022** * SNP harmonization, filtering, and quality control were applied * This dataset is prepared for population genetic and comparative analyses.