Background: As the number of households raising companion dogs increases, the pet genetic analysis market also continues to grow. However, most studies have focused on specific purposes or native breeds. This study aimed to collect genomic data through single nucleotide polymorphism (SNP) chip analysis of companion dogs in South Korea and perform genetic diversity analysis and SNP annotation. Methods: We collected samples from 95 dogs belonging to 26 breeds, including mixed breeds, in South Korea. The SNP genotypes were obtained for each sample using an Axiom™ Canine HD Array. Quality control (QC) was performed to enhance the accuracy of the analysis. A genetic diversity analysis was performed for each SNP. Results: QC initially selected SNPs, and after excluding non-diverse ones, 621,672 SNPs were identified. Genetic diversity analysis revealed minor allele frequencies, polymorphism information content, expected heterozygosity, and observed heterozygosity values of 0.220, 0.244, 0.301, and 0.261, respectively. The SNP annotation indicated that most variations had an uncertain or minimal impact on gene function. However, approximately 16,000 non-synonymous SNPs (nsSNPs) have been found to significantly alter gene function or affect exons by changing translated amino acids. Conclusions: This study obtained data on SNP genetic diversity and functional SNPs in companion dogs raised in South Korea. The results suggest that establishing an SNP set for individual identification could enable a gene-based registration system. Furthermore, identifying and researching nsSNPs related to behavior and diseases could improve dog care and prevent abandonment.

ABSTRACT
INTRODUCTION
MATERIALS AND METHODS
    gDNA extraction and genotyping
    Genomic information quality control (QC)
    Data analysis and SNP annotation
RESULTS
    SNP QC result
    Genetic diversity
    SNP annotation
DISCUSSION
CONCLUSION
REFERENCES

• Gwang Hyeon Lee(Department of Biotechnology, Hankyong National University, Anseong 17579, Korea, Hankyong and Genetics, Anseong 17579, Korea)
• Jae Don Oh(Department of Biotechnology, Hankyong National University, Anseong 17579, Korea, Gyeonggi Regional Research Center, Hankyong National University, Anseong 17579, Korea, Genomic Information Center, Hankyong National University, Anseong 17579, Korea)
• Hong Sik Kong(Department of Biotechnology, Hankyong National University, Anseong 17579, Korea, Hankyong and Genetics, Anseong 17579, Korea, Gyeonggi Regional Research Center, Hankyong National University, Anseong 17579, Korea, Genomic Information Center, Hankyong National University, Anseong 17579, Korea) Corresponding author