Applications and efficiencies of the first cat 63K DNA array

Area of Science:

• Genomics
• Animal Genetics
• Molecular Biology

Background:

• High-throughput SNP genotyping technologies enhance genetic trait analysis in various species, including cats.
• Previous genetic studies in cats have been limited by available genotyping resources.

Purpose of the Study:

• To describe the properties and utility of a feline 62,897 SNP Illumina Infinium iSelect DNA array.
• To evaluate the accuracy, efficiency, and population-level applications of the feline SNP array.
• To support genetic dissection of traits and monogenic health studies in cats.

Main Methods:

• Genotyping of over 2,000 feline samples (41 breeds, random population, 4 wild felids) using the 62,897 SNP array.
• Evaluation of marker accuracy, genotyping efficiency, and Mendelian errors.
• Population structure and genome-wide linkage disequilibrium analyses.

Main Results:

• The feline SNP array demonstrated high accuracy with low rates of genotyping errors (1%) and Mendelian errors (0.35%).
• Average marker distance was 37,741 Kb, with minor allele frequency (MAF) of 0.21 in domestic cats.
• Population structure analysis revealed a Western to Eastern continuum in cat breeds; linkage disequilibrium varied between domestic cats (50-1,500 Kb) and European wildcats (750 Kb).

Conclusions:

• The feline SNP array is an efficient and accurate tool for genetic studies in cats.
• The developed cat genotype dataset advances understanding of feline breed diversity and population structure.
• This resource will facilitate future monogenic health studies and trait association mapping across feline populations.