Whole-genome variants resource of 298 Saanen dairy goats

The Saanen breeds are often used as terminal sires for hybridization and play an important role in the global dairy food industry. However, there is still a lack of genomics information on the Saanen dairy goats. Whole-genome sequencing offers a promising approach to identify genetic markers associated with economic traits and discover new candidate genes. This can effectively utilize genetic resources to accelerate breeding processes and improve lactation performance in Saanen dairy goats. In this study, we present the genomes of 298 Saanen dairy goats. Through rigorous sequencing and quality control, we achieved an average sequencing depth of 14.6X, with 92.3% of high-quality (Q30 > 90%) data and an average mapping ratio of 99.9%, indicating reliable results. By comparing our data to a reference genome of Saanen dairy goats, we identified14.59 million single nucleotide polymorphisms (SNPs) and 1.34 million insertions-deletions (InDels). This dataset significantly contributes to enriching public databases in dairy goats and provides valuable resources for studying genetic diversity, improving breeds, and developing new varieties.