Near-complete genome of SARS-CoV-2 delta (AY.3) variant identified in a dog in Kansas, USA

Here, we document the detection and sequencing of an AY.3 virus from a 12-year-old Collie living with a SARS-CoV-2 infected owner. The animal was admitted to the Kansas State Veterinary Health Center (KSU VHC) for unrelated symptoms and tested positive for SARS-CoV-2 by qRT-PCR two days post-admission. Whole genome sequencing, phylogenetic and subconsenus analyses were performed on the sample confirming transmission from human to animal. These results suggest AY.3 transmission from humans to dogs can occur, potentially affecting the animal at high titers and emphasizes the importance of VOC studies.