Detection and molecular characterization of Canine Alphacoronavirus in free-roaming dogs, Bangladesh

Canine coronavirus (CCoV) is widespread among the dog population and causes gastro-intestinal disorders, and even fatal cases. As the zoonotic transmission of viruses from animals to humans has become a worldwide concern nowadays, it is necessary to screen free‐roaming dogs for their common pathogens due to their frequent interaction with humans. We conducted a cross‐sec-tional study to detect and characterize the known and novel Corona, Filo, Flavi, and Paramyxovi-ruses in free‐roaming dogs in Bangladesh. Between 2009–10 and 2016–17, we collected swab samples from 69 dogs from four districts of Bangladesh, tested using RT‐PCR and sequenced. None of the samples were positive for Filo, Flavi, and Paramyxoviruses. Only three samples (4.3%; 95%CI: 0.9–12.2) tested positive for Canine Coronavirus (CCoV). The CCoV strains identified were branched with strains of genotype CCoV‐II with distinct distances. They are closely related to CCoVs from the UK, China, and other CoVs isolated from different species, which suggests genetic recombination and interspecies transmission of CCoVs. These findings indicate that CCoV is circulating in dogs of Bangladesh. Hence, we recommend future studies on epidemiology and genetic characterization with full‐genome sequencing of emerging coronaviruses in companion animals in Bangladesh.