Molecular Screening and Characterization of Canine Coronavirus Types I and II Strains from Domestic Dogs in Southern Italy, 2019–2021

Figure 3

Maximum-likelihood tree based on the 5^′-end of the S gene sequences (1074 nt) of CCoV-I strains analysed in this study (indicated by black dots) and reference CCoV strain. Groups including only CCoV-IIa (CCoV/NTU336/F/2008, GQ477367; 1-71, JQ404409; K378, KC175340; S378, KC175341; INSAVC, D13096; BGF10, AY342160; CB/05, DQ112226; TN-449, JQ404410), CCoV-IIb (UCD-1, AF116248; 430/07, EU924790; 174/06, EU856362; 341/05, EU856361; 119/08, EU924791), FCoV-I (Black, EU186072; UCD1, AB088222), FCoV-II (79-1146, NC007025; WSU 79-1683, JN634064), feline enteric coronavirus (79-1683, X80799), and TGEV (Purdue, DQ811789; TS, DQ201447) reference sequences are collapsed as indicated. The phylogenetic tree was built with the maximum-likelihood method and general time reversible model with a discrete gamma distribution (bootstrap 1,000 replicates; bootstrap values greater than 60 are shown). Reference CCoV-I sequences are indicated with strain name, country and year of collection, and accession number.