【Objective】 To study the natural recombination，cross host transmission and prevalence of feline panleukopenia virus（FPLV）in Guangzhou area.【Method】Cells were isolated from stool samples of cats seemingly infected with FPLV，genome DNAs were extracted from positive samples，and complete virus genome sequences were amplified by PCR and were compared with relevant reference sequences from GenBank using genetic evolution analysis. The major amino acid sites were analyzed for differences between VP2 gene and NS1 gene. 【Result】Two FPLV strains were successfully isolated and the complete genome sequences of FPLV were obtained. The genetic evolution analysis indicated that FPLV-GZ01 and FPLV-GZ02 which were isolated from Guangzhou area belonged to the same branch with the other isolated strains FPLV-XJ1 and FPLV-HRB, and implied FPLV-GZ01 and FPLV-GZ02 evolved from FPLV-XJ01. The NS1 gene phylogenetic analysis demonstrated that FPLV might have recombined with CPV-447. Analysis of major amino acid sites indicated that FPLV was more conservative than CPV in the genetic variation of the VP2 gene. FPLV-GZ01 and FPLV-GZ02 had different degrees of mutation in the amino acid sites of the NS1 gene. 【Conclusion】The feline panleukopenia viruses isolated from Guangzhou area have been still recombining and evolving.