Abstract: In order to study the prevalence and genetic variation of Torque teno sus virus（TTSuV）, lymph nodes, lung and serum of suspected TTSuV positive swine collected from a large-scale pig farm in Nanyang City, Henan Province were detected by PCR method. The complete genome sequence determination, homology, genetic evolution and gene recombination of TTSuV1 positive samples were analyzed. The results showed that two TTSuV1 strains were successfully identified from the samples, and their genome sequences were 2 906 bp and 2 920 bp in length, respectively. They were named HeN1-A9 and HeN1-A11, respectively. The homology between the two strains was 68.8%-96.0% with the reference strain of TTSuV1 in GenBank, 46.8%-47.6% with the reference strain of TTSuVK2 in GenBank, and the homology between the two strains was 86.4%. Genetic evolution tree analysis based on the whole genome sequence of TTSuV1 showed that both strains belonged to TTSuV1 c subtype. While the genetic evolutionary tree analysis based on the third sequence of TTSuV1 showed that the two virus strains belonged to the TTSuV1 b subtype. Both strains were recombinant strains, with the Spanish G21 strain（GU570201） as the parental strain, and LNJZ strain（KT968712） from China provided recombination fragments. The recombination sites were located at 2 195-2 530 bp and 2 147-2 650 bp in the genome, respectively. The recombination region was the overlapping part of ORF1 and ORF3. It indicated that a new recombinant TTSuV strain had appeared in China.