Complete genome sequences of porcine circovirus-like virus P1 mutants with 163 amino acids in the capsid protein
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ANNOTATED SEQUENCE RECORD
Complete genome sequences of porcine circovirus‑like virus P1 mutants with 163 amino acids in the capsid protein Libin Wen1,2 · Zhengyu Yu1,2 · Jianping Xie1,2 · Kongwang He1,2 Received: 17 June 2020 / Accepted: 16 August 2020 © Springer-Verlag GmbH Austria, part of Springer Nature 2020
Abstract Porcine circovirus-like virus P1 is a novel circovirus that was originally detected in China in 2005. Here, we report the genome sequences of P1 isolates JS02, JS03, and HuN06, each with 163 amino acids in its capsid protein. The complete genome of each of these isolates contains 649 nucleotides and has a T insertion at position 207. Phylogenetic analysis based on complete genome sequences of 18 P1 reference strains grouped 16 P1 sequences from this study into one cluster, with the JS02, JS03, and HuN06 isolates forming an independent clade. However, phylogenetic analysis based on amino acid sequences of the capsid protein showed that the JS02, JS03, and HuN06 strains were on the same large branch with PCV2, distinct from other P1 isolates. These results help us to understand the origin and evolution of P1.
Introduction The novel porcine circovirus-like virus P1 was identified in China and has a circular single-stranded DNA genome [1]. The P1 genome contains 648 nucleotides (nt) and it is similar to the porcine circovirus type 2 (PCV2) genome, with the exception of 16 consecutive extraneous nucleotides [1]. The P1 genome contains eight open reading frames (ORFs) of which the ORF1, located between nt positions 77 and 421, encodes the capsid (Cap) protein of the virus [2]. Recently, two different genome lengths of P1 virus were identified in China: one of 647 nt and the other of 648 nt, encoding Cap proteins of 95 and 121 amino acids (aa), respectively [3]. The P1 virus can infect pigs, cattle, goats, and rabbits [4], and may be associated with postweaning multisystemic wasting syndrome (PMWS), congenital tremors, and Handling Editor: Ana Cristina Bratanich. * Libin Wen [email protected] 1
Institute of Veterinary Medicine, Jiangsu Academy of Agricultural Sciences·Key Laboratory of Animal Diseases, Diagnostics, and Immunology, Ministry of Agriculture·Key Laboratory of Food Quality and Safety of Jiangsu Province-State Key Laboratory Breeding Base, Nanjing, China
Jiangsu Co‑innovation Center for Prevention and Control of Important Animal Infections Diseases and Zoonoses, Yangzhou University, Yangzhou, Jiangsu, China
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abortions [5–7]. The P1 virion is icosahedral, nonenveloped, and 25 nm in diameter [5]. Clinical signs resembling those of PMWS-like disease have been observed in pigs inoculated with P1 infectious DNA clones [5]. P1 virus can be detected in pigs at any growth stage. P1 DNA is more frequently detected in sick pigs than in healthy pigs, and the P1 viral load in sick pigs is significantly higher than in healthy pigs [8].
Materials and methods A total of 332 clinical serum samples were collected from pigs with clinical signs of PMWS (progressive weight loss, dyspnea, and anaem
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