title: Virus isolate from carp: genetic characterization reveals a novel picornavirus with two aphthovirus 2A-like sequences.
abstract: Picornaviruses have been isolated from a variety of hosts, mainly mammals and birds. Here, we describe the sequence analysis of carp picornavirus 1 (CPV-1) F37/06 that was isolated from an organ pool (heart, brain, liver) of a common carp (Cyprinus carpio). This carp perished after an accidental discharge of liquid manure into a fish pond and presented without obvious clinical symptoms. Experimental intraperitoneal infection of young carp with CPV-1 revealed no clinical signs, but the virus was re-isolated from various organs. Sequence analysis of almost the complete genome (7632 nt excluding the poly-A tract) revealed a novel picornavirus clade. In phylogenetic trees, the polymerase sequence clusters with parechoviruses, duck hepatitis A virus, eel picornavirus and aquamavirus A. The ORF includes 6807 nt and encodes a polyprotein of 2269 amino acids. CPV-1 has a genome layout like that of picornaviruses except for the presence of two aphthovirus 2A-like NPGP sequence motifs: VPg+5'UTR[1AB-1C-1D-2A1(npgp)/2A2(npgp)-2B-2C(ATPase)/3A-3B(VPg)-3C(pro)-3D(pol)]3'UTR-poly-A. 2A1(npgp) and 2A2(npgp) are separated by 133 amino acids. The proteins 2A2(npgp), 2B, 3A and 3B(VPg) have no significant similarity to the corresponding proteins of other picornaviruses. Amino acid identities of the orthologous proteins P1, 2C, 3C(pro) and 3D(pol) range from 16.4 to 40.8 % in the eel picornavirus/CPV-1 comparison. 3D(pol) shows the closest similarity to eel picornavirus, with an amino acid identity of 40.8 %, followed by human parechovirus (36.5 %), duck hepatitis A virus (32.7 %) and swine pasivirus (29.3 %). Both the unique genome organization and low sequence similarity support the assignment of CPV-1 to a novel picornavirus species within a novel genus.
authors: Department of Virology and Antiviral Therapy, Jena University Hospital, Friedrich Schiller University, Hans Knoell Str. 2, 07745 Jena, Germany.
authors: Jeannette
authors: J
authors: Lange
authors: Genome Analysis, Leibniz Institute for Age Research, Fritz Lipmann Institute, Beutenbergstrasse 11, 07745 Jena, Germany.
authors: Marco
authors: M
authors: Groth
authors: Institute of Infectiology, Friedrich Loeffler Institute, Federal Research Institute for Animal Health, Südufer 10, 17493 Greifswald-Insel Riems, Germany.
authors: Dieter
authors: D
authors: Fichtner
authors: Institute of Infectiology, Friedrich Loeffler Institute, Federal Research Institute for Animal Health, Südufer 10, 17493 Greifswald-Insel Riems, Germany.
authors: Harald
authors: H
authors: Granzow
authors: Lower Saxony State Office for Consumer Protection and Food Safety, Eintrachtweg 17, 30173 Hannover, Germany.
authors: Barbara
authors: B
authors: Keller
authors: Institute of Medical Statistics, Computer Sciences and Documentation, Jena University Hospital, Friedrich Schiller University Jena, 07740 Jena, Germany.
authors: Mario
authors: M
authors: Walther
authors: Genome Analysis, Leibniz Institute for Age Research, Fritz Lipmann Institute, Beutenbergstrasse 11, 07745 Jena, Germany.
authors: Matthias
authors: M
authors: Platzer
authors: Department of Virology and Antiviral Therapy, Jena University Hospital, Friedrich Schiller University, Hans Knoell Str. 2, 07745 Jena, Germany.
authors: Andreas
authors: A
authors: Sauerbrei
authors: Department of Virology and Antiviral Therapy, Jena University Hospital, Friedrich Schiller University, Hans Knoell Str. 2, 07745 Jena, Germany.
authors: Roland
authors: R
authors: Zell
mesh_terms: D020121:5' Untranslated Regions; D000595:Amino Acid Sequence; D000818:Animals; D005537:Aphthovirus / Q000737:chemistry / Q000145:classification / Q000235:genetics*; D002347:Carps / Q000821:virology*; D005393:Fish Diseases / Q000821:virology*; D016679:Genome, Viral; D006801:Humans; D008969:Molecular Sequence Data; D016366:Open Reading Frames; D010802:Phylogeny; D010849:Picornaviridae / Q000737:chemistry / Q000145:classification / Q000235:genetics* / Q000302:isolation & purification*; D010850:Picornaviridae Infections / Q000662:veterinary* / Q000821:virology; D016415:Sequence Alignment; D014764:Viral Proteins / Q000737:chemistry / Q000235:genetics
chemical_list: D020121:5' Untranslated Regions; D014764:Viral Proteins