title: Complete nucleotide sequence and genomic organization of hepatopancreatic parvovirus (HPV) of Penaeus monodon.
abstract: We have determined the genome of hepatopancreatic parvovirus (HPV), a minus, single-stranded DNA virus isolated from infected Penaeus monodon in Thailand. Its genome consisted of 6321 nucleotides, representing three large open reading frames (ORFs) and two non-coding termini. The left (ORF1), mid (ORF2), and right (ORF3) ORFs on the complementary (plus) strand may code for 428, 579, and 818 amino acids, equivalent to 50, 68, and 92 kDa, respectively. The 5' and 3' ends of viral genome contained hairpin-like structure length of approximately 222 and 215 bp, respectively. No inverted terminal repeat (ITR) was detected. The ORF2 contained conserved replication initiator motif, NTP-binding and helicase domain similar to NS-1 of other parvoviruses. Therefore, it most likely encoded the major nonstructural protein (NS-1). The ORF1 encoded putative nonstructural protein-2 (NS-2) with unknown function. The ORF3 of the HPV genome encoded a capsid protein (VP) of approximately 92 kDa. This may be later cleaved after arginine residue to produce a 57-kDa structural protein. A phylogenetic tree based on conserved amino acid sequences (119 aa) revealed that it is closely related to Brevidensoviruses, which are shrimp parvovirus (IHHNV) and mosquito densoviruses (AaeDNV and AalDNV). However, the overall genomic organization and genome size of HPV were different from these parvoviruses, for instance, the non-overlapping of NS1 and NS2, the larger VP gene, and the bigger genome size. This suggested that this HPV virus is a new type in Parvoviridae family. We therefore propose to rename this virus P. monodon densovirus (PmDNV).
authors.affiliation: Department of Biochemistry, Faculty of Medicine, Srinakharinwirot University, Sukhumvit 23, Bangkok 10110, Thailand. wasanas@swu.ac.th
authors.forename: Wasana
authors.initials: W
authors.lastname: Sukhumsirichart
authors.forename: Pongsopee
authors.initials: P
authors.lastname: Attasart
authors.forename: Vichai
authors.initials: V
authors.lastname: Boonsaeng
authors.forename: Sakol
authors.initials: S
authors.lastname: Panyim
mesh_terms: D000595:Amino Acid Sequence; D000818:Animals; D001483:Base Sequence; D036022:Capsid Proteins / Q000235:genetics / Q000378:metabolism; D004265:DNA Helicases / Q000235:genetics; D004279:DNA, Viral / Q000737:chemistry* / Q000235:genetics; D004268:DNA-Binding Proteins / Q000235:genetics; D019223:Densovirinae / Q000235:genetics* / Q000302:isolation & purification; D017990:Densovirus / Q000235:genetics; D016679:Genome, Viral; D008970:Molecular Weight; D016366:Open Reading Frames; D033561:Penaeidae / Q000821:virology; D010802:Phylogeny; D011499:Protein Processing, Post-Translational; D017434:Protein Structure, Tertiary; D017422:Sequence Analysis, DNA; D017386:Sequence Homology, Amino Acid; D026801:Synteny; D020079:Terminal Repeat Sequences; D015534:Trans-Activators / Q000235:genetics; D017361:Viral Nonstructural Proteins / Q000235:genetics
chemical_list: D036022:Capsid Proteins; D004279:DNA, Viral; D004268:DNA-Binding Proteins; C106202:NS1 protein, parvovirus; D015534:Trans-Activators; D017361:Viral Nonstructural Proteins; C045264:replication initiator protein; D004265:DNA Helicases