GENOME ANNOUNCEMENT
Porcine parvovirus (PPV) is a small nonenveloped virus associated with reproductive problems and is endemic in virtually all swine-producing regions worldwide (1). The viral genome is a single-stranded DNA molecule of approximately 5 kb (2). Porcine parvovirus 2 (PPV-2) was first detected in 2001 and is probably distributed worldwide; however, links between PPV-2 and disease remain unclear (3).
Here, the complete sequence of a PPV-2 genome, identified in sera of Brazilian sows, is reported. Sera from ten clinically healthy, 5-months-old gilts (Sus scrofa) of the Large White breed were collected in Senador Canedo, Goiás, Brazil. Samples were pooled and viral particles were pelleted by centrifugation. The pellet was resuspended in Tris-EDTA and treated with DNase I (Roche) and RNase (Invitrogen). Viral genomes were extracted with a commercial kit (PureLink Viral RNA/DNA minikit) and amplified by random PCR (4). The products were purified and sequenced on an Ion Torrent platform with a 316 Ion chip. A total of 261,836 raw reads were generated and reduced to 126,661 after trimming with the Geneious version 8.0.2. From these, 18,862 reads were filtered by closest matching, where 95% of those fit within the family Parvoviridae. The reads were de novo assembled, with a mean coverage of at least 347×. A contig of 5,426 nucleotides (nt) comprised the full Brazilian PPV-2 (BrPPV-2) genome. Phylogenetic analyses performed with MEGA version 6.0 revealed that BrPPV-2 is closely related to genomes of North American PPV-2, with an overall 98.3 to 98.7% nt identity. The complete sequence of BrPPV-2 reveals two putative open reading frames (ORF): ORF1 (1,985 nt) and ORF2 (3,098 nt). In addition, two 14 nt-long palindromic sequences were identified, one at each extremity of the genome.
Nucleotide sequence accession number.
The GenBank accession number is KM926355.
b Instituto do Petróleo e dos Recursos Naturais, Pontifícia Universidade Católica do Rio Grande do Sul, Porto Alegre, Rio Grande do Sul, Brazil
c Pontifícia Universidade Católica do Rio Grande do Sul, Faculdade de Biociências, Porto Alegre, Rio Grande do Sul, Brazil
d Instituto de Patologia Tropical e Saúde Pública, Universidade Federal de Goiás, Goiânia, Goiás, Brazil
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Abstract
A complete genomic sequence of porcine parvovirus 2 (PPV-2) was detected by viral metagenome analysis on swine sera. A phylogenetic analysis of this genome reveals that it is highly similar to previously reported North American PPV-2 genomes. The complete PPV-2 sequence is 5,426 nucleotides long.
You have requested "on-the-fly" machine translation of selected content from our databases. This functionality is provided solely for your convenience and is in no way intended to replace human translation. Show full disclaimer
Neither ProQuest nor its licensors make any representations or warranties with respect to the translations. The translations are automatically generated "AS IS" and "AS AVAILABLE" and are not retained in our systems. PROQUEST AND ITS LICENSORS SPECIFICALLY DISCLAIM ANY AND ALL EXPRESS OR IMPLIED WARRANTIES, INCLUDING WITHOUT LIMITATION, ANY WARRANTIES FOR AVAILABILITY, ACCURACY, TIMELINESS, COMPLETENESS, NON-INFRINGMENT, MERCHANTABILITY OR FITNESS FOR A PARTICULAR PURPOSE. Your use of the translations is subject to all use restrictions contained in your Electronic Products License Agreement and by using the translation functionality you agree to forgo any and all claims against ProQuest or its licensors for your use of the translation functionality and any output derived there from. Hide full disclaimer