Complete genome sequence of a novel porcine parainfluenza virus 5 isolate in Korea

Lee, Yu Na; Lee, Changhee

doi:10.1007/s00705-013-1770-z

Cited by 54 publications

(52 citation statements)

References 32 publications

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“…Moreover, the UAA termination codon is also mutated, appearing as CAG in strain CPI + /CPI − and as CAA in strain SER/KNU-11. The hypothesis that SH is not expressed by these strains, as was adduced in relation to strain KNU-11 (22), was tested by immunoblotting of lysates of Vero cells infected with strain W3, strain CPI + , variant strain CPI − , or strain SER using a polyclonal peptide antiserum raised against the N-terminal 16 residues of strain W3 SH. The sequence of this region is well conserved among strains (Fig.…”

Section: Resultsmentioning

confidence: 99%

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Stability of the Parainfluenza Virus 5 Genome Revealed by Deep Sequencing of Strains Isolated from Different Hosts and following Passage in Cell Culture

Rima

Gatherer

Young

et al. 2014

J Virol

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The strain diversity of a rubulavirus, parainfluenza virus 5 (PIV5), was investigated by comparing 11 newly determined and 6 previously published genome sequences. These sequences represent 15 PIV5 strains, of which 6 were isolated from humans, 1 was from monkeys, 2 were from pigs, and 6 were from dogs. Strain diversity is remarkably low, regardless of host, year of isolation, or geographical origin; a total of 7.8% of nucleotides are variable, and the average pairwise difference between strains is 2.1%. Variation is distributed unevenly across the PIV5 genome, but no convincing evidence of selection for antibody-mediated evasion in hemagglutinin-neuraminidase was found. The finding that some canine and porcine, but not primate, strains are mutated in the SH gene, and do not produce SH, raised the possibility that dogs (or pigs) may not be the natural host of PIV5. The genetic stability of PIV5 was also demonstrated during serial passage of one strain (W3) in Vero cells at a high multiplicity of infection, under conditions of competition with large proportions of defective interfering genomes. A similar observation was made for a strain W3 mutant (PIV5VΔC) lacking V gene function, in which the dominant changes were related to pseudoreversion in this gene. The mutations detected in PIV5VΔC during pseudoreversion, and also those characterizing the SH gene in canine and porcine strains, predominantly involved U-to-C transitions. This suggests an important role for biased hypermutation via an adenosine deaminase, RNA-specific (ADAR)-like activity.IMPORTANCE Here we report the sequence variation of 16 different isolates of parainfluenza virus 5 (PIV5) that were isolated from a number of species, including humans, monkeys, dogs, and pigs, over 4 decades. Surprisingly, strain diversity was remarkably low, regardless of host, year of isolation, or geographical origin. Variation was distributed unevenly across the PIV5 genome, but no convincing evidence of immune or host selection was found. This overall genome stability of PIV5 was also observed when the virus was grown in the laboratory, and the genome stayed remarkably constant even during the selection of virus mutants. Some of the canine isolates had lost their ability to encode one of the viral proteins, termed SH, suggesting that although PIV5 commonly infects dogs, dogs may not be the natural host for PIV5.

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Section: Resultsmentioning

confidence: 99%

“…The published genome sequences of PIV5 strains W3 (21), cryptovirus, 1168-1, D277, 08-1990, and KNU-11 (22) were obtained from GenBank (Table 1). …”

Section: Methodsmentioning

confidence: 99%

Stability of the Parainfluenza Virus 5 Genome Revealed by Deep Sequencing of Strains Isolated from Different Hosts and following Passage in Cell Culture

Rima

Gatherer

Young

et al. 2014

J Virol

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“…Many new paramyxoviruses have been identified recently (11)(12)(13)(14)(15). Isolating infectious viruses and studying them in suitable animal models will enable us to understand their pathogeneses.…”

Section: Discussionmentioning

confidence: 99%

The L Gene of J Paramyxovirus Plays a Critical Role in Viral Pathogenesis

Chen

et al. 2013

J Virol

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f J paramyxovirus (JPV) was first isolated from moribund mice with hemorrhagic lung lesions in Australia in the 1970s. Recent sequencing of JPV (JPV-LW) confirms that JPV is a paramyxovirus with several unique features. However, neither JPV-LW nor a recombinant JPV based on its sequence (rJPV-LW) caused obvious illness in mice. In this work, we analyzed a different JPV isolate (JPV-BH), which behaved differently from JPV-LW; JPV-BH grew more slowly in Vero cells and had less of a cytopathic effect on tissue culture cells but caused severe disease in mice. We have determined the whole genome sequence of JPV-BH. There were several nucleotide sequence differences between JPV-BH and JPV-LW, one in the leader sequence, one in the GX gene, and three in the L gene. The high sequence identity between JPV-BH and JPV-LW suggests that JPV-BH and JPV-LW are the same virus strain but were obtained at different passages from different laboratories. To understand the roles of these nucleotide sequence differences in pathogenicity in mice, we generated a recombinant JPV-BH strain (rJPV-BH) and hybrid rJPV-BH strains with sequences from the leader sequence (rJPV-BH-Le-LW), the GX gene (rJPV-BH-GX-LW), and the L gene (rJPV-BH-L-LW) of JPV-LW and compared their pathogenicities in mice. We have found that rJPV-BH-L-LW was attenuated in mice, indicating that nucleotide sequence differences in the L gene play a critical role in pathogenesis.

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“…In addition, the complete genome of a PEDV strain, KNU-1305, was sequenced and analyzed. The 5′ and 3′ ends of the KNU-1305 genome were determined by rapid amplification of cDNA ends as described elsewhere ( 11 ). Ten overlapping cDNA fragments were generated to encompass the entire genome, pooled in equimolar amounts, and subjected to next-generation sequencing as previously described ( 12 ); the sequencing reads were assembled by using complete PEDV reference genomes from GenBank ( 13 , 14 ).…”

Section: The Studymentioning

confidence: 99%

Outbreak-Related Porcine Epidemic Diarrhea Virus Strains Similar to US Strains, South Korea, 2013

Lee¹,

Lee²

2014

Emerg. Infect. Dis.

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148

165

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Complete genome sequence of a novel porcine parainfluenza virus 5 isolate in Korea

Cited by 54 publications

References 32 publications

Stability of the Parainfluenza Virus 5 Genome Revealed by Deep Sequencing of Strains Isolated from Different Hosts and following Passage in Cell Culture

Stability of the Parainfluenza Virus 5 Genome Revealed by Deep Sequencing of Strains Isolated from Different Hosts and following Passage in Cell Culture

The L Gene of J Paramyxovirus Plays a Critical Role in Viral Pathogenesis

Outbreak-Related Porcine Epidemic Diarrhea Virus Strains Similar to US Strains, South Korea, 2013

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