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Viruses

Complete Genome Sequence of Capripoxvirus Strain KSGP 0240 from a Commercial Live Attenuated Vaccine

Frank Vandenbussche, Elisabeth Mathijs, Andy Haegeman, Ahmad Al-Majali, Steven Van Borm, Kris De Clercq
Frank Vandenbussche
Molecular Platform, Veterinary and Agrochemical Research Centre, Ukkel, Belgium
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Elisabeth Mathijs
Molecular Platform, Veterinary and Agrochemical Research Centre, Ukkel, Belgium
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Andy Haegeman
Viral Diseases, Vesicular and Exotic Diseases, Veterinary and Agrochemical Research Centre, Ukkel, Belgium
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Ahmad Al-Majali
Jordan Bio-Industries Centre (JOVAC), Amman, JordanFaculty of Veterinary Medicine, Jordan University of Science and Technology, Irbid, Jordan
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Steven Van Borm
Molecular Platform, Veterinary and Agrochemical Research Centre, Ukkel, Belgium
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Kris De Clercq
Viral Diseases, Vesicular and Exotic Diseases, Veterinary and Agrochemical Research Centre, Ukkel, Belgium
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DOI: 10.1128/genomeA.01114-16
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ABSTRACT

Capripoxviruses cause economically important diseases in domestic ruminants in regions endemic for these viruses. We report here the complete genome sequence of the KSGP 0240 vaccine strain from the live attenuated vaccine Kenyavac (JOVAC).

GENOME ANNOUNCEMENT

Viruses belonging to the Capripoxvirus genus, namely, goatpox virus (GTPV), sheeppox virus (SPPV), and lumpy skin disease virus (LSDV), cause important diseases in goats, sheep, and cattle, respectively. Vaccination plays a crucial role in limiting the diseases in regions that are endemic for the viruses. In these regions, the Kenyan SPPV and GTPV KSGP 0240 strain are widely used for vaccination against GTPV and SPPV. Although the virus was isolated from sheep, phylogenetic analyses of partial sequences have identified KSGP 0240 as a lumpy skin disease virus (1, 2). Here, we determined the complete sequence of the KSGP 0240 strain from the Kenyavac vaccine (JOVAC) directly from a commercial vaccine batch.

DNA was purified from a freeze-dried vaccine pellet dissolved in 3 ml of phosphate-buffered saline (PBS) using the Puregene core kit A (Qiagen), according to the manufacturer's instructions. Presequencing enrichment was performed through an in-house long-range PCR methodology covering the entire genome with overlapping ~5.5-kb amplicons. P6-C4 sequencing was performed on a single-molecule real-time (SMRT) cell on a PacBio RSII sequencer (Pacific Biosciences) at the Genomics Core UZ Leuven (Leuven, Belgium).

Consensus amplicon sequences were obtained from the reads using the LAA-protocol (default parameters; Pacific Biosciences) in SMRT Portal (Pacific Biosciences) version 2.3.0. These amplicons were further assembled into a unique contig using the iAssembler software (3). Discrepancies with previously published LSDV genomes were confirmed by Sanger sequencing. The protein-coding genes were predicted by NCBI ORF-Finder (http://www.ncbi.nlm.nih.gov/orffinder/) and by GATU relative to the Neethling NI-2490 reference strain (accession no. NC_003027) (4).

Consensus amplicon sequences assembled into a single double-stranded linear DNA sequence of 150,663 bp, with an average G+C content of 25.90%. The strain KSGP 0240 included in the Kenyavac vaccine contains a 145,938-bp central coding region flanked by two identical terminal inverted repeats of at least 2,192 bp. The KSGP 0240 genome shares 99.9% homology with the LSDV strain Neethling NI-2490, differing by only a single amino acid substitution (P/Q in LSDV049) and a single-nucleotide deletion resulting in a frameshift that truncates the LSDV134 putative gene. Based on the complete genome sequence, the strain KSGP 0240 was confirmed to be an LSDV.

Accession number(s).The complete genome sequence of LSDV strain KSGP 0240 (Kenyavac vaccine) has been deposited in GenBank under accession number KX683219.

ACKNOWLEDGMENTS

We thank Maria Vastag and Orkun Ozhelvaci for the valuable technical assistance.

FOOTNOTES

    • Received 29 August 2016.
    • Accepted 1 September 2016.
    • Published 20 October 2016.
  • Copyright © 2016 Vandenbussche et al.

This is an open-access article distributed under the terms of the Creative Commons Attribution 4.0 International license.

REFERENCES

  1. 1.↵
    1. Lamien CE,
    2. Le Goff C,
    3. Silber R,
    4. Wallace DB,
    5. Gulyaz V,
    6. Tuppurainen E,
    7. Madani H,
    8. Caufour P,
    9. Adam T,
    10. El Harrak M,
    11. Luckins AG,
    12. Albina E,
    13. Diallo A
    . 2011. Use of the capripoxvirus homologue of vaccinia virus 30 kDa RNA polymerase subunit (RPO30) gene as a novel diagnostic and genotyping target: development of a classical PCR method to differentiate goat poxvirus from sheep poxvirus. Vet Microbiol 149:30–39. doi:10.1016/j.vetmic.2010.09.038.
    OpenUrlCrossRefPubMed
  2. 2.↵
    1. Tuppurainen ES,
    2. Pearson CR,
    3. Bachanek-Bankowska K,
    4. Knowles NJ,
    5. Amareen S,
    6. Frost L,
    7. Henstock MR,
    8. Lamien CE,
    9. Diallo A,
    10. Mertens PP
    . 2014. Characterization of sheep pox virus vaccine for cattle against lumpy skin disease virus. Antiviral Res 109:1–6. doi:10.1016/j.antiviral.2014.06.009.
    OpenUrlCrossRef
  3. 3.↵
    1. Zheng Y,
    2. Zhao L,
    3. Gao J,
    4. Fei Z
    . 2011. iAssembler: a package for de novo assembly of Roche-454/Sanger transcriptome sequences. BMC Bioinformatics 12:453. doi:10.1186/1471-2105-12-453.
    OpenUrlCrossRefPubMed
  4. 4.↵
    1. Tcherepanov V,
    2. Ehlers A,
    3. Upton C
    . 2006. Genome annotation transfer utility (GATU): rapid annotation of viral genomes using a closely related reference genome. BMC Genomics 7:150. doi:10.1186/1471-2164-7-150.
    OpenUrlCrossRefPubMed
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Complete Genome Sequence of Capripoxvirus Strain KSGP 0240 from a Commercial Live Attenuated Vaccine
Frank Vandenbussche, Elisabeth Mathijs, Andy Haegeman, Ahmad Al-Majali, Steven Van Borm, Kris De Clercq
Genome Announcements Oct 2016, 4 (5) e01114-16; DOI: 10.1128/genomeA.01114-16

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Complete Genome Sequence of Capripoxvirus Strain KSGP 0240 from a Commercial Live Attenuated Vaccine
Frank Vandenbussche, Elisabeth Mathijs, Andy Haegeman, Ahmad Al-Majali, Steven Van Borm, Kris De Clercq
Genome Announcements Oct 2016, 4 (5) e01114-16; DOI: 10.1128/genomeA.01114-16
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