Advertisement

Archives of Virology

, Volume 163, Issue 8, pp 2265–2269 | Cite as

Complete genome sequence of peanut virus C, a putative novel ilarvirus

  • Seungmo Lim
  • Yun-Woo Jang
  • Jin Woo Bae
  • Yeong-Hoon Lee
  • Bong Choon Lee
  • Youngnam Yoon
Annotated Sequence Record

Abstract

We determined the complete genome sequence of a putative novel ilarvirus, tentatively named “peanut virus C” (PVC), identified in peanut (Arachis hypogaea). The three segmented genomic RNA molecules of PVC were 3474 (RNA1), 2925 (RNA2), and 2160 (RNA3) nucleotides in length, with five predicted open reading frames containing conserved domains and motifs that are typical features of ilarviruses. The three genomic RNAs shared nucleotide sequence similarity (74% identity and 93% query coverage for RNA1, 75% identity and 85% query coverage for RNA2, and 72% identity and 70% query coverage for RNA3) with the most closely related ilarvirus, parietaria mottle virus. These results suggest that PVC is a novel member of the genus Ilarvirus in the family Bromoviridae.

Notes

Acknowledgments

This research was carried out with the support of the Cooperative Research Program for Agriculture Science and Technology Development (project no. PJ01248602), Rural Development Administration, Republic of Korea. We thank Ms. M. H. Jung for her technical assistance, and Sarah Williams, PhD, from Edanz Group (www.edanzediting.com) for editing a draft of this manuscript.

Compliance with ethical standards

Funding

This study was funded by Rural Development Administration, Republic of Korea.

Conflict of interest

The authors declare that they have no conflict of interest.

Ethical approval

This article does not contain any studies with human participants or animals performed by any of the authors.

Supplementary material

705_2018_3827_MOESM1_ESM.pptx (1023 kb)
Supplementary material 1 (PPTX 1022 kb)
705_2018_3827_MOESM2_ESM.doc (124 kb)
Supplementary material 2 (DOC 123 kb)

References

  1. 1.
    Adams IP, Glover RH, Monger WA, Mumford R, Jackeviciene E, Navalinskiene M, Samuitiene M, Boonham N (2009) Next-generation sequencing and metagenomic analysis: a universal diagnostic tool in plant virology. Mol Plant Pathol 10(4):537–545CrossRefPubMedGoogle Scholar
  2. 2.
    Barba M, Czosnek H, Hadidi A (2014) Historical perspective, development and applications of next-generation sequencing in plant virology. Viruses 6(1):106–136CrossRefPubMedPubMedCentralGoogle Scholar
  3. 3.
    Boonham N, Kreuze J, Winter S, Vlugt RVD, Bergervoet J, Tomlinson J, Mumford R (2014) Methods in virus diagnostics: from ELISA to next generation sequencing. Virus Res 186:20–31CrossRefPubMedGoogle Scholar
  4. 4.
    Brister JR, Ako-Adjei D, Bao Y, Blinkova O (2015) NCBI viral genomes resource. Nucleic Acids Res 43(Database issue):D571–D577Google Scholar
  5. 5.
    Finn RD, Bateman A, Clements J, Coggill P, Eberhardt RY, Eddy SR, Heger A, Hetherington K, Holm L, Mistry J, Sonnhammer EL, Tate J, Punta M (2014) Pfam: the protein families database. Nucleic Acids Res 42(Database issue):D222–D230Google Scholar
  6. 6.
    James D, Varga A (2012) Sequence analysis of RNA 1 of lilac leaf chlorosis virus supports a close relationship to subgroup 3 ilarviruses. Arch Virol 157(1):203–206CrossRefPubMedGoogle Scholar
  7. 7.
    Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33(7):1870–1874CrossRefPubMedGoogle Scholar
  8. 8.
    Lim S, Kim KH, Zhao F, Yoo RH, Igori D, Lee SH, Moon JS (2015) Complete genome sequence of a novel endornavirus isolated from hot pepper. Arch Virol 160(12):3153–3156CrossRefPubMedGoogle Scholar
  9. 9.
    Pallas V, Aparicio F, Herranz MC, Amari K, Sanchez-Pina MA, Myrta A, Sanchez-Navarro JA (2012) Ilarviruses of Prunus spp.: a continued concern for fruit trees. Phytopathology 102(12):1108–1120CrossRefPubMedGoogle Scholar
  10. 10.
    Pallas V, Aparicio F, Herranz MC, Sanchez-Navarro JA, Scott SW (2013) The molecular biology of ilarviruses. Adv Virus Res 87:139–181CrossRefPubMedGoogle Scholar
  11. 11.
    Scott SW, Zimmerman MT (2006) The complete sequence of the genome of Humulus japonicus latent virus. Arch Virol 151(8):1683–1687CrossRefPubMedGoogle Scholar

Copyright information

© Springer-Verlag GmbH Austria, part of Springer Nature 2018

Authors and Affiliations

  • Seungmo Lim
    • 1
    • 4
  • Yun-Woo Jang
    • 1
  • Jin Woo Bae
    • 1
  • Yeong-Hoon Lee
    • 2
  • Bong Choon Lee
    • 3
  • Youngnam Yoon
    • 1
  1. 1.Crop Production Technology Research DivisionNational Institute of Crop Science, Rural Development AdministrationMiryangRepublic of Korea
  2. 2.Planning and Coordination Division, National Institute of Crop ScienceRural Development AdministrationWanjuRepublic of Korea
  3. 3.Crop Foundation DivisionNational Institute of Crop Science, Rural Development AdministrationWanjuRepublic of Korea
  4. 4.National Agricultural Products Quality Management ServiceBusanRepublic of Korea

Personalised recommendations