Advertisement

Archives of Virology

, Volume 163, Issue 5, pp 1363–1366 | Cite as

Molecular characterization of a novel rhabdovirus infecting blackcurrant identified by high-throughput sequencing

  • L.-P. Wu
  • T. Yang
  • H.-W. Liu
  • J. Postman
  • R. Li
Annotated Sequence Record

Abstract

A large contig with sequence similarities to several nucleorhabdoviruses was identified by high-throughput sequencing analysis from a black currant (Ribes nigrum L.) cultivar. The complete genome sequence of this new nucleorhabdovirus is 14,432 nucleotides long. Its genomic organization is very similar to those of unsegmented plant rhabdoviruses, containing six open reading frames in the order 3′-N-P-P3-M-G-L-5. The virus, which is provisionally named “black currant-associated rhabdovirus”, is 41-52% identical in its genome nucleotide sequence to other nucleorhabdoviruses and may represent a new species in the genus Nucleorhabdovirus.

Notes

Compliance with ethical standards

Conflict of interest

All authors declare that they have no conflict of interest.

Ethical approval

This article does not contain any research involving human or animal participants.

Supplementary material

705_2018_3709_MOESM1_ESM.docx (27 kb)
Supplementary material 1 (DOCX 29 kb)
705_2018_3709_MOESM2_ESM.pptx (174 kb)
Supplementary material 2 (PPTX 173 kb)
705_2018_3709_MOESM3_ESM.docx (14 kb)
Supplementary material 3 (DOCX 13 kb)
705_2018_3709_MOESM4_ESM.txt (15 kb)
Supplementary material 3 (TXT 13 kb)

References

  1. 1.
    Amarasinghe GK, Bào Y, Basler CF, Bavari S, Beer M, Bejerman N, Blasdell KR, Bochnowski A, Briese T, Bukreyev A, Calisher CH, Chandran K, Collins PL, Dietzgen RG, Dolnik O, Dürrwald R, Dye JM, Easton AJ, Ebihara H, Fang Q, Formenty P, Fouchier RAM, Ghedin E, Harding RM, Hewson R, Higgins M, Hong J, Horie M, James AP, Jiāng D, Kobinger GP, Kondo H, Kurath G, Lamb RA, Lee B, Leroy EM, Li M, Maisner A, Mühlberger E, Netesov SV, Nowotny N, Patterson JL, Payne SL, Paweska JT, Pearson N, Randall RE, Revill PA, Rima BK, Rota P, Rubbenstroth D, Schwemmle M, Smither SJ, Song Q, Stone DM, Takada A, Terregino C, Tesh RB, Tomonaga K, Tordo N, Towner JS, Vasilakis N, Volchkov VE, Wahl-Jensen V, Walker PJ, Wang B, Wang D, Wang F, Wang L-F, Werren JH, Whitfield AE, Yan Z, Ye G, Kuhn JH (2017) Taxonomy of the order Mononegavirales: update 2017. Arch Virol 162:2493–2504CrossRefPubMedGoogle Scholar
  2. 2.
    Dietzgen RG, Kondo H, Goodin MM, Kurath G, Vasilakis N (2017) The family Rhabdoviridae: mono- and bipartite negative-sense RNA viruses with diverse genome organization and common evolutionary origins. Virus Res 227:158–170CrossRefPubMedGoogle Scholar
  3. 3.
    Jackson AO, Dietzgen RG, Goodin MM, Bragg JN, Deng M (2005) Biology of plant rhabdoviruses. Annu Rev Phytopathol 43:623–660CrossRefPubMedGoogle Scholar
  4. 4.
    Pappi PG, Dovas CI, Efthimiou KE, Maliogka VI, Katis NI (2013) A novel strategy for the determination of a rhabdovirus genome and its application to sequencing of Eggplant mottled dwarf virus. Virus Genes 47:105–113CrossRefPubMedGoogle Scholar
  5. 5.
    Dietzgen RG, Innes DJ, Bejerman N (2015) Complete genome sequence and intracellular protein localization of Datura yellow vein nucleorhabdovirus. Virus Res 205:7–11CrossRefPubMedGoogle Scholar
  6. 6.
    Boyko AL, Spaar D, Polischuk VP, Senchugova NA, Mishenko LT, Silajeva AM, Glushak LE, Taranuho NP (1995) The exploration of rhabdoviruses infecting agricultural plants in conditions of the Ukraine. Arch Phytopathol Pflanz 30:85–90CrossRefGoogle Scholar
  7. 7.
    Roberts IM, Jones AT (1997) Rhabdovirus-like and closterovirus-like particles in ultrathin sections of Ribes species with symptoms of blackcurrant reversion and gooseberry vein banding diseases. Ann Appl Biol 130:77–89CrossRefGoogle Scholar
  8. 8.
    Pribylova J, Spak J, Kubelkova D (2002) Mixed infection of black currant (Ribes nigrum L.) plants with blackcurrant reversion associated virus and rhabdovirus-like particles with symptoms of black currant reversion disease. Acta Virol 46:253–256PubMedGoogle Scholar
  9. 9.
    Li R, Mock R, Huang Q, Abad J, Hartung J, Kinard G (2008) A reliable and inexpensive method of nucleic acid extraction for the PCR-based detection of diverse plant pathogens. J Virol Methods 154:48–55CrossRefPubMedGoogle Scholar
  10. 10.
    Kosugi S, Hasebe M, Tomita M, Yanagawa H (2009) Systematic identification of cell cycle-dependent yeast nucleocytoplasmic shuttling proteins by prediction of composite motifs. Proc Natl Acad Sci USA 106:10171–10176CrossRefPubMedPubMedCentralGoogle Scholar
  11. 11.
    Cour TL, Kiemer L, Mølgaard A, Gupta R, Skriver K, Brunak S (2004) Analysis and prediction of leucine-rich nuclear export signals. Protein Eng Des Sel 17:527–536CrossRefPubMedGoogle Scholar
  12. 12.
    Heaton LA, Hillman BI, Hunter BG, Zuidema D, Jackson AO (1989) Biochemistry Physical map of the genome of Sonchus yellow net virus, a plant rhabdovirus with six genes and conserved gene junction sequences. Proc Natl Acad Sci USA 86:8665–8668CrossRefPubMedPubMedCentralGoogle Scholar

Copyright information

© This is a U.S. government work and its text is not subject to copyright protection in the United States; however, its text may be subject to foreign copyright protection 2018

Authors and Affiliations

  • L.-P. Wu
    • 1
    • 2
  • T. Yang
    • 2
  • H.-W. Liu
    • 1
  • J. Postman
    • 3
  • R. Li
    • 1
  1. 1.USDA-ARS, National Germplasm Resources LaboratoryBeltsvilleUSA
  2. 2.Key Laboratory of Poyang Lake Environment and Resource, School of Life ScienceNanchang UniversityNanchangChina
  3. 3.USDA-ARS, National Clonal Germplasm RepositoryCorvallisUSA

Personalised recommendations