Skip to main content
SpringerLink
Log in

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

  • Annotated Sequence Record
  • Published:
Archives of Virology Aims and scope Submit manuscript

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.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2

Similar content being viewed by others

References

  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 162:2493–2504

    Article  CAS  PubMed  Google Scholar 

  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 227:158–170

    Article  CAS  PubMed  Google Scholar 

  3. Jackson AO, Dietzgen RG, Goodin MM, Bragg JN, Deng M (2005) Biology of plant rhabdoviruses. Annu Rev Phytopathol 43:623–660

    Article  CAS  PubMed  Google Scholar 

  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 47:105–113

    Article  CAS  PubMed  Google Scholar 

  5. Dietzgen RG, Innes DJ, Bejerman N (2015) Complete genome sequence and intracellular protein localization of Datura yellow vein nucleorhabdovirus. Virus Res 205:7–11

    Article  CAS  PubMed  Google Scholar 

  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 30:85–90

    Article  Google Scholar 

  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 130:77–89

    Article  Google Scholar 

  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 46:253–256

    CAS  PubMed  Google Scholar 

  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 154:48–55

    Article  CAS  PubMed  Google Scholar 

  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 106:10171–10176

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  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 17:527–536

    Article  PubMed  Google Scholar 

  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 86:8665–8668

    Article  CAS  PubMed  PubMed Central  Google Scholar 

Download references

Author information

Authors and Affiliations

  1. USDA-ARS, National Germplasm Resources Laboratory, Beltsville, MD, 20705, USA

    L.-P. Wu, H.-W. Liu & R. Li

  2. Key Laboratory of Poyang Lake Environment and Resource, School of Life Science, Nanchang University, Nanchang, 330031, China

    L.-P. Wu & T. Yang

  3. USDA-ARS, National Clonal Germplasm Repository, Corvallis, OR, 97333, USA

    J. Postman

Authors
  1. L.-P. Wu
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. T. Yang
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. H.-W. Liu
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. J. Postman
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. R. Li
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to R. Li.

Ethics declarations

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.

Additional information

Handling Editor: Ralf Georg Dietzgen.

Electronic supplementary material

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Wu, LP., Yang, T., Liu, HW. et al. Molecular characterization of a novel rhabdovirus infecting blackcurrant identified by high-throughput sequencing. Arch Virol 163, 1363–1366 (2018). https://doi.org/10.1007/s00705-018-3709-x

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00705-018-3709-x

Search

Navigation