Skip to main content
SpringerLink
Log in

Complete genome sequence of a novel partitivirus from a wild brassicaceous plant, Arabidopsis halleri

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

Abstract

Two contigs with high similarity to partitivirus sequences were identified by de novo assembly of sequences obtained by RNA-Seq from a wild brassicaceous plant, Arabidopsis halleri subsp. gemmifera. Here, we report the complete genome sequence of a putative novel partitivirus. Excluding the poly-A tail, it consists of two RNA genome segments of 1912 and 1769 bp, which are predicted to encode a 585-amino-acid-long putative RNA-dependent RNA polymerase (RdRp) and a 487-amino-acid-long putative capsid protein (CP), respectively. Phylogenetically, this virus belongs to the genus Alphapartitivirus and is most closely related to Raphanus sativus partitivirus 1 from radish. We propose the name "Arabidopsis halleri partitivirus 1" (AhPV1) for this novel virus.

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. Rosana B, Dirk S, Edgar M (2007) Molecular characterization and detection of Vicia cryptic virus in different Vicia faba cultivars. Arch Virol 152:1477–1488

    Article  Google Scholar 

  2. Kamitani M, Nagano AJ, Honjo MN, Kudoh H (2016) RNA-Seq reveals virus-virus and virus-plant interactions in nature. FEMS Microbiol Ecol 92(11):fiw176

    Article  Google Scholar 

  3. Li L, Liu J, Zhang Q, Fu R, Zhu X, Li C, Chen J (2016) Seed-borne viral dsRNA elements in three cultivated Raphanus and Brassica plants suggest three cryptoviruses. Can J Microbiol 62:287–295

    Article  CAS  Google Scholar 

  4. McDonald SM, Nelson MI, Turner PE, Patton JT (2016) Reassortment in segmented RNA viruses: mechanisms and outcomes. Nat Rev Microbiol 14(7):448–460

    Article  CAS  Google Scholar 

  5. Nibert ML, Ghabrial SA, Maiss E, Lesker T, Vainio EJ, Jiang D, Suzuki N (2014) Taxonomic reorganization of family Partitiviridae and other recent progress in partitivirus research. Virus Res 188:128–141

    Article  CAS  Google Scholar 

  6. Roossinck MJ (2010) Lifestyles of plant viruses. Philos Trans R Soc Lond B Biol Sci 365:1899–1905

    Article  Google Scholar 

  7. Roossinck MJ (2015) Plants, viruses and the environment: ecology and mutualism. Virology 479–480:271–277

    Article  Google Scholar 

  8. Vainio EJ, Chiba S, Ghabrial SA, Maiss E, Roossinck M, Sabanadzovic S, Suzuki N, Xie J, Nibert M (2018) ICTV virus taxonomy profile: Partitiviridae. J Gen Virol 99:17–18

    Article  CAS  Google Scholar 

Download references

Acknowledgements

We thank G. Yumoto for his help in field sampling.

Funding

This work was supported by JSPP KAKENHI grant number 18K05658 to T.O., Japan Science and Technology Agency (JST) CREST no. JPMJCR15O1 to H. K, and Grant-in-Aid for Japan Society for the Promotion of Science Fellows 19J01031 to M. K.

Author information

Authors and Affiliations

  1. Faculty of Agriculture, Ryukoku University, Yokotani1-5, Seta Oe-cho, Otsu, Shiga, 520-2194, Japan

    Mari Kamitani & Tetsuro Okuno

  2. Center for Ecological Research, Kyoto University, Hirano 2-509-3, Otsu, Shiga, 520-2113, Japan

    Mari Kamitani & Hiroshi Kudoh

Authors
  1. Mari Kamitani
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. Tetsuro Okuno
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. Hiroshi Kudoh
    View author publications

    You can also search for this author in PubMed Google Scholar

Contributions

MK and HK conducted field sampling. MK conducted the laboratory experiment and wrote the manuscript. MK, TO and HK discussed the results. All authors approved the manuscript.

Corresponding authors

Correspondence to Mari Kamitani or Hiroshi Kudoh.

Ethics declarations

Conflict of interest

The authors declare that they have no conflict of interest.

Availability of data and material

The complete genome sequence of AhPV1 has been deposited in the NCBI database with accession numbers MT155793 and MT155794.

Additional information

Handling Editor: Ioly Kotta-Loizou.

Publisher's Note

Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.

Electronic supplementary material

Below is the link to the electronic supplementary material.

Supplementary file1 (PDF 295 kb)

Supplementary file2 (PDF 53 kb)

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Kamitani, M., Okuno, T. & Kudoh, H. Complete genome sequence of a novel partitivirus from a wild brassicaceous plant, Arabidopsis halleri. Arch Virol 165, 2091–2094 (2020). https://doi.org/10.1007/s00705-020-04670-y

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s00705-020-04670-y

Search

Navigation