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Complete genome sequence of a putative novel potyvirus isolated from Platycodon grandiflorum

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Abstract

The complete 9,556-nt genomic sequence of a putative new potyvirus, tentatively named “platycodon mild mottle virus” (PlaMMV), infecting Platycodon grandiflorum was determined (GenBank accession no. MH779625). A single large open reading frame (ORF; nt 121-9360, 3079 aa) encoding a polyprotein that was predicted to be cleaved into 10 mature proteins was detected. By comparison with other potyviruses, nine cleavage sites and conserved domains/motifs were identified. PlaMMV also has a highly conserved GA6 motif (nt 2857-2863) that could enable a small overlapping ORF (PIPO) embedded within the P3 cistron to be translated by a viral polymerase slippage mechanism. A BLAST analysis showed that the complete PlaMMV nucleotide sequence shared 70% identity (40% query coverage) with carrot thin leaf virus (JX156434) and that the complete amino acid sequence of the PlaMMV polyprotein shared 54% identity (98% query coverage) with Thunberg fritillary mosaic virus (CAI59123). These results suggest that PlaMMV is a new member of the genus Potyvirus in the family Potyviridae.

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References

  1. Adams MJ, Antoniw JF, Beaudoin F (2005) Overview and analysis of the polyprotein cleavage sites in the family Potyviridae. Mol Plant Pathol 6(4):471–487

    Article  CAS  PubMed  Google Scholar 

  2. Brister JR, Ako-Adjei D, Bao Y, Blinkova O (2015) NCBI viral genomes resource. Nucleic Acids Res 43(Database issue):D571–D577

    Article  CAS  PubMed  Google Scholar 

  3. 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–D230

    Article  CAS  Google Scholar 

  4. Li Y, Jia A, Qiao Y, Xiang J, Zhang Y, Wang W (2018) Virome analysis of lily plants reveals a new potyvirus. Arch Virol 163(4):1079–1082

    Article  CAS  PubMed  Google Scholar 

  5. Lim S, Igori D, Zhao F, Yoo RH, An TJ, Lim HS, Lee SH, Moon JS (2015) Complete genome sequence of a tentative new caulimovirus from the medicinal plant Atractylodes macrocephala. Arch Virol 160(12):3127–3131

    Article  CAS  PubMed  Google Scholar 

  6. 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):3153–3156

    Article  CAS  PubMed  Google Scholar 

  7. Nyakudya E, Jeong JH, Lee NK, Jeong YS (2014) Platycosides from the roots of Platycodon grandiflorum and their health benefits. Prev Nutr Food Sci 19(2):59–68

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  8. Olspert A, Chung BY, Atkins JF, Carr JP, Firth AE (2015) Transcriptional slippage in the positive-sense RNA virus family Potyviridae. EMBO Rep 16(8):995–1004

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  9. Revers F, García JA (2015) Molecular biology of potyviruses. Adv Virus Res 92:101–199

    Article  CAS  PubMed  Google Scholar 

  10. Seo EY, Lim S, Hammond J, Moon JS, Lim HS (2016) Complete genome sequence of a novel potyvirus, callistephus mottle virus, identified in Callistephus chinensis. Arch Virol 161(11):3281–3283

    Article  CAS  PubMed  Google Scholar 

  11. Su X, Fu S, Qian Y, Zhang L, Xu Y, Zhou X (2016) Discovery and small RNA profile of Pecan mosaic-associated virus, a novel potyvirus of pecan trees. Sci Rep 6:26741

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  12. Urcuqui-Inchima S, Haenni AL, Bernardi F (2001) Potyvirus proteins: a wealth of functions. Virus Res 74:157–175

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgements

This work was supported by the KRIBB Research Initiative Program, funded by the Ministry of Science and ICT, Republic of Korea.

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Authors and Affiliations

  1. Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 34141, Republic of Korea

    Seungmo Lim & Jae Sun Moon

  2. School of Applied Biosciences, College of Agriculture and Life Sciences, Kyungpook National University, Daegu, 41566, Republic of Korea

    Su-Heon Lee

Authors
  1. Seungmo Lim
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  2. Su-Heon Lee
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  3. Jae Sun Moon
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Corresponding authors

Correspondence to Su-Heon Lee or Jae Sun Moon.

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Funding

This study was funded by KRIBB (Ministry of Science and ICT), Republic of Korea.

Conflict of interest

The authors declare that they have no conflict of interest.

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

Data availability

The dataset generated during the current study is available in the GenBank database (accession no. MH779625).

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Handling Editor: Ioannis E. Tzanetakis.

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Lim, S., Lee, SH. & Moon, J.S. Complete genome sequence of a putative novel potyvirus isolated from Platycodon grandiflorum. Arch Virol 164, 621–624 (2019). https://doi.org/10.1007/s00705-018-4078-1

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  • DOI: https://doi.org/10.1007/s00705-018-4078-1

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