Advertisement

Archives of Virology

, Volume 164, Issue 1, pp 261–265 | Cite as

Hubei poty-like virus 1 is likely an interspecies recombinant of sugarcane mosaic virus and putative bean yellow mosaic virus

  • Ramamoorthy Sankaranarayanan
  • Sankara Naynar Palani
  • Jebasingh TennysonEmail author
Brief Report
  • 133 Downloads

Abstract

In 2016, Shi et al. (Nature 540:539–543.  https://doi.org/10.1038/nature201672016) reported Hubei poty-like virus 1 (HuPLV1) to be a new member of the family Potyviridae. At that time, its polyprotein shared the highest sequence identity (80%) with sugarcane mosaic virus (SCMV). A year later, two isolates of SCMV from Canna sp. whose sequences were submitted to the GenBank database showed 91% identity to the HuPLV1 polyprotein sequence. Based on the species demarcation criteria for the family Potyviridae, HuPLV1 should possibly be considered an isolate of SCMV. To resolve this taxonomical inconsistency, we carried out a phylogenetic and recombination analysis and found that HuPLV1 is an interspecies recombinant of SCMV and bean yellow mosaic virus (BYMV).

Notes

Acknowledgements

We thank Prof. Yong-Zhen Zhang and his team for information about the sources of the sequences.

Compliance with ethical standards

Conflict of interest

All authors declare no conflicts of interest.

Ethical approval

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

Supplementary material

705_2018_4047_MOESM1_ESM.docx (18 kb)
Supplementary file 1 includes a table of nucleotide sequence accession numbers of SCMV and BYMV. The recombinant sequence accession numbers are also indicated in the table. (DOCX 18 kb)
705_2018_4047_MOESM2_ESM.xlsx (36 kb)
Supplementary file 2 contains details about recombination events such as parental isolates, recombinants, breakpoint positions, detected events and the corresponding p values. Minor Parent = Parent contributing the smaller fraction of sequence. Major Parent = Parent contributing the larger fraction of sequence. Unknown = Only one parent and a recombinant need be in the alignment for a recombination event to be detectable. The sequence listed as unknown was used to infer the existence of a missing parental sequence. NS = No significant P-value was recorded for this recombination event. BYMV isolates are highlighted with yellow colour, SCMV isolates with green colour, the unknown sequences with red colour. (XLSX 37 kb)

References

  1. 1.
    Shi M, Lin XD, Tian JH, Chen LJ, Chen X, Li CX, Qin XC, Li J, Cao JP, Eden JS, Buchmann J, Wang W, Xu J, Holmes EC, Zhang YZ (2016) Redefining the invertebrate RNA virosphere. Nature 540:539–543.  https://doi.org/10.1038/nature20167 CrossRefGoogle Scholar
  2. 2.
    Palani SN, Sankaranarayanan R, Tennyson J (2018) Wuhan poty-like virus 1 is a possible member of the genus Macluravirus. Arch Virol.  https://doi.org/10.1007/s00705-018-3948-x Google Scholar
  3. 3.
    Adams MJ, Antoniw JF, Beaudoin F (2005) Overview and analysis of the polyprotein cleavage sites in the family Potyviridae. Mol Plant Pathol 6:471–487.  https://doi.org/10.1007/s00705-004-0440-6 CrossRefGoogle Scholar
  4. 4.
    Gibbs A, Ohshima K (2010) Potyviruses and the digital revolution. Annu Rev Phytopathol 48:205–223.  https://doi.org/10.1146/annurev-phyto-073009-114404 CrossRefGoogle Scholar
  5. 5.
    Olspert A, Chung BYW, Atkins JF, Carr JP, Firth AE (2015) Transcriptional slippage in the positive-sense RNA virus family Potyviridae. EMBO Rep.  https://doi.org/10.15252/embr.201540509 Google Scholar
  6. 6.
    Rohozkova J, Navratil M (2011) P1 peptidase–a mysterious protein of family Potyviridae. J. Biosci. 36(1):189–200CrossRefGoogle Scholar
  7. 7.
    Valli AA, Gallo A, Rodamilans B, Lopez-Moya JJ, García JA (2018) The HCPro from the Potyviridae family: an enviable multitasking Helper Component that every virus would like to have. Mol Plant Pathol 19(3):744–763.  https://doi.org/10.1111/mpp.12553 CrossRefGoogle Scholar
  8. 8.
    Deng P, Wu Z, Wang A (2015) The multifunctional protein CI of potyviruses plays interlinked and distinct roles in viral genome replication and intercellular movement. Virol J 12:1–11.  https://doi.org/10.1186/s12985-015-0369-2 CrossRefGoogle Scholar
  9. 9.
    Anindya R, Chittori S, Savithri HS (2005) Tyrosine 66 of Pepper vein banding virus genome-linked protein is uridylylated by RNA-dependent RNA polymerase. Virology 336:154–162.  https://doi.org/10.1016/j.virol.2005.03.024 CrossRefGoogle Scholar
  10. 10.
    Ryan MD, Flint M (1997) Virus-encoded proteinases of the picornavirus supergroup. J Gen Virol 78:699–723CrossRefGoogle Scholar
  11. 11.
    Urcuqui-Inchima S, Haenni AL, Bernardi F (2001) Potyvirus proteins: a wealth of functions. Virus Res 74(1–2):157–175CrossRefGoogle Scholar
  12. 12.
    Xie X, Chen W, Fu Q, Zhang P, An T, Cui A, An D (2016) Molecular variability and distribution of Sugarcane mosaic virus in Shanxi, China. PLoS One 11(3):e0151549.  https://doi.org/10.1371/journal.pone.0151549 CrossRefGoogle Scholar
  13. 13.
    Tang W, Xu XH, Sun HW, Li F, Gao R, Yang SK, Lu XB, Li XD (2016) First report of Sugarcane mosaic virus infecting Canna spp. in China. Plant Dis 100(12):2541.  https://doi.org/10.1094/PDIS-05-16-0726-PDN CrossRefGoogle Scholar
  14. 14.
    Katoh K, Standley DM (2013) MAFFT multiple sequence alignment software version 7: improvements in performance and usability. Mol Biol Evol 30(4):772–780.  https://doi.org/10.1093/molbev/mst010 CrossRefGoogle Scholar
  15. 15.
    Martin DP, Murrell B, Golden M et al (2015) RDP4: detection and analysis of recombination patterns in virus genomes. DOI, Virus Evol.  https://doi.org/10.1093/ve/vev003 Google Scholar
  16. 16.
    Stedman KM (2015) Deep recombination: RNA and ssDNA virus genes in DNA virus and host genomes. Annu Rev Virol 2:203–217.  https://doi.org/10.1146/annurev-virology-100114-055127 CrossRefGoogle Scholar
  17. 17.
    Simon-Loriere E, Holmes EC (2011) Why do RNA viruses recombine? Nat Rev Microbiol 9:617–626CrossRefGoogle Scholar
  18. 18.
    Kumari A, Kaur C, Kumar S, Raj SK, Roy RK, Nautiyal CS (2015) First Report of Bean yellow mosaic virus causing a Mosaic Disease of Canna sp. in India. Plant Disease. 99(6):897.  https://doi.org/10.1094/PDIS-01-15-0001-PDN CrossRefGoogle Scholar
  19. 19.
    Zhang T, Breitbart M, Lee WH, Run J-Q, Wei CL, Soh SWL et al (2006) RNA viral community in human feces: prevalence of plant pathogenic viruses. PLoS Biol 4(1):e3.  https://doi.org/10.1371/journal.pbio.0040003 CrossRefGoogle Scholar

Copyright information

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

Authors and Affiliations

  1. 1.Department of Plant Sciences, School of Biological SciencesMadurai Kamaraj UniversityMaduraiIndia

Personalised recommendations