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Archives of Virology

, Volume 163, Issue 3, pp 777–780 | Cite as

Molecular characterization reveals that squash chlorosis mottling virus and zucchini tigré mosaic virus are the same newly emerging potyvirus

Annotated Sequence Record

Abstract

In 2013, we published the first report of a novel potyvirus isolate, which was tentatively named squash chlorosis mottling virus (SqCMV), from an infected squash plant (Cucurbita pepo) collected in the Homestead area of Florida. The purpose of the current work was to further characterize the virus isolate based on molecular properties, and to determine its relationship to other potyviruses. The complete genome sequence of the virus was 10,292 nucleotides (nt), consisting of a 5’-UTR (182 nt), a complete ORF (10,098 nt) encoding a polyprotein of 3,365 amino acids, a motif for the PIPO protein and a 3’-UTR (112 nt), but excluding the poly-(A) tail. Phylogenetic analysis based on the complete genome and amino acid sequences revealed that the virus from Florida clustered with the type isolate of the newly described potyvirus zucchini tigré mosaic virus (ZTMV) sharing 82-90% nucleotide and 83-86% amino acid identities, respectively. Recombination analysis confirmed one major recombination event in the putative P1 coding region of the virus with the putative parental sequences predicted to resemble to ZTMV-Venezuela and France isolates. In addition, genetic diversity analysis indicated that the CP gene was under the highest selection pressure compared to other genes. Together, these results suggest that SqCMV and ZTMV are both representative isolates of the same species, Zucchini tiger mosaic virus. We present the first complete genome sequence of the ZTMV-HFL isolate from the USA.

Notes

Acknowledgments

We are thankful to Dr. Gary E. Vallard, at the Department of Plant Pathology, The University of Florida and Dr. Shouan Zhang, at the Tropical Research and Education Center, The University of Florida for collecting cucurbit samples in Tampa and Homestead areas of Florida, respectively. We are also thankful to Professor Ulrich Melcher and Peggy Hill for careful review of the manuscript and valuable suggestions.

Compliance with Ethical Standards

Funding

This research was funded by Office of Research and Sponsored Program, The University of Tulsa, grant number 2021211474.

Conflict of interest

No conflict of interest.

Ethical approval

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

Supplementary material

705_2017_3657_MOESM1_ESM.docx (19 kb)
Supplementary material 1 (DOCX 19 kb)

References

  1. 1.
    Abdalla OA, Ali A (2013) First report of a novel Potyvirus from Florida causing chlorotic mottling in squash (Cucurbita pepo). Plant Dis 97:1259CrossRefGoogle Scholar
  2. 2.
    Adams MJ, Antoniw JF, Fauquet C (2005) Molecular criteria for genus and species discrimination within the family Potyviridae. Arch Virol 150:459–479CrossRefPubMedGoogle Scholar
  3. 3.
    Adkins S, Webb SE, Baker CA, Kousik CS (2007) Squash vein yellowing virus detection using nested polymerase chain reaction demonstration that the cucurbit weed Momordica charantia is a reservoir host. Plant Dis 92:1119–1123CrossRefGoogle Scholar
  4. 4.
    Ali A, Mohammad O, Khattab A (2012) Distribution of viruses infecting cucurbits crops and isolation of potential virus-like sequences from weeds in Oklahoma. Plant Dis 96:243–248CrossRefGoogle Scholar
  5. 5.
    Chung BYW, Miller WA, Atkins JF, Firth AE (2008) An overlapping essentiapgene in the Potyviridae. Proc Natl Acad Sci USA 105:5897–5902CrossRefPubMedPubMedCentralGoogle Scholar
  6. 6.
    Deng CL, Wang WJ, Wang ZY, Jiang X, Cao YY, Zhou T, Wang FR, Li HF, Fan ZF (2008) The genomic sequence and biological properties of Pennisetum mosaic virus, a novel monocot-infecting Potyvirus. Arch Virol 153:921–927CrossRefPubMedGoogle Scholar
  7. 7.
    De Sa PB, Hiebert E, Purcifull DE (2000) Molecular characterization and coat protein serology of watermelon leaf mottle virus Potyvirus. Arch Virol 145:641–650CrossRefPubMedGoogle Scholar
  8. 8.
    Korber B (2000) HIV Signature and Sequence Variation Analysis. Computational Analysis of HIV Molecular Sequences. Kluwer Academic Publishers, DordrechtGoogle Scholar
  9. 9.
    Kumar S, Stecher G, Tamura K (2015) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874CrossRefGoogle Scholar
  10. 10.
    Lecoq H, Desbiez H (2012) Viruses of cucurbit crops in the Mediterranean region: an ever-changing picture. Adv Virus Res 84:67–126CrossRefPubMedGoogle Scholar
  11. 11.
    Martin DP, Murrell B, Golden M, Khoosal A, Muhire B (2015) RDP4: Detection and analysis of recombination patterns in virus genomes. Virus Evol 1:1CrossRefGoogle Scholar
  12. 12.
    NASS (2016) National Agriculture Statistics Service- United State Department of Agriculture. www.nass.usda.gov
  13. 13.
    Purcifull DE, Hiebert E, Petersen MA, Simone GW, Kucharek TA, Gooch MD, Crawford WE, Beckham KA, De Sa PB (1998) Partial characterization of a distinct potyvirus isolated from watermelon in Florida. Plant Dis 82:1386–1390CrossRefGoogle Scholar
  14. 14.
    Rambaut A (2010) FigTree 1.3.1. http://tree.bio.ed.ac.uk/software/figtree
  15. 15.
    Romay G, Lecq H, Desbiez C (2014) Zucchini tigre mosaic virus is a distinct potyvirus in the Papaya ringspot virus cluster: molecular and biological insights. Arch Virol 159:277–289CrossRefPubMedGoogle Scholar
  16. 16.
    Tamura K, Nei M, Kumar S (2004) Prospects of inferring very large phylogenies by using the neighbor-joining method. Proc Natl Acad Sci USA 101:11030–11035CrossRefPubMedPubMedCentralGoogle Scholar
  17. 17.
    Thompson JD, Gibsob TJ, Plewniak F, Jeanmougin F, Higgins DG (1997) The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tool. Nucleic Acids Res 25:4876–4882CrossRefPubMedPubMedCentralGoogle Scholar

Copyright information

© Springer-Verlag GmbH Austria, part of Springer Nature 2017

Authors and Affiliations

  1. 1.Department of Biological ScienceThe University of TulsaTulsaUSA
  2. 2.Department of Plant Pathology, Faculty of AgricultureAssiut UniversityAssiutEgypt

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