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Detection and molecular characterization of a Grapevine Roditis leaf discoloration-associated virus (GRLDaV) variant in an autochthonous grape from Apulia (Italy)

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Abstract

The complete nucleotide sequence and genome organization of a new Badnavirus isolated from the autochthonous grapevine variety “Bombino nero” from Apulia (Italy) was determined. The genome of this virus consists of 7097 nt and has four open reading frames (ORFs). Analysis of putative proteins encoded by each ORF revealed greatest sequence similarity to Grapevine Roditis leaf discoloration-associated virus w4 (GRLDaV; NC_027131). In a pairwise alignment with GLRDaV w4 genome sequence, the “Bombino Nero” sequence was 109 nt longer with a major 57 nt insertion between positions 2405 and 2413. Furthermore, its putative ORF4 is located after the ORF3, while in the GLRDaV w4 sequence, the putative ORF4 completely overlapped ORF3. Nucleotide analysis classifies this new Badnavirus as a GLRDaV strain, which was named GRLDaV-BN. Multi-year field observations showed that the GLRDaV-BN-infected vine was symptomless.

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References

  1. M. Al Rwahnih, M.R. Sudarshana, J.K. Uyemoto, A. Rowhani, J. Virol. 86, 9545 (2012)

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  2. M. Al Rwahnih, A. Dave, M.M. Anderson, A. Rowhani, J.K. Uyemoto, M.R. Sudarshana, Phytopathology 103, 1069–1076 (2013)

    Article  CAS  PubMed  Google Scholar 

  3. S.F. Altschul, T.L. Madden, A.A. Schäffer, J. Zhang, Z. Zhang, W. Miller, D.J. Lipman, Nucleic Acids Res. 25, 3389–3402 (1997)

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  4. M. Chiumenti, M. Morelli, A. Giampetruzzi, F. Palmisano, V.N. Savino, P. La Notte, G.P. Martelli, P. Saldarelli, J. Plant Pathol. 1, 1 (2015)

    Google Scholar 

  5. B. Coetzee, M.J. Freeborough, H.J. Maree, J.M. Celton, D.J. Rees, J.T. Burger, Virology 400, 157–163 (2010)

    Article  CAS  PubMed  Google Scholar 

  6. R.D. Finn, B.L. Miller, J. Clements, A. Bateman, Nucleic Acids Res. 42, D364–D373 (2014)

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  7. A.D.W. Geering, R. Hull, in Ninth Report of the International Committee on Taxonomy of Viruses, ed. by M.Q. King, M.J. Adams, E.B. Carstens, E.J. Lefkowitz (Elsevier Academic Press, Amsterdam, 2012), pp. 438–440

    Google Scholar 

  8. A. Giampetruzzi, V. Roumi, R. Roberto, U. Malossini, N. Yoshikawa, P. La Notte, F. Terlizzi, R. Credi, P. Saldarelli, Virus Res. 163, 262–268 (2012)

    Article  CAS  PubMed  Google Scholar 

  9. A. Giampetruzzi, M. Morelli, M. Chiumenti, V.N. Savino, G.P. Martelli, P. La Notte, F. Palmisano, P. Saldarelli, in Proceedings of the 18th Meeting of International Council for the Study of Virus and Virus-Like Diseases of the Grapevine (ICVG), (Ankara, Turkey, 2015), pp. 146–147

  10. T.A. Hall, Nucleic Acids Symp. Ser. 41, 95–98 (1999)

    CAS  Google Scholar 

  11. T. Hohn, J. Fütterer, R. Hull, Crit. Rev. Plant Sci. 16, 133–161 (1997)

    Article  CAS  Google Scholar 

  12. R. Li, H. Zhu, J. Ruan, W. Qian, X. Fang, Z. Shi, Y. Li, S. Li, G. Shan, K. Kristiansen, S. Li, H. Yang, J. Wang, J. Wang, Genome Res. 20, 265–272 (2010)

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  13. V.I. Maliogka, A. Olmos, P.G. Pappi, L. Lotos, K. Efthimiou, G. Grammatikaki, T. Candresse, N.I. Katis, A.D. Avgelis, Virus Res. 203, 47–55 (2015)

    Article  CAS  PubMed  Google Scholar 

  14. A. Marchler-Bauher, M.K. Derbyshire, N.R. Gonzales, S. Lu, F. Chitsaz, L.Y. Geer, R.C. Geer, J. He, M. Gwadz, D.I. Hurwitz, C.J. Lanczycki, F. Lu, G.H. Marchler, J.S. Song, N. Thanki, Z. Wang, R.A. Yamashita, D. Zhang, C. Zheng, S.H. Bryant, Nucleic Acids Res. 43, D222–D226 (2015)

    Article  Google Scholar 

  15. G.P. Martelli, J. Plant Pathol. 96(1sup), S1–S136 (2014)

    Google Scholar 

  16. I.T. Rombel, K.F. Sykes, S. Rayner, S.A. Johnston, Gene 282, 33–41 (2002)

    Article  CAS  PubMed  Google Scholar 

  17. J. Seguin, R. Rajeswaran, N. Malpica-Lopez, R.R. Martin, K. Kasschau, V.V. Dolja, P. Otten, L. Farinelli, M.M. Pooggin, PLoS One 9, e88513 (2014)

    Article  PubMed  PubMed Central  Google Scholar 

  18. D.R. Zerbino, E. Birney, Genome Res. 18, 821–829 (2008)

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  19. Y. Zhang, K. Singh, R. Kaur, W. Qiu, Phytopathology 101, 1081–1090 (2011)

    Article  CAS  PubMed  Google Scholar 

Download references

Acknowledgments

This work was supported by Re.Ge.Vi.P. project (“Recupero del germoplasma viticolo pugliese”), funded by Regione Puglia, Italy, in the frame of the PSR 2007-2013, Misura 214, azione 4a, “Progetti integrati per la Biodiversità”.

Author contributions

Study conception and design: M. Chiumenti. Acquisition of data: M. Chiumenti, A. Giampetruzzi, M. Morelli, F. Palmisano, P. La Notte, V.N. Savino. Analysis and interpretation of data: M. Chiumenti, G.P. Martelli. Drafting of manuscript: M. Chiumenti, P. Saldarelli. Critical revision: P. Saldarelli, G.P. Martelli, P. La Notte, V.N. Savino.

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Authors and Affiliations

  1. CNR-Istituto per la Protezione Sostenibile delle Piante (IPSP), UOS Bari, Via Amendola 122/D, 70126, Bari, Italy

    Michela Chiumenti, Annalisa Giampetruzzi, Massimiliano Morelli, Pierfederico La Notte & Pasquale Saldarelli

  2. Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti (DiSSPA), Università degli Studi di Bari Aldo Moro, 70126, Bari, Italy

    Vito Nicola Savino & Giovanni Paolo Martelli

  3. Centro di Ricerca, Sperimentazione e Formazione in Agricoltura (CRSFA) “Basile Caramia”, Locorotondo, 70010, Bari, Italy

    Vito Nicola Savino, Pierfederico La Notte & Francesco Palmisano

Authors
  1. Michela Chiumenti
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  2. Annalisa Giampetruzzi
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  3. Massimiliano Morelli
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  4. Vito Nicola Savino
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  5. Giovanni Paolo Martelli
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  6. Pierfederico La Notte
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  7. Francesco Palmisano
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  8. Pasquale Saldarelli
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Corresponding author

Correspondence to Michela Chiumenti.

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

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Edited by Karel Petrzik.

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Chiumenti, M., Giampetruzzi, A., Morelli, M. et al. Detection and molecular characterization of a Grapevine Roditis leaf discoloration-associated virus (GRLDaV) variant in an autochthonous grape from Apulia (Italy). Virus Genes 52, 428–431 (2016). https://doi.org/10.1007/s11262-016-1305-2

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  • DOI: https://doi.org/10.1007/s11262-016-1305-2

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