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Molecular characterization of Coleus blumei viroids 1 and 3 in Plectranthus scutellarioides in Croatia

  • Dijana ŠkorićEmail author
  • Silvija Černi
  • Karlo Jezernik
  • Anamarija Butković
Article

Abstract

Asymptomatic Plectranthus scutellarioides (syn. Coleus blumei) plants of four different cultivars were investigated for the presence of Coleus blumei viroid (CbVd) species (genus Coleviroid, family Pospiviroidae). Cloned and sequenced amplicons obtained by generic coleviroid primers were analyzed for their primary and secondary structure. CbVd-1 was found in one of the coleus cultivars in a single infection and in another cultivar in a mixed infection with CbVd-3. Additionally, CbVd-3 was found in a third coleus cultivar in a single infection. In singly and doubly infected cultivars, both CbVd-1 and CbVd-3 variants displayed higher variability regarding both length and nucleotide composition in a doubly infected cultivar. Sequences from different cultivars showed different phylogenetic grouping suggesting distinct infection sources, probably introduced infected seeds. For all phylogenetic subgroups, characteristic nucleotide changes were identified and their influence on the secondary structure was predicted. The most noticeable structural changes were observed in nucleotide positions 25–26 in CbVd-1 and in the position 138 in CbVd-3 variants. This work includes the first report of coleviroids in Croatia, the second reported coleviroids sequences from Europe and the third report of CbVd-3 in the world enlarging the pool of knowledge on the variability and distribution of viroids in horticultural crops.

Keywords

CbVd-1 CbVd-3 Coleviroids Mixed infection Painted nettle 

Notes

Acknowledgements

Part of the research done by Karlo Jezernik and Anamarija Butković shown here was done for completing their master theses. The Department of Biology, Faculty of Science, University of Zagreb administratively and technically supported them. We are grateful for the technical assistance of Darinka Kajić in the greenhouse and Marin Ježić for the preparation of figures.

Funding

This study was funded by the University of Zagreb grants to D. Škorić and S. Černi numbers: 20281214, 20282308 and 20283119.

Compliance with ethical standards

This research fully complies with Ethical Standards applicable for this journal and the relevant national and international ethics standards and professional codes of conduct.

Conflict of interest

The authors declare that they have no conflict of interest.

Supplementary material

10658_2019_1801_MOESM1_ESM.jpg (215 kb)
ESM 1 The following are available online Fig. S1: Plants from the family Lamiaceae RT-PCR tested for the presence of coleviroids with generic primers (Jiang et al. 2011b) with a negative outcome. (a) Plectranthus forsteri ‘Marginatus’ with bleaching symptoms; (b) Salvia hispanica (chia); (c) Ajuga reptans ‘Multicolor’; (d) Salvia hians; (e) Nepeta x fassennii ‘Snowflake’. Common basil (Ocimum basilicum) is not shown. (JPG 215 kb)

References

  1. Adkar-Purushothama, C. R., Nagaraja, H., Sreenivasa, M. Y., & Sano, T. (2013). First report of Coleus blumei viroid infecting coleus in India. Plant Disease, 97, 149.CrossRefGoogle Scholar
  2. Černi, S., Ćurković-Perica, M., Rusak, G., & Škorić, D. (2012). In vitro system for studying interactions between Citrus exocortis viroid and Gynura aurantiaca (Blume) DC. Metabolism and growing conditions. Journal of Plant Interactions, 7, 254–261.CrossRefGoogle Scholar
  3. Chung, B. M., & Choi, G. S. (2008). Incidence of Coleus blumei viroid 1 in seeds of commercial coleus in Korea. The Plant Pathology Journal, 24, 305–308.CrossRefGoogle Scholar
  4. Fonseca, M. E. N., Marcellino, L. H., Kitajima, E. W., & Boiteux, L. S. (1994). Nucleotide sequence of the original Brazilian isolate of coleus yellow viroid from Solenostemon scutellarioides and infectivity of its complementary DNA. Journal of General Virology, 75, 1447–1449.CrossRefGoogle Scholar
  5. Hou, W.-Y., Li, S.-F., Wu, Z.-J., Jiang, D.-M., & Sano, T. (2009a). Coleus blumei viroid 6: A new tentative member of the genus Coleviroid derived from natural genome shuffling. Archives of Virology, 154, 993–997.CrossRefGoogle Scholar
  6. Hou, W.-Y., Sano, T., Li, S.-F., Li, F., Li, L., & Wu, Z.-J. (2009b). Identification and characterization of a new coleviroid (CbVd-5). Archives of Virology, 154, 315–320.CrossRefGoogle Scholar
  7. Ishiguro, A., Sano, T., & Harada, Y. (1996). Nucleotide sequence and host range of coleus viroid isolated from coleus (Coleus blumei Benth.) in Japan. Annals of the Phytopathological Society of Japan, 62, 84–86.CrossRefGoogle Scholar
  8. Jiang, D.-M., Li, S.-F., Fu, F.-H., Wu, Z.-J., & Xie, L.-H. (2011a). First reported occurrence of Coleus blumei viroid 3 from Coleus blumei in China. Journal of Plant Pathology, 93, S4.82.Google Scholar
  9. Jiang, D. M., Wu, Z. J., Xie, L. H., Sano, T., & Li, S. F. (2011b). Sap-direct RT-PCR for the rapid detection of Coleus blumei viroids of the genus Coleviroid from natural host plants. Journal of Virological Methods, 174, 123–127.CrossRefGoogle Scholar
  10. Jiang, D. M., Li, S. F., Fu, F. H., Wu, Z. J., & Xie, L. H. (2013). First report of Coleus blumei viroid 5 from Coleus blumei in India and Indonesia. Plant Disease, 97, 561.CrossRefGoogle Scholar
  11. Jiang, D., Gao, R., Quin, L., Wu, Z., Xie, L., Hou, W., & Li, S. (2014). Infectious cDNA clones of four viroids in Coleus blumei and molecular characterization of their progeny. Virus Research, 180, 97–101.CrossRefGoogle Scholar
  12. Kumar, S., Stecher, G., & Tamura, K. (2016). MEGA7: Molecular evolutionary genetics analysis version 7.0 for bigger datasets. Molecular Biology and Evolution, 33, 1870–1874.CrossRefGoogle Scholar
  13. Li, S. F., Su, Q. F., Guo, R., Tsuji, M., & Sano, T. (2006). First report of Coleus blumei viroid from coleus in China. Plant Pathology, 55, 565.CrossRefGoogle Scholar
  14. Nie, X., & Singh, R. P. (2017). Coleus blumei viroids. In A. Hadidi, R. Flores, J. W. Randles, & P. Palukaitis (Eds.), Viroids and satellites (pp. 289–295). Amsterdam: Academic Press, Elsevier.CrossRefGoogle Scholar
  15. Roslan, N. N. C., Thanarajoo, S. S., Kadir, J., Kong, L. L., & Vadamalai, G. (2017). First report of Coleus blumei viroid in Malaysia. Journal of Plant Pathology, 99, 800.Google Scholar
  16. Semancik, J. S., Roistacher, C. N., Rivera-Bustamante, R., & Duran-Vila, N. (1988). Citrus cachexia viroid, a new viroid of citrus: Relationship to viroids of the exocortis viroid complex. Journal of General Virology, 69, 3059–3068.CrossRefGoogle Scholar
  17. Singh, R. P., Boucher, A., & Singh, A. (1991). High incidence of transmission and occurrence of viroid in commercial seeds of Coleus in Canada. Plant Disease, 75, 184–187.CrossRefGoogle Scholar
  18. Singh, R. P., Boiteux, M. E. N. F., Ready, K. F. M., & Nie, X. (2003). Coleus blumei viroid. In A. Hadidi, R. Flores, J. W. Randles, & J. S. Semancik (Eds.), Viroids (pp. 228–230). Collingwood: CSIRO Publishing.Google Scholar
  19. Smith, R. L., Lawrence, J., Shukla, M., Singh, M., Li, X., Xu, H., Gardner, K., & Nie, X. (2018a). First report of Coleus blumei viroid 5 and molecular confirmation of Coleus blumei viroid 1 in commercial Coleus blumei in Canada. Plant Disease, 102, 1862.CrossRefGoogle Scholar
  20. Smith, R. L., Lawrence, J., Shukla, M., Singh, M., Li, X., Xu, H., Chen, D., Gardner, K., & Nie, N. (2018b). Occurrence of Coleus blumei viroid 6 in commercial Coleus blumei in Canada – The first report outside of China. Plant Disease, 103, 782.  https://doi.org/10.1094/PDIS-10-18-1875-PDN.CrossRefGoogle Scholar
  21. Spieker, R. L. (1996a). In vitro-generated ‘inverse’ chimeric Coleus blumei viroids evolve in vivo into infectious RNA replicons. Journal of General Virology, 77, 2839–2846.CrossRefGoogle Scholar
  22. Spieker, R. L. (1996b). A new sequence variant of Coleus blumei viroid 1 from the Coleus blumei cultivar ‘rainbow gold’. Archives of Virology, 141, 2153–2161.CrossRefGoogle Scholar
  23. Spieker, R. L., Marinkovic, S., & Sanger, H. L. (1996). A new sequence variant of Coleus blumei viroid 3 from the Coleus blumei cultivar ‘fairway ruby’. Archives of Virology, 141, 1377–1386.CrossRefGoogle Scholar
  24. Thompson, J. D., Gibbson, T. J., Plewniak, F., Jeanmougin, F., & Higgins, D. G. (1997). The ClustalX windows interface: Flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Research, 25, 4876–4882.CrossRefGoogle Scholar
  25. Tsushima, T., & Sano, T. (2015). First report of Coleus blumei viroid 5 infection in vegetatively propagated clonal coleus cv. ‘Aurora black cherry’ in Japan. New Disease Reports, 32, 7.CrossRefGoogle Scholar
  26. Tsushima, T., & Sano, T. (2018). A point-mutation of Coleus blumei viroid 1 switches the potential to transmit through seed. Journal of General Virology, 99, 393–401.CrossRefGoogle Scholar
  27. Vuković, R., Bauer, N., & Ćurković-Perica, M. (2013). Genetic elicitation by inducible expression of β-cryptogein stimulates secretion of phenolics from Coleus blumei hairy roots. Plant Science, 199-200, 18–28.CrossRefGoogle Scholar
  28. Zuker, M. (2003). Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Research, 31, 3406–3415.CrossRefGoogle Scholar

Copyright information

© Koninklijke Nederlandse Planteziektenkundige Vereniging 2019

Authors and Affiliations

  • Dijana Škorić
    • 1
    Email author
  • Silvija Černi
    • 1
  • Karlo Jezernik
    • 1
  • Anamarija Butković
    • 1
    • 2
  1. 1.Faculty of Science, Department of BiologyUniversity of ZagrebZagrebCroatia
  2. 2.I2SysBio (CSIC-UV), Parc Cientific UVPaternaSpain

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