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The first complete genomic sequence of cardamom mosaic virus, a member of the genus Macluravirus (family Potyviridae)

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Abstract

The complete genome sequence of the KS isolate of cardamom mosaic virus (CdMV) was determined using transcriptome sequencing data from CdMV-infected Elettaria cardamomum as well as from overlapping cDNA clones made from RNA extracted from viral particles. The viral genome consists of 8249 nucleotides (nt) and encodes a large polyprotein of 2636 amino acids (aa). The polyprotein of CdMV shared 48.9%-67.4% aa sequence identity with other reported macluraviruses. Similar to the other members of genus Macluravirus, the genome of CdMV lacks the P1 coding region and the N-terminus of the HC-Pro coding region. The putative small open reading frame, PIPO, embedded within the P3 cistron, is preceded by a C(A)6 motif instead of G(A)6. Phylogenetic analysis based on the complete genome sequence aided the grouping of CdMV along with all other macluraviruses and showed that it is closely related to alpinia oxyphylla mosaic virus (AloMV). Among CdMV isolates, the KS isolate is most similar to the Appangala isolate based on disease symptoms and phylogeny.

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References

  1. Jacob T, Usha R (2001) 3’-Terminal sequence analysis of the RNA genome of the Indian isolate of cardamom mosaic virus: a new member of genus Macluravirus of potyviridae. Virus Genes 23:81–88. https://doi.org/10.1023/A:1011191614839

    Article  CAS  PubMed  Google Scholar 

  2. Venugopal MN (1995) Viral diseases of cardamom (Elettaria cardamomum Maton) and their management. J Spices Aromat Crops 4:32–39

    Google Scholar 

  3. Siljo A, Bhat AI, Biju CN, Venugopal MN (2012) Occurrence of banana bract mosaic virus on cardamom. Phytoparasitica 40:77–85. https://doi.org/10.1007/s12600-011-0193-1

    Article  Google Scholar 

  4. Wylie SJ, Adams M, Chalam C, Kreuze J, Lopez-Moya JJ, Ohshima K, Praveen S, Rabenstein F, Stenger D, Wang A, Zerbini FM, ICTV Report Consortium (2017) ICTV virus taxonomy profile: potyviridae. J Gen Virol 98:352–354. https://doi.org/10.1099/jgv.0.000740

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  5. Chung BY, Miller WA, Atkins JF, Firth AE (2008) An overlapping essential gene in the Potyviridae. PNAS 105:5897–5902. https://doi.org/10.1073/pnas.0800468105

    Article  CAS  PubMed  Google Scholar 

  6. King AMQ, Lefkowitz EJ, Mushegian AR, Adams MJ, Dutilh BE, Gorbalenya AE, Harrach B, Harrison RL, Junglen S, Knowles NJ, Kropinski AM, Krupovic M, Kuhn JH, Nibert ML, Rubino L, Sabanadzovic S, Sanfaçon H, Siddell SG, Simmonds P, Varsani A, Zerbini FM, Davison AJ (2018) Changes to taxonomy and the international code of virus classification and nomenclature ratified by the International committee on Taxonomy of viruses. Arch Virol 163:2601–2631. https://doi.org/10.1007/s00705-018-3847-1

    Article  CAS  PubMed  Google Scholar 

  7. Deepa K, Sheeja TE, Santhi R, Sasikumar B, Sasikumar B, Anu C, Deepesh PV, Prasath D (2014) A simple and efficient protocol for isolation of high quality functional RNA from different tissues of turmeric (Curcuma longa L.). Physiol Mol Biol Plants 20:263–271. https://doi.org/10.1007/s12298-013-0218-y

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  8. Hu W, Li Z, Wang X, Liu W, Huang C, Miao W, Cui H (2018) Complete genomic sequence of a novel macluravirus, alpinia oxyphylla mosaic virus (AloMV), identified in Alpinia oxyphylla. Arch Virol 163:2579–2582. https://doi.org/10.1007/s00705-018-3879-6

    Article  CAS  PubMed  Google Scholar 

  9. Zamora M, Mendez-Lopez E, Agirrezebala X, Cuesta R, Lavin JL, Sanchez-Pina MA, Aranda MA, Valle M (2017) Potyvirus virion structure shows conserved protein fold and RNA binding site in ssRNA viruses. Sci Adv 13:45. https://doi.org/10.1126/sciadv.aao2182

    Article  CAS  Google Scholar 

  10. Kumar S, Stecher G, Tamura K (2016) MEGA7: molecular evolutionary genetics analysis version 7.0 for bigger datasets. Mol Biol Evol 33:1870–1874. https://doi.org/10.1093/molbev/msw054

    Article  CAS  Google Scholar 

  11. Jacob T, Jebasingh T, Venugopal MN, Usha R (2003) High genetic diversity in the coat protein and 3’ untranslated regions among geographical isolates of Cardamom mosaic virus from south India. J Biosci 28:589–595. https://doi.org/10.1007/BF02703334

    Article  CAS  PubMed  Google Scholar 

  12. Ghosh A, Chakrabarthi S, Mandal B, Krishnakumar NK (2017) Aphids as vectors of the plant viruses in India: a century of plant virology in india. Springer, Singapore, pp 515–536

    Book  Google Scholar 

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Acknowledgements

This work was supported by the University Grants Commission (UGC), Government of India (File. No: 41-555/2012 (SR)).

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Authors and Affiliations

  1. Department of Plant Sciences, School of Biological Sciences, Madurai Kamaraj University, Madurai, Tamil Nadu, 625021, India

    Sangeetha Elangovan & Jebasingh Tennyson

  2. Department of Plant Biotechnology, School of Biotechnology, Madurai Kamaraj University, Madurai, Tamil Nadu, 625021, India

    Nagesh Srikakulam, Gopal Pandi & Usha Ramakrishnan

  3. Department of Biomedical Engineering, Oregon Health and Science University, 2730 SW Moody Ave, Portland, OR, 97201, United States

    Thomas Jacob

  4. Indian Institute of Spices Research, Appangala, 571 201, Karnataka, India

    Venugopal Madhugiri Narayanarao

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  1. Sangeetha Elangovan
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  2. Nagesh Srikakulam
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  3. Gopal Pandi
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  4. Thomas Jacob
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  5. Usha Ramakrishnan
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  6. Venugopal Madhugiri Narayanarao
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  7. Jebasingh Tennyson
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Correspondence to Jebasingh Tennyson.

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Elangovan, S., Srikakulam, N., Pandi, G. et al. The first complete genomic sequence of cardamom mosaic virus, a member of the genus Macluravirus (family Potyviridae). Arch Virol 164, 1723–1726 (2019). https://doi.org/10.1007/s00705-019-04203-2

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  • DOI: https://doi.org/10.1007/s00705-019-04203-2

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