Skip to main content
SpringerLink
Log in

Complete genome sequence and phylogenetic relationships of tobacco streak virus causing groundnut stem necrosis disease in India

  • Original Article
  • Published:
VirusDisease Aims and scope Submit manuscript

Abstract

Tobacco streak virus (TSV, genus Ilarvirus family Bromoviridae) is known to cause stem necrosis disease (SND) in groundnut (Arachis hypogaea) since 2000 in Southern India. The TSV isolate infecting groundnut so far has not been characterized based on the complete genome sequence. In this study, TSV was isolated from a naturally infecting groundnut plant in Kadiri, the hot-spot of the SND in southern India. During the Kharif season of 2014, groundnut plants in an experimental field were affected with chlorosis and necrosis in leaf, stem and buds. The cent percent of the 48 samples with these symptoms collected from the field tested positive for TSV in ELISA samples in this context. One isolate, GN-Kad was established from a single lesion on cowpea cv. C-152 through successive sap inoculation. Cloning and sequencing of coat protein gene (717 nucleotides) of the isolate showed high sequence identity (98–99%) with the TSV isolates reported from different crops in India. The isolate produced local necrotic rings or veinal necrosis following sap inoculation to cowpea (cultivars C-152, Pusa Komal, Pusa Sukomal and Krishi Kanchan), French bean and sunflower; whereas, it produced systemic chlorotic mottling symptoms in Nicotiana benthamiana. The three segments of the virus genome (RNA 1, RNA 2 and RNA 3) contained 3523, 2903 and 2232 nucleotides, respectively. The overall genome sequence (8639 nt) of the present isolate shared 77–99% of nucleotide sequence identity with that of the other seven isolates reported from Australia, India and USA. The GN-Kad shared very close phylogenetic relationship with the okra and pumpkin isolates reported from India. The present report is the first comprehensive study of the molecular characterization of TSV associated with the stem necrosis disease of groundnut.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Log in via an institution

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Institutional subscriptions

Fig. 1
Fig. 2
Fig. 3
Fig. 4

Similar content being viewed by others

References

  1. Arunkumar N, Lakshmi NM, Usha BZ, Ravi KS. Natural occurrence and distribution of Tobacco streak virus in south India. Indian J Plant Prot. 2006;34:54–8.

    Google Scholar 

  2. Bhat AI, Jain RK, Chaudhary V, Krishna Reddy M, Ramaiah M, Chattannavar SN, Varma A. Sequence conservation in the coat protein gene of Tobacco streak virus isolates causing necrosis disease in cotton, mungbean, sunflower and sunn-hemp in India. Indian J Biotechnol. 2002;1:350–6.

    Google Scholar 

  3. Bhat AI, Jain RK, Kumar A, RamiahM VA. Serological and coat protein sequence studies suggest that necrosis disease on sunflower in India is caused by strain of Tobacco streak ilarvirus. Arch Virol. 2002;147:651–8.

    Article  CAS  PubMed  Google Scholar 

  4. Chander Rao S, Prasada Rao RDVJ, Manoj Kumar V, Divya S, Raman M. First report of Tobacco streak virus infecting safflower (Carthamustinctorius) in Maharashtra, India. Plant Dis. 2003;87:1396.

    PubMed  Google Scholar 

  5. Clark MF, Bar-Joseph M. Enzyme immunosorbent assays in plant virology. Methods Virol. 1984;2:51–85.

    Article  Google Scholar 

  6. Jain RK, Bag S, Awasthi LP. First report of natural infection of Capsicum annuum by Tobacco streak virus in India. Plant Pathol. 2005;54:257.

    Article  Google Scholar 

  7. Krishnareddy M, Salil J, Samuel DK. Outbreak of Tobacco streak virus causing necrosis of cucumber and gherkin in India. Plant Dis. 2003;87:1264.

    Article  CAS  PubMed  Google Scholar 

  8. Krishnareddy M, Vemana K, Kumar S. In: Mandal B, et al., editors. A century of plant virology in India. Singapore: Springer; 2017. p. 271–84.

    Chapter  Google Scholar 

  9. Ladhalakshmi D, Ramiah M, Ganapathy T, Krishna Reddy M, Khabbaz SE. First report of the natural occurrence of Tobacco streak virus on blackgram (Vigna mungo). Plant Pathol. 2006;55:569.

    Article  Google Scholar 

  10. Prasad Rao RDVJ, Reddy AS, Chander Rao S, Varaprasad KS, Thirumala DK. Tobacco streak Ilarvirusas causal agent of sunflower necrosis disease in India. J Oilseeds Res. 2000;17:400–1.

    Google Scholar 

  11. Ravi KS, Buttgereitt A, Kitkaru AS, Deshmukh S, Lesemann DE. Sunflower necrosis disease from India is caused by an Ilarvirusrelated to Tobacco streak virus. Plant Pathol. 2001;50:800.

    Article  Google Scholar 

  12. Reddy AS, Prasada Rao RDVJ, Thirumala-Devi K, Reddy SV, Mayo MA, Roberts I, Satyanarayana T, Subramaniam K, Reddy DVR. Occurrence of Tobacco streak virus on peanut (Arachis hypogaea) in India. Plant Dis. 2002;86:173–8.

    Article  CAS  PubMed  Google Scholar 

  13. Vemana K, Jain RK. New experimental hosts of tobacco streak virus and absence of true seed transmission in leguminous hosts. Indian J Virol. 2010;21:117–27.

    Article  CAS  PubMed  Google Scholar 

  14. Vinodkumar S, Nakkeeran S, Malathi VG, Karthikeyan G, Amala Balu P, Mohankumar S, Renukadevi P. Tobacco streak virus: an emerging threat to cotton cultivation in India. Phytoparasitica. 2017;45:729–43.

    Article  CAS  Google Scholar 

Download references

Acknowledgements

Authors are thankful to the Department of Science and Technology, Government of India for supporting the Indo-Japan Joint Research Project (DST/INT/JSPS/P-222/2016).

Author information

Authors and Affiliations

  1. Division of Plant Pathology, Advanced Centre for Plant Virology, Indian Agricultural Research Institute, New Delhi, 110012, India

    Daliyamol, A. Abdul Kader Jailani, Anirban Roy & Bikash Mandal

  2. Agricultural Research Station, Acharya NG Ranga Agricultural University, Ananthapuramu, Kadiri, Andhra Pradesh, 515591, India

    K. Vemana

  3. Division of Plant Pathology, Indian Institute of Horticultural Research, Hessaraghatta, Bangalore, 560089, India

    M. Krishnareddy

  4. Plant Molecular Biology and Virology, Graduate School of Agriculture, Ehime University, Tarumi, Matsuyama, Ehime, 790-8566, Japan

    Kappei Kobayashi

Authors
  1. Daliyamol
    View author publications

    You can also search for this author in PubMed Google Scholar

  2. A. Abdul Kader Jailani
    View author publications

    You can also search for this author in PubMed Google Scholar

  3. K. Vemana
    View author publications

    You can also search for this author in PubMed Google Scholar

  4. Anirban Roy
    View author publications

    You can also search for this author in PubMed Google Scholar

  5. M. Krishnareddy
    View author publications

    You can also search for this author in PubMed Google Scholar

  6. Kappei Kobayashi
    View author publications

    You can also search for this author in PubMed Google Scholar

  7. Bikash Mandal
    View author publications

    You can also search for this author in PubMed Google Scholar

Corresponding author

Correspondence to Bikash Mandal.

Electronic supplementary material

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Daliyamol, Jailani, A.A.K., Vemana, K. et al. Complete genome sequence and phylogenetic relationships of tobacco streak virus causing groundnut stem necrosis disease in India. VirusDis. 30, 227–236 (2019). https://doi.org/10.1007/s13337-018-0500-2

Download citation

  • Received:

  • Accepted:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1007/s13337-018-0500-2

Keywords

Search

Navigation