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Evidence of Recombinant Citrus tristeza virus Isolate Occurring in Acid Lime cv. Pant Lemon Orchard in Uttarakhand Terai Region of Northern Himalaya in India

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Abstract

The present study for the first time describes biological and molecular characterization of Citrus tristeza virus (CTV) occurring in the Terai area of Uttarakhand State in Northern Himalaya region of India. Direct antigen coated-ELISA and reverse transcriptase-polymerase chain reaction (RT-PCR) detected the CTV infection in Acid lime cv. Pant lemon (Citrus aurantifolia) orchards of Pantnagar with an estimated disease incidence of 16.6–20.5 %. To know the biological and genetic properties, an isolate, CTV Pant 4 was characterized. Isolate Pant 4 could be graft transmitted to Kinnow, Nagpur and Darjeeling mandarins, Mosambi sweet orange, Kagzi lime, Sweet lime, Sour orange but not to Rough lemon. The sequence analyses of the 5′ORF1a (3038 nucleotides) of LPro domain and 3′end (2058 nt) covering ORF7–ORF10 regions of the CTV genome revealed that Pant 4 was closely related to the previously reported Indian CTV isolate, Kpg3 from Northeastern Himalaya region with 97 and 98 % sequence identity, respectively. Whereas, it differed from the previously reported CTV isolate B165 from Southern India with 79 and 92 % identity, respectively for 5′ORF1a and 3′ end regions. Recombination and SplitsTree decomposition analyses indicated that CTV isolate Pant 4 was a recombinant isolate originating from Kpg3 as a major and B165 as a minor donor.

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Acknowledgments

The authors are grateful to Head, Division of Plant Pathology; Director, IARI, New Delhi for providing financial and laboratory support; Prof. Anupam Varma for his guidance in this work. This study has been supported by Research Project (Code No. 24-33), Department of Biotechnology, Govt. of India. The first author is grateful to ICAR for financial assistance as JRF and thankful to Dr. A. K. Singh and Dr. (Mrs.) P. Sharma, IARI, for valuable suggestions. We are thankful to N. Trivedi, GBPAU&T, Pantnagar for his assistance during survey and sample collection.

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Authors and Affiliations

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

    Jaywant Kumar Singh, Avijit Tarafdar, Susheel Kumar Sharma & Kajal Kumar Biswas

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  1. Jaywant Kumar Singh
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  2. Avijit Tarafdar
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  3. Susheel Kumar Sharma
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  4. Kajal Kumar Biswas
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Correspondence to Kajal Kumar Biswas.

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Singh, J.K., Tarafdar, A., Sharma, S.K. et al. Evidence of Recombinant Citrus tristeza virus Isolate Occurring in Acid Lime cv. Pant Lemon Orchard in Uttarakhand Terai Region of Northern Himalaya in India. Indian J. Virol. 24, 35–41 (2013). https://doi.org/10.1007/s13337-012-0118-8

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  • DOI: https://doi.org/10.1007/s13337-012-0118-8

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