The complete sequence of a papaya ringspot virus (PRSV) isolate from West Bengal, India infecting papaya and study of ge
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The complete sequence of a papaya ringspot virus (PRSV) isolate from West Bengal, India infecting papaya and study of genetic variation Siriya Sultana & Buddhadeb Roy & Ang Rinzing Sherpa
Received: 30 March 2020 / Revised: 8 September 2020 / Accepted: 29 September 2020 # Koninklijke Nederlandse Planteziektenkundige Vereniging 2020
Abstract Papaya ringspot virus (PRSV) is one of the important pathogens responsible for damage of the papaya crop and causes significant yield loss of fruits and vegetable worldwide and hence a serious threat. In this study, PRSV-infected plant samples collected from different locations in North 24 Parganas districts of West Bengal, were tested with potyvirus specific ELISA and further confirmed with potyvirus group specific degenerate primers by RT PCR, TEM and sequence analysis. Our result indicates that the disease symptoms occurred in 80–100% of the plant in the field surveyed. The complete sequence of PRSV isolate WB was determined from RT-PCR products with specific primer pairs designed covering the whole genome and confirmed by next-generation sequencing. The whole genome of the PRSV was determined and submitted to GenBank as accession no. LC482263. The sequence of PRSV-WB (10,340 bp) was found to share upto 90% and 93%, identity with other PRSV isolates at the nucleotide and amino acid levels respectively. Based on phylogenetic analysis, PRSV- WB was found to be most closely related to PRSV-BD2 (MH397222) from papaya in Bangladesh (geographically close).
Electronic supplementary material The online version of this article (https://doi.org/10.1007/s10658-020-02124-4) contains supplementary material, which is available to authorized users. S. Sultana : B. Roy : A. R. Sherpa (*) Department of Botany, West Bengal State University, Malikapur, Berunanpukuria, 24 North Parganas, Barasat, Kolkata, W.B. 700126, India e-mail: [email protected]
Keywords Papaya ringspot virus . Complete genome . Phylogeny
Papaya ringspot virus (PRSV) is a definitive member of the genus Potyvirus in the family Potyviridae (Van Regenmortel et al. 2000). It is one of the most devastating virus constraints to the papaya industry (Carica papaya L.). PRSV is transmitted to papaya and cucurbits through aphids in a non-persistent manner (Purcifull et al. 1984), through seed and mechanical transmission (Gonsalves et al. 2010). The virions of PRSV are flexuous, filamentous rod measuring 760–800 nm × 12 nm (Yeh and Gonsalves 1984) consisting ssRNA (+) sense genome of approximately 10,326–10,343 nucleotides. PRSV has a single large open reading frame that translates into a large polypeptide and subsequently cleaved into 10 functionally active proteins (Yeh et al. 1992; Wang and Yeh 1997). The isolates of PRSV are broadly classified into two biotypes, those that infect papaya are PRSV-P type and the cucurbit infecting isolates are termed as PRSV-W (Yeh et al. 1984). In India, PRSV in papaya was first reported in 1958 from the western part of India, later it spread over many geographical regions including Himachal Pra
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