Abstract
A potyvirus (isolate PFV-FJ) infecting passion fruit in China was identified by small-RNA sequencing. The complete genome sequence of PFV-FJ was determined to be 9974 nucleotides, excluding the poly(A) tail. PFV-FJ shares 70–72% nucleotide and 69–74% amino acid sequence identity at the polyprotein level with seven reported potyviruses, but 89% nucleotide and 91% amino acid sequence identity with an unreported potyvirus, tentatively named “passionfruit Vietnam potyvirus” (PVNV-DakNong). This suggests that PFV-FJ and PVNV-DakNong should belong to the same potyvirus species and that PFV-FJ is a new member of the genus Potyvirus. This new potyvirus was tentatively named “passion fruit severe mottle-associated virus”.
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References
Abascal F, Zardoya R, Telford MJ (2010) TranslatorX: multiple alignment of nucleotide sequences guided by amino acid translations. Nucleic Acids Res 38:W7–13
Adams MJ, Antoniw JF, Beaudoin F (2005) Overview and analysis of the polyprotein cleavage sites in the family Potyviridae. Mol Plant Pathol 6:471–487
Baker CA, Jeyaprakash A, Webster CG, Adkins S (2011) Viruses infecting passiflora species in Florida. Eur Biophys J 40:175–180
Chen J, Chen J, Adams MJ (2001) A universal PCR primer to detect members of the Potyviridae and its use to examine the taxonomic status of several members of the family. Arch Virol 146:757–766
Chung BY, Miller WA, Atkins JF, Firth AE (2008) An overlapping essential gene in the Potyviridae. Proc Natl Acad Sci USA 105:5897–5902
Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W, Gascuel O (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0. Syst Biol 59:307–321
Ha C, Coombs S, Revill PA, Harding RM, Vu M, Dale JL (2008) Design and application of two novel degenerate primer pairs for the detection and complete genomic characterization of potyviruses. Arch Virol 153:25–36
Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98
Kalyaanamoorthy S, Minh BQ, Wong TKF, von Haeseler A, Jermiin LS (2017) ModelFinder: fast model selection for accurate phylogenetic estimates. Nat Methods 14:587–589
Lefkowitz EJ, Dempsey DM, Hendrickson RC, Orton RJ, Siddell SG, Smith DB (2018) Virus taxonomy: the database of the International Committee on Taxonomy of Viruses (ICTV). Nucleic Acids Res 46:D708–D717
Nguyen L-T, Schmidt HA, von Haeseler A, Minh BQ (2014) IQ-TREE: A fast and effective stochastic algorithm for estimating maximum likelihood phylogenies. Mol Biol Evol 32:268–274
Wu LP, Liu HW, Bateman M, Liu Z, Li R (2017) Molecular characterization of a novel luteovirus from peach identified by high-throughput sequencing. Archi Virol 162:2903–2905
Xie L, Zhang X, Zheng S, Zhang L, Li T (2017) Molecular identification and specific detection of Telosma mosaic virus infecting passion fruit. Sci Agric Sinica 50:4725–4734
Xie L, Zhang L, Zhang X, Zheng S, Li T (2018) First report of East Asian passiflora virus infecting Passiflora edulis in Fujian, China. Acta Hort Sinica 45:1587–1594
Yang K, Yan H, Song L, Jin P, Miao W, Cui H (2018) Analysis of the complete genome sequence of a potyvirus from passion fruit suggests its taxonomic classification as a member of a new species. Arch Virol 163:2583–2586
Zhang D, Gao F, Li WX, Jakovlić I, Zou H, Zhang J, Wang GT (2018) PhyloSuite: an integrated and scalable desktop platform for streamlined molecular sequence data management and evolutionary phylogenetics studies. bioRxiv:489088
Zhou X, Xie Y, Peng Y, Zhang Z (2003) Malvastrum yellow vein virus, a new Begomovirus species associated with satellite DNA molecule. Chin Sci Bull 48:2205–2209
Funding
This work was supported by the Natural Science Foundation of China, P. R. China (Grant No. 31772103) and General Project of Fujian Academy of Agricultural Sciences (Grant No. AA2018-1).
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Xie, L., Gao, F., Zheng, S. et al. Molecular characterization of a new potyvirus infecting passion fruit. Arch Virol 164, 1903–1906 (2019). https://doi.org/10.1007/s00705-019-04251-8
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DOI: https://doi.org/10.1007/s00705-019-04251-8