Abstract
Complete genome sequences of two cycas necrotic stunt virus (CNSV) isolates from Paeonia suffruticosa and Daphne odora were determined. Phylogenetic trees and pairwise comparisons using complete RNA1- and RNA2-encoded polyproteins showed that the two CNSV isolates are divergent (83.19%–89.42% in polyprotein 1 and 73.61%–85.78% in polyprotein 2). A comparative analysis based on taxonomic criteria for the species demarcation of nepoviruses confirmed that they are not new species but distinct variants. This is the first report of the complete genome sequences of CNSV detected in P. suffruticosa and D. odora, and the first report of CNSV infecting P. suffruticosa.
This is a preview of subscription content, log in via an institution to check access.
Data availability
The dataset generated during the current study is available in GenBank (accession nos. MK512741, MK512742, MK521837, and MK521838)’.
References
Brister JR, Ako-Adjei D, Bao Y, Blinkova O (2015) NCBI viral genomes resource. Nucleic Acids Res 43(Database issue):D571–D577
Finn RD, Bateman A, Clements J, Coggill P, Eberhardt RY, Eddy SR, Heger A, Hetherington K, Holm L, Mistry J, Sonnhammer EL, Tate J, Punta M (2014) Pfam: the protein families database. Nucleic Acids Res 42(Database issue):D222–D230
Fuchs M, Schmitt-Keichinger C, Sanfaçon H (2017) A renaissance in nepovirus research provides new insights into their molecular interface with hosts and vectors. Adv Virus Res 97:61–105
Gentallan RP, Mizuta D, Lalusin AG (2017) Presence of putative Cycas necrotic stunt virus RNAs in Japanese primrose (Primula sieboldii E. Morren). Arch Phytopathol Plant Prot 50:117–122
Han SS, Karasev AV, Ieki H, Iwanami T (2002) Nucleotide sequence and taxonomy of Cycas necrotic stunt virus. Arch Virol 147(11):2207–2214
Hanada K, Fukumoto F, Kusunoki M, Kameya-Iwaki M, Tanaka Y, Iwanami T (2006) Cycas necrotic stunt virus isolated from gladiolus plants in Japan. J Gen Plant Pathol 72:383–386
Kusunoki M, Hanada K, Iwaki M, Chang MU, Doi Y, Yora K (1986) Cycas necrotic stunt virus, a new member nepoviruses found in Cycas revoluta; host range, purification, serology and some properties. Ann Phytopath Soc Japan 52:302–311
Lee BY, Ryu KH (2006) Identification and molecular detection of Cycas necrotic stunt virus from Daphne odora plants in Korea. Hortic Environ Biotechnol 47(2):75–79
Lim S, Igori D, Zhao F, Yoo RH, An TJ, Lim HS, Lee SH, Moon JS (2015) Complete genome sequence of a tentative new caulimovirus from the medicinal plant Atractylodes macrocephala. Arch Virol 160(12):3127–3131
Lim S, Kim KH, Zhao F, Yoo RH, Igori D, Lee SH, Moon JS (2015) Complete genome sequence of a novel endornavirus isolated from hot pepper. Arch Virol 160(12):3153–3156
Pearson MN, Clover GRG, Guy PL, Fletcher JD, Beever RE (2006) A review of the plant virus, viroid and mollicute records for New Zealand. Australas Plant Pathol 35(2):217–252
Shaffer C, Gress J, Tzanetakis IE (2019) First report of cycas necrotic stunt virus and lychnis mottle virus in peony in the USA. Plant Dis. https://doi.org/10.1094/PDIS-11-18-2089-PDN
Thompson JR, Dasgupta I, Fuchs M, Iwanami T, Karasev AV, Petrzik K, Sanfaçon H, Tzanetakis I, van der Vlugt R, Wetzel T, Yoshikawa N, ICTV Report Consortium (2017) ICTV virus taxonomy profile: Secoviridae. J Gen Virol 98(4):529–531
Wetzel T, Chisholm J, Bassler A, Sanfaçon H (2008) Characterization of proteinase cleavage sites in the N-terminal region of the RNA1-encoded polyprotein from Arabis mosaic virus (subgroup A nepovirus). Virology 375(1):159–169
Wylie SJ, Luo H, Li H, Jones MG (2012) Multiple polyadenylated RNA viruses detected in pooled cultivated and wild plant samples. Arch Virol 157(2):271–284
Acknowledgements
This work was supported by the KRIBB Research Initiative Program, funded by the Ministry of Science and ICT, Republic of Korea. We thank Janine Miller, PhD, from Edanz Group (www.edanzediting.com/ac) for editing a draft of this manuscript.
Funding
This study was funded by KRIBB (Ministry of Science and ICT), Republic of Korea.
Author information
Authors and Affiliations
Contributions
SL, SHL, and JSM designed this study. SL, JHL, and JSM contributed to the sample collection and virus detection. The experiments are performed by SL. SL, SYK, HSC, HSK, JMP, SHL, and JSM contributed to analysis of high-throughput sequencing data. SL wrote the initial draft, and SHL and JSM edited the manuscript. All authors read and approved the final manuscript.
Corresponding authors
Ethics declarations
Conflict of interest
The authors declare that they have no conflicts of interest to disclose.
Research involving human and animal participants
This article does not contain any studies with human participants or animals performed by any of the authors.
Additional information
Edited by Karel Petrzik.
Publisher's Note
Springer Nature remains neutral with regard to jurisdictional claims in published maps and institutional affiliations.
Electronic supplementary material
Below is the link to the electronic supplementary material.
Rights and permissions
About this article
Cite this article
Lim, S., Kwon, SY., Lee, JH. et al. Genomic detection and molecular characterization of two distinct isolates of cycas necrotic stunt virus from Paeonia suffruticosa and Daphne odora. Virus Genes 55, 734–737 (2019). https://doi.org/10.1007/s11262-019-01687-7
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s11262-019-01687-7