Browse > Article
http://dx.doi.org/10.5423/PPJ.OA.07.2020.0126

Characterization of a Strain of Malva Vein Clearing Virus in Alcea rosea via Deep Sequencing  

Wang, Defu (College of Life Sciences, Shanxi Agricultural University)
Cui, Liyan (College of Grassland Science, Shanxi Agricultural University)
Pei, Yanni (College of Life Sciences, Shanxi Agricultural University)
Ma, Zhennan (College of Life Sciences, Shanxi Agricultural University)
Shen, Shaofei (College of Life Sciences, Shanxi Agricultural University)
Long, Dandan (College of Life Sciences, Shanxi Agricultural University)
Li, Lingyu (College of Life Sciences, Shanxi Agricultural University)
Niu, Yanbing (College of Life Sciences, Shanxi Agricultural University)
Publication Information
The Plant Pathology Journal / v.36, no.5, 2020 , pp. 468-475 More about this Journal
Abstract
Malva vein clearing virus (MVCV) is a member of the Potyvirus species, and has a negative impact on the aesthetic development of Alcea rosea. It was first reported in Germany in 1957, but its complete genome sequence data are still scarce. In the present work, A. rosea leaves with vein-clearing and mosaic symptoms were sampled and analyzed with small RNA deep sequencing. By denovo assembly the raw sequences of virus-derived small interfering RNAs (vsiRs) and whole genome amplification of malva vein cleaning virus SX strain (MVCV-SX) by specific primers targeting identified contig gaps, the full-length genome sequences (9,645 nucleotides) of MVCV-SX were characterized, constituting of an open reading frame that is long enough to encode 3,096 amino acids. Phylogenetic analysis showed that MVCV-SX was clustered with euphorbia ringspot virus and yam mosaic virus. Further analyses of the vsiR profiles revealed that the most abundant MVCV-vsiRs were between 21 and 22 nucleotides in length and a strong bias was found for "A" and "U" at the 5′-terminal residue. The results of polarity assessment indicated that the amount of sense strand was almost equal to that of the antisense strand in MVCV-vsiRs, and the main hot-spot region in MVCV-SX genome was found at cylindrical inclusion. In conclusion, our findings could provide new insights into the RNA silencing-mediated host defence mechanism in A. rosea infected with MVCV-SX, and offer a basis for the prevention and treatment of this virus disease.
Keywords
Alcea rosea (L.); malva vein clearing virus; small RNA sequencing; virus-derived small interfering RNA;
Citations & Related Records
Times Cited By KSCI : 1  (Citation Analysis)
연도 인용수 순위
1 Venkataravanappa, V., Lakshminarayana Reddy, C. N., Devaraju, A., Jalali, S. and Reddy, M. K. 2013. Association of a recombinant cotton leaf curl Bangalore virus with yellow vein and leaf curl disease of okra in India. Virus Dis. 24:188-198.
2 Xia, Z., Peng, J., Li, Y., Chen, L., Li, S., Zhou, T. and Fan, Z. 2014. Characterization of small interfering RNAs derived from sugarcane mosaic virus in infected maize plants by deep sequencing. PLoS ONE 9: e97013.   DOI
3 Yang, F., Niu, E. B., Wang, D. F. and Niu, Y. B. 2017. Sequence analysis of CP gene of malva vein clearing virus Althaea rosea isolates in China. Acta Phytopathol. Sin. 47:458-462.
4 Zerbino, D. R. and Birney, E. 2008. Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res. 18:821-829.   DOI
5 Zhang, Y., Jin, L., Chen, Q., Wu, Z., Dong, Y., Han, L. and Wang, T. 2015 . Hypoglycemic activity evaluation and chemical study on hollyhock flowers. Fitoterapia 102:7-14.   DOI
6 Zhang, X., Zhang, X., Singh, J., Li, D. and Qu, F. 2012. Temperature-dependent survival of turnip crinkle virus-infected Arabidopsis plants relies on an RNA silencing-based defense that requires DCL2, AGO2, and HEN1. J. Virol. 86:6847-6854.   DOI
7 Abdel-Salam, A. M., El-Shazly, M. A. and Thouvenel, J. C. 1998. Biological, biochemical and serological studies on hollyhock leaf crumple virus (HLCrV): a newly discovered whitefly transmitted geminivirus. Arab J. Biotechnol. 1:41-58.
8 Adams, M. J., Antoniw, J. F. and Beaudoin, F. 2005. Overview and analysis of the polyprotein cleavage sites in the family Potyviridae. Mol. Plant Pathol. 6:471-487.   DOI
9 Bigarre, L., Chazly, M., Salah, M., Ibrahim, M., Padidam, M., Nicole, M., Peterschmitt, M., Fauquet, C. and Thouvenel, J. C. 2010. Characterization of a new begomovirus from Egypt infecting Hollyhock (Althea rosea). Eur. J. Plant Pathol. 107:701-711.
10 Bouche, N., Lauressergues, D., Gasciolli, V. and Vaucheret, H. 2006. An antagonistic function for Arabidopsis DCL2 in development and a new function for DCL4 in generating viral siRNAs. EMBO J. 25:3347-3356.   DOI
11 Bologna, N. G. and Voinnet, O. 2014. The diversity, biogenesis, and activities of endogenous silencing small RNAs in Arabidopsis. Annu. Rev. Plant Biol. 65:473-503.   DOI
12 Choi, E.-S., Cho, S.-D., Shin, J.-A., Kwon, K. H., Cho, N.-P. and Shim, J.-H. 2014. Althaea rosea Cavanil and Plantago major L. suppress neoplastic cell transformation through the inhibition of epidermal growth factor receptor kinase. Mol. Med. Rep. 6:843-847.   DOI
13 Choi, S. K., Yoon, J. Y., Ryu, K. H., Choi, J. K. and Mok, W. M. 2002. First report of zucchini yellow mosaic virus on Hollyhock (Althaea rosea). Plant Pathol. J. 18:121-125.   DOI
14 Deleris, A., Gallego-Bartolome, J., Bao, J., Kasschau, K. D., Carrington, J. C. and Voinnet, O. 2006. Hierarchical action and inhibition of plant dicer-like proteins in antiviral defense. Science 313:68-71.   DOI
15 Horvath, J., Mamula, D. J., Besada, W. H. and Juretic, N. 2010. Some properties of malva vein clearing virus isolated in Hungary and Yugoslavia. J. Phytopathol. 95:51-58.   DOI
16 Fernandez, A., Guo, H. S., Saenz, P., Simon-Buela, L., Gomez de Cedron, M. and Garcia, J. A. 1997. The motif V of plum pox potyvirus CI RNA helicase is involved in NTP hydrolysis and is essential for virus RNA replication. Nucleic Acids Res. 25:4474-4480.   DOI
17 Garcia-Ruiz, H., Takeda, A., Chapman, E. J., Sullivan, C. M., Fahlgren, N., Brempelis, K. J. and Carrington, J. C. 2010. Arabidopsis RNA-dependent RNA polymerases and dicerlike proteins in antiviral defense and small interfering RNA biogenesis during turnip mosaic virus infection. Plant Cell 22:481-496.   DOI
18 Hein, A. 1959. Beitrage zur Kenntnis der Viruskrankheiten an Unkrautern. J. Phytopathol. 35:119-121.   DOI
19 Langmead, B., Trapnell, C., Pop, M. and Salzberg, S. L. 2009. Ultrafast and memory-efficient alignment of short DNA sequences to the human genome. Genome Biol. 10:R25.   DOI
20 Liu, F., Liu, W. and Tian, S. 2014. Artificial neural network optimization of Althaea rosea seeds polysaccharides and its antioxidant activity. Int. J. Biol. Macromol. 70:100-107.   DOI
21 Llave, C. 2010. Virus-derived small interfering RNAs at the core of plant virus interactions. Trends Plant Sci. 15:701-707.   DOI
22 Lunello, P., Tourino, A., Nunez, Y., Ponz, F. and Sanchez, F. 2009. Genomic heterogeneity and host recovery of isolates of malva vein clearing virus. Virus Res. 140:91-97.   DOI
23 Menzel, W., Winter, S. and Richert-Poggeler, K. R. 2010. First report of malva vein clearing virus naturally occurring in hollyhock in Germany. Plant Dis. 94:276.
24 Mi, S., Cai, T., Hu, Y., Chen, Y., Hodges, E., Ni, F., Wu, L., Li, S., Zhou, H., Long, C., Chen, S., Hannon, G. J. and Qi, Y. 2008. Sorting of small RNAs into Arabidopsis Argonaute complexes is directed by the 5' terminal nucleotide. Cell 133:116-127.   DOI
25 Niu, Y., Pang, X., Wang, D., Guo, S. and Liu, Y. 2018. Deep sequencing analysis of a strain of pecan mosaic-associated virus infecting Atractylodes macrocephala Koidz. J. Plant Pathol. 100:249-255.   DOI
26 Parrella, G., Nappo, A. G. and Delecolle, B. 2015. Cytopathology, biology and molecular characterization of two Italian isolates of malva vein clearing virus. Plant Sci. Today 2:69-73.   DOI
27 Rajamaki, M.-L., Streng, J. and Valkonen, J. P. T. 2014. Silencing suppressor protein VPg of a potyvirus interacts with the plant silencing-related protein SGS3. Mol. Plant-Microbe Interact. 27:1199-1210.   DOI
28 Srivastava, A., Kumar, S., Raj, S. K. and Pande, S. S. 2014. Association of a distinct strain of hollyhock yellow vein mosaic virus and Ludwigia leaf distortion betasatellite with yellow vein mosaic disease of hollyhock (Alcea rosea) in India. Arch. Virol. 159:2711-2715.   DOI
29 Shiboleth, Y. M., Haronsky, E., Leibman, D., Arazi, T., Wassenegger, M., Whitham, S. A., Gaba, V. and Gal-On, A. 2007. The conserved FRNK box in HC-Pro, a plant viral suppressor of gene silencing, is required for small RNA binding and mediates symptom development. J. Virol. 819:13135-13148.
30 Tamura, K., Dudley, J., Nei, M. and Kumar, S. 2007. MEGA 4: Molecular Evolutionary Genetics Analysis (MEGA) software version 4.0. Mol. Biol. Evol. 24:1596-1599.   DOI
31 Takeda, A., Iwasaki, S., Watanabe, T., Utsumi, M. and Watanabe, Y. 2008. The mechanism selecting the guide strand from small RNA duplexes is different among argonaute proteins. Plant Cell Physiol. 49:493-500.   DOI