Detection and Analysis of Protein Profile on Rice Infected by Stunting Virus with Different Severity on Ciherang and Situ Bagendit Varieties

https://doi.org/10.22146/jpti.36549

Selvi Helina(1*), Sri Sulandari(2), Sedyo Hartono(3), Y. Andi Trisyono(4)

(1) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(2) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(3) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(4) Department of Plant Protection, Faculty of Agriculture, Universitas Gadjah Mada Jln. Flora No. 1, Bulaksumur, Sleman, Yogyakarta 55281
(*) Corresponding Author

Abstract


Rice stunt virus is one of the limiting factors in the decline of rice production in Indonesia. The virus consists of rice grassy stunt virus (RGSV) and rice ragged stunt virus (RRSV) that is transmitted by brown planthopper (WBC) in a persistent propagative manner. This study aimed to determine the presence of rice stunt virus in Bantul, Yogyakarta through fast detection using RT-PCR. It also aimed to learn the pattern of total protein profile of healthy and infected rice plants by the virus on different severity level in the field. The results showed that rice varieties of Ciherang and Situ Bagendit in Bantul were infected with RGSV and RRSV. They were classified as mild, moderate, severe, and failure in severity level. Homology analysis using BioEdit showed that the nucleotide sequence of RGSV in Bantul isolate had the highest percentage of nucleic acids similarity with Klaten isolate (98.1%). Meanwhile, RRSV of Bantul isolate had the highest percentage of nucleic acids similarity to Philipines isolate (99.5%). Analysis of protein profiles using SDS-PAGE showed a pattern of protein profiles formed on rice infected with the virus at different severity levels which was not found in healthy rice. These proteins presumably were nonstructural p5 and nucleocapsid protein (NCP) of RGSV with a molecular weight of ~22 and 34-35 kDa; and viral spike protein and protein capsid (S8) of RRSV with MW ~39 and ~43 kDa.


Keywords


brown planthopper; rice grassy stunt virus; rice ragged stunt virus; RT-PCR; SDS-PAGE

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References

Baehaki. 2011. Strategi Fundamental Pengendalian Hama Wereng Batang Cokelat dalam Pengamanan Produksi Padi Nasional. Pengembangan Inovasi Pertanian 4: 63−75.

Baehaki, S.E. & I.M.J. Mejaya. 2014. Wereng Cokelat sebagai Hama Global Bernilai Ekonomi Tinggi dan Strategi Pengendaliannya. Iptek Tanaman Pangan 9: 1−12.

[BPS] Badan Pusat Statistik. 2014. Statistik Lahan Pertanian 2009−2013. https://www.scribd.com/document/344393366/Statistik-Lahan-2014-pdf, modified 6/3/18. 216 p.

Cao, X., H.Wen, C.Li, & Z.Gu. 2009. Differences in Functional Properties and Biochemical Characteristics of Congenetic Rice Proteins. Journal of Cereal Science 50: 184−189.

Chen, C.C., M.J. Chen, R.J. Chiu, & H.T.Hsu. 1997. Rice ragged stunt virus (Oryzavirus) Possesses an Outer Shell and A-Spikes. Plant Protection Bulletin 39: 383−388

Chiengwattana, N. 2010. BPH and Virus Diseases Spread to Chainat and Suphan Buri Provinces http://ricehoppers.net/reports-from-the-field/bph-and-virusdiseases-spread-to-chainatand-suphan-buriprovinces, modified 5/4/18.

Chomchan, P., Li, & S.F, Shirako. 2003. Rice Grassy Stunt Tenuivirus Nonstructural Protein P5 Interacts with Itself to Form Oligomeric Complexes in Vitro and in Vivo. Journal of Virology 77: 769−775.

Dini, A.F.B., I. W. Winasa, & S.H. Hidayat. 2015. Identifikasi Virus Penyebab Penyakit Kerdil pada Tanaman Padi di Sukamandi, Jawa Barat. Jurnal Fitopatologi Indonesia 11: 205–210.

[Ditlin] Direktorat Perlindungan Tanaman Pangan. 2010. Laporan Tahunan Luas dan Intensitas Serangan Hama Utama Tanaman Padi di Indonesia. Direktorat Perlindungan Tanaman Pangan, Jakarta. 167 p.

[Ditlin] Direktorat Perlindungan Tanaman Pangan. 2011. Data Serangan BPH Januari sampai Desember 2011 di Provinsi di Pulau Jawa. Direktorat Jendral Tanaman Pangan Kementerian Pertanian. Jakarta. 274 p.

Du, P.V., R.C. Cabunagan, & I.R. Choi. 2005. Rice “Yellowing Syndrome” in Mekong River Delta. Omonrice 13: 135–138.

Endarsih, W., S. Hartono, & S. Sulandari. 2017. Perbaikan Metode Ekstraksi dsRNA Virus secara Sederhana untuk RT-PCR Tiga Virus Tumbuhan. Jurnal Perlindungan Tanaman Indonesia 21: 106−113.

Gall, O., G.A. Medgyesi, & L. Vereskey. 1980. Electrophoresis in the Separation of Biological Macromolecules. John Willey & Sons, New York. 422 p.

Guoying, Z., L. Xiongbin, L. Huijuan, L. Juanli, C. Shengxiang, & G. Zuxun. 1999. Rice ragged stunt oryzavirus: Role of the Viral Spike Protein in Transmission by the Insect Vector. Annals of Applied Biology 135: 573−578.

Hemes, B.D. 1998. Gel Electrophoresis of Protein. Oxford University Press, New York. 372 p.

Hibino, H., M. Roechan, & S. Sudarisman. 1977. A Virus Disease of Rice (Kerdil Hampa) Transmitted by Brown Planthopper, Nilaparvata lugens in Indonesia. Control Center Research Institute of Agriculture, Bogor. 15 p.

Hibino, H., P.Q. Cabauatan, T. Omura, & T. Tsuchizaki. 1985. Rice grassy stunt virus Strain Causing Tungro-Like Symptoms in the Philippines. Plant Disease 69: 538−541.

Hibino, H. 1986. Rice grassy stunt virus. Tropical Agriculture Research Series No. 19, p. 165−172. In Tropical Agriculture Research Center, Ministry of Agriculture, Forestry, and Fisheries, Japan.

Hibino, H. 1996. Biology and Epidemiology of Rice Viruses. Annual Review of Phytopathology 34: 249−274.

Jia, D., N. Guo, H. Chen, F. Akita, L. Xie, T. Omura, & T. Wei. 2012. Assembly of the Viroplasm by Viral Non-Structural Protein Pns 10 Is Essential for Persistent Infection of Rice ragged stunt virus in its Insect Vector. Journal of General Virology 93: 2299−2309.

King, A., M. Adams, E. Carstens, & E. Lefkowitz. 2012. Virus Taxonomy: Ninth Report of the International Committee on Taxonomy of Viruses, 2nd ed. Elsevier Academic Press, San Diego, CA, USA. 1338 p.

Le, D.T., O. Netsu, T. Uehara-Ichiki, T. Shimizu, I.R. Choi, T. Omura, & T. Sasaya. 2010. Moleculer Detection of Nine Rice Viruses by A Reverse- Transcription Loop-Mediated Isothermal Amplification Assay. Journal of Virological Methods 170: 90−93.

Milne, R.G. & K.C. Ling. 1982. Rice ragged stunt virus, p. 904−908. In K.L. Heong & B. Hardy (eds.), 2009. Planthoppers: New Threats to the Sustainability of Intensive Rice Production Systems in Asia. International Rice Research Institute. 460 p.

Nam, N.T., N.M. Hung, C.H. Ha, H.T.T. Hang, & L.T. Binh. 2007. Genetic Variations in Rice grassy stunt virus Strains Isolate from Cuu Long River Delta Provinces. Tap chi cong nghe sinh hoc/ Vietnam Journal of Biotechnology 5: 479−484.

Phongthai, S., W. Homthawornchoo, & S. Rawdkuen. 2017. Preparation, Properties and Application of Rice Bran Protein: A Review. International Food Research Journal 24: 25−34.

Rahmawati, Y., S. Sulandari, & S. Hartono. 2015. Respons Lima Varietas Padi terhadap Infeksi Virus Penyebab Penyakit Kerdil Rumput (Rice Grassy Stunt Virus), p. 1123−1126. In A.D. Setyawan, (ed.), Prosiding Seminar Nasional Masyarakat Biodiversity Indonesia. Universitas Sebelas Maret Surakarta, Surakarta, June 23, 2015.

Rattanakarn, W. & P. Pattawun. 2010. Ragged stunt and grassy stunt virus Infections in the Northern Provinces of Central Thailand. http://ricehoppers.net/2010/01/10/ragged-stunt-and-grassy-stunt-virusinfections-in-theprovinces-of-northern-provinces-ofcentral-thailand/, modified 12/5/18.

Subekti, D., S.H. Hidayat, E. Nurhayati, & S. Sujiprihati. 2006. Infeksi Cucumber Mosaic Virus dan Chili Veinal Mottle Virus terhadap Pertumbuhan dan Hasil Tanaman Cabai. Hayati 13: 53−57.

Suprihatno, B., A.A. Daradjat, Satoto, S.E. Baehaki, I.N. Widiarta, A. Setyono, S.D. Indrasari, O.S. Lesmana, & H. Sembiring. 2009. Deskripsi Varietas Padi. Balai Besar Penelitian Tanaman Padi. Sukamandi, Subang. 113 p.

Suprihanto., S. Somowiyarjo, S. Hartono, & Y.A. Trisyono. 2015. Identification and Molecular Diversity of Rice ragged stunt virus and Rice grassy stunt virus in Java, Indonesia. International Journal of Sciences: Basic and Applied Research (IJSBAR) 24: 374−386.

Suryana, A., S Mardianto, K. Kariyasa, & I.P. Wardana. 2009. Kedudukan Padi dalam Perekonomian Indonesia. Balai Besar Penelitian Tanaman Padi, Badan Penelitian dan Pengembangan Pertanian, Jakarta. 26 p.

Suwarno., Suranto, & Sajidan. 2013. Studi Variasi Morfologi dan Pola Pita Protein Wereng Hijau (Nephotettix virescens) dari Lima Daerah Sentra Penghasil Padi di Indonesia. EL-VIVO 1: 49−59.

Toriyama, S., T. Kimishima, & M. Takahashi. 1997. The Proteins Encoded by Rice grassy stunt virus RNA5 and RNA6 Are only Distantly Related to the Corresponding Proteins of Other Members of the Genus Tenuivirus. Journal of General Virology. 78: 2355−2363.

Upadhyaya, N.M., E. Zinkowsky, Z. Li, W. Kositratana, & P.M. Waterhouse. 1996. The Mr43K Major Capsid Protein of Rice ragged stunt oryzavirus Is A Post-Translationally Processed Product of A Mr 67,348 Polypeptide Encoded by Genome Segment 8. Archives of Virology 141: 1689–1701.

Zhang, C., X.J. Liu, K.C. Wu, L.P. Zheng, Z.M. Ding, F. Li, P. Zou, & Z.J. Wu. 2015. Rice grassy stunt virus Nonstructural Protein P5 Serves as A Viral Suppressor of RNA Silencing and Interacts with Nonstructural Protein P3. Archives of Virology 160: 2769–2779.



DOI: https://doi.org/10.22146/jpti.36549

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