The Plant Pathology Journal

한국식물병리학회 (The Korean Society of Plant Pathology)
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Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics

  • Sung-Woong Kim (Department of Applied Biology, Institute of Environmentally Friendly Agriculture, Chonnam National University) ;
  • Hyo-Jeong Lee (Department of Applied Biology, Institute of Environmentally Friendly Agriculture, Chonnam National University) ;
  • Sena Choi (Horticultural and Herbal Crop Environment Division, National Institute of Horticultural and Herbal Science, Rural Development Administration) ;
  • In-Sook Cho (Horticultural and Herbal Crop Environment Division, National Institute of Horticultural and Herbal Science, Rural Development Administration) ;
  • Rae-Dong Jeong (Department of Applied Biology, Institute of Environmentally Friendly Agriculture, Chonnam National University)
  • 투고 : 2023.03.06
  • 심사 : 2023.04.23
  • 발행 : 2023.06.01
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초록

The global climate change and international trade have facilitated the movement of plants across borders, increasing the risk of introducing novel plant viruses in new territories. Ixora coccinea exhibited virus-like foliar symptoms, including mosaic and mild mottle. An Oxford Nanopore Technologies-based compact and portable MinION platform was used to identify the causal viral pathogen. The complete genome sequence of jasmine virus H (JaVH; 3867 nt, JaVH-CNU) was determined and found to share 88.4-90.3% nucleotide identity with that of Jasminum sambac JaVH isolate in China. Phylogenetic analysis based on the complete amino acid sequences of RNA-dependent RNA polymerase and coat protein revealed that JaVH-CNU was grouped separately with other JaVH isolates. This is the first report of a natural JaVH infection of I. coccinea. The application of rapid nanopore sequencing for plant virus identification was demonstrated and is expected to provide accurate and rapid diagnosis for virus surveillance.

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과제정보

This work was carried out with the support of Cooperative Research Program for Agriculture Science and Technology Development (Project No. PJ014947032023) Rural Development Administration, Republic of Korea.

참고문헌

  1. Amari, K., Huang, C. and Heinlein, M. 2021. Potential impact of global warming on virus propagation in infected plants and agricultural productivity. Front. Plant Sci. 12:649768.
  2. Banerjee, A., Mandal, R. and Nath, P. S. 2018. First report of leaf blight and twig dieback caused Mycoleptodiscus indicus on Ixora coccinea. New Dis. Rep. 38:5.
  3. Dey, K. K., Leite, M., Hu, J. S., Jordan, R. and Melzer, M. J. 2018. Detection of Jasmine virus H and characterization of a second pelarspovirs infecting star jasmine (Jasminum multiflorum) and angelwing jasmine (J. nitidum) plants displaying virus-like symptoms. Arch. Virol. 163:3051-3058. https://doi.org/10.1007/s00705-018-3947-y
  4. Fitzpatrick, A. H., Rupnik, A., O'Shea, H., Crispie, F., Keaveney, S. and Cotter, P. 2021. High throughput sequencing for the detection and characterization of RNA viruses. Front. Microbiol. 12:621719.
  5. Ibaba, J. D. and Gubba, A. 2020. High-throughput sequencing application in the diagnosis and discovery of plant-infecting viruses in Africa, a decade later. Plants 9:1376.
  6. Kumar, S., Stecher, G., Li, M., Knyaz, C. and Tamura, K. 2018. Mega X: molecular evloutionalry genetics analysis across computing platforms. Mol. Biol. Evol. 35:1547-1549. https://doi.org/10.1093/molbev/msy096
  7. Lee, Y.-J., Cho, I.-S. and Jeong, R.-D. 2022. Nanopore metagenomics sequencing for rapid diagnosis and characterization of lily viruses. Plant Pathol. J. 38:503-512. https://doi.org/10.5423/PPJ.OA.06.2022.0084
  8. Li, M., Zhang, S., Gao, Z., Wang, Y., Zhang, W., Gong, D., Zhao, C. and Hu, M. 2021. First report of Colletotrichum aeschynomenes causing leaf anthracnose on Ixora coccinea in China. J. Plant Pathol. 103:1337-1338. https://doi.org/10.1007/s42161-021-00910-5
  9. Lin, Y.-R., Lee, S., Lu, C.-H. and Chu, C.-C. 2020. Genetic phenotypic characterization of Xanthomonas axonopodis pv. maculifoliigardeniae causing bacteral leaf spot of Ixora in Taiwan. J. Phytopathol. 168:478-489. https://doi.org/10.1111/jph.12912
  10. Lu, H., Giordano, F. and Ning, Z. 2016. Oxford nanopore MinION sequencing and genome assembly. Genomics Proteomics Bioinformatics 14:265-279. https://doi.org/10.1016/j.gpb.2016.05.004
  11. Rivarez, M. P. S., Vucurovic, A., Mehle, N., Ranvikar, M. and Kutnjak, D. 2021. Global advances in tomato virome research: current status and the impact of high-throughput sequencing. Front. Microbiol. 12:671925.
  12. Shreelakshmi, S. V., Chaitrashree, N., Kumar, S. S., Shetty, N. P. and Giridhar, P. 2021. Fruits of Ixora coccinea are a rich source of phytoconstituents, bioactives, exhibit antioxidant activity and cytotoxicity against human prostate carcinoma cells and development of RTS beverage. J. Food Process. Preserv. 45:e15656.
  13. Sun, K., Liu, Y., Zhou, X., Yin, C., Zhang, P., Yang, Q., Mao, L., Shentu, X. and Yu, X. 2022. Nanopore sequencing technology and its application in plant virus diagnostics. Front. Microbiol. 13:939666.
  14. Zhuo, T., Zhu, L.-J., Lu, C.-C., Jiang, C.-Y., Chen, Z.-Y., Zhang, G., Wang, Z.-H., Jovel, J. and Han, Y.-H. 2017. Complete nucleotide sequence of jasmine virus H, a new member of the family Tombusviridae. Arch. Virol. 163:731-735. https://doi.org/10.1007/s00705-017-3663-z