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Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics
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-...
Autores principales: | , , , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
Korean Society of Plant Pathology
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10265114/ https://www.ncbi.nlm.nih.gov/pubmed/37291770 http://dx.doi.org/10.5423/PPJ.NT.03.2023.0037 |
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author | Kim, Sung-Woong Lee, Hyo-Jeong Choi, Sena Cho, In-Sook Jeong, Rae-Dong |
author_facet | Kim, Sung-Woong Lee, Hyo-Jeong Choi, Sena Cho, In-Sook Jeong, Rae-Dong |
author_sort | Kim, Sung-Woong |
collection | PubMed |
description | 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. |
format | Online Article Text |
id | pubmed-10265114 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | Korean Society of Plant Pathology |
record_format | MEDLINE/PubMed |
spelling | pubmed-102651142023-06-15 Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics Kim, Sung-Woong Lee, Hyo-Jeong Choi, Sena Cho, In-Sook Jeong, Rae-Dong Plant Pathol J Note 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. Korean Society of Plant Pathology 2023-06 2023-06-01 /pmc/articles/PMC10265114/ /pubmed/37291770 http://dx.doi.org/10.5423/PPJ.NT.03.2023.0037 Text en © The Korean Society of Plant Pathology https://creativecommons.org/licenses/by-nc/4.0/This is an Open Access article distributed under the terms of the Creative Commons Attribution Non-Commercial License (http://creativecommons.org/licenses/by-nc/4.0 (https://creativecommons.org/licenses/by-nc/4.0/) ) which permits unrestricted noncommercial use, distribution, and reproduction in any medium, provided the original work is properly cited. |
spellingShingle | Note Kim, Sung-Woong Lee, Hyo-Jeong Choi, Sena Cho, In-Sook Jeong, Rae-Dong Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics |
title | Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics |
title_full | Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics |
title_fullStr | Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics |
title_full_unstemmed | Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics |
title_short | Rapid Identification of Jasmine Virus H Infecting Ixora coccinea by Nanopore Metatranscriptomics |
title_sort | rapid identification of jasmine virus h infecting ixora coccinea by nanopore metatranscriptomics |
topic | Note |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10265114/ https://www.ncbi.nlm.nih.gov/pubmed/37291770 http://dx.doi.org/10.5423/PPJ.NT.03.2023.0037 |
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