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Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms
Wheat (Triticum aestivum L.) is one of the most important staple crops in the world, along with maize and rice. More than 50 plant viruses are known to infect wheat worldwide. To date, there are no studies on the identification of viruses infecting wheat in Korea. Therefore, we investigated virome i...
Autores principales: | , , |
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Formato: | Online Artículo Texto |
Lenguaje: | English |
Publicado: |
MDPI
2023
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Materias: | |
Acceso en línea: | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10303500/ https://www.ncbi.nlm.nih.gov/pubmed/37375999 http://dx.doi.org/10.3390/plants12122374 |
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author | Lee, Hyo-Jeong Kim, Sang-Min Jeong, Rae-Dong |
author_facet | Lee, Hyo-Jeong Kim, Sang-Min Jeong, Rae-Dong |
author_sort | Lee, Hyo-Jeong |
collection | PubMed |
description | Wheat (Triticum aestivum L.) is one of the most important staple crops in the world, along with maize and rice. More than 50 plant viruses are known to infect wheat worldwide. To date, there are no studies on the identification of viruses infecting wheat in Korea. Therefore, we investigated virome in wheat from three different geographical regions where wheat is mainly cultivated in Korea using Oxford Nanopore Technology (ONT) sequencing and Illumina sequencing. Five viral species, including those known to infect wheat, were identified using high-throughput sequencing strategies. Of these, barley virus G (BVG) and Hordeum vulgare endornavirus (HvEV) were consistently present in all libraries. Sugarcane yellow leaf virus (SCYLV) and wheat leaf yellowing-associated virus (WLYaV) were first identified in Korean wheat samples. The viruses identified by ONT and Illumina sequencing were compared using a heatmap. Though the ONT sequencing approach is less sensitive, the analysis results were similar to those of Illumina sequencing in our study. Both platforms served as reliable and powerful tools for detecting and identifying wheat viruses, achieving a balance between practicality and performance. The findings of this study will provide deeper insights into the wheat virosphere and further help improve disease management strategies. |
format | Online Article Text |
id | pubmed-10303500 |
institution | National Center for Biotechnology Information |
language | English |
publishDate | 2023 |
publisher | MDPI |
record_format | MEDLINE/PubMed |
spelling | pubmed-103035002023-06-29 Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms Lee, Hyo-Jeong Kim, Sang-Min Jeong, Rae-Dong Plants (Basel) Article Wheat (Triticum aestivum L.) is one of the most important staple crops in the world, along with maize and rice. More than 50 plant viruses are known to infect wheat worldwide. To date, there are no studies on the identification of viruses infecting wheat in Korea. Therefore, we investigated virome in wheat from three different geographical regions where wheat is mainly cultivated in Korea using Oxford Nanopore Technology (ONT) sequencing and Illumina sequencing. Five viral species, including those known to infect wheat, were identified using high-throughput sequencing strategies. Of these, barley virus G (BVG) and Hordeum vulgare endornavirus (HvEV) were consistently present in all libraries. Sugarcane yellow leaf virus (SCYLV) and wheat leaf yellowing-associated virus (WLYaV) were first identified in Korean wheat samples. The viruses identified by ONT and Illumina sequencing were compared using a heatmap. Though the ONT sequencing approach is less sensitive, the analysis results were similar to those of Illumina sequencing in our study. Both platforms served as reliable and powerful tools for detecting and identifying wheat viruses, achieving a balance between practicality and performance. The findings of this study will provide deeper insights into the wheat virosphere and further help improve disease management strategies. MDPI 2023-06-19 /pmc/articles/PMC10303500/ /pubmed/37375999 http://dx.doi.org/10.3390/plants12122374 Text en © 2023 by the authors. https://creativecommons.org/licenses/by/4.0/Licensee MDPI, Basel, Switzerland. This article is an open access article distributed under the terms and conditions of the Creative Commons Attribution (CC BY) license (https://creativecommons.org/licenses/by/4.0/). |
spellingShingle | Article Lee, Hyo-Jeong Kim, Sang-Min Jeong, Rae-Dong Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms |
title | Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms |
title_full | Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms |
title_fullStr | Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms |
title_full_unstemmed | Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms |
title_short | Analysis of Wheat Virome in Korea Using Illumina and Oxford Nanopore Sequencing Platforms |
title_sort | analysis of wheat virome in korea using illumina and oxford nanopore sequencing platforms |
topic | Article |
url | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10303500/ https://www.ncbi.nlm.nih.gov/pubmed/37375999 http://dx.doi.org/10.3390/plants12122374 |
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