Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis
Abstract Background Viruses have notable effects on agroecosystems, wherein they can adversely affect plant health and cause problems (e.g., increased biosecurity risks and economic losses). However, our knowledge of their diversity and interactions with specific host plants in ecosystems remains li...
| Main Authors: | , , , , , , |
|---|---|
| Format: | Article |
| Language: | English |
| Published: |
BMC
2024-04-01
|
| Series: | Virology Journal |
| Subjects: | |
| Online Access: | https://doi.org/10.1186/s12985-024-02361-7 |
| _version_ | 1797199651078668288 |
|---|---|
| author | Mesele Tilahun Belete Se Eun Kim Workitu Firmosa Gudeta Davaajargal Igori Jeong A. Kwon Su-Heon Lee Jae Sun Moon |
| author_facet | Mesele Tilahun Belete Se Eun Kim Workitu Firmosa Gudeta Davaajargal Igori Jeong A. Kwon Su-Heon Lee Jae Sun Moon |
| author_sort | Mesele Tilahun Belete |
| collection | DOAJ |
| description | Abstract Background Viruses have notable effects on agroecosystems, wherein they can adversely affect plant health and cause problems (e.g., increased biosecurity risks and economic losses). However, our knowledge of their diversity and interactions with specific host plants in ecosystems remains limited. To enhance our understanding of the roles that viruses play in agroecosystems, comprehensive analyses of the viromes of a wide range of plants are essential. High-throughput sequencing (HTS) techniques are useful for conducting impartial and unbiased investigations of plant viromes, ultimately forming a basis for generating further biological and ecological insights. This study was conducted to thoroughly characterize the viral community dynamics in individual plants. Results An HTS-based virome analysis in conjunction with proximity sampling and a tripartite network analysis were performed to investigate the viral diversity in chunkung (Cnidium officinale) plants. We identified 61 distinct chunkung plant-associated viruses (27 DNA and 34 RNA viruses) from 21 known genera and 6 unclassified genera in 14 known viral families. Notably, 12 persistent viruses (7 DNA and 5 RNA viruses) were exclusive to dwarfed chunkung plants. The detection of viruses from the families Partitiviridae, Picobirnaviridae, and Spinareoviridae only in the dwarfed plants suggested that they may contribute to the observed dwarfism. The co-infection of chunkung by multiple viruses is indicative of a dynamic and interactive viral ecosystem with significant sequence variability and evidence of recombination. Conclusions We revealed the viral community involved in chunkung. Our findings suggest that chunkung serves as a significant reservoir for a variety of plant viruses. Moreover, the co-infection rate of individual plants was unexpectedly high. Future research will need to elucidate the mechanisms enabling several dozen viruses to co-exist in chunkung. Nevertheless, the important insights into the chunkung virome generated in this study may be relevant to developing effective plant viral disease management and control strategies. |
| first_indexed | 2024-04-24T07:19:08Z |
| format | Article |
| id | doaj.art-0369be8f5f8f4fbda8061570cd3509ec |
| institution | Directory Open Access Journal |
| issn | 1743-422X |
| language | English |
| last_indexed | 2024-04-24T07:19:08Z |
| publishDate | 2024-04-01 |
| publisher | BMC |
| record_format | Article |
| series | Virology Journal |
| spelling | doaj.art-0369be8f5f8f4fbda8061570cd3509ec2024-04-21T11:08:27ZengBMCVirology Journal1743-422X2024-04-0121112010.1186/s12985-024-02361-7Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysisMesele Tilahun Belete0Se Eun Kim1Workitu Firmosa Gudeta2Davaajargal Igori3Jeong A. Kwon4Su-Heon Lee5Jae Sun Moon6Biosystem and Bioengineering Program, University of Science and Technology (UST)Plant System Engineering Research Center, Korean Research Institute of Bioscience and BiotechnologyBiosystem and Bioengineering Program, University of Science and Technology (UST)Plant System Engineering Research Center, Korean Research Institute of Bioscience and BiotechnologyBiosystem and Bioengineering Program, University of Science and Technology (UST)School of Applied Bioscience, College of Agriculture and Life Sciences, Kyungpook National UniversityBiosystem and Bioengineering Program, University of Science and Technology (UST)Abstract Background Viruses have notable effects on agroecosystems, wherein they can adversely affect plant health and cause problems (e.g., increased biosecurity risks and economic losses). However, our knowledge of their diversity and interactions with specific host plants in ecosystems remains limited. To enhance our understanding of the roles that viruses play in agroecosystems, comprehensive analyses of the viromes of a wide range of plants are essential. High-throughput sequencing (HTS) techniques are useful for conducting impartial and unbiased investigations of plant viromes, ultimately forming a basis for generating further biological and ecological insights. This study was conducted to thoroughly characterize the viral community dynamics in individual plants. Results An HTS-based virome analysis in conjunction with proximity sampling and a tripartite network analysis were performed to investigate the viral diversity in chunkung (Cnidium officinale) plants. We identified 61 distinct chunkung plant-associated viruses (27 DNA and 34 RNA viruses) from 21 known genera and 6 unclassified genera in 14 known viral families. Notably, 12 persistent viruses (7 DNA and 5 RNA viruses) were exclusive to dwarfed chunkung plants. The detection of viruses from the families Partitiviridae, Picobirnaviridae, and Spinareoviridae only in the dwarfed plants suggested that they may contribute to the observed dwarfism. The co-infection of chunkung by multiple viruses is indicative of a dynamic and interactive viral ecosystem with significant sequence variability and evidence of recombination. Conclusions We revealed the viral community involved in chunkung. Our findings suggest that chunkung serves as a significant reservoir for a variety of plant viruses. Moreover, the co-infection rate of individual plants was unexpectedly high. Future research will need to elucidate the mechanisms enabling several dozen viruses to co-exist in chunkung. Nevertheless, the important insights into the chunkung virome generated in this study may be relevant to developing effective plant viral disease management and control strategies.https://doi.org/10.1186/s12985-024-02361-7Plant virusViral diversityViromeCnidium officinaleProximity samplingHTS |
| spellingShingle | Mesele Tilahun Belete Se Eun Kim Workitu Firmosa Gudeta Davaajargal Igori Jeong A. Kwon Su-Heon Lee Jae Sun Moon Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis Virology Journal Plant virus Viral diversity Virome Cnidium officinale Proximity sampling HTS |
| title | Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis |
| title_full | Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis |
| title_fullStr | Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis |
| title_full_unstemmed | Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis |
| title_short | Deciphering the virome of Chunkung (Cnidium officinale) showing dwarfism-like symptoms via a high-throughput sequencing analysis |
| title_sort | deciphering the virome of chunkung cnidium officinale showing dwarfism like symptoms via a high throughput sequencing analysis |
| topic | Plant virus Viral diversity Virome Cnidium officinale Proximity sampling HTS |
| url | https://doi.org/10.1186/s12985-024-02361-7 |
| work_keys_str_mv | AT meseletilahunbelete decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis AT seeunkim decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis AT workitufirmosagudeta decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis AT davaajargaligori decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis AT jeongakwon decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis AT suheonlee decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis AT jaesunmoon decipheringtheviromeofchunkungcnidiumofficinaleshowingdwarfismlikesymptomsviaahighthroughputsequencinganalysis |