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Dong J, Zhu T, Lv R, Dong K, Li Y, Zhang B, Zhang L, Chen Y, Yin X, Zhang L, Yin J, Lu J, Xi D, Wu K. Occurrence and characterization of viruses infecting Amorphophallus in Yunnan, China. Sci Rep 2024; 14:12948. [PMID: 38839925 PMCID: PMC11153213 DOI: 10.1038/s41598-024-63477-y] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/26/2024] [Accepted: 05/29/2024] [Indexed: 06/07/2024] Open
Abstract
Viral diseases are becoming an important problem in Amorphophallus production due to the propagation of seed corms and their trade across regions. In this study, combined-High-Throughput Sequencing, RT-PCR, electron microscopy, and mechanical inoculation were used to analyze virus-like infected Amorphophallus samples in Yunnan province to investigate the distribution, molecular characterization, and diversity and evolution of Amorphophallus-infecting viruses including three isolates of dasheen mosaic virus and three orthotospoviruses: mulberry vein banding associated virus (MVBaV), tomato zonate spot virus (TZSV) and impatiens necrotic spot virus (INSV). The results showed that DsMV is the dominant virus infecting Amorphophallus, mixed infections with DsMV and MVBaV to Amorphophallus were quite common in Yunnan province, China. This is the first report on infection of Amorphophallus with MVBaV, TZSV, and impatiens necrotic spot virus (INSV) in China. This work will help to develop an effective integrated management strategy to control the spread of Amorphophallus viral diseases.
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Affiliation(s)
- Jiahong Dong
- Institute of Medicinal Plant Cultivation, School of Chinese Materia Medica and Yunnan Key Laboratory of Southern Medicinal Resource, Kunming, Yunnan, China.
| | - Ting Zhu
- Institute of Medicinal Plant Cultivation, School of Chinese Materia Medica and Yunnan Key Laboratory of Southern Medicinal Resource, Kunming, Yunnan, China
| | - Rui Lv
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China
| | - Kun Dong
- Fuyuan Konjac Institute, Yunnan Academy of Agricultural Sciences, Qujing, Yunnan, China
| | - Yu Li
- Biotechnology and Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences, Kunming, Yunnan, China
| | - Boxin Zhang
- Institute of Medicinal Plant Cultivation, School of Chinese Materia Medica and Yunnan Key Laboratory of Southern Medicinal Resource, Kunming, Yunnan, China
| | - Lizhen Zhang
- Biotechnology and Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences, Kunming, Yunnan, China
| | - Yongdui Chen
- Biotechnology and Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences, Kunming, Yunnan, China
| | - Xiangao Yin
- Seed Management Station of Fuyuan County, Qujing, Yunnan, China
| | - Lei Zhang
- Institute of Medicinal Plant Cultivation, School of Chinese Materia Medica and Yunnan Key Laboratory of Southern Medicinal Resource, Kunming, Yunnan, China
| | - Jianqing Yin
- Fuyuan Konjac Institute, Yunnan Academy of Agricultural Sciences, Qujing, Yunnan, China
| | - Jun Lu
- Fuyuan Konjac Institute, Yunnan Academy of Agricultural Sciences, Qujing, Yunnan, China
| | - Dehui Xi
- Key Laboratory of Bio-Resource and Eco-Environment of Ministry of Education, College of Life Sciences, Sichuan University, Chengdu, China
| | - Kuo Wu
- Biotechnology and Germplasm Resources Institute, Yunnan Academy of Agricultural Sciences, Kunming, Yunnan, China.
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Wu M, Huang C, Wang L, Ke B, Lu Y, Peng J, Rao S, Wu G, Chen J, Zheng H, Yan F. Complete genome sequence of a novel mitovirus detected in Colocasia esculenta. Arch Virol 2023; 168:281. [PMID: 37889350 DOI: 10.1007/s00705-023-05902-7] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2023] [Accepted: 09/29/2023] [Indexed: 10/28/2023]
Abstract
A novel mitovirus was detected in taro (Colocasia esculenta) growing in Ningbo, China. The complete genome sequence of Colocasia esculenta associated mitovirus 1 (CeaMV1) was determined by next-generation sequencing combined with RT-PCR and RACE. The genome is 2921 nucleotides long and contains a single ORF encoding a putative RNA-dependent RNA polymerase. Homology searches and phylogenetic analysis suggested that CeaMV1 is a member of a new species in the genus Duamitovirus. This is the first report of a member of the family Mitoviridae associated with taro.
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Affiliation(s)
- Mengting Wu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Chanchan Huang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Lin Wang
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Bin Ke
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Yuwen Lu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Jiejun Peng
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Shaofei Rao
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Guanwei Wu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Jianping Chen
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China
| | - Hongying Zheng
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China.
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China.
| | - Fei Yan
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agro-products, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China.
- Key Laboratory of Biotechnology in Plant Protection of MARA and Zhejiang Province, Institute of Plant Virology, Ningbo University, Ningbo, 315211, China.
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Yusop MSM, Mohamed-Hussein ZA, Ramzi AB, Bunawan H. Cymbidium Mosaic Virus Infecting Orchids: What, How, and What Next? IRANIAN JOURNAL OF BIOTECHNOLOGY 2022; 20:e3020. [PMID: 35891960 PMCID: PMC9284244 DOI: 10.30498/ijb.2021.278382.3020] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
Context Cymbidium mosaic virus (CymMV) is one of the most devastating viruses causing losses in the orchid industry, affecting economies worth millions of US dollars. CymMV significantly affects the orchid population and could be controlled through an integrated management strategy consisting of virus detection, good sanitation care of gardeners and their tools, and maintaining virus-free explants. Evidence acquisition This review was written based on research publications relevant to the CymMV infection in orchids. The literature cited were obtained from online literature databases such as web of Science, Scopus, and Google Scholar. The searched term used was "Cymbidium mosaic virus". Related publications to the initial search were also examined. Results & Conclusions This review describes the threat of CymMV to the orchid population by examining its history, genome organization, symptoms on individual orchids, detection, and management. Current research has been focusing on the prospect of transgenic orchids with viral resistance. This review also highlights the potential role of the symbiotic relationship between orchids and arbuscular mycorrhiza fungi that could be useful to improve the protection of orchids against virus infection. Overall, this review provides information on how CymMV infection impacts the orchid population.
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Affiliation(s)
- Mohd Shakir Mohamad Yusop
- Institute of Systems Biology (INBIOSIS), Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor, Malaysia
| | - Zeti-Azura Mohamed-Hussein
- Institute of Systems Biology (INBIOSIS), Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor, Malaysia,
Department of Applied Physics, Faculty of Science and Technology, Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor, Malaysia
| | - Ahmad Bazli Ramzi
- Institute of Systems Biology (INBIOSIS), Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor, Malaysia
| | - Hamidun Bunawan
- Institute of Systems Biology (INBIOSIS), Universiti Kebangsaan Malaysia, 43600 UKM Bangi, Selangor, Malaysia
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Yang L, Zhou X, Deng Y, Gong D, Luo H, Zhu P. Dissipation behavior, residue distribution, and dietary risk assessment of fluopimomide and dimethomorph in taro using HPLC-MS/MS. ENVIRONMENTAL SCIENCE AND POLLUTION RESEARCH INTERNATIONAL 2021; 28:43956-43969. [PMID: 33846922 DOI: 10.1007/s11356-021-13713-z] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/14/2020] [Accepted: 03/25/2021] [Indexed: 06/12/2023]
Abstract
Dimethomorph is a morpholine broad-spectrum fungicide and effectively controls taro blight, cucumber downy mildew, rice blast disease, and others. Fluopimomide is a newly developed broad-spectrum fungicide to primarily control oomycetes and rhizoctonia diseases. Taro, one of the earliest cultivated crops, is a staple food in Africa, Oceania, and Asia. Recently, a commercial suspension concentrate formulation containing 15% fluopimomide and 25% dimethomorph has been registered in China, the second largest taro producer in the world. The objective of this study was to develop a high-performance liquid chromatography tandem mass spectrometry method to detect the residues of fluopimomide and dimethomorph concurrently in taro samples. The results showed that the average recoveries of fluopimomide and dimethomorph ranged from 83 to 108%, and relative standard deviations (RSD) ranged from 1 to 11%. The limit of quantitation (LOQ) was 0.01 mg kg-1 for the two compounds. The dissipation results demonstrated that both fluopimomide and dimethomorph in taro degraded rapidly in taro fields, and the residues of the two fungicides were below the LOQ within 14 days post-application. The final residue levels of fluopimomide and dimethomorph in taro were lower than 0.066 mg kg-1 28 days post-application. For dietary risk assessments, the dietary structure of different genders and age of people in China exposure risk assessment and whole diet exposure risk assessment shows that the risk quotient (RQ) values were substantially lower than 100%, suggesting that the long-term risks of fluopimomide/dimethomorph mixed formulation in taro at the recommended dosage were negligible. In summary, our combined results from the dissipation behaviors, terminal residues, and dietary risk assessments provide the critical empirical data for the establishment of the maximum residue levels (MRLs) of the two broad-spectrum fungicides in taro, a traditional food for African, Oceanic, and South Asian cultures.
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Affiliation(s)
- Lihua Yang
- College of Resources and Environment, Hunan Agricultural University, Changsha, 410128, China
| | - Xuguo Zhou
- Department of Entomology, University of Kentucky, Lexington, KY, 40546, USA
| | - Yaocheng Deng
- College of Resources and Environment, Hunan Agricultural University, Changsha, 410128, China
| | - Daoxin Gong
- College of Resources and Environment, Hunan Agricultural University, Changsha, 410128, China.
| | - Haifeng Luo
- College of Mechanical and Electrical Engineering, Hunan Agricultural University, Changsha, 410128, China.
| | - Ping Zhu
- College of Resources and Environment, Hunan Agricultural University, Changsha, 410128, China
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Construction of Infectious Clones of Begomoviruses: Strategies, Techniques and Applications. BIOLOGY 2021; 10:biology10070604. [PMID: 34209952 PMCID: PMC8301103 DOI: 10.3390/biology10070604] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 04/28/2021] [Revised: 06/21/2021] [Accepted: 06/24/2021] [Indexed: 11/24/2022]
Abstract
Simple Summary Begomovirus has a wide host range and threatens a significant amount of economic damage to many important crops such as tomatoes, beans, cassava, squash and cotton. There are many efforts directed at controlling this disease including the use of insecticides to control the insect vector as well as screening the resistant varieties. The use of synthetic virus or infectious clones approaches has allowed plant virologists to characterize and exploit the genome virus at the molecular and biological levels. By exploiting the DNA of the virus using the infectious clones strategy, the viral genome can be manipulated at specific regions to study functional genes for host–virus interactions. Thus, this review will provide an overview of the strategy to construct infectious clones of Begomovirus. The significance of established infectious clones in Begomovirus study will also be discussed. Abstract Begomovirus has become a potential threat to the agriculture sector. It causes significant losses to several economically important crops. Given this considerable loss, the development of tools to study viral genomes and function is needed. Infectious clones approaches and applications have allowed the direct exploitation of virus genomes. Infectious clones of DNA viruses are the critical instrument for functional characterization of the notable and newly discovered virus. Understanding of structure and composition of viruses has contributed to the evolution of molecular plant pathology. Therefore, this review provides extensive guidelines on the strategy to construct infectious clones of Begomovirus. Also, this technique’s impacts and benefits in controlling and understanding the Begomovirus infection will be discussed.
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Velarde AO, Waisen P, Kong AT, Wang KH, Hu JS, Melzer MJ. Characterization of taro reovirus and its status in taro (Colocasia esculenta) germplasm from the Pacific. Arch Virol 2021; 166:2563-2567. [PMID: 34117534 DOI: 10.1007/s00705-021-05108-9] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/02/2021] [Accepted: 03/31/2021] [Indexed: 11/28/2022]
Abstract
Taro reovirus (TaRV) has been reported infecting taro (Colocasia esculenta) in the South Pacific, but information on the virus is limited. Here, we report the genome sequence of a reovirus infecting taro in Papua New Guinea that had 10 genomic segments ranging from 1.1 to 3.9 kilobase pairs (kbp) in length with a total genome length of 26.3 kbp. TaRV was most closely related to rice ragged stunt virus (RRSV) but did not cross-react with RRSV polyclonal antisera. TaRV was not detected in 82 germplasm accessions of taro in Hawaii, or samples collected in American Samoa, Fiji, Guam, Palau, or Vanuatu.
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Affiliation(s)
- Alejandro Olmedo Velarde
- Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, 96822, USA
| | - Philip Waisen
- Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, 96822, USA
| | - Alexandra T Kong
- Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, 96822, USA
| | - Koon-Hui Wang
- Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, 96822, USA
| | - John S Hu
- Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, 96822, USA
| | - Michael J Melzer
- Department of Plant and Environmental Protection Sciences, University of Hawaii, Honolulu, HI, 96822, USA.
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Piñar G, Tafer H, Schreiner M, Miklas H, Sterflinger K. Decoding the biological information contained in two ancient Slavonic parchment codices: an added historical value. Environ Microbiol 2020; 22:3218-3233. [PMID: 32400083 PMCID: PMC7687136 DOI: 10.1111/1462-2920.15064] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2020] [Revised: 05/05/2020] [Accepted: 05/06/2020] [Indexed: 02/06/2023]
Abstract
This study provides an example in the emerging field of biocodicology showing how metagenomics can help answer relevant questions that may contribute to a better understanding of the history of ancient manuscripts. To this end, two Slavonic codices dating from the 11th century were investigated through shotgun metagenomics. Endogenous DNA enabled to infer the animal origin of the skins used in the manufacture of the two codices, while nucleic sequences recovered from viruses were investigated for the first time in this material, opening up new possibilities in the field of biocodicology. In addition, the microbiomes colonizing the surface of the parchments served to determine their conservation status and their latent risk of deterioration. The saline environment provided by the parchments selected halophilic and halotolerant microorganisms, which are known to be responsible for the biodegradation of parchment. Species of Nocardiopsis, Gracilibacillus and Saccharopolyspora, but also members of the Aspergillaceae family were detected in this study, all possessing enzymatic capabilities for the biodeterioration of this material. Finally, a relative abundance of microorganisms originating from the human skin microbiome were identified, most probably related to the intensive manipulation of the manuscripts throughout the centuries, which should be taken with caution as they can be potential pathogens.
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Affiliation(s)
- Guadalupe Piñar
- Institute of Microbiology and Microbial Biotechnology, Department of BiotechnologyUniversity of Natural Resources and Life Sciences, Muthgasse 11, A‐1190ViennaAustria
| | - Hakim Tafer
- Institute of Microbiology and Microbial Biotechnology, Department of BiotechnologyUniversity of Natural Resources and Life Sciences, Muthgasse 11, A‐1190ViennaAustria
| | - Manfred Schreiner
- Institute of Science and Technology in Art (ISTA)Academy of Fine Arts ViennaSchillerplatz 3, A‐1010 ViennaAustria
| | - Heinz Miklas
- Department of Slavonic StudiesUniversity of ViennaSpitalgasse 2‐4, Hof 3, A‐1090 ViennaAustria
| | - Katja Sterflinger
- Institute of Microbiology and Microbial Biotechnology, Department of BiotechnologyUniversity of Natural Resources and Life Sciences, Muthgasse 11, A‐1190ViennaAustria
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Kannan M, Zainal Z, Ismail I, Baharum SN, Bunawan H. Application of Reverse Genetics in Functional Genomics of Potyvirus. Viruses 2020; 12:v12080803. [PMID: 32722532 PMCID: PMC7472138 DOI: 10.3390/v12080803] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2020] [Revised: 07/12/2020] [Accepted: 07/14/2020] [Indexed: 12/16/2022] Open
Abstract
Numerous potyvirus studies, including virus biology, transmission, viral protein function, as well as virus–host interaction, have greatly benefited from the utilization of reverse genetic techniques. Reverse genetics of RNA viruses refers to the manipulation of viral genomes, transfection of the modified cDNAs into cells, and the production of live infectious progenies, either wild-type or mutated. Reverse genetic technology provides an opportunity of developing potyviruses into vectors for improving agronomic traits in plants, as a reporter system for tracking virus infection in hosts or a production system for target proteins. Therefore, this review provides an overview on the breakthroughs achieved in potyvirus research through the implementation of reverse genetic systems.
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Affiliation(s)
- Maathavi Kannan
- Institute of Systems Biology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; (M.K.); (Z.Z.); (I.I.); (S.N.B.)
| | - Zamri Zainal
- Institute of Systems Biology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; (M.K.); (Z.Z.); (I.I.); (S.N.B.)
- Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, University Kebangsaan Malaysia, Bangi 43600, Malaysia
| | - Ismanizan Ismail
- Institute of Systems Biology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; (M.K.); (Z.Z.); (I.I.); (S.N.B.)
- Department of Biological Sciences and Biotechnology, Faculty of Science and Technology, University Kebangsaan Malaysia, Bangi 43600, Malaysia
| | - Syarul Nataqain Baharum
- Institute of Systems Biology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; (M.K.); (Z.Z.); (I.I.); (S.N.B.)
| | - Hamidun Bunawan
- Institute of Systems Biology, Universiti Kebangsaan Malaysia, Bangi 43600, Malaysia; (M.K.); (Z.Z.); (I.I.); (S.N.B.)
- Correspondence: ; Tel.: +60-3-8921-4554
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