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Chabi-Jesus C, Ramos-González PL, Tassi AD, Rossetto Pereira L, Bastianel M, Lau D, Canale MC, Harakava R, Novelli VM, Kitajima EW, Freitas-Astúa J. Citrus Bright Spot Virus: A New Dichorhavirus, Transmitted by Brevipalpus azores, Causing Citrus Leprosis Disease in Brazil. PLANTS (BASEL, SWITZERLAND) 2023; 12:plants12061371. [PMID: 36987059 PMCID: PMC10053991 DOI: 10.3390/plants12061371] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/18/2023] [Revised: 03/13/2023] [Accepted: 03/17/2023] [Indexed: 06/01/2023]
Abstract
Citrus leprosis (CL) is the main viral disease affecting the Brazilian citriculture. Sweet orange (Citrus sinensis L. Osbeck) trees affected by CL were identified in small orchards in Southern Brazil. Rod-like particles of 40 × 100 nm and electron lucent viroplasm were observed in the nucleus of infected cells in symptomatic tissues. RNA extracts from three plants, which proved negative by RT-PCR for known CL-causing viruses, were analyzed by high throughput sequencing and Sanger sequencing after RT-PCR. The genomes of bi-segmented ss(-)RNA viruses, with ORFs in a typical organization of members of the genus Dichorhavirus, were recovered. These genomes shared 98-99% nt sequence identity among them but <73% with those of known dichorhavirids, a value below the threshold for new species demarcation within that genus. Phylogenetically, the three haplotypes of the new virus called citrus bright spot virus (CiBSV) are clustered with citrus leprosis virus N, which is a dichorhavirus transmitted by Brevipalpus phoenicis sensu stricto. In CiBSV-infected citrus plants, B. papayensis and B. azores were found, but the virus could only be transmitted to Arabidopsis plants by B. azores. The study provides the first evidence of the role of B. azores as a viral vector and supports the assignment of CiBSV to the tentative new species Dichorhavirus australis.
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Affiliation(s)
- Camila Chabi-Jesus
- Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo (Esalq/USP), Piracicaba 13418-900, São Paulo, Brazil
- Instituto Biológico/IB, São Paulo 04014-002, São Paulo, Brazil
| | | | | | | | - Marinês Bastianel
- Centro de Citricultura Sylvio Moreira/IAC, Cordeirópolis 13490-970, São Paulo, Brazil
| | - Douglas Lau
- Embrapa Trigo, Passo Fundo 99050-970, Rio Grande do Sul, Brazil
| | - Maria Cristina Canale
- Empresa de Pesquisa Agropecuária e Extensão Rural de Santa Catarina/Epagri, Paulo Lopes 88490-000, Santa Catarina, Brazil
| | | | | | - Elliot Watanabe Kitajima
- Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo (Esalq/USP), Piracicaba 13418-900, São Paulo, Brazil
| | - Juliana Freitas-Astúa
- Instituto Biológico/IB, São Paulo 04014-002, São Paulo, Brazil
- Embrapa Mandioca e Fruticultura, Cruz das Almas 44380-000, Bahia, Brazil
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2
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Tangudu CS, Hargett AM, Laredo-Tiscareño SV, Smith RC, Blitvich BJ. Isolation of a novel rhabdovirus and detection of multiple novel viral sequences in Culex species mosquitoes in the United States. Arch Virol 2022; 167:2577-2590. [PMID: 36056958 DOI: 10.1007/s00705-022-05586-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/05/2022] [Accepted: 07/21/2022] [Indexed: 12/14/2022]
Abstract
To increase our understanding of the diversity of the mosquito virome, 6956 mosquitoes of five species (Culex erraticus, Culex pipiens, Culex restuans, Culex tarsalis, and Culex territans) collected in Iowa in the United States in 2017 and 2020 were assayed for novel viruses by performing polyethylene glycol precipitation, virus isolation in cell culture, and unbiased high-throughput sequencing. A novel virus, provisionally named "Walnut Creek virus", was isolated from Cx. tarsalis, and its genomic sequence and organization are characteristic of viruses in the genus Hapavirus (family Rhabdoviridae). Replication of Walnut Creek virus occurred in avian, mammalian, and mosquito, but not tick, cell lines. A novel virus was also isolated from Cx. restuans, and partial genome sequencing revealed that it is distantly related to an unclassified virus of the genus Phytoreovirus (family Sedoreoviridae). Two recognized viruses were also isolated: Culex Y virus (family Birnaviridae) and Houston virus (family Mesoniviridae). We also identified sequences of eight novel viruses from six families (Amalgaviridae, Birnaviridae, Partitiviridae, Sedoreoviridae, Tombusviridae, and Totiviridae), two viruses that do not belong to any established families, and many previously recognized viruses. In summary, we provide evidence of multiple novel and recognized viruses in Culex spp. mosquitoes in the United States.
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Affiliation(s)
- Chandra S Tangudu
- Department of Veterinary Microbiology and Preventive Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA, 50011, USA
| | - Alissa M Hargett
- Department of Veterinary Microbiology and Preventive Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA, 50011, USA
| | - S Viridiana Laredo-Tiscareño
- Department of Veterinary Microbiology and Preventive Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA, 50011, USA
| | - Ryan C Smith
- Department of Entomology, College of Agriculture and Life Sciences, Iowa State University, Ames, IA, USA
| | - Bradley J Blitvich
- Department of Veterinary Microbiology and Preventive Medicine, College of Veterinary Medicine, Iowa State University, Ames, IA, 50011, USA.
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3
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Orchid fleck dichorhavirus movement protein shows RNA silencing suppressor activity. J Gen Virol 2022; 103. [DOI: 10.1099/jgv.0.001805] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022] Open
Abstract
To counteract RNA interference-mediated antiviral defence, virus genomes evolved to express proteins that inhibit this plant defence mechanism. Using six independent biological approaches, we show that orchid fleck dichorhavirus citrus strain (OFV-citrus) movement protein (MP) may act as a viral suppressor of RNA silencing (VSR). By using the alfalfa mosaic virus (AMV) RNA 3 expression vector, it was observed that the MP triggered necrosis response in transgenic tobacco leaves and increased the viral RNA (vRNA) accumulation. The use of the potato virus X (PVX) expression system revealed that the cis expression of MP increased both the severity of the PVX infection and the accumulation of PVX RNAs, further supporting that MP could act as an RNA silencing suppressor (RSS). From the analysis of the RSS-defective turnip crinkle virus (TCV), we do not find local RSS activity for MP, suggesting a link between MP suppressor activity and the prevention of systemic silencing. In the analysis of local suppressive activity using the GFP-based agroinfiltration assay in Nicotiana benthamiana (16 c line), we do not identify local RSS activity for the five OFV RNA1-encoded proteins. However, when evaluating the small interfering RNA (siRNA) accumulation, we find that the expression of MP significantly reduces the accumulation of GFP-derived siRNA. Finally, we examine whether the MP can prevent systemic silencing in 16c plants. Our findings show that MP inhibits the long-distance spread of RNA silencing, but does not affect the short-distance spread. Together, our findings indicate that MP is part of OFV’s counter-defence mechanism, acting mainly in the prevention of systemic long-distance silencing. This work presents the first report of a VSR for a member of the genus Dichorhavirus.
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Abstract
Rhabdoviruses are ubiquitous and diverse viruses that propagate owing to bidirectional interactions with their vertebrate, arthropod, and plant hosts, and some of them could pose global health or agricultural threats. However, rhabdoviruses have rarely been reported in fungi. Here, two newly identified fungal rhabdoviruses, Rhizoctonia solani rhabdovirus 1 (RsRhV1) and RsRhV2, were discovered and molecularly characterized from the phytopathogenic fungus Rhizoctonia solani. The genomic organizations of RsRhV1 and RsRhV2 are 11,716 and 11,496 nucleotides (nt) in length, respectively, and consist of five open reading frames (ORFs) (ORFs I to V). ORF I, ORF IV, and ORF V encode the viral nucleocapsid (N), glycoprotein (G), and RNA polymerase (L), respectively. The putative protein encoded by ORF III has a lower level of identity with the matrix protein of rhabdoviruses. ORF II encodes a hypothetical protein with unknown function. Phylogenetic trees based on multiple alignments of N, L, and G proteins revealed that RsRhV1 and RsRhV2 are new members of the family Rhabdoviridae, but they form an independent evolutionary branch significantly distinct from other known nonfungal rhabdoviruses, suggesting that they represent a novel viral evolutionary lineage within Rhabdoviridae. Compared to strains lacking rhabdoviruses, strains harboring RsRhV2 and RsRhV1 showed hypervirulence, suggesting that RsRhV1 and RsRhV2 might be associated with the virulence of R. solani. Taken together, this study enriches our understanding of the diversity and host range of rhabdoviruses. IMPORTANCE Mycoviruses have been attracting an increasing amount of attention due to their impact on important medical, agricultural, and industrial fungi. Rhabdoviruses are prevalent across a wide spectrum of hosts, from plants to invertebrates and vertebrates. This study molecularly characterized two novel rhabdoviruses from four Rhizoctonia solani strains, based on their genomic structures, transcription strategy, phylogenetic relationships, and biological impact on their host. Our study makes a significant contribution to the literature because it not only enriches the mycovirus database but also expands the known host range of rhabdoviruses. It also offers insight into the evolutionary linkage between animal viruses and mycoviruses and the transmission of viruses from one host to another. Our study will also help expand the contemporary knowledge of the classification of rhabdoviruses, as well as providing a new model to study rhabdovirus-host interactions, which will benefit the agriculture and medical areas of human welfare.
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5
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Otero-Colina G, Ramos-González PL, Chabi-Jesus C, Freitas-Astúa J, Tassi AD, Kitajima EW. First detection of orchid fleck virus in orchids in Mexico. Virusdisease 2021; 32:167-172. [PMID: 33969160 DOI: 10.1007/s13337-021-00676-5] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/07/2020] [Accepted: 02/23/2021] [Indexed: 10/21/2022] Open
Abstract
For the first time, an isolate of the dichorhavirus orchid fleck virus (OFV, family Rhabdoviridae) was found infecting an orchid plant in Mexico. The infected sample of Epidendrum veroscriptum was collected in a nursery in Lagunillas, municipality of Zihuateutla, Edo. Puebla. Mites gathered on this plant were analyzed by light and scanning electron microscopy, which consistently indicated the presence of adults of the species Brevipalpus californicus, the common vector of OFV. Viral identification was based on symptoms, cytopathology, and reverse transcriptase-PCR/sequencing of genome fragments of the RNA1 and 2 molecules. Since isolates of OFV causing citrus leprosis have been previously detected in the Mexican states of Chiapas, Querétaro, and Jalisco, we promote a pertinent discussion and thought-provoking questions regarding the epidemiology and putative evolution of OFV.
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Affiliation(s)
- Gabriel Otero-Colina
- Campus Montecillo, Colegio de Potsgraduados, 56320 Montecillo, Edo. México México
| | - Pedro Luis Ramos-González
- Laboratório de Biologia Molecular Aplicada, Instituto Biológico, Av. Conselheiro Rodrigues Alves 1252, São Paulo, SP 04014-902 Brazil
| | - Camila Chabi-Jesus
- Laboratório de Biologia Molecular Aplicada, Instituto Biológico, Av. Conselheiro Rodrigues Alves 1252, São Paulo, SP 04014-902 Brazil.,PPG Microbiologia Agrícola, ESALQ/USP, CP 9, Piracicaba, SP 13418-900 Brazil
| | - Juliana Freitas-Astúa
- Laboratório de Biologia Molecular Aplicada, Instituto Biológico, Av. Conselheiro Rodrigues Alves 1252, São Paulo, SP 04014-902 Brazil.,Embrapa Mandioca e Fruticultura, Cruz das Almas, BA 44380-000 Brazil
| | - Aline D Tassi
- Laboratório de Biologia Molecular Aplicada, Instituto Biológico, Av. Conselheiro Rodrigues Alves 1252, São Paulo, SP 04014-902 Brazil.,Departamento de Fitopatologia e Nematologia, ESALQ/USP, CP 9, Piracicaba, SP 13418-900 Brazil
| | - Elliot W Kitajima
- Departamento de Fitopatologia e Nematologia, ESALQ/USP, CP 9, Piracicaba, SP 13418-900 Brazil
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Zhang S, Huang A, Zhou X, Li Z, Dietzgen RG, Zhou C, Cao M. Natural Defect of a Plant Rhabdovirus Glycoprotein Gene: A Case Study of Virus-Plant Coevolution. PHYTOPATHOLOGY 2021; 111:227-236. [PMID: 32648524 DOI: 10.1094/phyto-05-20-0191-fi] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/11/2023]
Abstract
Seven isolates of a putative cytorhabdovirus (family Rhabdoviridae, order Mononegavirales) designated as citrus-associated rhabdovirus (CiaRV) were identified in citrus, passion fruit, and paper bush from the same geographical area in China. CiaRV, bean-associated cytorhabdovirus (Brazil), and papaya virus E (Ecuador) should be taxonomically classified in the species Papaya cytorhabdovirus. Due to natural mutations, the glycoprotein (G) and P4 genes were impaired in citrus-infecting isolates of CiaRV, resulting in an atypical rhabdovirus genome organization of 3' leader-N-P-P3-M-L-5' trailer. The P3 protein of CiaRV shared a common origin with begomoviral movement proteins (family Geminiviridae). Secondary structure analysis and trans-complementation of movement-deficient tomato mosaic virus and potato virus X mutants by CiaRV P3 supported its function in viral cell-to-cell trafficking. The wide geographical dispersal of CiaRV and related viruses suggests an efficient transmission mechanism, as well as an underlying risk to global agriculture. Both the natural phenomenon and experimental analyses demonstrated presence of the "degraded" type of CiaRV in citrus, in parallel to "undegraded" types in other host plant species. This case study shows a plant virus losing the function of an important but nonessential gene, likely due to host shift and adaption, which deepened our understanding of course of natural viral diversification.
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Affiliation(s)
- Song Zhang
- National Citrus Engineering and Technology Research Center, Citrus Research Institute, Southwest University, Beibei, Chongqing 400712, China
- Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China
| | - Aijun Huang
- National Navel Orange Research Center, College of Life Science, Gannan Normal University, Ganzhou, China
| | - Xin Zhou
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, Zhejiang, China
| | - Zhenghe Li
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, Zhejiang, China
| | - Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, Queensland 4072, Australia
| | - Changyong Zhou
- National Citrus Engineering and Technology Research Center, Citrus Research Institute, Southwest University, Beibei, Chongqing 400712, China
- Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China
| | - Mengji Cao
- National Citrus Engineering and Technology Research Center, Citrus Research Institute, Southwest University, Beibei, Chongqing 400712, China
- Academy of Agricultural Sciences, Southwest University, Beibei, Chongqing 400715, China
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7
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Lost and found: Rediscovery and genomic characterization of sowthistle yellow vein virus after a 30+ year hiatus. Virus Res 2020; 284:197987. [PMID: 32360867 DOI: 10.1016/j.virusres.2020.197987] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/13/2020] [Revised: 04/21/2020] [Accepted: 04/22/2020] [Indexed: 02/02/2023]
Abstract
Beginning in the 1960's, sowthistle yellow vein virus (SYVV) was the subject of pioneering research that demonstrated propagation of a plant virus in its insect vector. Since the 1980's there has been a paucity of research on SYVV, with historic isolates no longer maintained and no genomic sequence available. Once commonly observed infecting sowthistle (Sonchus oleraceous L.) in California, SYVV incidence declined ca. 1990, likely due to displacement of the black currant aphid (Hyperomyzus lactucae L.) by an invasive non-vector aphid. In 2018, SYVV was fortuitously rediscovered infecting sowthistle in an organic citrus grove in Kern County, CA. The SYVV genome sequence (13,719 nts) obtained from the 2018 sample (designated HWY65) encoded all six expected genes: N, P, MP, M, G, and L. Nucleotide sequence (representing ∼86 % of the genome) of the SYVV Berkeley lab isolate, used by E. S. Sylvester and colleagues for the paradigm-shifting research mentioned above, was determined from an archived library of cDNA clones constructed in 1986. The two nucleotide sequences share 98.5 % identity, confirming both represent the same virus, thereby linking biology of the historic isolate with extant SYVV rediscovered in 2018. Phylogenetic analysis of the L protein indicated SYVV is positioned within a clade containing a subset of viruses currently assigned to the genus Nucleorhabdovirus. As Nucleorhabdovirus is paraphyletic, the International Committee on the Taxonomy of Viruses has proposed abolishment of the genus and establishment of three new genera. In this revised taxonomy, the clade containing SYVV constitutes a new genus designated Betanucleorhabdovirus.
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8
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Roy A, Stone AL, Otero-Colina G, Wei G, Brlansky RH, Ochoa R, Bauchan G, Schneider WL, Nakhla MK, Hartung JS. Reassortment of Genome Segments Creates Stable Lineages Among Strains of Orchid Fleck Virus Infecting Citrus in Mexico. PHYTOPATHOLOGY 2020; 110:106-120. [PMID: 31600117 DOI: 10.1094/phyto-07-19-0253-fi] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
The genus Dichorhavirus contains viruses with bipartite, negative-sense, single-stranded RNA genomes that are transmitted by flat mites to hosts that include orchids, coffee, the genus Clerodendrum, and citrus. A dichorhavirus infecting citrus in Mexico is classified as a citrus strain of orchid fleck virus (OFV-Cit). We previously used RNA sequencing technologies on OFV-Cit samples from Mexico to develop an OFV-Cit-specific reverse transcription PCR (RT-PCR) assay. During assay validation, OFV-Cit-specific RT-PCR failed to produce an amplicon from some samples with clear symptoms of OFV-Cit. Characterization of this virus revealed that dichorhavirus-like particles were found in the nucleus. High-throughput sequencing of small RNAs from these citrus plants revealed a novel citrus strain of OFV, OFV-Cit2. Sequence comparisons with known orchid and citrus strains of OFV showed variation in the protein products encoded by genome segment 1 (RNA1). Strains of OFV clustered together based on host of origin, whether orchid or citrus, and were clearly separated from other dichorhaviruses described from infected citrus in Brazil. The variation in RNA1 between the original (now OFV-Cit1) and the new (OFV-Cit2) strain was not observed with genome segment 2 (RNA2), but instead, a common RNA2 molecule was shared among strains of OFV-Cit1 and -Cit2, a situation strikingly similar to OFV infecting orchids. We also collected mites at the affected groves, identified them as Brevipalpus californicus sensu stricto, and confirmed that they were infected by OFV-Cit1 or with both OFV-Cit1 and -Cit2. OFV-Cit1 and -Cit2 have coexisted at the same site in Toliman, Queretaro, Mexico since 2012. OFV strain-specific diagnostic tests were developed.
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Affiliation(s)
- Avijit Roy
- U.S. Department of Agriculture-APHIS PPQ S&T, Beltsville, MD 20705, U.S.A
| | - Andrew L Stone
- Foreign Disease Weed Science Research Unit, U.S. Department of Agriculture-Agriculture Research Service, Ft. Detrick, MD 21702, U.S.A
| | - Gabriel Otero-Colina
- Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. de Mex. CP56230, Mexico
| | - Gang Wei
- U.S. Department of Agriculture-APHIS PPQ S&T, Beltsville, MD 20705, U.S.A
| | | | - Ronald Ochoa
- U.S. Department of Agriculture-Agriculture Research Service, Beltsville, MD 20705, U.S.A
| | - Gary Bauchan
- U.S. Department of Agriculture-Agriculture Research Service, Beltsville, MD 20705, U.S.A
| | | | - Mark K Nakhla
- U.S. Department of Agriculture-APHIS PPQ S&T, Beltsville, MD 20705, U.S.A
| | - John S Hartung
- U.S. Department of Agriculture-Agriculture Research Service, Beltsville, MD 20705, U.S.A
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9
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Rodríguez-Ramírez R, Santillán-Galicia MT, Guzmán-Franco AW, Ortega-Arenas LD, Teliz-Ortiz D, Sánchez-Soto S, Robles-García PL. Transmission of Citrus leprosis virus C by the Mite, Brevipalpus yothersi (Acari: Tenuipalpidae), on Four Species of Citrus. JOURNAL OF ECONOMIC ENTOMOLOGY 2019; 112:2569-2576. [PMID: 31310311 DOI: 10.1093/jee/toz201] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/10/2019] [Indexed: 06/10/2023]
Abstract
Transmission of the virus, Citrus leprosis virus C (CiLV-C) (Cilevirus) by Brevipalpus yothersi Baker, on different citrus species was evaluated under greenhouse conditions. First, the relationship between acquisition access periods (AAPs; 1, 12, 24, 36, and 48 h) and virus concentration in mites was determined. Second, the ability of B. yothersi to transmit CiLV-C to orange, mandarin, grapefruit, and lime trees was measured. We then assessed the establishment of mites on the different citrus species as measured by their population increase on each species. We found no relationship between AAPs and virus load in mites. The virus was found in all mites tested but there was no difference in virus quantities among the treatments. We selected an AAP of 24 h for the transmission experiment. Brevipalpus yothersi transmitted the virus to all citrus species evaluated, but susceptibility was different. The number of infected leaves was greater on orange and mandarin compared with grapefruit and lime. Furthermore, populations of B. yothersi successfully established on orange and mandarin, but not on grapefruit and lime trees. The implications of our results in the virus-mite-citrus plant relationship are discussed.
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Affiliation(s)
- Renata Rodríguez-Ramírez
- Posgrado en Fitosanidad-Entomología y Acarología, Colegio de Postgraduados, Campus Montecillo, Km 36.5 Carretera México-Texcoco, Montecillo, Estado de México, México
| | - Ma Teresa Santillán-Galicia
- Posgrado en Fitosanidad-Entomología y Acarología, Colegio de Postgraduados, Campus Montecillo, Km 36.5 Carretera México-Texcoco, Montecillo, Estado de México, México
| | - Ariel W Guzmán-Franco
- Posgrado en Fitosanidad-Entomología y Acarología, Colegio de Postgraduados, Campus Montecillo, Km 36.5 Carretera México-Texcoco, Montecillo, Estado de México, México
| | - Laura Delia Ortega-Arenas
- Posgrado en Fitosanidad-Entomología y Acarología, Colegio de Postgraduados, Campus Montecillo, Km 36.5 Carretera México-Texcoco, Montecillo, Estado de México, México
| | - Daniel Teliz-Ortiz
- Posgrado en Fitosanidad-Fitopatología, Colegio de Postgraduados, Campus Montecillo, Km 36.5 Carretera México-Texcoco, Montecillo, Estado de México, México
| | - Saul Sánchez-Soto
- Campus Tabasco, Colegio de Postgraduados, Municipio de Cárdenas, Tabasco, México
| | - Pedro L Robles-García
- Campañas de Prioridad Nacional, Dirección General de Sanidad Vegetal, Anillo Periférico 5010, Insurgentes Cuicuilco, Ciudad de México, México
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10
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Affiliation(s)
- Michael Goodin
- Department of Plant Pathology, University of Kentucky, Lexington, Kentucky, United States of America
- * E-mail:
| | - Antonia Dos Reis Figueira
- Universidade Federal de Lavras, Departamento de Fitopatologia, Caixa, CEP, Lavras, Minas Gerais, Brasil
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11
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Bastianel M, Pereira-Martin JA, Novelli VM, Freitas-Astúa J, Nunes MA. Citrus leprosis resistance within the citrus group. Virusdisease 2018; 29:491-498. [PMID: 30539052 PMCID: PMC6261896 DOI: 10.1007/s13337-018-0489-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Accepted: 09/14/2018] [Indexed: 12/29/2022] Open
Abstract
Reported in Brazil since the 1930's, citrus leprosis, caused mainly by citrus leprosis virus C, has been a major concern for the national sweet orange production. In recent years, the disease has spread to several other countries and it is now considered a worldwide threat. The occurrence of the disease has been studied almost exclusively in sweet oranges because other citrus genotypes are of secondary relevance in Brazil and in some other American countries where it occurs. Here we report 12 resistant citrus genotypes among 160 accessions evaluated. After 90 days of the infestation with viruliferous mites, asymptomatic genotypes were observed in sour orange, lemon, grapefruit, mandarins, tangelo, and tangor groups. The results revealed promising genotypes resistant to the disease, which can be incorporated in citrus breeding programs aiming to obtain varietal resistance, and confirmed the susceptibility of many citrus genotypes to CiLV-C. This assay ratify the already reported uneven level of susceptibility within the citrus group.
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Affiliation(s)
- Marinês Bastianel
- Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, SP 13490-970 Brazil
| | - Juliana A. Pereira-Martin
- Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, SP 13490-970 Brazil
- Universidade de São Paulo/ESALQ – PPG em Microbiologia Agrícola, Piracicaba, SP 13418-900 Brazil
| | - Valdenice M. Novelli
- Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, SP 13490-970 Brazil
| | - Juliana Freitas-Astúa
- Embrapa Mandioca e Fruticultura e Instituto Biológico/SP, Cruz das Almas, BA 44380-000 Brazil
| | - Maria A. Nunes
- Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, SP 13490-970 Brazil
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12
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Freitas-Astúa J, Ramos-González PL, Arena GD, Tassi AD, Kitajima EW. Brevipalpus-transmitted viruses: parallelism beyond a common vector or convergent evolution of distantly related pathogens? Curr Opin Virol 2018; 33:66-73. [PMID: 30081359 DOI: 10.1016/j.coviro.2018.07.010] [Citation(s) in RCA: 27] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2018] [Revised: 07/12/2018] [Accepted: 07/16/2018] [Indexed: 12/20/2022]
Abstract
Although diseases caused by Brevipalpus-transmitted viruses (BTV) became relevant for agriculture a century ago, their causal agents have been only recently characterized and classified in two new genera of plant-infecting viruses: Cilevirus and Dichorhavirus. In this review, we highlight both similarities and differences between these viruses emphasizing their current taxonomy and historical classification, phylogeny, genomic organization, gene expression, and the latest research developments on BTVs. Additionally, we stress particular features of interactions with their mite vectors and plant hosts that support, from an evolutionary perspective, the potential convergence of both viral groups.
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Affiliation(s)
- Juliana Freitas-Astúa
- Embrapa Cassava and Fruits, 44380-000 Cruz das Almas, BA, Brazil; Instituto Biológico, 04014-900 São Paulo, SP, Brazil.
| | | | - Gabriella Dias Arena
- Centro Apta Citros Sylvio Moreira, IAC, 13490-000 Cordeirópolis, SP, Brazil; Instituto de Biologia, Unicamp, 13083-862 Campinas, SP, Brazil
| | - Aline Daniele Tassi
- Departmento de Fitopatologia e Nematologia, ESALQ/USP, 13418-900 Piracicaba, SP, Brazil
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13
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Chabi-Jesus C, Ramos-González PL, Tassi AD, Guerra-Peraza O, Kitajima EW, Harakava R, Beserra JEA, Salaroli RB, Freitas-Astúa J. Identification and Characterization of Citrus Chlorotic Spot Virus, a New Dichorhavirus Associated with Citrus Leprosis-Like Symptoms. PLANT DISEASE 2018; 102:1588-1598. [PMID: 30673423 DOI: 10.1094/pdis-09-17-1425-re] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Local chlorotic spots resembling early lesions characteristic of citrus leprosis (CL) were observed in leaves of two sweet orange (Citrus sinensis L.) trees in Teresina, State of Piauí, Brazil, in early 2017. However, despite the similarities, these spots were generally larger than those of a typical CL and showed rare or no necrosis symptoms. In symptomatic tissues, transmission electron microscopy revealed the presence of viroplasms in the nuclei of the infected parenchymal cells and rod-shaped particles with an average size of approximately 40 × 100 nm, resembling those typically observed during infection by dichorhaviruses. A bipartite genome of the putative novel virus, tentatively named citrus chlorotic spot virus (CiCSV) (RNA1 = 6,518 nucleotides [nt] and RNA2 = 5,987 nt), revealed the highest nucleotide sequence identity values with the dichorhaviruses coffee ringspot virus strain Lavras (73.8%), citrus leprosis virus N strain Ibi1 (58.6%), and orchid fleck virus strain So (56.9%). In addition to citrus, CiCSV was also found in local chlorotic lesions on leaves of the ornamental plant beach hibiscus (Talipariti tiliaceum (L.) Fryxell). Morphological characterization of mites recovered from the infected plants revealed at least two different types of Brevipalpus. One of them corresponds to Brevipalpus yothersi. The other is slightly different from B. yothersi mites but comprises traits that possibly place it as another species. A mix of the two mite types collected on beach hibiscus successfully transmitted CiCSV to arabidopsis plants but additional work is required to verify whether both types of flat mite may act as viral vectors. The current study reveals a newly described dichorhavirus associated with a citrus disease in the northeastern region of Brazil.
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Affiliation(s)
- C Chabi-Jesus
- Instituto Biológico, São Paulo, SP, Brazil; and PPG Microbiologia Agrícola ESALQ/USP, Piracicaba, SP, Brazil
| | | | - A D Tassi
- LFN/ESALQ/USP, 13418-900 Piracicaba, SP, Brazil
| | - O Guerra-Peraza
- Instituto Biológico, São Paulo; and Citrus Research & Education Center, University of Florida
| | | | | | | | | | - J Freitas-Astúa
- Instituto Biológico, São Paulo; and Embrapa Mandioca e Fruticultura, Cruz das Almas, BA, Brazil
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14
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Andrade DJ, Lorençon JR, Siqueira DS, Novelli VM, Bassanezi RB. Space-time variability of citrus leprosis as strategic planning for crop management. PEST MANAGEMENT SCIENCE 2018; 74:1798-1803. [PMID: 29385318 DOI: 10.1002/ps.4877] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 09/03/2017] [Revised: 12/20/2017] [Accepted: 01/24/2018] [Indexed: 06/07/2023]
Abstract
BACKGROUND Citrus leprosis is the most important viral disease of citrus. Knowledge of its spatiotemporal structure is fundamental to a representative sampling plan focused on the disease control approach. Such a well-crafted sampling design helps to reduce pesticide use in agriculture to control pests and diseases. RESULTS Despite the use of acaricides to control citrus leprosis vector (Brevipalpus spp.) populations, the disease has spread rapidly through experimental areas. Citrus leprosis has an aggregate spatial distribution, with high dependence among symptomatic plants. Temporal variation in disease incidence increased among symptomatic plants by 4% per month. CONCLUSIONS Use of acaricides alone to control the vector of leprosis is insufficient to avoid its incidence in healthy plants. Preliminary investigation into the time and space variation in the incidence of the disease is fundamental to select a sampling plan and determine effective strategies for disease management. © 2018 Society of Chemical Industry.
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Affiliation(s)
- Daniel J Andrade
- UNESP-São Paulo State University, College of Agricultural and Veterinary Sciences (FCAV/UNESP), Jaboticabal, Brazil
| | - José R Lorençon
- UNESP-São Paulo State University, College of Agricultural and Veterinary Sciences (FCAV/UNESP), Jaboticabal, Brazil
| | - Diego S Siqueira
- UNESP-São Paulo State University, College of Agricultural and Veterinary Sciences (FCAV/UNESP), Jaboticabal, Brazil
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15
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Jackson AO, Dietzgen RG, Goodin MM, Li Z. Development of Model Systems for Plant Rhabdovirus Research. Adv Virus Res 2018; 102:23-57. [PMID: 30266175 DOI: 10.1016/bs.aivir.2018.06.008] [Citation(s) in RCA: 13] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/28/2022]
Abstract
This chapter reviews the discoveries and initial characterizations (1930-1990) of three plant rhabdoviruses, sonchus yellow net virus, potato yellow dwarf virus, and lettuce necrotic yellows virus, that have become model systems for research on this group of enveloped negative-strand RNA plant viruses. We have used our personal perspectives to review the early historical studies of these viruses, the important technologies and tools, such as density gradient centrifugation, that were developed during the research, and to highlight the eminent scientists involved in these discoveries. Early studies on sites of virus replication, virion structure, physicochemical composition, and the use of protoplasts and vector insect cell culture for virus research are discussed, and differences between the nuclear and cytoplasmic lifestyles of plant rhabdoviruses are contrasted. Finally, we briefly summarize the genome organization and more recent developments culminating in the development of a reverse genetics system for plant negative-strand RNA viruses.
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Affiliation(s)
| | - Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD, Australia
| | | | - Zhenghe Li
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, China
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16
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Unveiling the complete genome sequence of clerodendrum chlorotic spot virus, a putative dichorhavirus infecting ornamental plants. Arch Virol 2018; 163:2519-2524. [PMID: 29869032 DOI: 10.1007/s00705-018-3857-z] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/27/2018] [Accepted: 04/16/2018] [Indexed: 01/10/2023]
Abstract
The genus Dichorhavirus includes plant-infecting rhabdoviruses with bisegmented genomes that are horizontally transmitted by false spider mites of the genus Brevipalpus. The complete genome sequences of three isolates of the putative dichorhavirus clerodendrum chlorotic spot virus were determined using next-generation sequencing (Illumina) and traditional RT-PCR. Their genome organization, sequence similarity and phylogenetic relationship to other viruses, and transmissibility by Brevipalpus yothersi mites support the assignment of these viruses to a new species of dichorhavirus, as suggested previously. New data are discussed stressing the reliability of the current rules for species demarcation and taxonomic status criteria within the genus Dichorhavirus.
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17
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Walker PJ, Blasdell KR, Calisher CH, Dietzgen RG, Kondo H, Kurath G, Longdon B, Stone DM, Tesh RB, Tordo N, Vasilakis N, Whitfield AE, Ictv Report Consortium. ICTV Virus Taxonomy Profile: Rhabdoviridae. J Gen Virol 2018; 99:447-448. [PMID: 29465028 DOI: 10.1099/jgv.0.001020] [Citation(s) in RCA: 130] [Impact Index Per Article: 21.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/30/2022] Open
Abstract
The family Rhabdoviridae comprises viruses with negative-sense (-) single-stranded RNA genomes of 10.8-16.1 kb. Virions are typically enveloped with bullet-shaped or bacilliform morphology but can also be non-enveloped filaments. Rhabdoviruses infect plants and animals including mammals, birds, reptiles and fish, as well as arthropods which serve as single hosts or act as biological vectors for transmission to animals or plants. Rhabdoviruses include important pathogens of humans, livestock, fish and agricultural crops. This is a summary of the International Committee on Taxonomy of Viruses (ICTV) Report on the taxonomy of Rhabdoviridae, which is available at www.ictv.global/report/rhabdoviridae.
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Affiliation(s)
- Peter J Walker
- School of Biological Sciences, University of Queensland, St. Lucia, QLD 4072, Australia
| | - Kim R Blasdell
- CSIRO Health and Biosecurity, Geelong, VIC 3220, Australia
| | | | - Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, University of Queensland, St. Lucia, QLD 4072, Australia
| | - Hideki Kondo
- Institute of Plant Science and Resources, Okayama University, Kurashiki, 710-0046, Japan
| | - Gael Kurath
- Western Fisheries Research Center, Seattle, WA 98115, USA
| | - Ben Longdon
- Department of Biosciences, University of Exeter, Penryn TR10 9FE, UK
| | - David M Stone
- Centre for Environment, Fisheries and Aquaculture Science, Weymouth, DT4 8UB, UK
| | - Robert B Tesh
- Department of Pathology and Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, Galveston, TX 77555, USA
| | - Noël Tordo
- Institut Pasteur de Guinée, Gamal Abdel Nasser University, Conakry, Guinea
| | - Nikos Vasilakis
- Department of Pathology and Center for Biodefense and Emerging Infectious Diseases, University of Texas Medical Branch, Galveston, TX 77555, USA
| | - Anna E Whitfield
- Department of Plant Pathology, Kansas State University, Manhattan KS 66506, USA
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18
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Abstract
A group of related bacilliform, nuclear viruses with a bisegmented negative-sense RNA genome that are transmitted by Brevipalpus mites likely in a circulative-propagative manner were recently classified in the new genus Dichorhavirus, family Rhabdoviridae. These viruses cause localized lesions on leaves, stems, and fruits of economically significant horticultural and ornamental plant species. Among its members, orchid fleck virus, citrus leprosis virus N, and coffee ringspot virus are most prominent. This chapter summarizes the current knowledge about these viruses, available detection techniques, and their interactions with their plant hosts and mite vectors.
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19
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Jeger M, Bragard C, Caffier D, Dehnen-Schmutz K, Gilioli G, Gregoire JC, Jaques Miret JA, MacLeod A, Navajas Navarro M, Niere B, Parnell S, Potting R, Rafoss T, Rossi V, Urek G, Van Bruggen A, Van der Werf W, West J, Chatzivassiliou E, Winter S, Catara A, Duran-Vila N, Hollo G, Candresse T. Pest categorisation of Citrus leprosis viruses. EFSA J 2017; 15:e05110. [PMID: 32625390 PMCID: PMC7009949 DOI: 10.2903/j.efsa.2017.5110] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022] Open
Abstract
The EFSA Panel on Plant Health performed a pest categorisation of the Citrus leprosis viruses for the EU territory and identified five distinct viruses, Citrus leprosis virus C (CiLV‐C), Citrus leprosis virus C2 (CiLV‐C2), Hibiscus green spot virus 2 (HGSV‐2), the Citrus strain of Orchid fleck virus (OFV) and Citrus leprosis virus N sensu novo (CiLV‐N) as causing this severe disease, most significantly in sweet orange and mandarin. These viruses have in common that they do not cause systemic infections in their hosts and that they all are transmitted by Brevipalpus spp. mites (likely but not confirmed for HGSV‐2). Mites represent the most important means of virus spread, while plants for planting of Citrus are only considered of minor significance. These well characterised viruses occur in South and Central America. Leprosis is currently regulated in directive 2000/29 EC and, together with its associated viruses, has never been recorded in the EU. All five viruses have the potential to enter into, establish in and spread within the EU territory, with plants for planting of non‐regulated hosts, fruits of Citrus and hitch‐hiking of viruliferous mites identified as the most significant pathways. Given the severity of the leprosis disease, the introduction and spread of the various viruses would have negative consequences on the EU citrus industry, the magnitude of which is difficult to evaluate given the uncertainties affecting the Brevipalpus spp. vectors (identity, distribution, density, transmission specificity and efficiency). Overall, leprosis and its five associated viruses meet all the criteria evaluated by EFSA to qualify as Union quarantine pests, but do not fulfil those of being present in the EU or of plants for planting being the main spread mechanism to qualify as Union regulated non‐quarantine pests. The main uncertainties affecting this categorisation concern the Brevipalpus spp. mite vectors.
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20
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Lucía-Sanz A, Manrubia S. Multipartite viruses: adaptive trick or evolutionary treat? NPJ Syst Biol Appl 2017; 3:34. [PMID: 29263796 PMCID: PMC5680193 DOI: 10.1038/s41540-017-0035-y] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/25/2017] [Revised: 09/25/2017] [Accepted: 10/04/2017] [Indexed: 12/18/2022] Open
Abstract
Multipartitism counts amongst the weirdest lifestyles found in the virosphere. Multipartite viruses have genomes segmented in pieces enclosed in different capsids that are independently transmitted. Since all segments have to meet in the host for complementation and completion of the viral cycle, multipartite viruses are bound to fight the loss of genomic information. While this is an obvious disadvantage of this strategy, no consensus on its actual advantages has been reached. In this review we present an exhaustive summary of all multipartite viruses described to date. Based on evidence, we discuss possible mechanistic and evolutionary origins of different groups, as well as their mutual relationships. We argue that the ubiquitous interactions of viruses with other unrelated viruses and with subviral elements might be regarded as a plausible first step towards multipartitism. In agreement with the view of the Virosphere as a deeply entangled network of gene sharing, we contend that the power of multipartitism relies on its dynamical and opportunistic nature, because it enables immediate adaptive responses to environmental changes. As such, perhaps the reasons for its success should be shought in multipartitism itself as an adaptive mechanism, to which its evolutionarily short-lived products (that is, the extant ensemble of multipartite viral species) are subordinated. We close by discussing how our understanding of multipartitism would improve by using concepts and tools from systems biology. The faithful transmission of the genome of an organism is a fundamental step to preserve information essential for survivability. However, multipartite viruses thrive with segmented genomes that propagate in independent viral particles. Though this adaptive strategy appears as counterintuitive and suboptimal, multipartitism is common in the viral world and has very likely arisen several times. Here we review the distribution and abundance of multipartite viruses and discuss possible evolutionary pathways for their emergence. Though no clear advantage of multipartitism has been identified, we suggest that the high prevalence of this strategy relies on its dynamic and opportunistic nature, and that it can only be understood in an ecological context. A systems biology perspective could help understanding some of the open questions regarding this weird lifestyle, while multipartitism could in turn inspire design principles based on the simultaneous exploration of an exploding number of transient collaborative associations.
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Affiliation(s)
- Adriana Lucía-Sanz
- Grupo Interdisciplinar de Sistemas Complejos (GISC), National Centre for Biotechnology (CSIC), c/Darwin 3, 28049 Madrid, Spain
| | - Susanna Manrubia
- Grupo Interdisciplinar de Sistemas Complejos (GISC), National Centre for Biotechnology (CSIC), c/Darwin 3, 28049 Madrid, Spain
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21
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Complete genome sequence of maize yellow striate virus, a new cytorhabdovirus infecting maize and wheat crops in Argentina. Arch Virol 2017; 163:291-295. [PMID: 29052058 DOI: 10.1007/s00705-017-3579-7] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/18/2017] [Accepted: 09/14/2017] [Indexed: 01/02/2023]
Abstract
A rhabdovirus infecting maize and wheat crops in Argentina was molecularly characterized. Through next-generation sequencing (NGS) of symptomatic leaf samples, the complete genome was obtained of two isolates of maize yellow striate virus (MYSV), a putative new rhabdovirus, differing by only 0.4% at the nucleotide level. The MYSV genome consists of 12,654 nucleotides for maize and wheat virus isolates, and shares 71% nucleotide sequence identity with the complete genome of barley yellow striate mosaic virus (BYSMV, NC028244). Ten open reading frames (ORFs) were predicted in the MYSV genome from the antigenomic strand and were compared with their BYSMV counterparts. The highest amino acid sequence identity of the MYSV and BYSMV proteins was 80% between the L proteins, and the lowest was 37% between the proteins 4. Phylogenetic analysis suggested that the MYSV isolates are new members of the genus Cytorhabdovirus, family Rhabdoviridae. Yellow striate, affecting maize and wheat crops in Argentina, is an emergent disease that presents a potential economic risk for these widely distributed crops.
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22
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Ramos-González PL, Chabi-Jesus C, Guerra-Peraza O, Tassi AD, Kitajima EW, Harakava R, Salaroli RB, Freitas-Astúa J. Citrus leprosis virus N: A New Dichorhavirus Causing Citrus Leprosis Disease. PHYTOPATHOLOGY 2017; 107:963-976. [PMID: 28398876 DOI: 10.1094/phyto-02-17-0042-r] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Citrus leprosis (CL) is a viral disease endemic to the Western Hemisphere that produces local necrotic and chlorotic lesions on leaves, branches, and fruit and causes serious yield reduction in citrus orchards. Samples of sweet orange (Citrus × sinensis) trees showing CL symptoms were collected during a survey in noncommercial citrus areas in the southeast region of Brazil in 2013 to 2016. Transmission electron microscopy analyses of foliar lesions confirmed the presence of rod-like viral particles commonly associated with CL in the nucleus and cytoplasm of infected cells. However, every attempt to identify these particles by reverse-transcription polymerase chain reaction tests failed, even though all described primers for the detection of known CL-causing cileviruses and dichorhaviruses were used. Next-generation sequencing of total RNA extracts from three symptomatic samples revealed the genome of distinct, although highly related (>92% nucleotide sequence identity), viruses whose genetic organization is similar to that of dichorhaviruses. The genome sequence of these viruses showed <62% nucleotide sequence identity with those of orchid fleck virus and coffee ringspot virus. Globally, the deduced amino acid sequences of the open reading frames they encode share 32.7 to 63.8% identity with the proteins of the dichorhavirids. Mites collected from both the naturally infected citrus trees and those used for the transmission of one of the characterized isolates to Arabidopsis plants were anatomically recognized as Brevipalpus phoenicis sensu stricto. Molecular and biological features indicate that the identified viruses belong to a new species of CL-associated dichorhavirus, which we propose to call Citrus leprosis N dichorhavirus. Our results, while emphasizing the increasing diversity of viruses causing CL disease, lead to a reevaluation of the nomenclature of those viruses assigned to the genus Dichorhavirus. In this regard, a comprehensive discussion is presented.
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Affiliation(s)
- Pedro Luis Ramos-González
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Camila Chabi-Jesus
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Orlene Guerra-Peraza
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Aline Daniele Tassi
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Elliot Watanabe Kitajima
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Ricardo Harakava
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Renato Barbosa Salaroli
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
| | - Juliana Freitas-Astúa
- First, second, third, sixth, and eighth authors: Lab. Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil; second, fourth, fifth, and seventh authors: Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil; third author: Citrus Research & Education Center, University of Florida, Lake Alfred 33850; and eighth author: Embrapa Mandioca e Fruticultura, Cruz das Almas, Bahia 44380-000, Brazil
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23
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Jang C, Wang R, Wells J, Leon F, Farman M, Hammond J, Goodin MM. Genome sequence variation in the constricta strain dramatically alters the protein interaction and localization map of Potato yellow dwarf virus. J Gen Virol 2017; 98:1526-1536. [PMID: 28635588 PMCID: PMC5656794 DOI: 10.1099/jgv.0.000771] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/27/2017] [Accepted: 03/10/2017] [Indexed: 12/19/2022] Open
Abstract
The genome sequence of the constricta strain of Potato yellow dwarf virus (CYDV) was determined to be 12 792 nt long and organized into seven ORFs with the gene order 3'-N-X-P-Y-M-G-L-5', which encodes the nucleocapsid, phospho, movement, matrix, glyco, and RNA-dependent RNA polymerase proteins, respectively, except for X, which is of unknown function. Cloned ORFs for each gene, except L, were used to construct a protein interaction and localization map (PILM) for this virus, which shares greater than 80 % amino acid similarity in all ORFs except X and P with the sanguinolenta strain of this species (SYDV). Protein localization patterns and interactions unique to each viral strain were identified, resulting in strain-specific PILMs. Localization of CYDV and SYDV proteins in virus-infected cells mapped subcellular loci likely to be sites of replication, morphogenesis and movement.
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Affiliation(s)
- Chanyong Jang
- Department of Plant Pathology, University of Kentucky, Lexington, KY, USA
| | - Renyuan Wang
- Department of Plant Pathology, University of Kentucky, Lexington, KY, USA
| | - Joseph Wells
- Department of Plant Pathology, University of Kentucky, Lexington, KY, USA
| | - Fabian Leon
- Department of Plant Pathology, University of Kentucky, Lexington, KY, USA
| | - Mark Farman
- Department of Plant Pathology, University of Kentucky, Lexington, KY, USA
| | - John Hammond
- USDA-ARS, United States National Arboretum, Beltsville, MD, USA
| | - Michael M. Goodin
- Department of Plant Pathology, University of Kentucky, Lexington, KY, USA
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24
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Kondo H, Hirota K, Maruyama K, Andika IB, Suzuki N. A possible occurrence of genome reassortment among bipartite rhabdoviruses. Virology 2017; 508:18-25. [PMID: 28478311 DOI: 10.1016/j.virol.2017.04.027] [Citation(s) in RCA: 22] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2017] [Revised: 04/23/2017] [Accepted: 04/25/2017] [Indexed: 12/18/2022]
Abstract
Orchid fleck virus (OFV) represents a rhabdovirus with a unique bipartite genome. OFV genetic diversity at the whole genome level has not been described. Using the partial genome sequence of RNA1, we have determined that several OFV isolates derived from orchids in Japan belong to two genetically distant subgroups: subgroup I, the members of which are distributed worldwide but previously not known in Asia, and subgroup II, which is commonly distributed in Japan. However, complete genome sequence analysis of a novel Japanese subgroup I isolate revealed that although its RNA1 sequence differs considerably from those of subgroup II isolates, its RNA2 sequence is almost identical to them. Based on phylogenetic and recombination analyses, the genome reassortment events were predicted to occur between OFV subgroups including other unseen strains. Our data show that genome reassortment contributes to the genetic diversities of the bipartite rhabdoviruses and its occurrence may be geographically constrained.
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Affiliation(s)
- Hideki Kondo
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan.
| | - Keisuke Hirota
- Tokushima Agriculture, Forestry and Fisheries Technology Support Center, Tokushima, Tokushima Prefecture 779-3233, Japan
| | - Kazuyuki Maruyama
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan
| | - Ida Bagus Andika
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan
| | - Nobuhiro Suzuki
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan
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25
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Yang X, Huang J, Liu C, Chen B, Zhang T, Zhou G. Rice Stripe Mosaic Virus, a Novel Cytorhabdovirus Infecting Rice via Leafhopper Transmission. Front Microbiol 2017; 7:2140. [PMID: 28101087 PMCID: PMC5210121 DOI: 10.3389/fmicb.2016.02140] [Citation(s) in RCA: 50] [Impact Index Per Article: 7.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2016] [Accepted: 12/19/2016] [Indexed: 01/08/2023] Open
Abstract
A new rice viral disease exhibiting distinct symptoms-yellow stripes, mosaic and twisted tips on leaves-was found in China. Electron microscopy of infected leaf cells revealed the presence of bacilliform virions and electron-translucent granular-fibrillar viroplasm in the cytoplasm. The enveloped viral particles were 300 to 375 nm long and 45 to 55 nm wide. The leafhopper Recilia dorsalis was able to transmit the virus to rice seedlings, which subsequently exhibited symptoms similar to those observed in fields. The complete genome of the virus was obtained by small-RNA deep sequencing and reverse transcription-PCR product sequencing. The anti-genome contains seven open reading frames (ORFs). The deduced amino acids of ORF1, ORF5, and ORF7 are, respectively, homologous to the nucleocapsid protein (N), glycoprotein (G), and large polymerase protein (L) of known rhabdoviruses. The predicted product of ORF2 is identified as a phosphoprotein (P) based on its multiple potential phosphorylation sites and 12.6 to 21.0% amino acid (aa) identities with the P proteins of plant rhabdoviruses. The product of ORF4 is presumed to be the viral matrix (M) protein for it shares 10.3 to 14.3% aa identities with those of other rhabdoviruses. The above five products were confirmed as the viral structural proteins by SDS-PAGE and aa sequencing analyses of purified virus preparation. ORF3 and ORF6 are considered to encode two nonstructural proteins with unknown functions. Phylogenetic analysis based on protein N, G, and L amino acid sequences indicated that the isolated virus, which we have tentatively named Rice stripe mosaic virus (RSMV), is a new species in the genus Cytorhabdovirus. To our knowledge, RSMV is the only cytorhabdovirus naturally infecting rice and the first reported leafhopper-transmitted cytorhabdovirus. Our surveys of rice fields indicate that RSMV occurs frequently in Guangdong Province, China. Although the disease incidence is low at present, it might become serious with the vector insect population increasing.
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Affiliation(s)
- Xin Yang
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Agriculture, South China Agricultural UniversityGuangdong, China
| | - Jilei Huang
- Instrumental Analysis and Research Center, South China Agricultural UniversityGuangdong, China
| | - Chuanhe Liu
- Instrumental Analysis and Research Center, South China Agricultural UniversityGuangdong, China
| | - Biao Chen
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Agriculture, South China Agricultural UniversityGuangdong, China
| | - Tong Zhang
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Agriculture, South China Agricultural UniversityGuangdong, China
| | - Guohui Zhou
- Guangdong Province Key Laboratory of Microbial Signals and Disease Control, College of Agriculture, South China Agricultural UniversityGuangdong, China
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Dietzgen RG, Kondo H, Goodin MM, Kurath G, Vasilakis N. The family Rhabdoviridae: mono- and bipartite negative-sense RNA viruses with diverse genome organization and common evolutionary origins. Virus Res 2017; 227:158-170. [PMID: 27773769 PMCID: PMC5124403 DOI: 10.1016/j.virusres.2016.10.010] [Citation(s) in RCA: 142] [Impact Index Per Article: 20.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/20/2016] [Revised: 10/18/2016] [Accepted: 10/18/2016] [Indexed: 12/24/2022]
Abstract
The family Rhabdoviridae consists of mostly enveloped, bullet-shaped or bacilliform viruses with a negative-sense, single-stranded RNA genome that infect vertebrates, invertebrates or plants. This ecological diversity is reflected by the diversity and complexity of their genomes. Five canonical structural protein genes are conserved in all rhabdoviruses, but may be overprinted, overlapped or interspersed with several novel and diverse accessory genes. This review gives an overview of the characteristics and diversity of rhabdoviruses, their taxonomic classification, replication mechanism, properties of classical rhabdoviruses such as rabies virus and rhabdoviruses with complex genomes, rhabdoviruses infecting aquatic species, and plant rhabdoviruses with both mono- and bipartite genomes.
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Affiliation(s)
- Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, Queensland 4072, Australia.
| | - Hideki Kondo
- Institute of Plant Science and Resources, Okayama University, Kurashiki, 710-0046, Japan
| | - Michael M Goodin
- Department of Plant Pathology, University of Kentucky, Lexington, KY 40546, USA
| | - Gael Kurath
- U.S. Geological Survey, Western Fisheries Research Centre, Seattle, WA, USA
| | - Nikos Vasilakis
- Institute for Human Infection and Immunity, University of Texas Medical Branch, Galveston, TX, 77555, USA
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27
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[The multifunctional RNA polymerase L protein of non-segmented negative strand RNA viruses catalyzes unique mRNA capping]. Uirusu 2016; 64:165-78. [PMID: 26437839 DOI: 10.2222/jsv.64.165] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/23/2022]
Abstract
Non-segmented negative strand RNA viruses belonging to the Mononegavirales order possess RNA-dependent RNA polymerase L proteins within viral particles. The L protein is a multifunctional enzyme catalyzing viral RNA synthesis and processing (i.e., mRNA capping, cap methylation, and polyadenylation). Using vesicular stomatitis virus (VSV) as a prototypic model virus, we have shown that the L protein catalyzes the unconventional mRNA capping reaction, which is strikingly different from the eukaryotic reaction. Furthermore, co-transcriptional pre-mRNA capping with the VSV L protein was found to be required for accurate stop?start transcription to synthesize full-length mRNAs in vitro and virus propagation in host cells. This article provides a review of historical and present studies leading to the elucidation of the molecular mechanism of VSV mRNA capping.
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28
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Jackson AO, Li Z. Developments in Plant Negative-Strand RNA Virus Reverse Genetics. ANNUAL REVIEW OF PHYTOPATHOLOGY 2016; 54:469-498. [PMID: 27359368 DOI: 10.1146/annurev-phyto-080615-095909] [Citation(s) in RCA: 43] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/06/2023]
Abstract
Twenty years ago, breakthroughs for reverse genetics analyses of negative-strand RNA (NSR) viruses were achieved by devising conditions for generation of infectious viruses in susceptible cells. Recombinant strategies have subsequently been engineered for members of all vertebrate NSR virus families, and research arising from these advances has profoundly increased understanding of infection cycles, pathogenesis, and complexities of host interactions of animal NSR viruses. These strategies also permitted development of many applications, including attenuated vaccines and delivery vehicles for therapeutic and biotechnology proteins. However, for a variety of reasons, it was difficult to devise procedures for reverse genetics analyses of plant NSR viruses. In this review, we discuss advances that have circumvented these problems and resulted in construction of a recombinant system for Sonchus yellow net nucleorhabdovirus. We also discuss possible extensions to other plant NSR viruses as well as the applications that may emanate from recombinant analyses of these pathogens.
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Affiliation(s)
- Andrew O Jackson
- Department of Plant and Microbial Biology, University of California, Berkeley, California 94720;
| | - Zhenghe Li
- State Key Laboratory of Rice Biology, Institute of Biotechnology, Zhejiang University, Hangzhou, 310058 China;
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29
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Afonso CL, Amarasinghe GK, Bányai K, Bào Y, Basler CF, Bavari S, Bejerman N, Blasdell KR, Briand FX, Briese T, Bukreyev A, Calisher CH, Chandran K, Chéng J, Clawson AN, Collins PL, Dietzgen RG, Dolnik O, Domier LL, Dürrwald R, Dye JM, Easton AJ, Ebihara H, Farkas SL, Freitas-Astúa J, Formenty P, Fouchier RAM, Fù Y, Ghedin E, Goodin MM, Hewson R, Horie M, Hyndman TH, Jiāng D, Kitajima EW, Kobinger GP, Kondo H, Kurath G, Lamb RA, Lenardon S, Leroy EM, Li CX, Lin XD, Liú L, Longdon B, Marton S, Maisner A, Mühlberger E, Netesov SV, Nowotny N, Patterson JL, Payne SL, Paweska JT, Randall RE, Rima BK, Rota P, Rubbenstroth D, Schwemmle M, Shi M, Smither SJ, Stenglein MD, Stone DM, Takada A, Terregino C, Tesh RB, Tian JH, Tomonaga K, Tordo N, Towner JS, Vasilakis N, Verbeek M, Volchkov VE, Wahl-Jensen V, Walsh JA, Walker PJ, Wang D, Wang LF, Wetzel T, Whitfield AE, Xiè JT, Yuen KY, Zhang YZ, Kuhn JH. Taxonomy of the order Mononegavirales: update 2016. Arch Virol 2016; 161:2351-60. [PMID: 27216929 PMCID: PMC4947412 DOI: 10.1007/s00705-016-2880-1] [Citation(s) in RCA: 352] [Impact Index Per Article: 44.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/19/2016] [Accepted: 04/27/2016] [Indexed: 12/17/2022]
Abstract
In 2016, the order Mononegavirales was emended through the addition of two new families (Mymonaviridae and Sunviridae), the elevation of the paramyxoviral subfamily Pneumovirinae to family status (Pneumoviridae), the addition of five free-floating genera (Anphevirus, Arlivirus, Chengtivirus, Crustavirus, and Wastrivirus), and several other changes at the genus and species levels. This article presents the updated taxonomy of the order Mononegavirales as now accepted by the International Committee on Taxonomy of Viruses (ICTV).
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Affiliation(s)
- Claudio L Afonso
- Southeast Poultry Research Laboratory, Agricultural Research Service, US Department of Agriculture, Athens, GA, USA
| | - Gaya K Amarasinghe
- Department of Pathology and Immunology, Washington University School of Medicine, St. Louis, MO, USA
| | - Krisztián Bányai
- Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, Budapest, Hungary
| | - Yīmíng Bào
- Information Engineering Branch, National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, MD, USA
| | - Christopher F Basler
- Center for Microbial Pathogenesis, Institute for Biomedical Sciences, Georgia State University, Atlanta, GA, USA
| | - Sina Bavari
- United States Army Medical Research Institute of Infectious Diseases, Fort Detrick, Frederick, MD, USA
| | - Nicolás Bejerman
- Instituto de Patología Vegetal, Centro de Investigaciones Agropecuarias, Instituto Nacional de Tecnología Agropecuaria, Córdoba, Argentina
- Consejo Nacional de Investigaciones Científicas y Técnicas, Buenos Aires, Argentina
| | - Kim R Blasdell
- CSIRO Health and Biosecurity, Australian Animal Health Laboratory, Geelong, VIC, Australia
| | - François-Xavier Briand
- Avian and Rabbit Virology Immunology and Parasitology Unit, French Agency for Food, Environmental and Occupational Health and Safety, Ploufragan, France
| | - Thomas Briese
- Center for Infection and Immunity, Mailman School of Public Health, Columbia University, New York, NY, USA
| | - Alexander Bukreyev
- Departments of Pathology and Microbiology & Immunology, Galveston National Laboratory, The University of Texas Medical Branch, Galveston, TX, USA
| | - Charles H Calisher
- Arthropod-Borne and Infectious Diseases Laboratory, College of Veterinary Medicine and Biomedical Sciences, Colorado State University, Fort Collins, CO, USA
| | - Kartik Chandran
- Department of Microbiology and Immunology, Albert Einstein College of Medicine, Bronx, NY, USA
| | - Jiāsēn Chéng
- State Key Laboratory of Agricultural Microbiology, The Provincial Key Lab of Plant Pathology of Húběi Province, College of Plant Science and Technology, Huázhōng Agricultural University, Wuhan, China
| | - Anna N Clawson
- Integrated Research Facility at Fort Detrick (IRF-Frederick), Division of Clinical Research (DCR), National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), B-8200 Research Plaza, Fort Detrick, Frederick, MD, 21702, USA
| | - Peter L Collins
- Respiratory Viruses Section, Laboratory of Infectious Diseases, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Bethesda, MD, USA
| | - Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St. Lucia, QLD, Australia
| | - Olga Dolnik
- Institute of Virology, Philipps University Marburg, Marburg, Germany
| | - Leslie L Domier
- Department of Crop Sciences, University of Illinois, Champaign, IL, USA
| | | | - John M Dye
- United States Army Medical Research Institute of Infectious Diseases, Fort Detrick, Frederick, MD, USA
| | - Andrew J Easton
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Hideki Ebihara
- Rocky Mountain Laboratories Integrated Research Facility, National Institute of Allergy and Infectious Diseases, National Institutes of Health, Hamilton, MT, USA
| | - Szilvia L Farkas
- Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, Budapest, Hungary
| | | | | | - Ron A M Fouchier
- Department of Viroscience, Postgraduate School Molecular Medicine, Erasmus University Medical Center, Rotterdam, The Netherlands
| | - Yànpíng Fù
- State Key Laboratory of Agricultural Microbiology, The Provincial Key Lab of Plant Pathology of Húběi Province, College of Plant Science and Technology, Huázhōng Agricultural University, Wuhan, China
| | - Elodie Ghedin
- Department of Biology, Center for Genomics and Systems Biology, New York University, New York, NY, USA
| | | | - Roger Hewson
- Public Health England, Porton Down, Wiltshire, Salisbury, UK
| | - Masayuki Horie
- Joint Faculty of Veterinary Medicine, Transboundary Animal Diseases Research Center, Kagoshima University, Kagoshima, Japan
| | - Timothy H Hyndman
- School of Veterinary and Life Sciences, Murdoch University, Murdoch, WA, Australia
| | - Dàohóng Jiāng
- State Key Laboratory of Agricultural Microbiology, The Provincial Key Lab of Plant Pathology of Húběi Province, College of Plant Science and Technology, Huázhōng Agricultural University, Wuhan, China
| | - Elliot W Kitajima
- Núcleo de Apoio à Pesquisa em Microscopia Eletrônica Aplicada a Agricultura, Escola Superior de Agricultura "Luiz de Queiroz", Universidade de São Paulo, Piracicaba, São Paulo, Brazil
| | - Gary P Kobinger
- Special Pathogens Program, National Microbiology Laboratory, Public Health Agency of Canada, Winnipeg, MB, Canada
| | - Hideki Kondo
- Institute of Plant Science and Resources, Okayama University, Kurashiki, Japan
| | - Gael Kurath
- US Geological Survey Western Fisheries Research Center, Seattle, WA, USA
| | - Robert A Lamb
- Department of Molecular Biosciences, Northwestern University, Evanston, IL, USA
- Howard Hughes Medical Institute, Northwestern University, Evanston, IL, USA
| | - Sergio Lenardon
- Instituto de Patología Vegetal, Centro de Investigaciones Agropecuarias, Instituto Nacional de Tecnología Agropecuaria, Córdoba, Argentina
| | - Eric M Leroy
- Centre International de Recherches Médicales de Franceville, Institut de Recherche pour le Développement, Franceville, Gabon
| | - Ci-Xiu Li
- Collaborative Innovation Center for Diagnosis and Treatment of Infectious Diseases, Hangzhou, China
| | - Xian-Dan Lin
- Wēnzhōu Center for Disease Control and Prevention, Wenzhou, China
| | - Lìjiāng Liú
- State Key Laboratory of Agricultural Microbiology, The Provincial Key Lab of Plant Pathology of Húběi Province, College of Plant Science and Technology, Huázhōng Agricultural University, Wuhan, China
| | - Ben Longdon
- Department of Genetics, University of Cambridge, Cambridge, UK
| | - Szilvia Marton
- Institute for Veterinary Medical Research, Centre for Agricultural Research, Hungarian Academy of Sciences, Budapest, Hungary
| | - Andrea Maisner
- Institute of Virology, Philipps University Marburg, Marburg, Germany
| | - Elke Mühlberger
- Department of Microbiology and National Emerging Infectious Diseases Laboratory, Boston University School of Medicine, Boston, MA, USA
| | - Sergey V Netesov
- Novosibirsk State University, Novosibirsk, Novosibirsk Oblast, Russia
| | - Norbert Nowotny
- Institute of Virology, University of Veterinary Medicine, Vienna, Austria
- Department of Basic Medical Sciences, College of Medicine, Mohammed Bin Rashid University of Medicine and Health Sciences, Dubai, United Arab Emirates
| | - Jean L Patterson
- Department of Virology and Immunology, Texas Biomedical Research Institute, San Antonio, TX, USA
| | - Susan L Payne
- Department of Veterinary Pathobiology, College of Veterinary Medicine and Biomedical Sciences, Texas A&M University, College Station, TX, USA
| | - Janusz T Paweska
- Center for Emerging and Zoonotic Diseases, National Institute for Communicable Diseases of the National Health Laboratory Service, Sandringham-Johannesburg, Gauteng, South Africa
| | - Rick E Randall
- Biomedical Sciences Research Complex, University of St. Andrews, St. Andrews, Scotland, UK
| | - Bertus K Rima
- Centre for Experimental Medicine, School of Medicine, Dentistry and Biomedical Sciences, The Queen's University of Belfast, Belfast, Northern Ireland, UK
| | - Paul Rota
- National Center for Immunization and Respiratory Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA
| | - Dennis Rubbenstroth
- Institute for Virology, Faculty of Medicine, Medical Center-University of Freiburg, University of Freiburg, Freiburg, Germany
| | - Martin Schwemmle
- Institute for Virology, Faculty of Medicine, Medical Center-University of Freiburg, University of Freiburg, Freiburg, Germany
| | - Mang Shi
- State Key Laboratory for Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | | | - Mark D Stenglein
- Department of Microbiology, Immunology, and Pathology, College of Veterinary Medicine and Biomedical Sciences, Colorado State University, Fort Collins, CO, USA
| | - David M Stone
- Centre for Environment, Fisheries and Aquaculture Science Weymouth, Dorset, UK
| | - Ayato Takada
- Division of Global Epidemiology, Hokkaido University Research Center for Zoonosis Control, Sapporo, Japan
| | - Calogero Terregino
- Istituto Zooprofilattico Sperimentale delle Venezie, Department of Comparative Biomedical Sciences, National/OIE Reference Laboratory for Newcastle Disease and Avian Influenza, FAO Reference Centre for Animal Influenza and Newcastle Disease, OIE Collaborating Centre for Diseases at the Human-Animal Interface, Legnaro, Padova, Italy
| | - Robert B Tesh
- Departments of Pathology and Microbiology & Immunology, Galveston National Laboratory, The University of Texas Medical Branch, Galveston, TX, USA
| | - Jun-Hua Tian
- Wǔhàn Center for Disease Control and Prevention, Wuhan, China
| | - Keizo Tomonaga
- Institute for Virus Research, Kyoto University, Kyoto, Japan
| | - Noël Tordo
- Institut Pasteur, Unité des Stratégies Antivirales, Paris, France
- Institut Pasteur de Guinée, Conakry, Guinea
| | - Jonathan S Towner
- Viral Special Pathogens Branch, Division of High-Consequence Pathogens Pathology, National Center for Emerging and Zoonotic Infectious Diseases, Centers for Disease Control and Prevention, Atlanta, GA, USA
| | - Nikos Vasilakis
- Center for Biodefense and Emerging Infectious Diseases, Department of Pathology, The University of Texas Medical Branch, Galveston, TX, USA
- Center for Tropical Diseases, Institute for Human Infections and Immunity, The University of Texas Medical Branch, Galveston, TX, USA
| | - Martin Verbeek
- Wageningen University and Research, Wageningen, The Netherlands
| | - Viktor E Volchkov
- Molecular Basis of Viral Pathogenicity, CIRI, INSERM U1111, CNRS UMR5308, Université de Lyon, Université Claude Bernard Lyon 1, Ecole Normale Supérieure de Lyon, Lyon, France
| | - Victoria Wahl-Jensen
- National Biodefense Analysis and Countermeasures Center, Fort Detrick, Frederick, MD, USA
| | - John A Walsh
- School of Life Sciences, University of Warwick, Coventry, UK
| | - Peter J Walker
- CSIRO Health and Biosecurity, Australian Animal Health Laboratory, Geelong, VIC, Australia
| | - David Wang
- Departments of Molecular Microbiology and Pathology and Immunology, Washington University School of Medicine, St. Louis, MO, USA
| | - Lin-Fa Wang
- Department of Agriculture and Fisheries, Biosecurity Queensland, Brisbane, QLD, Australia
- Program in Emerging Infectious Diseases, Duke-NUS Graduate Medical School, Singapore, Singapore
| | - Thierry Wetzel
- DLR Rheinpfalz, Institute of Plant Protection, Neustadt an der Weinstrasse, Germany
| | | | - Ji Tāo Xiè
- State Key Laboratory of Agricultural Microbiology, The Provincial Key Lab of Plant Pathology of Húběi Province, College of Plant Science and Technology, Huázhōng Agricultural University, Wuhan, China
| | - Kwok-Yung Yuen
- State Key Laboratory of Emerging Infectious Diseases, Department of Microbiology, University of Hong Kong, Hong Kong Special Administrative Region, Hong Kong, China
| | - Yong-Zhen Zhang
- State Key Laboratory for Infectious Disease Prevention and Control, National Institute for Communicable Disease Control and Prevention, Chinese Center for Disease Control and Prevention, Beijing, China
| | - Jens H Kuhn
- Integrated Research Facility at Fort Detrick (IRF-Frederick), Division of Clinical Research (DCR), National Institute of Allergy and Infectious Diseases (NIAID), National Institutes of Health (NIH), B-8200 Research Plaza, Fort Detrick, Frederick, MD, 21702, USA.
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Ramos-González PL, Chabi-Jesus C, Guerra-Peraza O, Breton MC, Arena GD, Nunes MA, Kitajima EW, Machado MA, Freitas-Astúa J. Phylogenetic and Molecular Variability Studies Reveal a New Genetic Clade of Citrus leprosis virus C. Viruses 2016; 8:E153. [PMID: 27275832 PMCID: PMC4926173 DOI: 10.3390/v8060153] [Citation(s) in RCA: 29] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/11/2016] [Revised: 05/10/2016] [Accepted: 05/24/2016] [Indexed: 01/02/2023] Open
Abstract
Citrus leprosis virus C (CiLV-C) causes a severe disease affecting citrus orchards in the Western hemisphere. This study reveals the molecular variability of the virus by analyzing four genomic regions (p29, p15, MP and RNA2-intergenic region) distributed over its two RNAs. Nucleotide diversity (π) values were relatively low but statistically different over the analyzed genes and subpopulations, indicating their distinct evolutionary history. Values of πp29 and πMP were higher than those of πp15 and πRNA2-IR, whereas πMP was increased due to novel discovered isolates phylogenetically clustered in a divergent clade that we called SJP. Isolate BR_SP_SJP_01 RNA1 and RNA2 sequences, clade SJP, showed an identity of 85.6% and 88.4%, respectively, with those corresponding to CiLV-C, the type member of the genus Cilevirus, and its RNA2 5'-proximal region was revealed as a minor donor in a putative inter-clade recombination event. In addition to citrus, BR_SP_SJP_01 naturally infects the weed Commelina benghalensis and is efficiently transmitted by Brevipalpus yothersi mites. Our data demonstrated that negative selection was the major force operating in the evaluated viral coding regions and defined amino acids putatively relevant for the biological function of cilevirus proteins. This work provides molecular tools and sets up a framework for further epidemiological studies.
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Affiliation(s)
- Pedro Luis Ramos-González
- Laboratório de Biotecnologia, Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, São Paulo 13490-970, Brazil.
- Departamento de Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil.
| | - Camila Chabi-Jesus
- Laboratório de Biotecnologia, Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, São Paulo 13490-970, Brazil.
- Departamento de Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil.
- Departamento de Microbiologia Agrícola, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil.
| | - Orlene Guerra-Peraza
- Departamento de Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil.
| | - Michèle Claire Breton
- Laboratório de Biotecnologia, Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, São Paulo 13490-970, Brazil.
| | - Gabriella Dias Arena
- Laboratório de Biotecnologia, Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, São Paulo 13490-970, Brazil.
- Instituto de Biologia, Universidade de Campinas, Campinas, São Paulo 13083-970, Brazil.
| | - Maria Andreia Nunes
- Laboratório de Biotecnologia, Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, São Paulo 13490-970, Brazil.
| | - Elliot Watanabe Kitajima
- Departamento de Fitopatologia e Nematologia, Escola Superior de Agricultura Luiz de Queiroz, Universidade de São Paulo, Piracicaba, São Paulo 13418-900, Brazil.
| | - Marcos Antonio Machado
- Laboratório de Biotecnologia, Centro de Citricultura Sylvio Moreira, Instituto Agronômico de Campinas, Cordeirópolis, São Paulo 13490-970, Brazil.
| | - Juliana Freitas-Astúa
- Departamento de Bioquímica Fitopatológica, Instituto Biológico, São Paulo 04014-002, Brazil.
- Embrapa Cassava and Fruits, Cruz das Almas, Bahia 44380-000, Brazil.
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31
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Mann KS, Bejerman N, Johnson KN, Dietzgen RG. Cytorhabdovirus P3 genes encode 30K-like cell-to-cell movement proteins. Virology 2016; 489:20-33. [PMID: 26700068 DOI: 10.1016/j.virol.2015.11.028] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/26/2015] [Revised: 11/25/2015] [Accepted: 11/26/2015] [Indexed: 12/13/2022]
Abstract
Plant viruses encode movement proteins (MP) to facilitate cell-to-cell transport through plasmodesmata. In this study, using trans-complementation of a movement-defective turnip vein-clearing tobamovirus (TVCV) replicon, we show for the first time for cytorhabdoviruses (lettuce necrotic yellows virus (LNYV) and alfalfa dwarf virus (ADV)) that their P3 proteins function as MP similar to the TVCV P30 protein. All three MP localized to plasmodesmata when ectopically expressed. In addition, we show that these MP belong to the 30K superfamily since movement was inhibited by mutation of an aspartic acid residue in the critical 30K-specific LxD/N50-70G motif. We also report that Nicotiana benthamiana microtubule-associated VOZ1-like transcriptional activator interacts with LNYV P3 and TVCV P30 but not with ADV P3 or any of the MP point mutants. This host protein, which is known to interact with P3 of sonchus yellow net nucleorhabdovirus, may be involved in aiding the cell-to-cell movement of LNYV and TVCV.
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Affiliation(s)
- Krin S Mann
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Nicolas Bejerman
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Karyn N Johnson
- School of Biological Sciences, The University of Queensland, St Lucia, QLD 4072, Australia
| | - Ralf G Dietzgen
- Queensland Alliance for Agriculture and Food Innovation, The University of Queensland, St Lucia, QLD 4072, Australia.
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32
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Sadeghi MS, Afsharifar A, Izadpanah K, Loconsole G, De Stradis A, Martelli GP, Saponari M. Isolation and Partial Characterization of a Novel Cytorhabdovirus from Citrus Trees Showing Foliar Symptoms in Iran. PLANT DISEASE 2016; 100:66-71. [PMID: 30688578 DOI: 10.1094/pdis-02-15-0136-re] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
Citrus ringspot is a graft-transmissible disease, and at least two taxonomically distinct viral species are associated with this syndrome: Citrus psorosis virus (CPsV) and Indian citrus ringspot virus (ICRSV). Neither of these two viruses was detected, however, by serological or molecular assays in symptomatic tissues from citrus trees in southern Iran, where the ringspot syndrome is widespread. By contrast, electron microscopy and molecular assays revealed the presence of a rhabdovirus-like virus, which was graft transmitted to several citrus species and mechanically to herbaceous hosts. Virus particles were bacilliform and resembled rhabdovirus nucleocapsids deprived of the lipoprotein envelope. Partial sequences of the viral nucleoprotein and RNA polymerase genes showed a distant genetic relatedness with cytorhabdoviruses. This virus appears to be a novel species, for which the name Iranian citrus ringspot-associated virus (IrCRSaV) is suggested.
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Affiliation(s)
| | - Alireza Afsharifar
- Plant Virology Research Center, College of Agriculture, Shiraz University, Shiraz, Iran
| | | | - Giuliana Loconsole
- Istituto per la Protezione Sostenibile delle Piante, UOS Bari, Consiglio Nazionale delle Ricerche, 70126 Bari, Italy
| | - Angelo De Stradis
- Istituto per la Protezione Sostenibile delle Piante, UOS Bari, Consiglio Nazionale delle Ricerche, 70126 Bari, Italy
| | - Giovanni P Martelli
- Dipartimento di Scienze del Suolo, della Pianta e degli Alimenti, Università degli Studi di Bari Aldo Moro, 70126 Bari, Italy
| | - Maria Saponari
- Istituto per la Protezione Sostenibile delle Piante, UOS Bari, Consiglio Nazionale delle Ricerche
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Ramalho TO, Figueira AR, Wang R, Jones O, Harris LE, Goodin MM. Detection and survey of coffee ringspot virus in Brazil. Arch Virol 2015; 161:335-43. [DOI: 10.1007/s00705-015-2663-0] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2015] [Accepted: 10/24/2015] [Indexed: 01/04/2023]
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Hartung JS, Roy A, Fu S, Shao J, Schneider WL, Brlansky RH. History and Diversity of Citrus leprosis virus Recorded in Herbarium Specimens. PHYTOPATHOLOGY 2015; 105:1277-84. [PMID: 25961338 DOI: 10.1094/phyto-03-15-0064-r] [Citation(s) in RCA: 15] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Leprosis refers to two diseases of citrus that present similar necrotic local lesions, often surrounded by chlorotic haloes on citrus. Two distinct viruses are associated with this disease, one that produces particles primarily in the nucleus of infected plant cells (Citrus leprosis virus nuclear type [CiLV-N]; Dichorhavirus) and another type that produces particles in the cytoplasm of infected plant cells (Citrus leprosis virus cytoplasmic type [CiLV-C]; Cilevirus). Both forms are transmitted by Brevipalpid mites and have bipartite, single-stranded, RNA genomes. CiLV-C and CiLV-N are present in South and Central America and as far north as parts of Mexico. Although leprosis disease was originally described from Florida, it disappeared from there in the 1960s. The United States Department of Agriculture-Agricultural Research Service maintains preserved citrus specimens identified at inspection stations 50 or more years ago with symptoms of citrus leprosis. We isolated RNA from these samples and performed degradome sequencing. We obtained nearly full-length genome sequences of both a typical CiLV-C isolate intercepted from Argentina in 1967 and a distinct CiLV-N isolate obtained in Florida in 1948. The latter is a novel form of CiLV-N, not known to exist anywhere in the world today. We have also documented the previously unreported presence of CiLV-N in Mexico in the mid-20th century.
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Affiliation(s)
- John S Hartung
- First and fourth authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS) Molecular Plant Pathology Laboratory, Beltsville, MD 20705; second and fifth authors: USDA-ARS Foreign Diseases and Weed Sciences Research Unit, Fort Detrick, MD; third author: USDA-ARS Molecular Plant Pathology Laboratory and Southwest University, Citrus Research Institute, Chongqing, China 400715; and sixth author: University of Florida, Citrus Research and Education Center, Lake Alfred 33850
| | - Avijit Roy
- First and fourth authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS) Molecular Plant Pathology Laboratory, Beltsville, MD 20705; second and fifth authors: USDA-ARS Foreign Diseases and Weed Sciences Research Unit, Fort Detrick, MD; third author: USDA-ARS Molecular Plant Pathology Laboratory and Southwest University, Citrus Research Institute, Chongqing, China 400715; and sixth author: University of Florida, Citrus Research and Education Center, Lake Alfred 33850
| | - Shimin Fu
- First and fourth authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS) Molecular Plant Pathology Laboratory, Beltsville, MD 20705; second and fifth authors: USDA-ARS Foreign Diseases and Weed Sciences Research Unit, Fort Detrick, MD; third author: USDA-ARS Molecular Plant Pathology Laboratory and Southwest University, Citrus Research Institute, Chongqing, China 400715; and sixth author: University of Florida, Citrus Research and Education Center, Lake Alfred 33850
| | - Jonathan Shao
- First and fourth authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS) Molecular Plant Pathology Laboratory, Beltsville, MD 20705; second and fifth authors: USDA-ARS Foreign Diseases and Weed Sciences Research Unit, Fort Detrick, MD; third author: USDA-ARS Molecular Plant Pathology Laboratory and Southwest University, Citrus Research Institute, Chongqing, China 400715; and sixth author: University of Florida, Citrus Research and Education Center, Lake Alfred 33850
| | - William L Schneider
- First and fourth authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS) Molecular Plant Pathology Laboratory, Beltsville, MD 20705; second and fifth authors: USDA-ARS Foreign Diseases and Weed Sciences Research Unit, Fort Detrick, MD; third author: USDA-ARS Molecular Plant Pathology Laboratory and Southwest University, Citrus Research Institute, Chongqing, China 400715; and sixth author: University of Florida, Citrus Research and Education Center, Lake Alfred 33850
| | - Ronald H Brlansky
- First and fourth authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS) Molecular Plant Pathology Laboratory, Beltsville, MD 20705; second and fifth authors: USDA-ARS Foreign Diseases and Weed Sciences Research Unit, Fort Detrick, MD; third author: USDA-ARS Molecular Plant Pathology Laboratory and Southwest University, Citrus Research Institute, Chongqing, China 400715; and sixth author: University of Florida, Citrus Research and Education Center, Lake Alfred 33850
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Roy A, Hartung JS, Schneider WL, Shao J, Leon G, Melzer MJ, Beard JJ, Otero-Colina G, Bauchan GR, Ochoa R, Brlansky RH. Role Bending: Complex Relationships Between Viruses, Hosts, and Vectors Related to Citrus Leprosis, an Emerging Disease. PHYTOPATHOLOGY 2015; 105:1013-1025. [PMID: 25775106 DOI: 10.1094/phyto-12-14-0375-fi] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/28/2023]
Abstract
Citrus leprosis complex is an emerging disease in the Americas, associated with two unrelated taxa of viruses distributed in South, Central, and North America. The cytoplasmic viruses are Citrus leprosis virus C (CiLV-C), Citrus leprosis virus C2 (CiLV-C2), and Hibiscus green spot virus 2, and the nuclear viruses are Citrus leprosis virus N (CiLV-N) and Citrus necrotic spot virus. These viruses cause local lesion infections in all known hosts, with no natural systemic host identified to date. All leprosis viruses were believed to be transmitted by one species of mite, Brevipalpus phoenicis. However, mites collected from CiLV-C and CiLV-N infected citrus groves in Mexico were identified as B. yothersi and B. californicus sensu lato, respectively, and only B. yothersi was detected from CiLV-C2 and CiLV-N mixed infections in the Orinoco regions of Colombia. Phylogenetic analysis of the helicase, RNA-dependent RNA polymerase 2 domains and p24 gene amino acid sequences of cytoplasmic leprosis viruses showed a close relationship with recently deposited mosquito-borne negevirus sequences. Here, we present evidence that both cytoplasmic and nuclear viruses seem to replicate in viruliferous Brevipalpus species. The possible replication in the mite vector and the close relationship with mosquito borne negeviruses are consistent with the concept that members of the genus Cilevirus and Higrevirus originated in mites and citrus may play the role of mite virus vector.
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Affiliation(s)
- Avijit Roy
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - John S Hartung
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - William L Schneider
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Jonathan Shao
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Guillermo Leon
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Michael J Melzer
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Jennifer J Beard
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Gabriel Otero-Colina
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Gary R Bauchan
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Ronald Ochoa
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
| | - Ronald H Brlansky
- First and eleventh authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and fourth authors: U.S. Department of Agriculture-Agricultural Research Service (USDA-ARS), Molecular Plant Pathology Laboratory, Beltsville, MD; first and third author: USDA-ARS, Foreign Disease-Weed Science Research Unit, Fort Detrick, MD; fifth author: Centro de Investigación La Libertad, CORPOICA, Villavicencio, Colombia; sixth author: Plant and Environmental Protection Sciences, University of Hawaii, 3190 Maile Way, St. John 205, Honolulu 96822; seventh author: Queensland Museum, South Brisbane, Queensland 4101, Australia; eighth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; ninth author: Electron and Confocal Microscopy Unit, USDA-ARS, Beltsville, MD; and tenth author: Systematic Entomology Laboratory, USDA-ARS, Beltsville, MD
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Roy A, Stone AL, Shao J, Otero-Colina G, Wei G, Choudhary N, Achor D, Levy L, Nakhla MK, Hartung JS, Schneider WL, Brlansky RH. Identification and Molecular Characterization of Nuclear Citrus leprosis virus, a Member of the Proposed Dichorhavirus Genus Infecting Multiple Citrus Species in Mexico. PHYTOPATHOLOGY 2015; 105:564-75. [PMID: 25423071 DOI: 10.1094/phyto-09-14-0245-r] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/10/2023]
Abstract
Citrus leprosis is one of the most destructive diseases of Citrus spp. and is associated with two unrelated virus groups that produce particles primarily in either the cytoplasm or nucleus of infected plant cells. Symptoms of leprosis, including chlorotic spots surrounded by yellow haloes on leaves and necrotic spots on twigs and fruit, were observed on leprosis-affected mandarin and navel sweet orange trees in the state of Querétaro, Mexico. Serological and molecular assays showed that the cytoplasmic types of Citrus leprosis virus (CiLV-C) often associated with leprosis symptomatic tissues were absent. However, using transmission electron microscopy, bullet-shaped rhabdovirus-like virions were observed in the nuclei and cytoplasm of the citrus leprosis-infected leaf tissues. An analysis of small RNA populations from symptomatic tissue was carried out to determine the genome sequence of the rhabdovirus-like particles observed in the citrus leprosis samples. The complete genome sequence showed that the nuclear type of CiLV (CiLV-N) present in the samples consisted of two negative-sense RNAs: 6,268-nucleotide (nt)-long RNA1 and 5,847-nt-long RNA2, excluding the poly(A) tails. CiLV-N had a genome organization identical to that of Orchid fleck virus (OFV), with the exception of shorter 5' untranslated regions in RNA1 (53 versus 205 nt) and RNA2 (34 versus 182 nt). Phylogenetic trees constructed with the amino acid sequences of the nucleocapsid (N) and glycoproteins (G) and the RNA polymerase (L protein) showed that CiLV-N clusters with OFV. Furthermore, phylogenetic analyses of N protein established CiLV-N as a member of the proposed genus Dichorhavirus. Reverse-transcription polymerase chain reaction primers for the detection of CiLV-N were designed based on the sequence of the N gene and the assay was optimized and tested to detect the presence of CiLV-N in both diseased and symptom-free plants.
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Affiliation(s)
- Avijit Roy
- First, sixth, seventh, and twelfth authors: University of Florida, IFAS, Plant Pathology Department, Citrus Research and Education Center, 700 Experiment Station Road, Lake Alfred, FL; second and eleventh authors: United States Department of Agriculture-Agricultural Research Service (USDA-ARS), Foreign Disease-Weed Science Research Unit (FDWSRU), Fort Detrick, MD; third and tenth authors: USDA-ARS, Molecular Plant Pathology Laboratory (MPPL), Beltsville, MD; fourth author: Colegio de Postgraduados, Campus Montecillo, Texcoco, Edo. De Mex., CP 56230, México; fifth and ninth authors: USDA-Animal and Plant Health Inspection Service (APHIS)-Plant Protection and Quarantine (PPQ)-Center for Plant Health Science and Technology (CSIRO), Beltsville, MD; and eighth author: USDA-APHIS-PPQ-CPHST, Riverdale, MD
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Ramalho T, Figueira A, Sotero A, Wang R, Geraldino Duarte P, Farman M, Goodin M. Characterization of Coffee ringspot virus-Lavras: A model for an emerging threat to coffee production and quality. Virology 2014; 464-465:385-396. [DOI: 10.1016/j.virol.2014.07.031] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2014] [Revised: 06/24/2014] [Accepted: 07/19/2014] [Indexed: 10/24/2022]
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Cruz-Jaramillo JL, Ruiz-Medrano R, Rojas-Morales L, López-Buenfil JA, Morales-Galván O, Chavarín-Palacio C, Ramírez-Pool JA, Xoconostle-Cázares B. Characterization of a proposed dichorhavirus associated with the citrus leprosis disease and analysis of the host response. Viruses 2014; 6:2602-22. [PMID: 25004279 PMCID: PMC4113785 DOI: 10.3390/v6072602] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/28/2014] [Revised: 05/22/2014] [Accepted: 05/28/2014] [Indexed: 12/23/2022] Open
Abstract
The causal agents of Citrus leprosis are viruses; however, extant diagnostic methods to identify them have failed to detect known viruses in orange, mandarin, lime and bitter orange trees with severe leprosis symptoms in Mexico, an important citrus producer. Using high throughput sequencing, a virus associated with citrus leprosis was identified, belonging to the proposed Dichorhavirus genus. The virus was termed Citrus Necrotic Spot Virus (CNSV) and contains two negative-strand RNA components; virions accumulate in the cytoplasm and are associated with plasmodesmata-channels interconnecting neighboring cells-suggesting a mode of spread within the plant. The present study provides insights into the nature of this pathogen and the corresponding plant response, which is likely similar to other pathogens that do not spread systemically in plants.
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Affiliation(s)
- José Luis Cruz-Jaramillo
- Departamento de Biotecnología y Bioingeniería, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional Av. IPN 2508, Zacatenco 07360, México D.F., Mexico.
| | - Roberto Ruiz-Medrano
- Departamento de Biotecnología y Bioingeniería, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional Av. IPN 2508, Zacatenco 07360, México D.F., Mexico.
| | - Lourdes Rojas-Morales
- LaNSE, Centro de Investigación y de Estudios Avanzados del IPN Av. IPN 2508, Zacatenco 07360, México D.F., Mexico.
| | - José Abel López-Buenfil
- Departamento de Biotecnología y Bioingeniería, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional Av. IPN 2508, Zacatenco 07360, México D.F., Mexico.
| | - Oscar Morales-Galván
- Servicio Nacional de Sanidad Inocuidad y Calidad Agroalimentaria, Guillermo Pérez Valenzuela 127, Coyoacán 04100, México D.F., Mexico.
| | - Claudio Chavarín-Palacio
- Servicio Nacional de Sanidad Inocuidad y Calidad Agroalimentaria, Guillermo Pérez Valenzuela 127, Coyoacán 04100, México D.F., Mexico.
| | - José Abrahán Ramírez-Pool
- Departamento de Biotecnología y Bioingeniería, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional Av. IPN 2508, Zacatenco 07360, México D.F., Mexico.
| | - Beatriz Xoconostle-Cázares
- Departamento de Biotecnología y Bioingeniería, Centro de Investigación y de Estudios Avanzados del Instituto Politécnico Nacional Av. IPN 2508, Zacatenco 07360, México D.F., Mexico.
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Kondo H, Maruyama K, Chiba S, Andika IB, Suzuki N. Transcriptional mapping of the messenger and leader RNAs of orchid fleck virus, a bisegmented negative-strand RNA virus. Virology 2014; 452-453:166-74. [PMID: 24606694 DOI: 10.1016/j.virol.2014.01.007] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/03/2013] [Revised: 12/25/2013] [Accepted: 01/11/2014] [Indexed: 11/24/2022]
Abstract
The transcriptional strategy of orchid fleck virus (OFV), which has a two-segmented negative-strand RNA genome and resembles plant nucleorhabdoviruses, remains unexplored. In this study, the transcripts of six genes encoded by OFV RNA1 and RNA2 in the poly(A)-enriched RNA fraction from infected plants were molecularly characterized. All of the OFV mRNAs were initiated at a start sequence 3'-UU-5' with one to three non-viral adenine nucleotides which were added at the 5' end of each mRNA, whereas their 3' termini ended with a 5'-AUUUAAA(U/G)AAAA(A)n-3' sequence. We also identified the presence of polyadenylated short transcripts derived from the 3'-terminal leader regions of both genomic and antigenomic strands, providing the first example of plus- and minus-strand leader RNAs in a segmented minus-strand RNA virus. The similarity in the transcriptional strategy between this bipartite OFV and monopartite rhabdoviruses, especially nucleorhabdoviruses (family Rhabdoviridae) is additional support for their close relationship.
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Affiliation(s)
- Hideki Kondo
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan.
| | - Kazuyuki Maruyama
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan
| | - Sotaro Chiba
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan
| | - Ida Bagus Andika
- Institute of Virology and Biotechnology, Zhejiang Academy of Agricultural Sciences, Hangzhou 310021, PR China
| | - Nobuhiro Suzuki
- Institute of Plant Science and Resources (IPSR), Okayama University, Kurashiki 710-0046, Japan
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[Plant rhabdoviruses with bipartite genomes]. Uirusu 2013; 63:143-54. [PMID: 25366049 DOI: 10.2222/jsv.63.143] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
Abstract
Members of the family Rhabdoviridae (order Mononegavirales) have a broad range of hosts, including humans, livestock, fish, plants, and invertebrates. They have a nonsegmented negative-sense RNA as the genome. Orchid fleck virus (OFV) is distributed world-wide on several orchid plants and transmitted by the false spider mite, Brevipalpus californicus. Based on its virions morphology and cytopathic effects in the infected cells, OFV was tentatively placed as unassigned plant rhabdoviruses in the sixth ICTV Report. However, the molecular studies reveled that OFV has a unique two-segmented negative-sense RNA genome that resembles monopartite genomes of plant nucleorhabdoviruses. In this review, we describe the current knowledge on the genome structure and gene expression strategy of OFV, the possible mechanism of nuclear viroplasm formation, and the taxonomical consideration of the virus as well.
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