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Pimenta RJG, Macleod K, Babb R, Coleman K, MacDonald J, Asare-Bediako E, Newbert MJ, Jenner CE, Walsh JA. Genetic Variation of Turnip Yellows Virus in Arable and Vegetable Brassica Crops, Perennial Wild Brassicas, and Aphid Vectors Collected from the Plants. PLANT DISEASE 2024; 108:616-623. [PMID: 37787684 DOI: 10.1094/pdis-05-23-0906-re] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 10/04/2023]
Abstract
Turnip yellows virus (TuYV; Polerovirus, Solemoviridae) infects and causes yield losses in a range of economically important crop species, particularly the Brassicaceae. It is persistently transmitted by several aphid species and is difficult to control. Although the incidence and genetic diversity of TuYV has been extensively investigated in recent years, little is known about how the diversity within host plants relates to that in its vectors. Arable oilseed rape (Brassica napus) and vegetable brassica plants (Brassica oleracea), wild cabbage (B. oleracea), and aphids present on these plants were sampled in the field in three regions of the United Kingdom. High levels of TuYV (82 to 97%) were detected in plants in all three regions following enzyme-linked immunosorbent assays. TuYV was detected by reverse transcription polymerase chain reaction in Brevicoryne brassicae aphids collected from plants, and TuYV sequences were obtained. Two TuYV open reading frames, ORF0 and ORF3, were partially sequenced from 15 plants, and from one aphid collected from each plant. Comparative analyses between TuYV sequences from host plants and B. brassicae collected from respective plants revealed differences between some ORF0 sequences, which possibly indicated that at least two of the aphids might not have been carrying the same TuYV isolates as those present in their host plants. Maximum likelihood phylogenetic analyses including published, the new TuYV sequences described above, 101 previously unpublished sequences of TuYV from oilseed rape in the United Kingdom, and 13 also previously unpublished sequences of TuYV from oilseed rape in Europe and China revealed three distinct major clades for ORF0 and one for ORF3, with some distinct subclades. Some clustering was related to geographic origin. Explanations for TuYV sequence differences between plants and the aphids present on respective plants and implications for the epidemiology and control of TuYV are discussed.
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Affiliation(s)
- Ricardo J G Pimenta
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
- Centre for Molecular Biology and Genetic Engineering, University of Campinas, 13083-875, Campinas, Brazil
| | - Kyle Macleod
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
| | - Robyn Babb
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
| | - Kaitlyn Coleman
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
| | - Joni MacDonald
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
| | - Elvis Asare-Bediako
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
- University of Energy and Natural Resources, Sunyani, Ghana
| | - Max J Newbert
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
| | - Carol E Jenner
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
| | - John A Walsh
- School of Life Sciences, University of Warwick, CV35 9EF, Wellesbourne, U.K
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Igori D, Kim SE, Kwon JA, Park YC, Moon JS. Complete nucleotide sequence of chrysanthemum virus D, a polero-like virus. Arch Virol 2024; 169:28. [PMID: 38214788 DOI: 10.1007/s00705-023-05924-1] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/14/2023] [Accepted: 10/31/2023] [Indexed: 01/13/2024]
Abstract
A putative new polerovirus, named "chrysanthemum virus D" (ChVD), was detected in a Chrysanthemum morifolium plant in South Korea. The virus was identified by high-throughput sequencing and confirmed by reverse transcription polymerase chain reaction. The entire ChVD genome is composed of 5,963 nucleotides and contains seven open reading frames (ORF0-5 and ORF3a), which are arranged similarly to those of other poleroviruses. These ORFs encode the putative proteins P0-5 and P3a, respectively. Pairwise amino acid sequence comparisons showed that the ChVD P0-5 and P3a proteins have 30.45-75% sequence identity to the corresponding proteins of other members of the genus Polerovirus. Since one of the species demarcation criteria for the genus Polerovirus is > 10% difference in the amino acid sequence of any gene product, the sequence comparisons indicate that ChVD represents a new species in this genus. Phylogenetic analysis of the P1-P2 and P3 amino acid sequences further indicate that ChVD is a novel polerovirus.
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Affiliation(s)
- Davaajargal Igori
- Department of Biology, School of Mathematics and Natural Sciences, Mongolian National University of Education, Ulaanbaatar, Mongolia
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 34141, Republic of Korea
| | - Se Eun Kim
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 34141, Republic of Korea
| | - Jeong A Kwon
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 34141, Republic of Korea
- Biosystems and Bioengineering Program, University of Science and Technology (UST), Daejeon, 34113, Republic of Korea
| | - Yang Chan Park
- NEXBIO Co., Ltd., Daejeon, 34520, Republic of Korea.
- Department of New Drug Discovery and Development, Chungnam National University, Daejeon, 34134, Republic of Korea.
| | - Jae Sun Moon
- Plant Systems Engineering Research Center, Korea Research Institute of Bioscience and Biotechnology, Daejeon, 34141, Republic of Korea.
- Biosystems and Bioengineering Program, University of Science and Technology (UST), Daejeon, 34113, Republic of Korea.
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3
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Erickson A, Falk BW. Dissecting dynamic plant virus synergism in mixed infections of poleroviruses, umbraviruses, and tombusvirus-like associated RNAs. Front Microbiol 2023; 14:1223265. [PMID: 37485502 PMCID: PMC10359716 DOI: 10.3389/fmicb.2023.1223265] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/15/2023] [Accepted: 06/19/2023] [Indexed: 07/25/2023] Open
Abstract
Mixed infections of a plant infecting polerovirus, umbravirus, and/or tombusvirus-like associated RNAs (tlaRNAs) produce unique virus disease complexes that exemplify "helper-dependence" interactions, a type of viral synergism that occurs when a "dependent" virus that lacks genes encoding for certain protein products necessary for it to complete its infection cycle can utilize complementary proteins encoded by a co-infecting "helper" virus. While much research has focused on polerovirus-umbravirus or polerovirus-tlaRNA interactions, only recently have umbravirus-tlaRNA interactions begun to be explored. To expand on the limited understanding of umbravirus-tlaRNA interactions in such disease complexes, we established various co-infection pairings of the polerovirus turnip yellows virus (TuYV), the umbravirus carrot mottle virus (CMoV), and three different tlaRNAs-carrot red leaf virus aRNAs (CRLVaRNAs) gamma and sigma, and the TuYVaRNA ST9-in the model plant Nicotiana benthamiana, then investigated the effects of these different co-infections on tlaRNA systemic movement within the host, and on virus accumulation, and aphid and mechanical transmission of each of these viruses. We found that CMoV alone could support systemic movement of each of the tlaRNAs, making this the second report to demonstrate such an interaction between an umbravirus and tlaRNAs. We also report for the first time that CMoV could also impart mechanical transmissibility to the tlaRNAs sigma and ST9, and that co-infections of either of these tlaRNAs with both TuYV and CMoV increased the efficiency with which TuYV could be mechanically co-transmitted with CMoV.
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Liang KL, Liu JY, Bao YY, Wang ZY, Xu XB. Screening and Identification of Host Factors Interacting with the Virulence Factor P0 Encoded by Sugarcane Yellow Leaf Virus by Yeast Two-Hybrid Assay. Genes (Basel) 2023; 14:1397. [PMID: 37510302 PMCID: PMC10379860 DOI: 10.3390/genes14071397] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/04/2023] [Revised: 06/28/2023] [Accepted: 06/30/2023] [Indexed: 07/30/2023] Open
Abstract
Sugarcane yellow leaf virus (SCYLV), a member of the genus Polerovirus in the family Luteoviridae, causes severe damage and represents a great threat to sugarcane cultivation and sugar industry development. In this study, inoculation of Nicotiana benthamiana plants with a potato virus X (PVX)-based vector carrying the SCYLV P0 gene induced typical mosaic, leaf rolling symptoms and was associated with a hypersensitive-like response (HLR) necrosis symptom, which is accompanied with a systemic burst of H2O2 and also leads to higher PVX viral genome accumulation levels. Our results demonstrate that SCYLV P0 is a pathogenicity determinant and plays important roles in disease development. To further explore its function in pathogenic processes, a yeast two-hybrid assay was performed to screen the putative P0-interacting host factors. The recombinant plasmid pGBKT7-P0 was constructed as a bait and transformed into the yeast strain Y2HGold. The ROC22 cultivar (an important parental resource of the main cultivar in China) cDNA prey library was constructed and screened by co-transformation with the P0 bait. We identified 28 potential interacting partners including those involved in the optical signal path, plant growth and development, transcriptional regulation, host defense response, and viral replication. To our knowledge, this is the first time we have reported the host proteins interacting with the P0 virulence factor encoded by sugarcane yellow leaf virus. This study not only provides valuable insights into elucidating the molecular mechanism of the pathogenicity of SCYLV, but also sheds light on revealing the probable new pathogenesis of Polerovirus in the future.
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Affiliation(s)
- Kai-Li Liang
- Guangxi Key Laboratory for Sugarcane Biology, Guangxi University, Nanning 530004, China
| | - Jing-Ying Liu
- Guangxi Key Laboratory for Sugarcane Biology, Guangxi University, Nanning 530004, China
| | - Ying-Ying Bao
- College of Agriculture, Guangxi University, Nanning 530004, China
| | - Zhi-Yuan Wang
- Guangxi Key Laboratory for Sugarcane Biology, Guangxi University, Nanning 530004, China
| | - Xiong-Biao Xu
- Guangxi Key Laboratory for Sugarcane Biology, Guangxi University, Nanning 530004, China
- State Key Laboratory for Conservation and Utilization of Subtropical Agro-Bioresources, Guangxi University, Nanning 530004, China
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5
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Complete genome sequence of a novel polerovirus infecting Cynanchum rostellatum. Arch Virol 2023; 168:57. [PMID: 36617596 DOI: 10.1007/s00705-022-05625-1] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/01/2022] [Accepted: 09/12/2022] [Indexed: 01/10/2023]
Abstract
We detected a virus-like sequence in Cynanchum rostellatum leaves showing yellow mottle symptoms, found in Tokyo, Japan. RNA-Seq analysis revealed that the complete nucleotide sequence of the virus genome was 5,878 nucleotides in length and that it contained seven open reading frames (ORFs) specific to members of the genus Polerovirus. Accordingly, phylogenetic analysis revealed that the virus clustered with poleroviruses in the family Solemoviridae. The amino acid sequence identity values obtained by comparison of the deduced proteins of this virus and those of known members of the genus Polerovirus were lower than 90%, which is the species demarcation criterion of the taxon. The results indicate that this virus is a novel member of the genus Polerovirus, for which the name "cynanchum yellow mottle-associated virus" is proposed.
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Chkuaseli T, White KA. Complex and simple translational readthrough signals in pea enation mosaic virus 1 and potato leafroll virus, respectively. PLoS Pathog 2022; 18:e1010888. [PMID: 36174104 PMCID: PMC9553062 DOI: 10.1371/journal.ppat.1010888] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/12/2022] [Revised: 10/11/2022] [Accepted: 09/20/2022] [Indexed: 11/26/2022] Open
Abstract
Different essential viral proteins are translated via programmed stop codon readthrough. Pea enation mosaic virus 1 (PEMV1) and potato leafroll virus (PLRV) are related positive-sense RNA plant viruses in the family Solemoviridae, and are type members of the Enamovirus and Polerovirus genera, respectively. Both use translational readthrough to express a C-terminally extended minor capsid protein (CP), termed CP-readthrough domain (CP-RTD), from a viral subgenomic mRNA that is transcribed during infections. Limited incorporation of CP-RTD subunits into virus particles is essential for aphid transmission, however the functional readthrough structures that mediate CP-RTD translation have not yet been defined. Through RNA solution structure probing, RNA secondary structure modeling, site-directed mutagenesis, and functional in vitro and in vivo analyses, we have investigated in detail the readthrough elements and complex structure involved in expression of CP-RTD in PEMV1, and assessed and deduced a comparatively simpler readthrough structure for PLRV. Collectively, this study has (i) generated the first higher-order RNA structural models for readthrough elements in an enamovirus and a polerovirus, (ii) revealed a stark contrast in the complexity of readthrough structures in these two related viruses, (iii) provided compelling experimental evidence for the strict requirement for long-distance RNA-RNA interactions in generating the active readthrough signals, (iv) uncovered what could be considered the most complex readthrough structure reported to date, that for PEMV1, and (v) proposed plausible assembly pathways for the formation of the elaborate PEMV1 and simple PLRV readthrough structures. These findings notably advance our understanding of this essential mode of gene expression in these agriculturally important plant viruses.
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Affiliation(s)
- Tamari Chkuaseli
- Department of Biology, York University, Toronto, Ontario, Canada
| | - K. Andrew White
- Department of Biology, York University, Toronto, Ontario, Canada
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Kavi Sidharthan V, Nagendran K, Baranwal VK. Exploration of plant transcriptomes reveals five putative novel poleroviruses and an enamovirus. Virus Genes 2022; 58:244-253. [PMID: 35347589 DOI: 10.1007/s11262-022-01896-7] [Citation(s) in RCA: 5] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/28/2021] [Accepted: 03/16/2022] [Indexed: 11/29/2022]
Abstract
Transcriptome datasets available in public domain serve as valuable resource for identification and characterization of novel viral genomes. Poleroviruses are economically important plant-infecting RNA viruses belonging to the family Solemoviridae. In the present study, we explored the plant transcriptomes available in public domain and identified five putative novel poleroviruses tentatively named as Foeniculum vulgare polerovirus (FvPV), Kalanchoe marnieriana polerovirus (KmPV), Paspalum notatum polerovirus (PnPV), Piper methysticum polerovirus (PmPV), Trachyspermum ammi polerovirus (TaPV) and a novel enamovirus named as Celmisia lyallii enamovirus (ClEV) in Foeniculum vulgare, Kalanchoe marnieriana, Paspalum notatum, Piper methysticum, Trachyspermum ammi and Celmisia lyallii, respectively. Coding-complete genomes (5.56-5.74 kb) of CIEV, KmPV, PnPV, PmPV and TaPV were recovered while only the partial genome of FvPV could be recovered. The genome organization of identified viruses except ClEV is 5'-ORF0-ORF1-ORF2-ORF3a-ORF3-ORF4-ORF5-3' while that of ClEV is 5'-ORF0-ORF1-ORF2-ORF3-ORF5-3'. Phylogenetic analysis revealed that poleroviruses of apiaceous plants formed a monophyletic clade within the genus Polerovirus.
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Affiliation(s)
- V Kavi Sidharthan
- Division of Genetics and Tree Improvement, Institute of Forest Biodiversity (ICFRE), Hyderabad, India
| | | | - V K Baranwal
- Division of Plant Pathology, ICAR-Indian Agricultural Research Institute, New Delhi, India.
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Clavel M, Lechner E, Incarbone M, Vincent T, Cognat V, Smirnova E, Lecorbeiller M, Brault V, Ziegler-Graff V, Genschik P. Atypical molecular features of RNA silencing against the phloem-restricted polerovirus TuYV. Nucleic Acids Res 2021; 49:11274-11293. [PMID: 34614168 PMCID: PMC8565345 DOI: 10.1093/nar/gkab802] [Citation(s) in RCA: 11] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/16/2021] [Revised: 08/25/2021] [Accepted: 10/04/2021] [Indexed: 11/12/2022] Open
Abstract
In plants and some animal lineages, RNA silencing is an efficient and adaptable defense mechanism against viruses. To counter it, viruses encode suppressor proteins that interfere with RNA silencing. Phloem-restricted viruses are spreading at an alarming rate and cause substantial reduction of crop yield, but how they interact with their hosts at the molecular level is still insufficiently understood. Here, we investigate the antiviral response against phloem-restricted turnip yellows virus (TuYV) in the model plant Arabidopsis thaliana. Using a combination of genetics, deep sequencing, and mechanical vasculature enrichment, we show that the main axis of silencing active against TuYV involves 22-nt vsiRNA production by DCL2, and their preferential loading into AGO1. Moreover, we identify vascular secondary siRNA produced from plant transcripts and initiated by DCL2-processed AGO1-loaded vsiRNA. Unexpectedly, and despite the viral encoded VSR P0 previously shown to mediate degradation of AGO proteins, vascular AGO1 undergoes specific post-translational stabilization during TuYV infection. Collectively, our work uncovers the complexity of antiviral RNA silencing against phloem-restricted TuYV and prompts a re-assessment of the role of its suppressor of silencing P0 during genuine infection.
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Affiliation(s)
- Marion Clavel
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Esther Lechner
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Marco Incarbone
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Timothée Vincent
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Valerie Cognat
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Ekaterina Smirnova
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Maxime Lecorbeiller
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | | | - Véronique Ziegler-Graff
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
| | - Pascal Genschik
- Institut de Biologie Moléculaire des Plantes, CNRS, Université de Strasbourg, Strasbourg, France
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Cotton Leafroll Dwarf Virus US Genomes Comprise Divergent Subpopulations and Harbor Extensive Variability. Viruses 2021; 13:v13112230. [PMID: 34835036 PMCID: PMC8618375 DOI: 10.3390/v13112230] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2021] [Revised: 10/29/2021] [Accepted: 11/02/2021] [Indexed: 11/21/2022] Open
Abstract
Cotton leafroll dwarf virus (CLRDV) was first reported in the United States (US) in 2017 from cotton plants in Alabama (AL) and has become widespread in cotton-growing states of the southern US. To investigate the genomic variability among CLRDV isolates in the US, complete genomes of the virus were obtained from infected cotton plants displaying mild to severe symptoms from AL, Florida, and Texas. Eight CLRDV genomes were determined, ranging in size from 5865 to 5867 bp, and shared highest nucleotide identity with other CLRDV isolates in the US, at 95.9–98.7%. Open reading frame (ORF) 0, encoding the P0 silencing suppressor, was the most variable gene, sharing 88.5–99.6% and 81.2–89.3% amino acid similarity with CLRDV isolates reported in cotton growing states in the US and in Argentina and Brazil in South America, respectively. Based on Bayesian analysis, the complete CLRDV genomes from cotton in the US formed a monophyletic group comprising three relatively divergent sister clades, whereas CLRDV genotypes from South America clustered as closely related sister-groups, separate from US isolates, patterns reminiscent of phylogeographical structuring. The CLRDV isolates exhibited a complex pattern of recombination, with most breakpoints evident in ORFs 2 and 3, and ORF5. Despite extensive nucleotide diversity among all available CLRDV genomes, purifying selection (dN/dS < 1) was implicated as the primary selective force acting on viral protein evolution.
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Francis F, Chen J, Yong L, Bosquee E. Aphid Feeding on Plant Lectins Falling Virus Transmission Rates: A Multicase Study. JOURNAL OF ECONOMIC ENTOMOLOGY 2020; 113:1635-1639. [PMID: 32515475 DOI: 10.1093/jee/toaa104] [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: 01/28/2020] [Indexed: 06/11/2023]
Abstract
Aphids are insect vectors that have piercing-sucking mouthparts supporting diversified patterns of virus-vector interactions. Aphids primarily retain circulative viruses in the midgut/hindgut, whereas noncirculative viruses tend to be retained in the stylet. Most viruses, and many proteins from animals, have carbohydrate or carbohydrate-binding sites. Lectins vary in their specificity, of which some are able to bind to viral glycoproteins. To assess the potential competition between lectins and viral particles in virus transmission by aphids, this study examined how feeding plant lectins to aphids affects the transmission efficiency of viruses. Sitobion avenae (F, 1794) (Homoptera: Aphididae) aphids fed with Pisum sativum lectin (PSL) transmitted Barley yellow dwarf virus with significantly lower efficiency (four-fold ratio). Pea enation mosaic virus was significantly reduced in Acyrthosiphon pisum Harris (Homoptera: Aphididae) aphids fed with the lectin Concanavalin A. In comparison, the transmission of Potato virus Y was significantly reduced when Myzus persicae Sultzer (Homoptera: Aphididae) aphids were fed with PSL. Thus, lectin could be used as a blocking agent of plant viruses, facilitating an alternative approach for crop protection.
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Affiliation(s)
- Frederic Francis
- Functional and Evolutionary Entomology, TERRA, Gembloux Agro-Bio Tech, University of Liege, Gembloux, Passage des Deportes, Belgium
- College of Plant Protection, Shandong Agricultural University, Taian, PR China
| | - Julian Chen
- State Key Laboratory for Biology of Plant Disease and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, PR China
| | - Liu Yong
- College of Plant Protection, Shandong Agricultural University, Taian, PR China
| | - Emilie Bosquee
- Functional and Evolutionary Entomology, TERRA, Gembloux Agro-Bio Tech, University of Liege, Gembloux, Passage des Deportes, Belgium
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Chimeric Virus Made from crTMV RNA and the Coat Protein of Potato Leafroll Virus is Targeted to the Nucleolus and Can Infect Nicotiana benthamiana Mechanically. High Throughput 2020; 9:ht9020011. [PMID: 32357496 PMCID: PMC7348827 DOI: 10.3390/ht9020011] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/25/2020] [Revised: 04/02/2020] [Accepted: 04/22/2020] [Indexed: 11/30/2022] Open
Abstract
A genetically engineered chimeric virus crTMV-CP-PLRV composed of the crucifer-infecting tobacco mosaic virus (crTMV) RNA and the potato leafroll virus (PLRV) coat protein (CP) was obtained by agroinfiltration of Nicotiana benthamiana with the binary vector pCambia-crTMV-CPPLRV. The significant levels of the chimeric virus enabled direct visualization of crTMV-CP-PLRV in the cell and to investigate the mechanism of the pathogenesis. Localization of the crTMV-CP-PLRV in plant cells was examined by immunoblot techniques, as well as light, and transmission electron microscopy. The chimera can transfer between vascular and nonvascular tissues. The chimeric virus inoculum is capable to infect N. benthamiana mechanically. The distinguishing feature of the chimeric virus, the RNA virus with the positive genome, was found to localize in the nucleolus. We also investigated the role of the N-terminal sequence of the PLRV P3 coat protein in the cellular localization of the virus. We believe that the gene of the PLRV CP can be substituted with genes from other challenging-to-study plant pathogens to produce other useful recombinant viruses.
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Avelar S, Ramos-Sobrinho R, Conner K, Nichols RL, Lawrence K, Brown JK. Characterization of the Complete Genome and P0 Protein for a Previously Unreported Genotype of Cotton Leafroll Dwarf Virus, an Introduced Polerovirus in the United States. PLANT DISEASE 2020; 104:780-786. [PMID: 31958248 DOI: 10.1094/pdis-06-19-1316-re] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/10/2023]
Abstract
Virus-like disease symptoms consisting of leaf cupping, shortened internodes, and overall stunting were observed in commercial cotton fields in Alabama in 2017 to 2018. To determine the complete genome sequence of the suspected causal polerovirus, symptomatic leaf samples were collected in Macon County, Alabama, and subjected to Illumina RNA sequencing. Based on BLASTn analysis, the Illumina contig of 5,771 nt shared the highest nucleotide identity (approximately 95%) with members of the species Cotton leafroll dwarf virus (CLRDV) (genus Polerovirus; family Luteoviridae) from Argentina and Brazil. The full-length viral genome sequence was verified by reverse transcription (RT)-PCR amplification, cloning, and Sanger sequencing. The complete CLRDV genome of 5,865 nt in length shared 94.8 to 95.2% nucleotide identity with six previously reported CLRDV isolates. The genome of the CLRDV isolate amplified from Alabama samples (CLRDV-AL) has seven predicted open reading frames (ORFs). Viral proteins 1 to 5 (P1 to P5) shared 91.9 to 99.5% amino acid identity with the six CLRDV isolates from Argentina and Brazil. However, P0, the suppressor of host gene silencing, shared 82.4 to 88.5% pairwise amino acid identity with the latter CLRDV isolates. Phylogenetic analysis of the seven full-length CLRDV genomes resolved three sister clades: CLRDV-AL, CLRDV-typical, and CLRDV-atypical, respectively. Three recombination events were detected by the recombination detection program among the seven CLRDV isolates with breakpoints occurring along the genome. Pairwise nucleotide identity comparisons of ORF0 sequences for the three CLRDV-AL field isolates indicated that they were >99% identical, suggesting that this previously unknown CLRDV genotype represents a single introduction to Alabama.
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Affiliation(s)
- Sofia Avelar
- School of Plant Sciences, University of Arizona, Tucson, AZ 85721
| | | | - Kassie Conner
- Plant Diagnostic Laboratory, Alabama Cooperative Extension System, Auburn University, Auburn, AL 36849
| | | | - Kathy Lawrence
- Department of Entomology and Plant Pathology, Auburn University, Auburn, AL 36849
| | - Judith K Brown
- School of Plant Sciences, University of Arizona, Tucson, AZ 85721
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Filardo FF, Thomas JE, Webb M, Sharman M. Faba bean polerovirus 1 (FBPV-1); a new polerovirus infecting legume crops in Australia. Arch Virol 2019; 164:1915-1921. [PMID: 30993462 DOI: 10.1007/s00705-019-04233-w] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/21/2018] [Accepted: 02/08/2019] [Indexed: 11/28/2022]
Abstract
A new polerovirus species with the proposed name faba bean polerovirus 1 (FBPV-1) was found in winter legume crops and weeds in New South Wales, Australia. We describe the complete genome sequence of 5,631 nucleotides, containing all putative open reading frames, from two isolates, one from faba bean (Vicia faba) and one from chickpea (Cicer arietinum). FBPV-1 has a genome organization typical of poleroviruses with six open reading frames. However, recombination analysis strongly supports a recombination event in which the 5' portion of FBPV-1, which encodes for proteins P0, P1 and P1-P2, appears to be from a novel parent with a closest nucleotide identity of only 66% to chickpea chlorotic stunt virus. The 3' portion of FBPV-1 encodes for proteins P3, P4 and P3-P5 and shares 94% nucleotide identity to a turnip yellows virus isolate from Western Australia.
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Affiliation(s)
- Fiona F Filardo
- Queensland Department of Agriculture and Fisheries, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia.
| | - John E Thomas
- The University of Queensland, Queensland Alliance for Agriculture and Food Innovation, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia
| | - Matthew Webb
- Queensland Department of Agriculture and Fisheries, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia
| | - Murray Sharman
- Queensland Department of Agriculture and Fisheries, Ecosciences Precinct, GPO Box 267, Brisbane, QLD, 4001, Australia
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14
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Bortolamiol-Bécet D, Monsion B, Chapuis S, Hleibieh K, Scheidecker D, Alioua A, Bogaert F, Revers F, Brault V, Ziegler-Graff V. Phloem-Triggered Virus-Induced Gene Silencing Using a Recombinant Polerovirus. Front Microbiol 2018; 9:2449. [PMID: 30405546 PMCID: PMC6206295 DOI: 10.3389/fmicb.2018.02449] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/29/2018] [Accepted: 09/25/2018] [Indexed: 01/22/2023] Open
Abstract
The phloem-limited poleroviruses infect Arabidopsis thaliana without causing noticeable disease symptoms. In order to facilitate visual infection identification, we developed virus-induced gene silencing (VIGS) vectors derived from Turnip yellows virus (TuYV). Short sequences from the host gene AtCHLI1 required for chlorophyll biosynthesis [42 nucleotides in sense or antisense orientation or as an inverted-repeat (IR), or an 81 nucleotide sense fragment] were inserted into the 3' non-coding region of the TuYV genome to screen for the most efficient and robust silencing vector. All recombinant viruses produced a clear vein chlorosis phenotype on infected Arabidopsis plants due to the expression inhibition of the AtCHLI1 gene. The introduction of a sense-oriented sequence into TuYV genome resulted in a virus exhibiting a more sustainable chlorosis than the virus containing an IR of the same length. This observation was correlated with a higher stability of the sense sequence insertion in the viral genome. In order to evaluate the impact of the TuYV silencing suppressor P0 in the VIGS mechanism a P0 knock-out mutation was introduced into the recombinant TuYV viruses. They induced a similar but milder vein clearing phenotype due to lower viral accumulation. This indicates that P0 does not hinder the performances of the TuYV silencing effect and confirms that in the viral infection context, P0 has no major impact on the production, propagation and action of the short distance silencing signal in phloem cells. Finally, we showed that TuYV can be used to strongly silence the phloem specific AtRTM1 gene. The TuYV-derived VIGS vectors therefore represent powerful tools to easily detect and monitor TuYV in infected plants and conduct functional analysis of phloem-restricted genes. Moreover this example indicates the potential of poleroviruses for use in functional genomic studies of agronomic plants.
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Affiliation(s)
- Diane Bortolamiol-Bécet
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France.,Architecture et Réactivité de l'ARN, Institut de biologie moléculaire et cellulaire CNRS-UPR 9002, Université de Strasbourg, Strasbourg, France
| | - Baptiste Monsion
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France.,UMR1161 Virologie, INRA, ANSES, Ecole Nationale Vétérinaire d'Alfort, Maisons-Alfort, France
| | - Sophie Chapuis
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France
| | - Kamal Hleibieh
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France
| | - Danièle Scheidecker
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France
| | - Abdelmalek Alioua
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France
| | - Florent Bogaert
- SVQV, INRA UMR 1131, Université de Strasbourg, Colmar, France
| | - Frédéric Revers
- BFP, INRA UMR 1332, Univ. Bordeaux, Villenave d'Ornon, France.,BIOGECO, INRA UMR 1202, Univ. Bordeaux, Pessac, France
| | | | - Véronique Ziegler-Graff
- Institut de biologie moléculaire des plantes, CNRS-UPR 2357, Université de Strasbourg, Strasbourg, France
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15
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Wetzel V, Brault V, Varrelmann M. Production of a Beet chlorosis virus full-length cDNA clone by means of Gibson assembly and analysis of biological properties. J Gen Virol 2018; 99:1522-1527. [PMID: 30215595 DOI: 10.1099/jgv.0.001146] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023] Open
Abstract
Beet chlorosis virus (genus Polerovirus, family Luteoviridae), which is persistently transmitted by the aphid Myzus persicae, is part of virus yellows in sugar beet and causes interveinal yellowing as well as significant yield loss in Beta vulgaris. To allow reverse genetic studies and replace vector transmission, an infectious cDNA clone under cauliflower mosaic virus 35S control in a binary vector for agrobacterium-mediated infection was constructed using Gibson assembly. Following agroinoculation, the BChV full-length clone was able to induce a systemic infection of the cultivated B. vulgaris. The engineered virus was successfully aphid-transmitted when acquired from infected B. vulgaris and displayed the same host plant spectrum as wild-type virus. This new polerovirus infectious clone is a valuable tool to identify the viral determinants involved in host range and study BChV protein function, and can be used to screen sugar beet for BChV resistance.
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Affiliation(s)
- Veronika Wetzel
- 1Department of Phytopathology, Institute of Sugar Beet Research, 37079 Göttingen, Germany
| | - Véronique Brault
- 2SVQV, Université de Strasbourg, INRA, Equipe Virologie Vection, 28 Rue de Herrlisheim, 68000 Colmar, France
| | - Mark Varrelmann
- 1Department of Phytopathology, Institute of Sugar Beet Research, 37079 Göttingen, Germany
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16
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Maina S, Barbetti MJ, Edwards OR, Minemba D, Areke MW, Jones RAC. First Complete Genome Sequence of Cucurbit aphid-borne yellows virus from Papua New Guinea. GENOME ANNOUNCEMENTS 2018; 6:e00162-18. [PMID: 29545301 PMCID: PMC5854776 DOI: 10.1128/genomea.00162-18] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 02/07/2018] [Accepted: 02/13/2018] [Indexed: 11/24/2022]
Abstract
Analysis of an RNA-Seq library from cucumber leaf RNA revealed the first complete genome sequence of Cucurbit aphid-borne yellows virus (CABYV) from Papua New Guinea. We compared it with 36 complete CABYV genomes from other world regions. It most resembled the genome of South Korean isolate GS6.
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Affiliation(s)
- Solomon Maina
- School of Agriculture and Environment, Faculty of Science, The University of Western Australia, Crawley, Western Australia, Australia
- Institute of Agriculture, Faculty of Science, The University of Western Australia, Crawley, Western Australia, Australia
- Cooperative Research Centre for Plant Biosecurity, Canberra, Australian Capital Territory, Australia
| | - Martin J Barbetti
- School of Agriculture and Environment, Faculty of Science, The University of Western Australia, Crawley, Western Australia, Australia
- Institute of Agriculture, Faculty of Science, The University of Western Australia, Crawley, Western Australia, Australia
| | - Owain R Edwards
- Cooperative Research Centre for Plant Biosecurity, Canberra, Australian Capital Territory, Australia
- CSIRO Land & Water, Floreat Park, Western Australia, Australia
| | - David Minemba
- School of Agriculture and Environment, Faculty of Science, The University of Western Australia, Crawley, Western Australia, Australia
- Kana Aburu Haus Sir Alkan Tololo Research Centre, PNG National Agriculture Research Institute, Lae, Morobe Province, Papua New Guinea
| | - Michael W Areke
- National Agriculture Quarantine and Inspection Authority, Port Moresby, National Capital District, Papua New Guinea
| | - Roger A C Jones
- Institute of Agriculture, Faculty of Science, The University of Western Australia, Crawley, Western Australia, Australia
- Cooperative Research Centre for Plant Biosecurity, Canberra, Australian Capital Territory, Australia
- Department of Primary Industries and Regional Development, South Perth, Western Australia, Australia
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17
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Kamran A, Lotos L, Amer MA, Al-Saleh MA, Alshahwan IM, Shakeel MT, Ahmad MH, Umar M, Katis NI. Characterization of Pepper leafroll chlorosis virus, a New Polerovirus Causing Yellowing Disease of Bell Pepper in Saudi Arabia. PLANT DISEASE 2018; 102:318-326. [PMID: 30673532 DOI: 10.1094/pdis-03-17-0418-re] [Citation(s) in RCA: 6] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/09/2023]
Abstract
During the growing seasons of 2014 through 2016, a total of 336 leaf samples from bell pepper (showing leafroll and interveinal yellowing) and arable weeds were collected from Riyadh region, Saudi Arabia. The use of a polerovirus generic reverse transcription (RT)-PCR assay confirmed their presence in the bell pepper samples. Sequencing of the generic amplicon revealed high similarity (87.6 to 98.1% in nt) with four poleroviruses; Tobacco vein distorting virus, Pepper vein yellows virus, Pepper yellows virus, and Pepper yellow leaf curl virus. To further characterize one of these isolates (105D), a larger part of the genome (∼1,300 nt) spanning approximately from the 3' end of ORF2 to the middle of ORF3, was amplified and sequenced. Blasting the resulting sequence revealed the low amino acid and nucleotide identity percentages in the coat protein and movement protein partial genes with viruses deposited in GenBank. Next-generation sequence was used to acquire a larger part of the genome, which resulted in the reconstruction of isolate 105D's partial genome (5,496 nt). Sequence similarity analysis revealed the presence of a divergent polerovirus isolate belonging to a new species that was tentatively named Pepper leafroll chlorosis virus (PeLRCV). Using a specific RT-PCR assay for this isolate confirmed the presence of this new viral species in the symptomatic peppers. Aphid transmission experiments showed that PeLRCV is vectored by Aphis gossypii and that it can infect at least five out of the 15 different plants species tested. Based on our findings, PeLRCV is a new member of genus Polerovirus in the family Luteoviridae.
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Affiliation(s)
- A Kamran
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - L Lotos
- Aristotle University of Thessaloniki, School of Agriculture, Forestry and Natural Environment, Faculty of Agriculture, Plant Pathology Lab, Thessaloniki 54124, Greece
| | - M A Amer
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia; and Viruses and Phytoplasma Research Department, Plant Pathology Research Institute, Agricultural Research Center, Egypt
| | - M A Al-Saleh
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - I M Alshahwan
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - M T Shakeel
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia; and Department of Plant Pathology, Bahauddin Zakariya University, Multan, Pakistan
| | - M H Ahmad
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - M Umar
- Plant Protection Department, College of Food and Agriculture Sciences, King Saud University, Riyadh 11451, Saudi Arabia
| | - N I Katis
- Aristotle University of Thessaloniki, School of Agriculture, Forestry and Natural Environment, Faculty of Agriculture, Plant Pathology Lab, Thessaloniki 54124, Greece
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18
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Skurat EV, Butenko KO, Kondakova OA, Nikitin NA, Karpova OV, Drygin YF, Atabekov JG. Chimeric Virus as a Source of the Potato Leafroll Virus Antigen. Mol Biotechnol 2017; 59:469-481. [PMID: 28921459 DOI: 10.1007/s12033-017-0035-6] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
Large quantities of potato leafroll virus (PLRV) antigen are difficult to obtain because this virus accumulates in plants at a low titer. To overcome this problem, we constructed a binary vector containing chimeric cDNA, in which the coat protein (CP) gene of the crucifer infecting tobacco mosaic virus (crTMV) was substituted for the coat protein gene of PLRV. The PLRV movement protein (MP) gene, which overlaps completely with the CP gene, was doubly mutated to eliminate priming of the PLRV MP translation from ATG codons with no changes to the amino acid sequence of the CP. The untranslated long intergenic region located upstream of the CP gene was removed from the construct. Transcribed powerful tobamovirus polymerase of the produced vector synthesized PLRV CP gene that was, in turn, translated into the protein. CP PLRV packed RNAs from the helical crTMV in spherical virions. Morphology, size and antigenic specificities of the wild-type and chimeric virus were similar. The yield of isolated chimera was about three orders higher than the yield of native PLRV. The genetic manipulations facilitated the generation of antibodies against the chimeric virus, which recognize the wild-type PLRV.
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Affiliation(s)
- Eugene V Skurat
- Department of Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
| | - Konstantin O Butenko
- Department of Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
| | - Olga A Kondakova
- Department of Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
| | - Nikolai A Nikitin
- Department of Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
| | - Olga V Karpova
- Department of Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
| | - Yuri F Drygin
- Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992.
| | - Joseph G Atabekov
- Department of Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
- Belozersky Institute of Physico-Chemical Biology, Lomonosov Moscow State University, Moscow, Russian Federation, 119992
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19
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Maina S, Edwards OR, de Almeida L, Ximenes A, Jones RAC. Analysis of an RNA-seq Strand-Specific Library from an East Timorese Cucumber Sample Reveals a Complete Cucurbit aphid-borne yellows virus Genome. GENOME ANNOUNCEMENTS 2017; 5:e00320-17. [PMID: 28495776 PMCID: PMC5427211 DOI: 10.1128/genomea.00320-17] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Received: 03/16/2017] [Accepted: 03/20/2017] [Indexed: 11/20/2022]
Abstract
Analysis of an RNA-seq library from cucumber leaf RNA extracted from a fast technology for analysis of nucleic acids (FTA) card revealed the first complete genome of Cucurbit aphid-borne yellows virus (CABYV) from East Timor. We compare it with 35 complete CABYV genomes from other world regions. It most resembled the genome of the South Korean isolate HD118.
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Affiliation(s)
- Solomon Maina
- School of Agriculture and Environment, Faculty of Science, University of Western Australia, Crawley, Western Australia, Australia
- Institute of Agriculture, Faculty of Science, University of Western Australia, Crawley, Western Australia, Australia
- Cooperative Research Centre for Plant Biosecurity, Canberra, Australian Capital Territory, Australia
| | - Owain R Edwards
- Cooperative Research Centre for Plant Biosecurity, Canberra, Australian Capital Territory, Australia
- CSIRO Land and Water, Floreat Park, Western Australia, Australia
| | - Luis de Almeida
- Seeds of Life Project, Ministry of Agriculture, Forestry and Fisheries, Dili, East Timor
| | - Abel Ximenes
- DNQB-Plant Quarantine, International Airport Nicolau Lobato Comoro, Dili, East Timor
| | - Roger A C Jones
- Institute of Agriculture, Faculty of Science, University of Western Australia, Crawley, Western Australia, Australia
- Cooperative Research Centre for Plant Biosecurity, Canberra, Australian Capital Territory, Australia
- Department of Agriculture and Food Western Australia, South Perth, Western Australia, Australia
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20
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Zhou CJ, Zhang XY, Liu SY, Wang Y, Li DW, Yu JL, Han CG. Synergistic infection of BrYV and PEMV 2 increases the accumulations of both BrYV and BrYV-derived siRNAs in Nicotiana benthamiana. Sci Rep 2017; 7:45132. [PMID: 28345652 PMCID: PMC5366869 DOI: 10.1038/srep45132] [Citation(s) in RCA: 18] [Impact Index Per Article: 2.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/06/2016] [Accepted: 02/15/2017] [Indexed: 11/13/2022] Open
Abstract
Viral synergism is caused by co-infection of two unrelated viruses, leading to more severe symptoms or increased titres of one or both viruses. Synergistic infection of phloem-restricted poleroviruses and umbraviruses has destructive effects on crop plants. The mechanism underlying this synergy remains elusive. In our study, synergism was observed in co-infections of a polerovirus Brassica yellows virus (BrYV) and an umbravirus Pea enation mosaic virus 2 (PEMV 2) on Nicotiana benthamiana, which led to (1) increased titres of BrYV, (2) appearance of severe symptoms, (3) gain of mechanical transmission capacity of BrYV, (4) broader distribution of BrYV to non-vascular tissues. Besides, profiles of virus-derived small interfering RNAs (vsiRNAs) from BrYV and PEMV 2 in singly and doubly infected plants were obtained by small RNA deep sequencing. Our results showed that accumulation of BrYV vsiRNAs increased tremendously and ratio of positive to negative strand BrYV vsiRNAs differed between singly infected and co-infected plants. Positions to which the BrYV vsiRNAs mapped to the viral genome varied considerably during synergistic infection. Moreover, target genes of vsiRNAs were predicted and annotated. Our results revealed the synergistic characteristics during co-infection of BrYV and PEMV 2, and implied possible effects of synergism have on vsiRNAs.
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Affiliation(s)
- Cui-Ji Zhou
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
| | - Xiao-Yan Zhang
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
| | - Song-Yu Liu
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
| | - Ying Wang
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
| | - Da-Wei Li
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
| | - Jia-Lin Yu
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
| | - Cheng-Gui Han
- State Key Laboratory for Agro-Biotechnology and Ministry of Agriculture Key Laboratory for Plant Pathology, China Agricultural University, Beijing, 100193, P. R. China
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21
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Agrofoglio YC, Delfosse VC, Casse MF, Hopp HE, Kresic IB, Distéfano AJ. Identification of a New Cotton Disease Caused by an Atypical Cotton Leafroll Dwarf Virus in Argentina. PHYTOPATHOLOGY 2017; 107:369-376. [PMID: 28035870 DOI: 10.1094/phyto-09-16-0349-r] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/26/2023]
Abstract
An outbreak of a new disease occurred in cotton (Gossypium hirsutum) fields in northwest Argentina starting in the 2009-10 growing season and is still spreading steadily. The characteristic symptoms of the disease included slight leaf rolling and a bushy phenotype in the upper part of the plant. In this study, we determined the complete nucleotide sequences of two independent virus genomes isolated from cotton blue disease (CBD)-resistant and -susceptible cotton varieties. This virus genome comprised 5,866 nucleotides with an organization similar to that of the genus Polerovirus and was closely related to cotton leafroll dwarf virus, with protein identity ranging from 88 to 98%. The virus was subsequently transmitted to a CBD-resistant cotton variety using Aphis gossypii and symptoms were successfully reproduced. To study the persistence of the virus, we analyzed symptomatic plants from CBD-resistant varieties from different cotton-growing fields between 2013 and 2015 and showed the presence of the same virus strain. In addition, a constructed full-length infectious cDNA clone from the virus caused disease symptoms in systemic leaves of CBD-resistant cotton plants. Altogether, the new leafroll disease in CBD-resistant cotton plants is caused by an atypical cotton leafroll dwarf virus.
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Affiliation(s)
- Yamila C Agrofoglio
- First author: INTA-CICVyA, CONICET, Instituto de Biotecnología, 1686 Buenos Aires; second author: INTA-CICVyA, CONICET, Instituto de Biotecnología and School of Science and Technology, UNSAM, 1653 Buenos Aires; third and fifth authors: EEA Sáenz Peña, INTA, 3700 Chaco, Argentina; and fourth and sixth authors: INTA-CICVyA, Instituto de Biotecnología and DFBMC, FCEyN, UBA, 1428 Buenos Aires
| | - Verónica C Delfosse
- First author: INTA-CICVyA, CONICET, Instituto de Biotecnología, 1686 Buenos Aires; second author: INTA-CICVyA, CONICET, Instituto de Biotecnología and School of Science and Technology, UNSAM, 1653 Buenos Aires; third and fifth authors: EEA Sáenz Peña, INTA, 3700 Chaco, Argentina; and fourth and sixth authors: INTA-CICVyA, Instituto de Biotecnología and DFBMC, FCEyN, UBA, 1428 Buenos Aires
| | - María F Casse
- First author: INTA-CICVyA, CONICET, Instituto de Biotecnología, 1686 Buenos Aires; second author: INTA-CICVyA, CONICET, Instituto de Biotecnología and School of Science and Technology, UNSAM, 1653 Buenos Aires; third and fifth authors: EEA Sáenz Peña, INTA, 3700 Chaco, Argentina; and fourth and sixth authors: INTA-CICVyA, Instituto de Biotecnología and DFBMC, FCEyN, UBA, 1428 Buenos Aires
| | - Horacio E Hopp
- First author: INTA-CICVyA, CONICET, Instituto de Biotecnología, 1686 Buenos Aires; second author: INTA-CICVyA, CONICET, Instituto de Biotecnología and School of Science and Technology, UNSAM, 1653 Buenos Aires; third and fifth authors: EEA Sáenz Peña, INTA, 3700 Chaco, Argentina; and fourth and sixth authors: INTA-CICVyA, Instituto de Biotecnología and DFBMC, FCEyN, UBA, 1428 Buenos Aires
| | - Iván Bonacic Kresic
- First author: INTA-CICVyA, CONICET, Instituto de Biotecnología, 1686 Buenos Aires; second author: INTA-CICVyA, CONICET, Instituto de Biotecnología and School of Science and Technology, UNSAM, 1653 Buenos Aires; third and fifth authors: EEA Sáenz Peña, INTA, 3700 Chaco, Argentina; and fourth and sixth authors: INTA-CICVyA, Instituto de Biotecnología and DFBMC, FCEyN, UBA, 1428 Buenos Aires
| | - Ana J Distéfano
- First author: INTA-CICVyA, CONICET, Instituto de Biotecnología, 1686 Buenos Aires; second author: INTA-CICVyA, CONICET, Instituto de Biotecnología and School of Science and Technology, UNSAM, 1653 Buenos Aires; third and fifth authors: EEA Sáenz Peña, INTA, 3700 Chaco, Argentina; and fourth and sixth authors: INTA-CICVyA, Instituto de Biotecnología and DFBMC, FCEyN, UBA, 1428 Buenos Aires
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22
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Doumayrou J, Sheber M, Bonning BC, Miller WA. Role of Pea Enation Mosaic Virus Coat Protein in the Host Plant and Aphid Vector. Viruses 2016; 8:E312. [PMID: 27869713 PMCID: PMC5127026 DOI: 10.3390/v8110312] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/30/2016] [Revised: 10/14/2016] [Accepted: 11/02/2016] [Indexed: 11/16/2022] Open
Abstract
Understanding the molecular mechanisms involved in plant virus-vector interactions is essential for the development of effective control measures for aphid-vectored epidemic plant diseases. The coat proteins (CP) are the main component of the viral capsids, and they are implicated in practically every stage of the viral infection cycle. Pea enation mosaic virus 1 (PEMV1, Enamovirus, Luteoviridae) and Pea enation mosaic virus 2 (PEMV2, Umbravirus, Tombusviridae) are two RNA viruses in an obligate symbiosis causing the pea enation mosaic disease. Sixteen mutant viruses were generated with mutations in different domains of the CP to evaluate the role of specific amino acids in viral replication, virion assembly, long-distance movement in Pisum sativum, and aphid transmission. Twelve mutant viruses were unable to assemble but were able to replicate in inoculated leaves, move long-distance, and express the CP in newly infected leaves. Four mutant viruses produced virions, but three were not transmissible by the pea aphid, Acyrthosiphon pisum. Three-dimensional modeling of the PEMV CP, combined with biological assays for virion assembly and aphid transmission, allowed for a model of the assembly of PEMV coat protein subunits.
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Affiliation(s)
- Juliette Doumayrou
- Department of Plant Pathology & Microbiology, 351 Bessey Hall, Iowa State University, Ames, IA 50011, USA.
| | - Melissa Sheber
- Department of Plant Pathology & Microbiology, 351 Bessey Hall, Iowa State University, Ames, IA 50011, USA.
| | - Bryony C Bonning
- Department of Entomology, 339 Science II, Iowa State University, Ames, IA 50011, USA.
| | - W Allen Miller
- Department of Plant Pathology & Microbiology, 351 Bessey Hall, Iowa State University, Ames, IA 50011, USA.
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23
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Nakazono-Nagaoka E, Fujikawa T, Iwanami T. Nucleotide sequences of Japanese isolates of citrus vein enation virus. Arch Virol 2016; 162:879-883. [PMID: 27848014 DOI: 10.1007/s00705-016-3139-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2016] [Accepted: 10/28/2016] [Indexed: 11/26/2022]
Abstract
The genomic sequences of five Japanese isolates of citrus vein enation virus (CVEV) isolates that induce vein enation were determined and compared with that of the Spanish isolate VE-1. The nucleotide sequences of all Japanese isolates were 5,983 nt in length. The genomic RNA of Japanese isolates had five potential open reading frames (ORF 0, ORF 1, ORF 2, ORF 3, and ORF 5) in the positive-sense strand. The nucleotide sequence identity among the Japanese isolates and Spanish isolate VE-1 ranged from 98.0% to 99.8%. Comparison of the partial amino acid sequences of ten Japanese isolates and three Spanish isolates suggested that four amino acid residues, at positions of 83, 104, and 113 in ORF 2 and position 41 in ORF 5, might be unique to some Japanese isolates.
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Affiliation(s)
- Eiko Nakazono-Nagaoka
- NARO Institute of Fruit Tree and Tea Science, National Agriculture and Food Research Organization (NARO), Fujimoto 2-1, Tsukuba, Ibaraki, 305-8605, Japan
| | - Takashi Fujikawa
- NARO Institute of Fruit Tree and Tea Science, National Agriculture and Food Research Organization (NARO), Fujimoto 2-1, Tsukuba, Ibaraki, 305-8605, Japan
| | - Toru Iwanami
- Apple Research Station, NARO Institute of Fruit Tree and Tea Science, Nabeyashiki 92-24, Shimokuriyagawa, Morioka, Iwate, 020-0123, Japan.
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Tang SL, Linz LB, Bonning BC, Pohl NLB. Automated Solution-Phase Synthesis of Insect Glycans to Probe the Binding Affinity of Pea Enation Mosaic Virus. J Org Chem 2015; 80:10482-9. [PMID: 26457763 PMCID: PMC4640232 DOI: 10.1021/acs.joc.5b01428] [Citation(s) in RCA: 27] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/23/2015] [Indexed: 11/29/2022]
Abstract
Pea enation mosaic virus (PEMV)--a plant RNA virus transmitted exclusively by aphids--causes disease in multiple food crops. However, the aphid-virus interactions required for disease transmission are poorly understood. For virus transmission, PEMV binds to a heavily glycosylated receptor aminopeptidase N in the pea aphid gut and is transcytosed across the gut epithelium into the aphid body cavity prior to release in saliva as the aphid feeds. To investigate the role of glycans in PEMV-aphid interactions and explore the possibility of viral control through blocking a glycan interaction, we synthesized insect N-glycan terminal trimannosides by automated solution-phase synthesis. The route features a mannose building block with C-5 ester enforcing a β-linkage, which also provides a site for subsequent chain extension. The resulting insect N-glycan terminal trimannosides with fluorous tags were used in a fluorous microarray to analyze binding with fluorescein isothiocyanate-labeled PEMV; however, no specific binding between the insect glycan and PEMV was detected. To confirm these microarray results, we removed the fluorous tag from the trimannosides for isothermal titration calorimetry studies with unlabeled PEMV. The ITC studies confirmed the microarray results and suggested that this particular glycan-PEMV interaction is not involved in virus uptake and transport through the aphid.
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Affiliation(s)
- Shu-Lun Tang
- Department
of Chemistry, Hach Hall, Iowa State University, Ames, Iowa 50011, United States
| | - Lucas B. Linz
- Department
of Entomology, 339 Science
II, Iowa State University, Ames, Iowa 50011, United States
| | - Bryony C. Bonning
- Department
of Entomology, 339 Science
II, Iowa State University, Ames, Iowa 50011, United States
| | - Nicola L. B. Pohl
- Department
of Chemistry, Simon Hall, Indiana University, Bloomington, Indiana 47405, United States
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Kassem MA, Gosalvez B, Garzo E, Fereres A, Gómez-Guillamón ML, Aranda MA. Resistance to Cucurbit aphid-borne yellows virus in Melon Accession TGR-1551. PHYTOPATHOLOGY 2015; 105:1389-1396. [PMID: 26075973 DOI: 10.1094/phyto-02-15-0041-r] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/04/2023]
Abstract
The genetic control of resistance to Cucurbit aphid-borne yellows virus (CABYV; genus Polerovirus, family Luteoviridae) in the TGR-1551 melon accession was studied through agroinoculation of a genetic family obtained from the cross between this accession and the susceptible Spanish cultivar 'Bola de Oro'. Segregation analyses were consistent with the hypothesis that one dominant gene and at least two more modifier genes confer resistance; one of these additional genes is likely present in the susceptible parent 'Bola de Oro'. Local and systemic accumulation of the virus was analyzed in a time course experiment, showing that TGR-1551 resistance was expressed systemically as a significant reduction of virus accumulation compared with susceptible controls, but not locally in agroinoculated cotyledons. In aphid transmission experiments, CABYV inoculation by aphids was significantly reduced in TGR-1551 plants, although the virus was acquired at a similar rate from TGR-1551 as from susceptible plants. Results of feeding behavior studies using the DC electrical penetration graph technique suggested that viruliferous aphids can salivate and feed from the phloem of TGR-1551 plants and that the observed reduction in virus transmission efficiency is not related to reduced salivation by Aphis gossypii in phloem sieve elements. Since the virus is able to accumulate to normal levels in agroinoculated tissues, our results suggest that resistance of TGR-1551 plants to CABYV is related to impairment of virus movement or translocation after it reaches the phloem sieve elements.
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Affiliation(s)
- Mona A Kassem
- First, second, and sixth authors: Centro de Edafología y Biología Aplicada del Segura (CEBAS), Consejo Superior de Investigaciones Científicas (CSIC), P.O. Box 164, 30100 Espinardo, Murcia, Spain; third and fourth authors: Instituto de Ciencias Agrarias (ICA), CSIC, Serrano 115 dpdo, 28006, Madrid, Spain; and fifth author: Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), 29750 Algarrobo-Costa, Málaga, Spain
| | - Blanca Gosalvez
- First, second, and sixth authors: Centro de Edafología y Biología Aplicada del Segura (CEBAS), Consejo Superior de Investigaciones Científicas (CSIC), P.O. Box 164, 30100 Espinardo, Murcia, Spain; third and fourth authors: Instituto de Ciencias Agrarias (ICA), CSIC, Serrano 115 dpdo, 28006, Madrid, Spain; and fifth author: Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), 29750 Algarrobo-Costa, Málaga, Spain
| | - Elisa Garzo
- First, second, and sixth authors: Centro de Edafología y Biología Aplicada del Segura (CEBAS), Consejo Superior de Investigaciones Científicas (CSIC), P.O. Box 164, 30100 Espinardo, Murcia, Spain; third and fourth authors: Instituto de Ciencias Agrarias (ICA), CSIC, Serrano 115 dpdo, 28006, Madrid, Spain; and fifth author: Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), 29750 Algarrobo-Costa, Málaga, Spain
| | - Alberto Fereres
- First, second, and sixth authors: Centro de Edafología y Biología Aplicada del Segura (CEBAS), Consejo Superior de Investigaciones Científicas (CSIC), P.O. Box 164, 30100 Espinardo, Murcia, Spain; third and fourth authors: Instituto de Ciencias Agrarias (ICA), CSIC, Serrano 115 dpdo, 28006, Madrid, Spain; and fifth author: Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), 29750 Algarrobo-Costa, Málaga, Spain
| | - Maria Luisa Gómez-Guillamón
- First, second, and sixth authors: Centro de Edafología y Biología Aplicada del Segura (CEBAS), Consejo Superior de Investigaciones Científicas (CSIC), P.O. Box 164, 30100 Espinardo, Murcia, Spain; third and fourth authors: Instituto de Ciencias Agrarias (ICA), CSIC, Serrano 115 dpdo, 28006, Madrid, Spain; and fifth author: Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), 29750 Algarrobo-Costa, Málaga, Spain
| | - Miguel A Aranda
- First, second, and sixth authors: Centro de Edafología y Biología Aplicada del Segura (CEBAS), Consejo Superior de Investigaciones Científicas (CSIC), P.O. Box 164, 30100 Espinardo, Murcia, Spain; third and fourth authors: Instituto de Ciencias Agrarias (ICA), CSIC, Serrano 115 dpdo, 28006, Madrid, Spain; and fifth author: Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga-Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), 29750 Algarrobo-Costa, Málaga, Spain
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ElSayed AI, Komor E, Boulila M, Viswanathan R, Odero DC. Biology and management of sugarcane yellow leaf virus: an historical overview. Arch Virol 2015; 160:2921-34. [PMID: 26424197 DOI: 10.1007/s00705-015-2618-5] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/17/2014] [Accepted: 09/17/2015] [Indexed: 02/05/2023]
Abstract
Sugarcane yellow leaf virus (SCYLV) is one of the most widespread viruses causing disease in sugarcane worldwide. The virus has been responsible for drastic economic losses in most sugarcane-growing regions and remains a major concern for sugarcane breeders. Infection with SCYLV results in intense yellowing of the midrib, which extends to the leaf blade, followed by tissue necrosis from the leaf tip towards the leaf base. Such symptomatic leaves are usually characterized by increased respiration, reduced photosynthesis, a change in the ratio of hexose to sucrose, and an increase in starch content. SCYLV infection affects carbon assimilation and metabolism in sugarcane, resulting in stunted plants in severe cases. SCYLV is mainly propagated by planting cuttings from infected stalks. Phylogenetic analysis has confirmed the worldwide distribution of at least eight SCYLV genotypes (BRA, CHN1, CHN3, CUB, HAW, IND, PER, and REU). Evidence of recombination has been found in the SCYLV genome, which contains potential recombination signals in ORF1/2 and ORF5. This shows that recombination plays an important role in the evolution of SCYLV.
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Affiliation(s)
- Abdelaleim Ismail ElSayed
- Biochemistry Department, Faculty of Agriculture, Zagazig University, 44519, Zagazig, Egypt. .,Everglades Research and Education Center, Institute of Food and Agricultural Sciences, University of Florida, 3200 East Palm Beach Road, Belle Glade, FL, 33430-4702, USA.
| | - Ewald Komor
- Plant Physiology, University Bayreuth, 95440, Bayreuth, Germany
| | - Moncef Boulila
- Institut de l'Olivier, B.P. 14, 4061, Sousse Ibn-khaldoun, Tunisia
| | - Rasappa Viswanathan
- Division of Crop Protection, Sugarcane Breeding Institute, Indian Council of Agricultural Research, Coimbatore, 641007, India
| | - Dennis C Odero
- Everglades Research and Education Center, Institute of Food and Agricultural Sciences, University of Florida, 3200 East Palm Beach Road, Belle Glade, FL, 33430-4702, USA
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27
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Csorba T, Kontra L, Burgyán J. viral silencing suppressors: Tools forged to fine-tune host-pathogen coexistence. Virology 2015; 479-480:85-103. [DOI: 10.1016/j.virol.2015.02.028] [Citation(s) in RCA: 368] [Impact Index Per Article: 40.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/18/2014] [Revised: 01/31/2015] [Accepted: 02/16/2015] [Indexed: 12/27/2022]
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28
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Phylogenetic relationships and the occurrence of interspecific recombination between beet chlorosis virus (BChV) and Beet mild yellowing virus (BMYV). Arch Virol 2014; 160:429-33. [DOI: 10.1007/s00705-014-2245-6] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/07/2014] [Accepted: 09/24/2014] [Indexed: 10/24/2022]
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29
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Gopal A, Egecioglu DE, Yoffe AM, Ben-Shaul A, Rao ALN, Knobler CM, Gelbart WM. Viral RNAs are unusually compact. PLoS One 2014; 9:e105875. [PMID: 25188030 PMCID: PMC4154850 DOI: 10.1371/journal.pone.0105875] [Citation(s) in RCA: 32] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/25/2014] [Accepted: 07/21/2014] [Indexed: 01/28/2023] Open
Abstract
A majority of viruses are composed of long single-stranded genomic RNA molecules encapsulated by protein shells with diameters of just a few tens of nanometers. We examine the extent to which these viral RNAs have evolved to be physically compact molecules to facilitate encapsulation. Measurements of equal-length viral, non-viral, coding and non-coding RNAs show viral RNAs to have among the smallest sizes in solution, i.e., the highest gel-electrophoretic mobilities and the smallest hydrodynamic radii. Using graph-theoretical analyses we demonstrate that their sizes correlate with the compactness of branching patterns in predicted secondary structure ensembles. The density of branching is determined by the number and relative positions of 3-helix junctions, and is highly sensitive to the presence of rare higher-order junctions with 4 or more helices. Compact branching arises from a preponderance of base pairing between nucleotides close to each other in the primary sequence. The density of branching represents a degree of freedom optimized by viral RNA genomes in response to the evolutionary pressure to be packaged reliably. Several families of viruses are analyzed to delineate the effects of capsid geometry, size and charge stabilization on the selective pressure for RNA compactness. Compact branching has important implications for RNA folding and viral assembly.
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Affiliation(s)
- Ajaykumar Gopal
- Department of Chemistry & Biochemistry, University of California Los Angeles, Los Angeles, California, United States of America
| | - Defne E. Egecioglu
- Department of Chemistry & Biochemistry, University of California Los Angeles, Los Angeles, California, United States of America
| | - Aron M. Yoffe
- Department of Chemistry & Biochemistry, University of California Los Angeles, Los Angeles, California, United States of America
| | - Avinoam Ben-Shaul
- Institute of Chemistry & The Fritz Haber Research Center, The Hebrew University of Jerusalem, Givat Ram, Jerusalem, Israel
| | - Ayala L. N. Rao
- Department of Plant Pathology, University of California Riverside, Riverside, California, United States of America
| | - Charles M. Knobler
- Department of Chemistry & Biochemistry, University of California Los Angeles, Los Angeles, California, United States of America
| | - William M. Gelbart
- Department of Chemistry & Biochemistry, University of California Los Angeles, Los Angeles, California, United States of America
- * E-mail:
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30
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Lotos L, Efthimiou K, Maliogka VI, Katis NI. Generic detection of poleroviruses using an RT-PCR assay targeting the RdRp coding sequence. J Virol Methods 2013; 198:1-11. [PMID: 24374125 DOI: 10.1016/j.jviromet.2013.12.007] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/25/2013] [Revised: 11/22/2013] [Accepted: 12/14/2013] [Indexed: 10/25/2022]
Abstract
In this study a two-step RT-PCR assay was developed for the generic detection of poleroviruses. The RdRp coding region was selected as the primers' target, since it differs significantly from that of other members in the family Luteoviridae and its sequence can be more informative than other regions in the viral genome. Species specific RT-PCR assays targeting the same region were also developed for the detection of the six most widespread poleroviral species (Beet mild yellowing virus, Beet western yellows virus, Cucurbit aphid-borne virus, Carrot red leaf virus, Potato leafroll virus and Turnip yellows virus) in Greece and the collection of isolates. These isolates along with other characterized ones were used for the evaluation of the generic PCR's detection range. The developed assay efficiently amplified a 593bp RdRp fragment from 46 isolates of 10 different Polerovirus species. Phylogenetic analysis using the generic PCR's amplicon sequence showed that although it cannot accurately infer evolutionary relationships within the genus it can differentiate poleroviruses at the species level. Overall, the described generic assay could be applied for the reliable detection of Polerovirus infections and, in combination with the specific PCRs, for the identification of new and uncharacterized species in the genus.
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Affiliation(s)
- Leonidas Lotos
- Aristotle University of Thessaloniki, School of Agriculture, Laboratory of Plant Pathology, 54124 Thessaloniki, Greece
| | - Konstantinos Efthimiou
- Aristotle University of Thessaloniki, School of Agriculture, Laboratory of Plant Pathology, 54124 Thessaloniki, Greece
| | - Varvara I Maliogka
- Aristotle University of Thessaloniki, School of Agriculture, Laboratory of Plant Pathology, 54124 Thessaloniki, Greece.
| | - Nikolaos I Katis
- Aristotle University of Thessaloniki, School of Agriculture, Laboratory of Plant Pathology, 54124 Thessaloniki, Greece
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31
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Kassem MA, Juarez M, Gómez P, Mengual CM, Sempere RN, Plaza M, Elena SF, Moreno A, Fereres A, Aranda MA. Genetic diversity and potential vectors and reservoirs of Cucurbit aphid-borne yellows virus in southeastern Spain. PHYTOPATHOLOGY 2013; 103:1188-1197. [PMID: 23802870 DOI: 10.1094/phyto-11-12-0280-r] [Citation(s) in RCA: 19] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
The genetic variability of a Cucurbit aphid-borne yellows virus (CABYV) (genus Polerovirus, family Luteoviridae) population was evaluated by determining the nucleotide sequences of two genomic regions of CABYV isolates collected in open-field melon and squash crops during three consecutive years in Murcia (southeastern Spain). A phylogenetic analysis showed the existence of two major clades. The sequences did not cluster according to host, year, or locality of collection, and nucleotide similarities among isolates were 97 to 100 and 94 to 97% within and between clades, respectively. The ratio of nonsynonymous to synonymous nucleotide substitutions reflected that all open reading frames have been under purifying selection. Estimates of the population's genetic diversity were of the same magnitude as those previously reported for other plant virus populations sampled at larger spatial and temporal scales, suggesting either the presence of CABYV in the surveyed area long before it was first described, multiple introductions, or a particularly rapid diversification. We also determined the full-length sequences of three isolates, identifying the occurrence and location of recombination events along the CABYV genome. Furthermore, our field surveys indicated that Aphis gossypii was the major vector species of CABYV and the most abundant aphid species colonizing melon fields in the Murcia (Spain) region. Our surveys also suggested the importance of the weed species Ecballium elaterium as an alternative host and potential virus reservoir.
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Vives MC, Velázquez K, Pina JA, Moreno P, Guerri J, Navarro L. Identification of a new enamovirus associated with citrus vein enation disease by deep sequencing of small RNAs. PHYTOPATHOLOGY 2013; 103:1077-86. [PMID: 23718835 DOI: 10.1094/phyto-03-13-0068-r] [Citation(s) in RCA: 37] [Impact Index Per Article: 3.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 05/05/2023]
Abstract
To identify the causal agent of citrus vein enation disease, we examined by deep sequencing (Solexa-Illumina) the small RNA (sRNA) fraction from infected and healthy Etrog citron plants. Our results showed that virus-derived sRNAs (vsRNAs): (i) represent about 14.21% of the total sRNA population, (ii) are predominantly of 21 and 24 nucleotides with a biased distribution of their 5' nucleotide and with a clear prevalence of those of (+) polarity, and (iii) derive from all the viral genome, although a prominent hotspot is present at a 5'-proximal region. Contigs assembled from vsRNAs showed similarity with luteovirus sequences, particularly with Pea enation mosaic virus, the type member of the genus Enamovirus. The genomic RNA (gRNA) sequence of a new virus, provisionally named Citrus vein enation virus (CVEV), was completed and characterized. The CVEV gRNA was found to be single-stranded, positive-sense, with a size of 5,983 nucleotides and five open reading frames. Phylogenetic comparisons based on amino acid signatures of the RNA polymerase and the coat protein clearly classifies CVEV within the genus Enamovirus. Dot-blot hybridization and reverse transcription-polymerase chain reaction tests were developed to detect CVEV in plants affected by vein enation disease. CVEV detection by these methods has already been adopted for use in the Spanish citrus quarantine, sanitation, and certification programs.
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Delfosse VC, Casse MF, Agrofoglio YC, Kresic IB, Hopp HE, Ziegler-Graff V, Distéfano AJ. Agroinoculation of a full-length cDNA clone of cotton leafroll dwarf virus (CLRDV) results in systemic infection in cotton and the model plant Nicotiana benthamiana. Virus Res 2013; 175:64-70. [PMID: 23623981 DOI: 10.1016/j.virusres.2013.04.007] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/04/2013] [Revised: 04/11/2013] [Accepted: 04/17/2013] [Indexed: 10/26/2022]
Abstract
Cotton blue disease is the most important viral disease of cotton in the southern part of South America. Its etiological agent, cotton leafroll dwarf virus (CLRDV), is specifically transmitted to host plants by the aphid vector (Aphis gossypii) and any attempt to perform mechanical inoculations of this virus into its host has failed. This limitation has held back the study of this virus and the disease it causes. In this study, a full-length cDNA of CLRDV was constructed and expressed in vivo under the control of cauliflower mosaic virus 35S promoter. An agrobacterium-mediated inoculation system for the cloned cDNA construct of CLRDV was developed. Northern and immunoblot analyses showed that after several weeks the replicon of CLRDV delivered by Agrobacterium tumefaciens in Gossypium hirsutum plants gave rise to a systemic infection and typical blue disease symptoms correlated to the presence of viral RNA and P3 capsid protein. We also demonstrated that the virus that accumulated in the agroinfected plants was transmissible by the vector A. gossypii. This result confirms the production of biologically active transmissible virions. In addition, the clone was infectious in Nicotiana benthamiana plants which developed interveinal chlorosis three weeks postinoculation and CLRDV was detected both in the inoculated and systemic leaves. Attempts to agroinfect Arabidopsis thaliana plants were irregularly successful. Although no symptoms were observed, the P3 capsid protein as well as the genomic and subgenomic RNAs were irregularly detected in systemic leaves of some agroinfiltrated plants. The inefficient infection rate infers that A. thaliana is a poor host for CLRDV. This is the first report on the construction of a biologically-active infectious full-length clone of a cotton RNA virus showing successful agroinfection of host and non-host plants. The system herein developed will be useful to study CLRDV viral functions and plant-virus interactions using a reverse genetic approach.
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Reinbold C, Lacombe S, Ziegler-Graff V, Scheidecker D, Wiss L, Beuve M, Caranta C, Brault V. Closely related poleroviruses depend on distinct translation initiation factors to infect Arabidopsis thaliana. MOLECULAR PLANT-MICROBE INTERACTIONS : MPMI 2013; 26:257-265. [PMID: 23013438 DOI: 10.1094/mpmi-07-12-0174-r] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/01/2023]
Abstract
In addition to being essential for translation of eukaryotic mRNA, translation initiation factors are also key components of plant-virus interactions. In order to address the involvement of these factors in the infectious cycle of poleroviruses (aphid-transmitted, phloem-limited viruses), the accumulation of three poleroviruses was followed in Arabidopsis thaliana mutant lines impaired in the synthesis of translation initiation factors in the eIF4E and eIF4G families. We found that efficient accumulation of Turnip yellows virus (TuYV) in A. thaliana relies on the presence of eIF (iso)4G1, whereas Beet mild yellowing virus (BMYV) and Beet western yellows virus-USA (BWYV-USA) rely, instead, on eIF4E1. A role for these factors in the infectious processes of TuYV and BMYV was confirmed by direct interaction in yeast between these specific factors and the 5' viral genome-linked protein of the related virus. Although the underlying molecular mechanism is still unknown, this study reveals a totally unforeseen situation in which closely related viruses belonging to the same genus use different translation initiation factors for efficient infection of A. thaliana.
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Affiliation(s)
- C Reinbold
- INRA, UMR 1131 SVQV, 28 rue de Herrlisheim, F-68021 Colmar, France
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35
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Szittya G, Burgyán J. RNA Interference-Mediated Intrinsic Antiviral Immunity in Plants. Curr Top Microbiol Immunol 2013; 371:153-81. [DOI: 10.1007/978-3-642-37765-5_6] [Citation(s) in RCA: 65] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/17/2022]
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36
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Romanel E, Silva TF, Corrêa RL, Farinelli L, Hawkins JS, Schrago CEG, Vaslin MFS. Global alteration of microRNAs and transposon-derived small RNAs in cotton (Gossypium hirsutum) during Cotton leafroll dwarf polerovirus (CLRDV) infection. PLANT MOLECULAR BIOLOGY 2012; 80:443-60. [PMID: 22987114 DOI: 10.1007/s11103-012-9959-1] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/15/2012] [Accepted: 08/22/2012] [Indexed: 05/13/2023]
Abstract
Small RNAs (sRNAs) are a class of non-coding RNAs ranging from 20- to 40-nucleotides (nts) that are present in most eukaryotic organisms. In plants, sRNAs are involved in the regulation of development, the maintenance of genome stability and the antiviral response. Viruses, however, can interfere with and exploit the silencing-based regulatory networks, causing the deregulation of sRNAs, including small interfering RNAs (siRNAs) and microRNAs (miRNAs). To understand the impact of viral infection on the plant sRNA pathway, we deep sequenced the sRNAs in cotton leaves infected with Cotton leafroll dwarf virus (CLRDV), which is a member of the economically important virus family Luteoviridae. A total of 60 putative conserved cotton miRNAs were identified, including 19 new miRNA families that had not been previously described in cotton. Some of these miRNAs were clearly misregulated during viral infection, and their possible role in symptom development and disease progression is discussed. Furthermore, we found that the 24-nt heterochromatin-associated siRNAs were quantitatively and qualitatively altered in the infected plant, leading to the reactivation of at least one cotton transposable element. This is the first study to explore the global alterations of sRNAs in virus-infected cotton plants. Our results indicate that some CLRDV-induced symptoms may be correlated with the deregulation of miRNA and/or epigenetic networks.
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Affiliation(s)
- Elisson Romanel
- Departamento de Genética, Instituto de Biologia, Universidade Federal do Rio de Janeiro, Rio de Janeiro, Brazil.
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37
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Ahmadvand R, Takács A, Taller J, Wolf I, Polgár Z. Potato viruses and resistance genes in potato. ACTA ACUST UNITED AC 2012. [DOI: 10.1556/aagr.60.2012.3.10] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/19/2022]
Abstract
Potato (Solanum tuberosum L.) is the fourth most important food crop in the world. It is the most economically valuable and well-known member of the plant family Solanaceae. Potato is the host of many pathogens, including fungi, bacteria, Phytoplasmas, viruses, viroids and nematodes, which cause reductions in the quantity and quality of yield. Apart from the late blight fungus [Phytophthora infestans (Mont.) de Bary] viruses are the most important pathogens, with over 40 viruses and virus-like pathogens infecting cultivated potatoes in the field, among which Potato virus Y (PVY), Potato leaf roll virus (PLRV), Potato virus X (PVX), Potato virus A (PVA), Potato virus S (PVS) and Potato virus M (PVM) are some of the most important viruses in the world. In this review, their characteristics and types of resistance to them will be discussed.
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Affiliation(s)
| | - A. Takács
- 3 University of Pannonia Plant Protection Institute Keszthely Hungary
| | - J. Taller
- 4 University of Pannonia Department of Plant Science and Biotechnology, Georgikon Faculty Keszthely Hungary
| | - I. Wolf
- 1 University of Pannonia Potato Research Centre, Centre of Agricultural Sciences Keszthely Hungary
| | - Z. Polgár
- 1 University of Pannonia Potato Research Centre, Centre of Agricultural Sciences Keszthely Hungary
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38
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Xia Z, Cao R, Sun K, Zhang H. The movement protein of barley yellow dwarf virus-GAV self-interacts and forms homodimers in vitro and in vivo. Arch Virol 2012; 157:1233-9. [PMID: 22437255 DOI: 10.1007/s00705-012-1288-9] [Citation(s) in RCA: 7] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/18/2011] [Accepted: 02/14/2012] [Indexed: 10/28/2022]
Abstract
The 17-kDa movement protein (MP) of the GAV strain of barley yellow dwarf virus (BYDV-GAV) can bind the viral RNA and target to the nucleus. However, much less is known about the active form of the MP in planta. In this study, the ability of the MP to self-interact was analyzed by yeast two-hybrid assay and bimolecular fluorescence complementation. The BYDV-GAV MP has a strong potential to self-interact in vitro and in vivo, and self-interaction was mediated by the N-terminal domain spanning the second α-helix (residues 17-39). Chemical cross-linking and heterologous MP expression from a pea early browning virus (PEBV) vector further showed that MP self-interacts to form homodimers in vitro and in planta. Interestingly, the N-terminal domain necessary for MP self-interaction has previously been identified as important for nuclear targeting. Based on these findings, a functional link between MP self-interaction and nuclear targeting is discussed.
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Affiliation(s)
- Zongliang Xia
- Key Laboratory of Physiology, Ecology and Genetic Improvement of Food Crops in Henan Province, College of Life Science, Henan Agricultural University, Zhengzhou 450002, People's Republic of China.
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Abstract
Potatoes are an important crop in Mediterranean countries both for local consumption and for export to other countries, mainly during the winter. Many Mediterranean countries import certified seed potato in addition to their own seed production. The local seeds are mainly used for planting in the autumn and winter, while the imported seed are used for early and late spring plantings. Potato virus Y is the most important virus in Mediterranean countries, present mainly in the autumn plantings. The second important virus is Potato leafroll virus, though in recent years its importance seems to be decreasing. Potato virus X, Potato virus A, Potato virus S, Potato virus M, and the viroid, Potato spindle tuber viroid, were also recorded in several Mediterranean countries. For each virus the main strains, transmission, characterization of the virus particle, its genome organization, detection, and control methods including transgenic approaches will be discussed.
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Affiliation(s)
- Gad Loebenstein
- Department of Virology, Agricultural Research Organization, Bet Dagan, Israel
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40
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Profile of small interfering RNAs from cotton plants infected with the polerovirus Cotton leafroll dwarf virus. BMC Mol Biol 2011; 12:40. [PMID: 21864377 PMCID: PMC3189115 DOI: 10.1186/1471-2199-12-40] [Citation(s) in RCA: 48] [Impact Index Per Article: 3.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2011] [Accepted: 08/24/2011] [Indexed: 12/23/2022] Open
Abstract
BACKGROUND In response to infection, viral genomes are processed by Dicer-like (DCL) ribonuclease proteins into viral small RNAs (vsRNAs) of discrete sizes. vsRNAs are then used as guides for silencing the viral genome. The profile of vsRNAs produced during the infection process has been extensively studied for some groups of viruses. However, nothing is known about the vsRNAs produced during infections of members of the economically important family Luteoviridae, a group of phloem-restricted viruses. Here, we report the characterization of a population of vsRNAs from cotton plants infected with Cotton leafroll dwarf virus (CLRDV), a member of the genus Polerovirus, family Luteoviridae. RESULTS Deep sequencing of small RNAs (sRNAs) from leaves of CLRDV-infected cotton plants revealed that the vsRNAs were 21- to 24-nucleotides (nt) long and that their sequences matched the viral genome, with higher frequencies of matches in the 3- region. There were equivalent amounts of sense and antisense vsRNAs, and the 22-nt class of small RNAs was predominant. During infection, cotton Dcl transcripts appeared to be up-regulated, while Dcl2 appeared to be down-regulated. CONCLUSIONS This is the first report on the profile of sRNAs in a plant infected with a virus from the family Luteoviridae. Our sequence data strongly suggest that virus-derived double-stranded RNA functions as one of the main precursors of vsRNAs. Judging by the profiled size classes, all cotton DCLs might be working to silence the virus. The possible causes for the unexpectedly high accumulation of 22-nt vsRNAs are discussed. CLRDV is the causal agent of Cotton blue disease, which occurs worldwide. Our results are an important contribution for understanding the molecular mechanisms involved in this and related diseases.
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41
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Arif M, Azhar U, Arshad M, Zafar Y, Mansoor S, Asad S. Engineering broad-spectrum resistance against RNA viruses in potato. Transgenic Res 2011; 21:303-11. [PMID: 21701953 DOI: 10.1007/s11248-011-9533-7] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/22/2010] [Accepted: 06/15/2011] [Indexed: 10/18/2022]
Abstract
RNA silencing technology has become the tool of choice for inducing resistance against viruses in plants. A significant discovery of this technology is that double-stranded RNA (dsRNA), which is diced into small interfering RNAs (siRNAs), is a potent trigger for RNA silencing. By exploiting this phenomenon in transgenic plants, it is possible to confer high level of virus resistance by specific targeting of cognate viral RNA. In order to maximize the efficiency and versatility of the vector-based siRNA approach, we have constructed a chimeric expression vector containing three partial gene sequences derived from the ORF2 gene of Potato virus X, Helper Component Protease gene of Potato virus Y and Coat protein gene of Potato leaf roll virus. Solanum tuberosum cv. Desiree and Kuroda were transformed with this chimeric gene cassette via Agrobacterium tumefaciens-mediated transformation and transgenic status was confirmed by PCR, Southern and double antibody sandwich ELISA detection. Due to simultaneous RNA silencing, as demonstrated by accumulation of specific siRNAs, the expression of partial triple-gene sequence cassette depicted 20% of the transgenic plants are immune against all three viruses. Thus, expression of a single transgene construct can effectively confer resistance to multiple viruses in transgenic plants.
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Affiliation(s)
- M Arif
- Agricultural Biotechnology Division, National Institute for Biotechnology and Genetic Engineering, Faisalabad, Pakistan
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42
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Burgyán J, Havelda Z. Viral suppressors of RNA silencing. TRENDS IN PLANT SCIENCE 2011; 16:265-72. [PMID: 21439890 DOI: 10.1016/j.tplants.2011.02.010] [Citation(s) in RCA: 291] [Impact Index Per Article: 22.4] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/28/2010] [Revised: 02/14/2011] [Accepted: 02/22/2011] [Indexed: 05/03/2023]
Abstract
The infection and replication of viruses in the host induce diverse mechanisms for combating viral infection. One of the best-studied antiviral defence mechanisms is based on RNA silencing. Consistently, several viral suppressors of RNA silencing (VSRs) have been identified from almost all plant virus genera, which are surprisingly diverse within and across kingdoms, exhibiting no obvious sequence similarities. VSRs efficiently inhibit host antiviral responses by interacting with the key components of cellular silencing machinery, often mimicking their normal cellular functions. Recent findings have revealed that the impact of VSRs on endogenous pathways is more complex and profound than had been estimated thus far. This review highlights the current understanding of and new insights into the mechanisms and functions of plant VSRs.
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Affiliation(s)
- József Burgyán
- Istituto di Virologia Vegetale, CNR, Strada Delle Cacce 73, Torino, Italy.
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43
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Shimura H, Pantaleo V. Viral induction and suppression of RNA silencing in plants. BIOCHIMICA ET BIOPHYSICA ACTA-GENE REGULATORY MECHANISMS 2011; 1809:601-12. [PMID: 21550428 DOI: 10.1016/j.bbagrm.2011.04.005] [Citation(s) in RCA: 40] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 02/23/2011] [Revised: 04/15/2011] [Accepted: 04/18/2011] [Indexed: 11/19/2022]
Abstract
RNA silencing in plants and insects can function as a defence mechanism against invading viruses. RNA silencing-based antiviral defence entails the production of virus-derived small interfering RNAs which guide specific antiviral effector complexes to inactivate viral genomes. As a response to this defence system, viruses have evolved viral suppressors of RNA silencing (VSRs) to overcome the host defence. VSRs can act on various steps of the different silencing pathways. Viral infection can have a profound impact on the host endogenous RNA silencing regulatory pathways; alterations of endogenous short RNA expression profile and gene expression are often associated with viral infections and their symptoms. Here we discuss our current understanding of the main steps of RNA-silencing responses to viral invasion in plants and the effects of VSRs on endogenous pathways. This article is part of a Special Issue entitled: MicroRNAs in viral gene regulation.
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Affiliation(s)
- Hanako Shimura
- Research Faculty of Agriculture-Hokkaido University, Sapporo, Japan
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Wu B, Blanchard-Letort A, Liu Y, Zhou G, Wang X, Elena SF. Dynamics of molecular evolution and phylogeography of Barley yellow dwarf virus-PAV. PLoS One 2011; 6:e16896. [PMID: 21326861 PMCID: PMC3033904 DOI: 10.1371/journal.pone.0016896] [Citation(s) in RCA: 23] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/19/2010] [Accepted: 01/05/2011] [Indexed: 11/19/2022] Open
Abstract
Barley yellow dwarf virus (BYDV) species PAV occurs frequently in irrigated wheat fields worldwide and can be efficiently transmitted by aphids. Isolates of BYDV-PAV from different countries show great divergence both in genomic sequences and pathogenicity. Despite its economical importance, the genetic structure of natural BYDV-PAV populations, as well as of the mechanisms maintaining its high diversity, remain poorly explored. In this study, we investigate the dynamics of BYDV-PAV genome evolution utilizing time-structured data sets of complete genomic sequences from 58 isolates from different hosts obtained worldwide. First, we observed that BYDV-PAV exhibits a high frequency of homologous recombination. Second, our analysis revealed that BYDV-PAV genome evolves under purifying selection and at a substitution rate similar to other RNA viruses (3.158×10(-4) nucleotide substitutions/site/year). Phylogeography analyses show that the diversification of BYDV-PAV can be explained by local geographic adaptation as well as by host-driven adaptation. These results increase our understanding of the diversity, molecular evolutionary characteristics and epidemiological properties of an economically important plant RNA virus.
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Affiliation(s)
- Beilei Wu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, People's Republic of China
| | - Alexandra Blanchard-Letort
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain
| | - Yan Liu
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, People's Republic of China
| | - Guanghe Zhou
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, People's Republic of China
| | - Xifeng Wang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences, Beijing, People's Republic of China
| | - Santiago F. Elena
- Instituto de Biología Molecular y Celular de Plantas, Consejo Superior de Investigaciones Científicas-Universidad Politécnica de Valencia, València, Spain
- The Santa Fe Institute, Santa Fe, New Mexico, United States of America
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45
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A novel strain of Beet western yellows virus infecting sugar beet with two distinct genotypes differing in the 5′-terminal half of genome. Virus Genes 2010; 42:141-9. [DOI: 10.1007/s11262-010-0553-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/05/2010] [Accepted: 11/08/2010] [Indexed: 11/26/2022]
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46
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The complete genome sequence of a virus associated with cotton blue disease, cotton leafroll dwarf virus, confirms that it is a new member of the genus Polerovirus. Arch Virol 2010; 155:1849-54. [PMID: 20677026 DOI: 10.1007/s00705-010-0764-3] [Citation(s) in RCA: 28] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/15/2010] [Accepted: 07/17/2010] [Indexed: 10/19/2022]
Abstract
Cotton blue disease is the most important virus disease of cotton in the southern part of America. The complete nucleotide sequence of the ssRNA genome of the cotton blue disease-associated virus was determined for the first time. It comprised 5,866 nucleotides, and the deduced genomic organization resembled that of members of the genus Polerovirus. Sequence homology comparison and phylogenetic analysis confirm that this virus (previous proposed name cotton leafroll dwarf virus) is a member of a new species within the genus Polerovirus.
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47
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Kozlowska-Makulska A, Guilley H, Szyndel MS, Beuve M, Lemaire O, Herrbach E, Bouzoubaa S. P0 proteins of European beet-infecting poleroviruses display variable RNA silencing suppression activity. J Gen Virol 2010; 91:1082-91. [PMID: 19955562 DOI: 10.1099/vir.0.016360-0] [Citation(s) in RCA: 43] [Impact Index Per Article: 3.1] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/28/2023] Open
Abstract
Post-transcriptional gene silencing (PTGS), or RNA silencing, is one of the key mechanisms of antiviral defence used by plants. To counter this defence response, viruses produce suppressor proteins that are able to inhibit the PTGS pathway or to interfere with some of its function. The aim of this study was to evaluate the RNA silencing suppressor (RSS) activity of P0 proteins from selected European isolates of the beet-infecting poleroviruses beet chlorosis virus (BChV) and beet mild yellowing virus (BMYV) using two different experimental systems: (i) agro-infiltration of Nicotiana benthamiana green fluorescent protein-positive plants and (ii) mechanical inoculation of Chenopodium quinoa using a beet necrotic yellow vein virus (BNYVV, genus Benyvirus) RNA3-based replicon. The results demonstrated that P0 of most BMYV isolates exhibited RSS activity, although at various efficiencies among isolates. Conversely, P0 of BChV isolates displayed no RSS activity in either of the two systems under the experimental conditions used. These results are the first reported evidence that P0 proteins of two closely related beet poleroviruses show strain-specific differences in their effects on RNA silencing.
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48
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A peptide that binds the pea aphid gut impedes entry of Pea enation mosaic virus into the aphid hemocoel. Virology 2010; 401:107-16. [PMID: 20223498 DOI: 10.1016/j.virol.2010.02.009] [Citation(s) in RCA: 35] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/26/2009] [Revised: 11/04/2009] [Accepted: 02/05/2010] [Indexed: 11/26/2022]
Abstract
Development of ways to block virus transmission by aphids could lead to novel and broad-spectrum means of controlling plant viruses. Viruses in the Luteoviridae enhanced are obligately transmitted by aphids in a persistent manner that requires virion accumulation in the aphid hemocoel. To enter the hemocoel, the virion must bind and traverse the aphid gut epithelium. By screening a phage display library, we identified a 12-residue gut binding peptide (GBP3.1) that binds to the midgut and hindgut of the pea aphid Acyrthosiphon pisum. Binding was confirmed by labeling the aphid gut with a GBP3.1-green fluorescent protein fusion. GBP3.1 reduced uptake of Pea enation mosaic virus (Luteoviridae) from the pea aphid gut into the hemocoel. GBP3.1 also bound to the gut epithelia of the green peach aphid and the soybean aphid. These results suggest a novel strategy for inhibiting plant virus transmission by at least three major aphid pest species.
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49
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Guilley H, Bortolamiol D, Jonard G, Bouzoubaa S, Ziegler-Graff V. Rapid screening of RNA silencing suppressors by using a recombinant virus derived from beet necrotic yellow vein virus. J Gen Virol 2009; 90:2536-2541. [PMID: 19570958 DOI: 10.1099/vir.0.011213-0] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Abstract
To counteract plant defence mechanisms, plant viruses have evolved to encode RNA silencing suppressor (RSS) proteins. These proteins can be identified by a range of silencing suppressor assays. Here, we describe a simple method using beet necrotic yellow vein virus (BNYVV) that allows a rapid screening of RSS activity. The viral inoculum consisted of BNYVV RNA1, which encodes proteins involved in viral replication, and two BNYVV-derived replicons: rep3-P30, which expresses the movement protein P30 of tobacco mosaic virus, and rep5-X, which allows the expression of a putative RSS (X). This approach has been validated through the use of several known RSSs. Two potential candidates have been tested and we show that, in our system, the P13 protein of burdock mottle virus displays RSS activity while the P0 protein of cereal yellow dwarf virus-RPV does not.
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Affiliation(s)
- H Guilley
- Institut de Biologie Moléculaire des Plantes du CNRS, Université de Strasbourg, 12 rue du Général Zimmer, 67084 Strasbourg Cedex, France
| | - D Bortolamiol
- Institut de Biologie Moléculaire des Plantes du CNRS, Université de Strasbourg, 12 rue du Général Zimmer, 67084 Strasbourg Cedex, France
| | - G Jonard
- Institut de Biologie Moléculaire des Plantes du CNRS, Université de Strasbourg, 12 rue du Général Zimmer, 67084 Strasbourg Cedex, France
| | - S Bouzoubaa
- Institut de Biologie Moléculaire des Plantes du CNRS, Université de Strasbourg, 12 rue du Général Zimmer, 67084 Strasbourg Cedex, France
| | - V Ziegler-Graff
- Institut de Biologie Moléculaire des Plantes du CNRS, Université de Strasbourg, 12 rue du Général Zimmer, 67084 Strasbourg Cedex, France
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50
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El-Araby W, Ibrahim I, Hemeida A, Mahmoud A, Soliman A, El-Attar A, Mazyad H. Biological, Serological and Molecular Diagnosis of Three Major Potato Viruses in Egypt. ACTA ACUST UNITED AC 2009. [DOI: 10.3923/ijv.2009.77.88] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/15/2022]
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