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Assessment of the RNA Silencing Suppressor Activity of Protein P0 of Pepper Vein Yellows Virus 5: Uncovering Natural Variability, Relevant Motifs and Underlying Mechanism. BIOLOGY 2022; 11:biology11121801. [PMID: 36552310 PMCID: PMC9775047 DOI: 10.3390/biology11121801] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Subscribe] [Scholar Register] [Received: 11/11/2022] [Revised: 12/02/2022] [Accepted: 12/08/2022] [Indexed: 12/14/2022]
Abstract
Pepper vein yellows virus 5 (PeVYV-5) belongs to a group of emerging poleroviruses (family Solemoviridae) which pose a risk to pepper cultivation worldwide. Since its first detection in Spain in 2013 and the determination of the complete genome sequence of an isolate in 2018, little is known on the presence, genomic variation and molecular properties of this pathogen. As other members of genus Polerovirus, PeVYV-5 encodes a P0 protein that was predicted to act as viral suppressor of RNA silencing (VSR), one of the major antiviral defense mechanisms in plants. The results of the present work have indicated that PeVYV-5 P0 is a potent VSR, which is able to induce the degradation of Argonaute (AGO) endonucleases, the main effectors of RNA silencing. New viral isolates have been identified in samples collected in 2020-2021 and sequencing of their P0 gene has revealed limited heterogeneity, suggesting that the protein is under negative selection. Analysis of natural and engineered P0 variants has pinpointed distinct protein motifs as critical for the VSR role. Moreover, a positive correlation between the VSR activity of the protein and its capability to promote AGO degradation could be established, supporting that such activity essentially relies on the clearance of core components of the RNA silencing machinery.
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2
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Wang L, Tian P, Yang X, Zhou X, Zhang S, Li C, Yang X, Liu Y. Key Amino Acids for Pepper Vein Yellows Virus P0 Protein Pathogenicity, Gene Silencing, and Subcellular Localization. Front Microbiol 2021; 12:680658. [PMID: 34589062 PMCID: PMC8475269 DOI: 10.3389/fmicb.2021.680658] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2021] [Accepted: 05/28/2021] [Indexed: 11/13/2022] Open
Abstract
Pepper vein yellows virus (PeVYV) is a newly recognized Polerovirus extracted from Chinese pepper. The symptoms of PeVYV-infested pepper plants comprise intervein yellow staining, leaf curl formation and other malformations, and leaf internodal shrinkage, but the roles of the viral proteins remain undetermined. The P0 protein of the genus Polerovirus has established post-transcriptional gene silencing (PTGS) activity. This investigation focused on the PeVYV-encoded P0 protein and assessed its potential virulence capacity, PTGS activity, and tendencies to localize in the nucleus. This study revealed that P0 influenced the pathogenic properties of a specific heterologous potato virus X. In addition, P0 proteins impaired local gene silencing, although they did not regulate generalized gene silencing within Nicotiana benthamiana 16c plants. Furthermore, P0 proteins localized mainly in the nucleus, particularly in the nucleolus. P0 deletion mutagenesis demonstrated that the F-box motif (56–72 amino acids, AAs) of P0 was essential for symptom determination, inhibition of PTGS, and subcellular localization. Mutation analysis of the F-box motif of P0 protein indicated that AA 57 of the P0 protein was a pivotal site in symptom development and that AA 56 of the P0 protein was indispensable for inhibiting PTGS and subcellular localization. The outcomes obtained here suggest that further studies should be conducted on the molecular mechanisms of amino acids of the F-box domain of P0 protein in the interaction of PeVYV with plants.
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Affiliation(s)
- Lishuang Wang
- College of Plant Protection, Hunan Agricultural University, Changsha, China.,Institute of Plant Protection, Guizhou Academy of Agricultural Sciences, Guiyang, China
| | - Peijie Tian
- College of Plant Protection, Hunan Agricultural University, Changsha, China
| | - Xiuling Yang
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Xueping Zhou
- State Key Laboratory for Biology of Plant Diseases and Insect Pests, Institute of Plant Protection, Chinese Academy of Agricultural Sciences (CAAS), Beijing, China
| | - Songbai Zhang
- Institute of Plant Protection, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Chun Li
- Institute of Plant Protection, Guizhou Academy of Agricultural Sciences, Guiyang, China
| | - Xuehui Yang
- Institute of Plant Protection, Guizhou Academy of Agricultural Sciences, Guiyang, China
| | - Yong Liu
- College of Plant Protection, Hunan Agricultural University, Changsha, China.,Institute of Plant Protection, Hunan Academy of Agricultural Sciences, Changsha, China
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3
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Hong Y, Chen Y. University online education file management under the background of big data. JOURNAL OF INTELLIGENT & FUZZY SYSTEMS 2021. [DOI: 10.3233/jifs-219098] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/14/2023]
Abstract
With the rapid development of computer communication technology, the level of archives information services in colleges and universities continues to improve. More and more universities have created archives management halls to promote digital archives services in depth. As an important part of information resources, the development and use of archive information resources have also attracted the attention of all walks of life. University archives are the pioneers in the development of archives in my country, and their computerization level will directly affect the development and utilization of information resources in my country’s archives. This article aims to analyze the management of online education archives in colleges and universities under the background of big data, analyze the management of online education archives in colleges and universities, and explore the management of archives under the background of online education in colleges and universities. Use the university network archives construction evaluation model calculation and investigation research method to study the current situation and mode of university network education archives management, and provide reference value for the rational connection of various tasks of university network education archives management under the background of big data. The experimental results of this article show that 55% of college students believe that the current college archives need to be combined with the requirements of the development of the times, and it is necessary to innovate the archive management methods of colleges and universities to improve the quality of archive management services in universities and ensure the real-time storage of network information and maximize the development of archive information the value of.
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Affiliation(s)
- Yun Hong
- Department of Human Resources, Tianjin University of Technology and Education, Tianjin, China
| | - Yuchan Chen
- Department of Human Resources, Tianjin University of Technology and Education, Tianjin, China
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4
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Peng J, Bu S, Yin Y, Hua M, Zhao K, Lu Y, Zheng H, Wan Q, Zhang S, Chen H, Liu Y, Chen J, Mo X, Yan F. Biological and Genetic Characterization of Pod Pepper Vein Yellows Virus-Associated RNA From Capsicum frutescens in Wenshan, China. Front Microbiol 2021; 12:662352. [PMID: 33936020 PMCID: PMC8083956 DOI: 10.3389/fmicb.2021.662352] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2021] [Accepted: 03/19/2021] [Indexed: 11/13/2022] Open
Abstract
Tombusvirus-like associated RNAs (tlaRNAs) are positive-sense single-stranded RNAs found in plants co-infected with some viruses of the genus Polerovirus. Pod pepper vein yellows virus (PoPeVYV) was recently reported as a new recombinant polerovirus causing interveinal yellowing, stunting, and leaf rolling in Capsicum frutescens plants at Wenshan city, Yunnan province, China. The complete genome sequence of its associated RNA has now been determined by next-generation sequencing and reverse transcription (RT) polymerase chain reaction (PCR). PoPeVYV-associated RNA (PoPeVYVaRNA) (GenBank Accession No. MW323470) has 2970 nucleotides and is closely related to other group II tlaRNAs, particularly tobacco bushy top disease-associated RNA (TBTDaRNA, GenBank Accession No. EF529625). In infection experiments on Nicotiana benthamiana and C. frutescens plants, synergism between PoPeVYVaRNA and PoPeVYV was demonstrated, leading to severe interveinal yellowing of leaves and stunting of plants. The results provide further information on the genetic and biological properties of the various agents associated with pepper vein yellows disease (PeVYD).
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Affiliation(s)
- Jiejun Peng
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Shan Bu
- Key Laboratory of Pest Management of Horticultural Crop of Hunan Province, Hunan Plant Protection Institute, Hunan Academy of Agricultural Sciences, Changsha, China.,Longping Branch of Graduate College, Hunan University, Changsha, China
| | - Yueyan Yin
- College of Plant Protection, Yunnan Agricultural University, Kunming, China.,Institute of Alpine Economic Plants, Yunnan Academy of Agricultural Sciences, Lijiang, China
| | - Mengying Hua
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Kuangjie Zhao
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Yuwen Lu
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Hongying Zheng
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Qionglian Wan
- College of Plant Protection, Yunnan Agricultural University, Kunming, China
| | - Songbai Zhang
- Key Laboratory of Pest Management of Horticultural Crop of Hunan Province, Hunan Plant Protection Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Hairu Chen
- College of Plant Protection, Yunnan Agricultural University, Kunming, China
| | - Yong Liu
- Key Laboratory of Pest Management of Horticultural Crop of Hunan Province, Hunan Plant Protection Institute, Hunan Academy of Agricultural Sciences, Changsha, China
| | - Jianping Chen
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
| | - Xiaohan Mo
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, China
| | - Fei Yan
- State Key Laboratory for Managing Biotic and Chemical Threats to the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, China
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5
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Genetic diversity and recombination between turnip yellows virus strains in Australia. Arch Virol 2021; 166:813-829. [PMID: 33481112 DOI: 10.1007/s00705-020-04931-w] [Citation(s) in RCA: 12] [Impact Index Per Article: 4.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/06/2020] [Accepted: 11/06/2020] [Indexed: 01/24/2023]
Abstract
Disease outbreaks caused by turnip yellows virus (TuYV), a member of the genus Polerovirus, family Luteoviridae, regularly occur in canola and pulse crops throughout Australia. To understand the genetic diversity of TuYV for resistance breeding and management, genome sequences of 28 TuYV isolates from different hosts and locations were determined using high-throughput sequencing (HTS). We aimed to identify the parts of the genome that were most variable and clarify the taxonomy of viruses related to TuYV. Poleroviruses contain seven open reading frames (ORFs): ORF 0-2, 3a, and 3-5. Phylogenetic analysis based on the genome sequences, including isolates of TuYV and brassica yellows virus (BrYV) from the GenBank database, showed that most genetic variation among isolates occurred in ORF 5, followed by ORF 0 and ORF 3a. Phylogenetic analysis of ORF 5 revealed three TuYV groups; P5 group 1 and group 3 shared 45-49% amino acid sequence identity, and group 2 is a recombinant between the other two. Phylogenomic analysis of the concatenated ORFs showed that TuYV is paraphyletic with respect to BrYV, and together these taxa form a well-supported monophyletic group. Our results support the hypothesis that TuYV and BrYV belong to the same species and that the phylogenetic topologies of ORF 0, 3a and 5 are incongruent and may not be informative for species demarcation. A number of beet western yellow virus (BWYV)- and TuYV-associated RNAs (aRNA) were also identified by HTS for the first time in Australia.
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Zhao K, Yin Y, Hua M, Wang S, Mo X, Yuan E, Zheng H, Lin L, Chen H, Lu Y, Chen J, Peng J, Yan F. Pod pepper vein yellows virus, a new recombinant polerovirus infecting Capsicum frutescens in Yunnan province, China. Virol J 2021; 18:42. [PMID: 33622354 PMCID: PMC7901092 DOI: 10.1186/s12985-021-01511-5] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/30/2020] [Accepted: 02/08/2021] [Indexed: 12/02/2022] Open
Abstract
Pepper vein yellows viruses (PeVYV) are phloem-restricted viruses in the genus Polerovirus, family Luteoviridae. Typical viral symptoms of PeVYV including interveinal yellowing of leaves and upward leaf curling were observed in pod pepper plants (Capsicum frutescens) growing in Wenshan city, Yunnan province, China. The complete genome sequence of a virus from a sample of these plants was determined by next-generation sequencing and RT-PCR. Pod pepper vein yellows virus (PoPeVYV) (MT188667) has a genome of 6015 nucleotides, and the characteristic genome organization of a member of the genus Polerovirus. In the 5′ half of its genome (encoding P0 to P4), PoPeVYV is most similar (93.1% nt identity) to PeVYV-3 (Pepper vein yellows virus 3) (KP326573) but diverges greatly in the 3′-part encoding P5, where it is most similar (91.7% nt identity) to tobacco vein distorting virus (TVDV, EF529624) suggesting a recombinant origin. Recombination analysis predicted a single recombination event affecting nucleotide positions 4126 to 5192 nt, with PeVYV-3 as the major parent but with the region 4126–5192 nt derived from TVDV as the minor parent. A full-length clone of PoPeVYV was constructed and shown to be infectious in C. frutescens by RT-PCR and the presence of icosahedral viral particles.
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Affiliation(s)
- Kuangjie Zhao
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Yueyan Yin
- Institute of Alpine Economic Plants, Yunnan Academy of Agricultural Sciences, Lijiang, 674100, Yunnan, China.,College of Plant Protection, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
| | - Mengying Hua
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Shaoxiang Wang
- Wenshan Academy of Agricultural Sciences, Wenshan, 663000, Yunnan, China
| | - Xiaohan Mo
- Yunnan Academy of Tobacco Agricultural Sciences, Kunming, 650021, Yunnan, China
| | - Enping Yuan
- Wenshan Academy of Agricultural Sciences, Wenshan, 663000, Yunnan, China
| | - Hongying Zheng
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Lin Lin
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Hairu Chen
- College of Plant Protection, Yunnan Agricultural University, Kunming, 650201, Yunnan, China
| | - Yuwen Lu
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Jianping Chen
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China
| | - Jiejun Peng
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China.
| | - Fei Yan
- State Key Laboratory for Managing Biotic and Chemical Threats To the Quality and Safety of Agroproducts, Institute of Plant Virology, Ningbo University, Ningbo, 315211, Zhejiang, China.
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Koeda S, Homma K, Kamitani M, Nagano AJ, Taniguchi M, Pohan N, Kesumawati E. Pepper vein yellows virus 9: a novel polerovirus isolated from chili pepper in Indonesia. Arch Virol 2020; 165:3017-3021. [PMID: 33037939 DOI: 10.1007/s00705-020-04838-6] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/08/2020] [Accepted: 09/06/2020] [Indexed: 11/28/2022]
Abstract
In 2017, a leaf sample from a single chili pepper (Capsicum annuum) plant exhibiting yellowing was collected from Aceh province, Indonesia. Total RNA was extracted from this sample, and RNA-Seq analysis was conducted. Putative infecting viruses were detected by mapping the obtained reads to the full-length viral genome sequences available in the GenBank database (7457 sequences) and the de novo-assembled contigs. RNA-Seq analysis detected polerovirus, begomovirus, and amalgavirus sequences, and the polerovirus-like sequences showed strong similarity to those of previously reported pepper vein yellows viruses (PeVYVs). The complete viral genome sequence obtained by RT-PCR had a length of 6023 nt, had the typical genome organization of a polerovirus and showed a high degree of sequence similarity to PeVYV-2 from Israel. Moreover, the predicted amino acid sequence of the P0 protein of the Indonesian isolate was 85.1% to 88.8% identical to those of other PeVYVs. In accordance with the polerovirus species demarcation criteria, this isolate should be assigned to a new polerovirus species, and we propose the name "pepper vein yellows virus 9" (PeVYV-9) for this virus.
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Affiliation(s)
- Sota Koeda
- Faculty of Agriculture, Kindai University, Nara, Nara, 631-8505, Japan.
- Graduate School of Agriculture, Kindai University, Nara, Nara, 631-8505, Japan.
| | - Kanami Homma
- Graduate School of Agriculture, Kindai University, Nara, Nara, 631-8505, Japan
| | - Mari Kamitani
- Faculty of Agriculture, Ryukoku University, Otsu, Shiga, 520-2194, Japan
| | - Atsushi J Nagano
- Faculty of Agriculture, Ryukoku University, Otsu, Shiga, 520-2194, Japan
| | - Marina Taniguchi
- Faculty of Agriculture, Kindai University, Nara, Nara, 631-8505, Japan
| | - Nadya Pohan
- Faculty of Agriculture, Syiah Kuala University, Darussalam, Banda Aceh, 23111, Indonesia
| | - Elly Kesumawati
- Faculty of Agriculture, Syiah Kuala University, Darussalam, Banda Aceh, 23111, Indonesia
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Fiallo-Olivé E, Navas-Hermosilla E, Ferro CG, Zerbini FM, Navas-Castillo J. Evidence for a complex of emergent poleroviruses affecting pepper worldwide. Arch Virol 2018; 163:1171-1178. [PMID: 29372406 DOI: 10.1007/s00705-018-3733-x] [Citation(s) in RCA: 14] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/09/2017] [Accepted: 01/07/2018] [Indexed: 11/28/2022]
Abstract
In recent years, symptoms of vein yellowing and leaf roll in pepper crops associated with the presence of poleroviruses (genus Polerovirus, family Luteoviridae) have been emerging in many countries worldwide. Spain was the first country in Europe where the yellowing disease of pepper was observed. In this work, a polerovirus isolate from Spain that infects pepper and has been shown to be transmitted by the aphid Aphis gossyppii (Spain-Almería 2-2013) was sequenced and compared with isolates from Japan, Israel, China and Australia. The genome (6125 nt in length, GenBank accession number KY523072) of the isolate from Spain has the typical organization of poleroviruses and contains seven open reading frames (ORF0 to ORF5 and ORF3a), putatively encoding proteins P0 to P5 and P3a. A comparison of the sequence from Spain with the four complete sequences available for poleroviruses infecting pepper showed a closer relationship to the isolate from Israel and supports the existence of a complex of at least five polerovirus species. Given that the symptoms caused by all pepper poleroviruses described to date are similar, if not identical, we propose to name them "pepper vein yellows virus 1" to "pepper vein yellows virus 5" (PeVYV-1 to PeVYV-5), with PeVYV-5 corresponding to the polerovirus from Spain described in this work. Our results and those published over the last few years have shown that the emergent poleroviruses threatening pepper crops around the world are highly complex due to recombination events.
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Affiliation(s)
- Elvira Fiallo-Olivé
- Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Avenida Dr. Wienberg s/n, 29750 Algarrobo-Costa, Málaga, Spain
| | - Elisa Navas-Hermosilla
- Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Avenida Dr. Wienberg s/n, 29750 Algarrobo-Costa, Málaga, Spain
| | - Camila G Ferro
- Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Avenida Dr. Wienberg s/n, 29750 Algarrobo-Costa, Málaga, Spain.,Departamento de Fitopatologia/BIOAGRO, Universidade Federal de Viçosa, Viçosa, MG, 36570-900, Brazil.,National Research Institute for Plant-Pest Interactions (INCT-IPP), Universidade Federal de Viçosa, Viçosa, MG, 36570-900, Brazil
| | - F Murilo Zerbini
- Departamento de Fitopatologia/BIOAGRO, Universidade Federal de Viçosa, Viçosa, MG, 36570-900, Brazil.,National Research Institute for Plant-Pest Interactions (INCT-IPP), Universidade Federal de Viçosa, Viçosa, MG, 36570-900, Brazil
| | - Jesús Navas-Castillo
- Instituto de Hortofruticultura Subtropical y Mediterránea "La Mayora", Universidad de Málaga - Consejo Superior de Investigaciones Científicas (IHSM-UMA-CSIC), Avenida Dr. Wienberg s/n, 29750 Algarrobo-Costa, Málaga, Spain.
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Guo W, Zheng W, Wang M, Li X, Ma Y, Dai H. Genome Sequences of Three Apple chlorotic leaf spot virus Isolates from Hawthorns in China. PLoS One 2016; 11:e0161099. [PMID: 27519059 PMCID: PMC4982687 DOI: 10.1371/journal.pone.0161099] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/08/2016] [Accepted: 07/31/2016] [Indexed: 11/19/2022] Open
Abstract
The genome sequences of Apple chlorotic leaf spot virus (ACLSV) isolates from three accessions of hawthorns (Crataegus pinnatifida) grown at Shenyang Agricultural University were determined using Illumina RNA-seq. To confirm the assembly data from the de novo sequencing, two ACLSV genomic sequences (SY01 and SY02) were sequenced using the Sanger method. The SY01 and SY02 sequences obtained with the Sanger method showed 99.5% and 99.7% nucleotide identity with the transcriptome data, respectively. The genome sequences of the hawthorn isolates SY01, SY02 and SY03 (GenBank accession nos. KM207212, KU870524 and KU870525, respectively) consisted of 7,543, 7,561 and 7,545 nucleotides, respectively, excluding poly-adenylated tails. Sequence analysis revealed that these hawthorn isolates shared an overall nucleotide identity of 82.8–92.1% and showed the highest identity of 90.3% for isolate YH (GenBank accession no. KC935955) from pear and the lowest identity of 67.7% for isolate TaTao5 (GenBank accession no. EU223295) from peach. Hawthorn isolate sequences were similar to those of ‘B6 type’ ACLSV. The relationship between ACLSV isolates largely depends upon the host species. This represents the first comparative study of the genome sequences of ACLSV isolates from hawthorns.
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Affiliation(s)
- Wei Guo
- College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, Liaoning, 110866, China
| | - Wenyan Zheng
- College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, Liaoning, 110866, China
| | - Mei Wang
- College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, Liaoning, 110866, China
| | - Xiaohong Li
- College of Agronomy, Eastern Liaoning University, 325 Wenhua Road, Dandong, Liaoning, 118003, China
| | - Yue Ma
- College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, Liaoning, 110866, China
| | - Hongyan Dai
- College of Horticulture, Shenyang Agricultural University, 120 Dongling Road, Shenyang, Liaoning, 110866, China
- * E-mail:
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First Complete Genome Sequence of Pepper vein yellows virus from Australia. GENOME ANNOUNCEMENTS 2016; 4:4/3/e00450-16. [PMID: 27231375 PMCID: PMC4882956 DOI: 10.1128/genomea.00450-16] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Subscribe] [Scholar Register] [Indexed: 11/20/2022]
Abstract
We present here the first complete genomic RNA sequence of the polerovirus Pepper vein yellows virus (PeVYV) obtained from a pepper plant in Australia. We compare it with complete PeVYV genomes from Japan and China. The Australian genome was more closely related to the Japanese than the Chinese genome.
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