Identification and Characterization of a Novel Emaravirus Associated With Jujube (Ziziphus jujuba Mill.) Yellow Mottle Disease

Yang, Caixia; Song, Zilin; Han, Tae-Ho; Fu, Jingjing; Serio, Francesco Di; Cao, Mengji

doi:10.3389/fmicb.2019.01417

Cited by 30 publications

(23 citation statements)

References 47 publications

(62 reference statements)

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“…Later, two novel emaravirus with five RNA segments were identified; lilac chlorotic ringspot-associated virus from lilac leaves with yellow mottle symptoms in China ( Wang et al, 2020 ) and ti ringspot-associated virus from the ti plant ( Cordyline fruticosa ) in Hawaii ( Olmedo-Velarde et al, 2019 ). Six genomic RNA segments were identified in jujube yellow mottle-associated virus causing the same named disease in jujube ( Ziziphus jujuba ) in China ( Yang et al, 2019 ). Very recently, a novel emaravirus in Shiso named Perilla mosaic virus (PerMV) was found to consist of 10 RNA segments, each encoding a single protein in the negative-sense orientation ( Kubota et al, 2020 ).…”

Section: Resultsmentioning

confidence: 99%

Next-Generation Sequencing Reveals a Novel Emaravirus in Diseased Maple Trees From a German Urban Forest

et al. 2021

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While the focus of plant virology has been mainly on horticultural and field crops as well as fruit trees, little information is available on viruses that infect forest trees. Utilization of next-generation sequencing (NGS) methodologies has revealed a significant number of viruses in forest trees and urban parks. In the present study, the full-length genome of a novel Emaravirus has been identified and characterized from sycamore maple (Acer pseudoplatanus) – a tree species of significant importance in urban and forest areas – showing leaf mottle symptoms. RNA-Seq was performed on the Illumina HiSeq2500 system using RNA preparations from a symptomatic and a symptomless maple tree. The sequence assembly and analysis revealed the presence of six genomic RNA segments in the symptomatic sample (RNA1: 7,074 nt-long encoding the viral replicase; RNA2: 2,289 nt-long encoding the glycoprotein precursor; RNA3: 1,525 nt-long encoding the nucleocapsid protein; RNA4: 1,533 nt-long encoding the putative movement protein; RNA5: 1,825 nt-long encoding a hypothetical protein P5; RNA6: 1,179 nt-long encoding a hypothetical protein P6). Two independent NGS sequencing runs from the same symptomatic maple tree detected the same genome segments. For one of these sequencing runs the cDNA library was prepared using a primer targeting the conserved genome terminal region, known to be shared between emaraviruses genome segments. We suggest, therefore, that the six identified genome segments represent the complete genome of a novel emaravirus from maple, which we tentatively name maple mottle-associated virus (MaMaV). Phylogenetic and sequence homology analyses place this virus on the distinct “subgroup a” clade within the Emaravirus genus along with – among others – rose rosette virus, Actinidia emaravirus 2, and fig mosaic virus. Validation RT-PCR assays performed on symptomatic and non-symptomatic trees suggest that MaMaV may be the symptom-inducing virus in the diseased trees. To our knowledge, this is the first time an Emaravirus is described from maple and is fully genetically characterized. With the discovery of MaMaV, the genus Emaravirus comprising negative-sense single-stranded viruses with very divergent genomes – that were until recently overlooked – has substantially increased counting 22 established and putative members.

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Section: Resultsmentioning

confidence: 99%

Next-Generation Sequencing Reveals a Novel Emaravirus in Diseased Maple Trees From a German Urban Forest

et al. 2021

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“…Totally, 90 contigs assembled from the sRNA library were homologous to P1, P2, P3, P4 and P8 of raspberry leaf blotch virus (RLBV), a member of the genus Emaravirus ( Table S2 ). When the genomic sequence of JYMaV was reported and available in NCBI GenBank [ 7 ], sequences alignment showed that these assembled emaravirus contigs well matched the genomic RNAs of JYMaV. Additionally, 26 contigs with length 131–464 nt matched the proteins of JuMaV with identities of 69.6–93.9%.…”

Section: Resultsmentioning

confidence: 99%

“…The P5 sequence of JYMaV partially matched the viral P4, and there was notable aa sequence similarity (a whole aa sequence identity of 35.3%) between the two proteins. The predicated secondary structures of the two proteins were also similar, then it was postulated that as P4, the P5 might play roles in the virus movement [ 7 ]. To have a primary look at the function of the P5, the subcellular localizations of the viral P4 and P5 in epidermal cells of N. benthamiana leaves were investigated by using an Agrobacterium infiltration method.…”

Section: Resultsmentioning

confidence: 99%

“…Recently, leaf mosaic and fruit blotch disorder disease was found to be widely distributed in the major jujube growing areas at Aksu in Xinjiang Uygur Autonomous region of China and caught great attention for producers and scientists. Since the diseased trees showed systemic disease symptoms, highly like viral diseases of jujube recently reported in China [ 6 , 7 ], to understand the causal agents of the disease, high-throughput sequencing (HTS) was carried out for small RNA (sRNA) and RNA extracted from three leaf samples of diseased Chinese jujube plants. Our results revealed the presence of JYMaV in the diseased samples.…”

Section: Introductionmentioning

confidence: 99%

“…Our results revealed the presence of JYMaV in the diseased samples. Nowadays, JYMaV has been only identified from jujube trees suffering leaf mosaic disease in Liaoning Province in China and the genomic sequence of one JYMaV isolate SY is available in GenBank database [ 7 ]. The genetic variability of JYMaV is rarely known.…”

Section: Introductionmentioning

confidence: 99%

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Molecular Characteristics of Jujube Yellow Mottle-Associated Virus Infecting Jujube (Ziziphus jujuba Mill.) Grown at Aksu in Xinjiang of China

Guo

Wang

et al. 2020

Viruses

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Chinese jujube (Ziziphus jujuba Mill.) is a native fruit crop in China. Leaf mottle and dapple fruit disease is prevalent in cultivated jujube plants grown at Aksu in Xinjiang Uygur Autonomous Region of China. Jujube yellow mottle-associated virus (JYMaV), a tentative member in the genus Emaravirus, was recently identified from mottle-diseased jujube plants grown in Liaoning Province in China, but its incidence and genetic diversity in China is unknown. In this study, the genome sequences of three JYMaV isolates from two jujube cultivars and one jujube variant were determined by high-throughput sequencing (HTS) for small RNA and rRNA-depleted RNA coupled with RT-PCR assays. Comparison of these sequences together with sequences of the viral RNA segments derived by primer set 3C/5H-based RT-PCR revealed that genetic diversity was present in the virus populations and high sequence variation occurred at the non-translational regions of each of the viral genomic segments. Field investigation confirmed the close association of the virus with leaf mottle symptoms of jujube plants. Furthermore, this study revealed that P5 encoded in the viral RNA5 displayed a nuclear localization feature differing from the plasmodesma (PD) subcellular localization of the virus movement protein (P4), and the two proteins could interact with each other in the BiFC assays. Our study provides a snapshot of JYMaV genetic diversity in its natural hosts.

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A novel emaravirus comprising five RNA segments is associated with ringspot disease in oak

et al. 2021

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We report the complete nucleotide sequence of the genome of a novel virus in ringspot-diseased common oak (Quercus robur L.). The newly identified pathogen is associated with leaf symptoms such as mottle, chlorotic spots and ringspots on diseased trees. High-throughput sequencing (HTS, Illumina RNASeq) was used to explore the virome of a ringspot-diseased oak that had chlorotic ringspots of suspected viral origin on leaves for several years. Bioinformatic analysis of the HTS dataset followed by RT-PCR enabled us to determine complete sequences of four RNA genome segments of a novel virus. These sequences showed high similarity to members of the genus Emaravirus, which includes segmented negative-stranded RNA viruses of economic importance. To verify the ends of each RNA, we conducted rapid amplification of cDNA ends (RACE). We identified an additional genome segment (RNA 5) by RT-PCR using a genus-specific primer (PDAP213) to the conserved 3´ and 5´termini in order to amplify full-length genome segments. RNA 5 encodes a 21-kDa protein that is homologous to the silencing suppressor P8 of High Plains wheat mosaic virus. The five viral RNAs were consistently detected by RT-PCR in ringspot-diseased oaks in Germany, Sweden, and Norway. We conclude that the virus represents a new member of the genus Emaravirus affecting oaks in Germany and in Scandinavia, and we propose the name “common oak ringspot-associated emaravirus” (CORaV).

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Identification and Characterization of a Novel Emaravirus Associated With Jujube (Ziziphus jujuba Mill.) Yellow Mottle Disease

Cited by 30 publications

References 47 publications

Next-Generation Sequencing Reveals a Novel Emaravirus in Diseased Maple Trees From a German Urban Forest

Next-Generation Sequencing Reveals a Novel Emaravirus in Diseased Maple Trees From a German Urban Forest

Molecular Characteristics of Jujube Yellow Mottle-Associated Virus Infecting Jujube (Ziziphus jujuba Mill.) Grown at Aksu in Xinjiang of China

A novel emaravirus comprising five RNA segments is associated with ringspot disease in oak

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