A new emaravirus discovered in Pistacia from Turkey

Buzkan, Nihal; Chiumenti, Michela; Massart, Sébastien; Sarpkaya, K.; Karadağ, S.; Minafra, A.

doi:10.1016/j.virusres.2019.01.012

Cited by 31 publications

(25 citation statements)

References 38 publications

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“…Emaraviruses are enveloped, segmented negative-sense RNA plant viruses in the family Fimoviridae, order Bunyavirales that are transmitted by eriophyid mites [51,53]. Recent reports have indicated an increasing number of emaraviruses with up to eight distinct genome segments [49,[54][55][56][57][58]. Emaravirus genome segments have been reported to possess complementary 13-nt consensus sequences at their 5' and 3' termini [57,58].…”

Section: Discussionmentioning

confidence: 99%

“…Recent reports have indicated an increasing number of emaraviruses with up to eight distinct genome segments [49,[54][55][56][57][58]. Emaravirus genome segments have been reported to possess complementary 13-nt consensus sequences at their 5' and 3' termini [57,58]. However, searches of the HTS raw data of sample 2 in which most ARaV reads were identified, by mapping and iterative genome assembly, did not find this motif and, therefore, putative additional genome segments, likely due to insufficient sequence coverage (see Table 1).…”

Section: Discussionmentioning

confidence: 99%

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Viromes of Ten Alfalfa Plants in Australia Reveal Diverse Known Viruses and a Novel RNA Virus

Samarfard

McTaggart

Sharman³

et al. 2020

Pathogens

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Alfalfa plants in the field can display a range of virus-like symptoms, especially when grown over many years for seed production. Most known alfalfa viruses have RNA genomes, some of which can be detected using diagnostic assays, but many viruses of alfalfa are not well characterized. This study aims to identify the RNA and DNA virus complexes associated with alfalfa plants in Australia. To maximize the detection of RNA viruses, we purified double-stranded RNA (dsRNA) for high throughput sequencing and characterized the viromes of ten alfalfa samples that showed diverse virus-like symptoms. Using Illumina sequencing of tagged cDNA libraries from immune-captured dsRNA, we identified sequences of the single-stranded RNA viruses, alfalfa mosaic virus (AMV), bean leafroll virus, a new emaravirus tentatively named alfalfa ringspot-associated virus, and persistent dsRNA viruses belonging to the families Amalgaviridae and Partitiviridae. Furthermore, rolling circle amplification and restriction enzyme digestion revealed the complete genome of chickpea chlorosis Australia virus, a mastrevirus (family Geminiviridae) previously reported only from chickpea and French bean that was 97% identical to the chickpea isolate. The sequence data also enabled the assembly of the first complete genome (RNAs 1–3) of an Australian AMV isolate from alfalfa.

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Section: Discussionmentioning

confidence: 99%

Section: Discussionmentioning

confidence: 99%

Viromes of Ten Alfalfa Plants in Australia Reveal Diverse Known Viruses and a Novel RNA Virus

Samarfard

McTaggart

Sharman³

et al. 2020

Pathogens

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“…Recently, however, more novel viruses infecting plants have been discovered around the world. In the last few years, the use of high throughput sequencing (HTS) technology has allowed the identification and characterization of new nsRNA viruses in pistachio [8], citrus [9,10], watermelon [11], and apple [12]. Interestingly, most of these novel nsRNA viruses were classified under the family Phenuiviridae (order Bunyavirales ).…”

Section: Introductionmentioning

confidence: 99%

Two Novel Negative-Sense RNA Viruses Infecting Grapevine Are Members of a Newly Proposed Genus within the Family Phenuiviridae

Diaz‐Lara

Navarro

Serio

et al. 2019

Viruses

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Two novel negative-stranded (ns)RNA viruses were identified by high throughput sequencing in grapevine. The genomes of both viruses, named grapevine Muscat rose virus (GMRV) and grapevine Garan dmak virus (GGDV), comprise three segments with each containing a unique gene. Based on sequence identity and presence of typical domains/motifs, the proteins encoded by the two viruses were predicted to be: RNA-dependent RNA polymerase (RdRp), nucleocapsid protein (NP), and putative movement protein (MP). These proteins showed the highest identities with orthologs in the recently discovered apple rubbery wood viruses 1 and 2, members of a tentative genus (Rubodvirus) within the family Phenuiviridae. The three segments of GMRV and GGDV share almost identical sequences at their 5′ and 3′ termini, which are also complementary to each other and may form a panhandle structure. Phylogenetics based on RdRp, NP and MP placed GMRV and GGDV in the same cluster with rubodviruses. Grapevine collections were screened for the presence of both novel viruses via RT-PCR, identifying infected plants. GMRV and GGDV were successfully graft-transmitted, thus, they are the first nsRNA viruses identified and transmitted in grapevine. Lastly, different evolutionary scenarios of nsRNA viruses are discussed.

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“…The reported emaraviruses exhibit flexibility for the constitute of their genomic RNA segments [8]. Several emaraviruses contain up to eight and even ten different genome segments [12,17,18]. We did not identify any other RNA of the virus from diseased jujube samples by using different approaches, indicating that RNAs 1-6 might represent the complete genomic components of JYMaV.…”

Section: Discussionmentioning

confidence: 73%

“…Except for Palo Verde witches broom virus (PVWBV), for which four genomic RNA segments have been reported, most emaraviruses possess additional genomic RNA segments encoding proteins with unknown function [8,11,12]. It has been reported that some emaraviruses are transmissible by vectoring of eriophyid mites (Acari: Eriophyidae) [10,[13][14][15][16][17][18]. Then, eriophyid mites may play important role in the naturally spreading of emaraviruses among host plants.…”

Section: Introductionmentioning

confidence: 99%

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 new emaravirus discovered in Pistacia from Turkey

Cited by 31 publications

References 38 publications

Viromes of Ten Alfalfa Plants in Australia Reveal Diverse Known Viruses and a Novel RNA Virus

Viromes of Ten Alfalfa Plants in Australia Reveal Diverse Known Viruses and a Novel RNA Virus

Two Novel Negative-Sense RNA Viruses Infecting Grapevine Are Members of a Newly Proposed Genus within the Family Phenuiviridae

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

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