Asian prunus viruses: New related members of the family Flexiviridae in Prunus germplasm of Asian origin

Marais, Armelle; Svanella-Dumas, Laurence; Foissac, Xavier; Gentit, Pascal; Candresse, Thierry

doi:10.1016/j.virusres.2006.03.004

Cited by 12 publications

(13 citation statements)

References 26 publications

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“…The virus and viroid species that were detected by specific and/or genus/family-based RT-PCR or nested RT-PCR/PCR in Australian Prunus trees, the frequency of detection by both tests, the highest percentage (%) BLAST nucleotide identity of sequenced amplicons from both tests and the hosts in which they were detected are shown. Almond (19), Apricot (6), Cherry (9), Nectarine (4), Peach (3), Plum (11) Hop stunt viroid (HSVd)…”

Section: Virus and Viroid Detection By Rt-pcrmentioning

confidence: 99%

“…It has helped to clarify pathogens, especially viruses, associated with diseases in Prunus species that had an unknown aetiology. There are now 55 virus species and three viroid species that have been reported to infect almonds, stone fruit and/or ornamental Prunus trees worldwide [11][12][13][14][15][16][17][18][19][20][21][22][23][24][25][26][27][28].…”

Section: Introductionmentioning

confidence: 99%

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Updating the Quarantine Status of Prunus Infecting Viruses in Australia

Kinoti

Nancarrow

Dann³

et al. 2020

Viruses

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One hundred Prunus trees, including almond (P. dulcis), apricot (P. armeniaca), nectarine (P. persica var. nucipersica), peach (P. persica), plum (P. domestica), purple leaf plum (P. cerasifera) and sweet cherry (P. avium), were selected from growing regions Australia-wide and tested for the presence of 34 viruses and three viroids using species-specific reverse transcription-polymerase chain reaction (RT-PCR) or polymerase chain reaction (PCR) tests. In addition, the samples were tested using some virus family or genus-based RT-PCR tests. The following viruses were detected: Apple chlorotic leaf spot virus (ACLSV) (13/100), Apple mosaic virus (ApMV) (1/100), Cherry green ring mottle virus (CGRMV) (4/100), Cherry necrotic rusty mottle virus (CNRMV) (2/100), Cherry virus A (CVA) (14/100), Little cherry virus 2 (LChV2) (3/100), Plum bark necrosis stem pitting associated virus (PBNSPaV) (4/100), Prune dwarf virus (PDV) (3/100), Prunus necrotic ringspot virus (PNRSV) (52/100), Hop stunt viroid (HSVd) (9/100) and Peach latent mosaic viroid (PLMVd) (6/100). The results showed that PNRSV is widespread in Prunus trees in Australia. Metagenomic high-throughput sequencing (HTS) and bioinformatics analysis were used to characterise the genomes of some viruses that were detected by RT-PCR tests and Apricot latent virus (ApLV), Apricot vein clearing associated virus (AVCaV), Asian Prunus Virus 2 (APV2) and Nectarine stem pitting-associated virus (NSPaV) were also detected. This is the first report of ApLV, APV2, CGRMV, CNRNV, LChV1, LChV2, NSPaV and PBNSPaV occurring in Australia. It is also the first report of ASGV infecting Prunus species in Australia, although it is known to infect other plant species including pome fruit and citrus.

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Section: Virus and Viroid Detection By Rt-pcrmentioning

confidence: 99%

Section: Introductionmentioning

confidence: 99%

Updating the Quarantine Status of Prunus Infecting Viruses in Australia

Kinoti

Nancarrow

Dann³

et al. 2020

Viruses

View full text Add to dashboard Cite

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“…Similar symptoms of chlorotic leaf spotting and fruit deformation are associated with peach infection by Asian prunus viruses (75), while AOPRV is held responsible for a lethal disease of African oil palms (88). None of the putative flexiviruses infecting banana (BanMMV and BanVX) seems to be a serious pathogen (40,113).…”

Section: Gvb: Grapevine Virus Bmentioning

confidence: 99%

FamilyFlexiviridae: A Case Study in Virion and Genome Plasticity

Martelli¹,

Adams

Kreuze

et al. 2007

Annu. Rev. Phytopathol.

319

196

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The plant virus family Flexiviridae includes the definitive genera Potexvirus, Mandarivirus, Allexivirus, Carlavirus, Foveavirus, Capillovirus, Vitivirus, Trichovirus, the putative genus Citrivirus, and some unassigned species. Its establishment was based on similarities in virion morphology, common features in genome type and organization, and strong phylogenetic relationships between replicational and structural proteins. In this review, we provide a brief account of the main biological and molecular properties of the members of the family, with special emphasis on the relationships within and among the genera. In phylogenetic analyses the potexvirus-like replicases were more closely related to tymoviruses than to carlaviruses. We postulate a common evolutionary ancestor for the family Tymoviridae and the two distinct evolutionary clusters of the Flexiviridae, i.e., a plant virus with a polyadenylated genome, filamentous virions, and a triple gene block of movement proteins. Subsequent recombination and gene loss would then have generated a very diverse group of plant and fungal viruses.

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“…Several polyclonal antisera showed reliably a cross-reactivity with APV Prunus sources, whereas PPV-specific monoclonal antibodies failed to react [ 2 ]. There are some indications that APV are not responsible for the PPV cross-reactivity, because some of the original PPV-reacting Prunus sources were not found to be infected by APV and since the in vitro translated coat protein of APV failed to react with a PPV antiserum [ 5 ]. APV have also been shown to cross-react in immunosorbent electron microscopy and Western blot analyses with polyclonal antisera directed against Apple stem pitting virus (ASPV) [ 4 ], the type member of the genus Foveavirus in the family Betaflexiviridae .…”

Section: Introductionmentioning

confidence: 99%

New Insights into Asian Prunus Viruses in the Light of NGS-Based Full Genome Sequencing

2016

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Double stranded RNAs were purified from five Prunus sources of Asian origin and submitted to 454 pyrosequencing after a random, whole genome amplification. Four complete genomes of Asian prunus virus 1 (APV1), APV2 and APV3 were reconstructed from the sequencing reads, as well as four additional, near-complete genome sequences. Phylogenetic analyses confirmed the close relationships of these three viruses and the taxonomical position previously proposed for APV1, the only APV so far completely sequenced. The genetic distances in the respective polymerase and coat protein genes as well as their gene products suggest that APV2 should be considered as a distinct viral species in the genus Foveavirus, even if the amino acid identity levels in the polymerase are very close to the species demarcation criteria for the family Betaflexiviridae. However, the situation is more complex for APV1 and APV3, for which opposite conclusions are obtained depending on the gene (polymerase or coat protein) analyzed. Phylogenetic and recombination analyses suggest that recombination events may have been involved in the evolution of APV. Moreover, genome comparisons show that the unusually long 3’ non-coding region (3' NCR) is highly variable and a hot spot for indel polymorphisms. In particular, two APV3 variants differing only in their 3’ NCR were identified in a single Prunus source, with 3' NCRs of 214–312 nt, a size similar to that observed in other foveaviruses, but 567–850 nt smaller than in other APV3 isolates. Overall, this study provides critical genome information of these viruses, frequently associated with Prunus materials, even though their precise role as pathogens remains to be elucidated.

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Asian prunus viruses: New related members of the family Flexiviridae in Prunus germplasm of Asian origin

Cited by 12 publications

References 26 publications

Updating the Quarantine Status of Prunus Infecting Viruses in Australia

Updating the Quarantine Status of Prunus Infecting Viruses in Australia

FamilyFlexiviridae: A Case Study in Virion and Genome Plasticity

New Insights into Asian Prunus Viruses in the Light of NGS-Based Full Genome Sequencing

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