Complete genome sequence of arracacha virus B: a novel cheravirus

Adams, Ian; Glover, R.; Souza-Richards, Rose; Bennett, S.; Hany, U.; Boonham, Neil

doi:10.1007/s00705-012-1546-x

Cited by 15 publications

(6 citation statements)

References 23 publications

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“…Besides providing a better way to solve ancient or emerging etiologic enigmas (Adams et al 2013b(Adams et al , 2014aRwahnih et al 2009), plant viral metagenomics is, for the first time, set to reveal the contribution of plant viruses to global ecosystems. Crucially, only a very small fraction of wild plants display any obvious evidence of virus infections.…”

Section: Applications Of Viral Metagenomics To Plant Pathologymentioning

confidence: 99%

Plant Virus Metagenomics: Advances in Virus Discovery

2015

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In recent years plant viruses have been detected from many environments, including domestic and wild plants and interfaces between these systems-aquatic sources, feces of various animals, and insects. A variety of methods have been employed to study plant virus biodiversity, including enrichment for virus-like particles or virus-specific RNA or DNA, or the extraction of total nucleic acids, followed by next-generation deep sequencing and bioinformatic analyses. All of the methods have some shortcomings, but taken together these studies reveal our surprising lack of knowledge about plant viruses and point to the need for more comprehensive studies. In addition, many new viruses have been discovered, with most virus infections in wild plants appearing asymptomatic, suggesting that virus disease may be a byproduct of domestication. For plant pathologists these studies are providing useful tools to detect viruses, and perhaps to predict future problems that could threaten cultivated plants.

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Section: Applications Of Viral Metagenomics To Plant Pathologymentioning

confidence: 99%

Plant Virus Metagenomics: Advances in Virus Discovery

2015

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“…Based on the known genomic organization of other cheraviruses and on sequence homologies with them, a genomic organization of AWPV and StPV was proposed (Figure 1A,B) in which polyprotein 1 (P1) is cleaved in six mature proteins, while polyprotein 2 (P2) is cleaved into four proteins including a movement protein and three coat proteins. However, the analysis of polyprotein alignments and the variety of cleavage sites already reported for cheraviruses [1,2,[6][7][8] 3). The 3 NCRs are longer, comprising between 229 nt (AWPV-Pm) and 251 nt (StPV) (Table 3).…”

Section: Genomic Organization Of Awpv and Stpv And Determination Of T...mentioning

confidence: 99%

“…The genus Cheravirus is one of the nine genera (according to the last update of https://talk.ictvonline.org/taxonomy/ verified on 3 August 2022) assigned to the family Secoviridae. The recognized species include Apple latent spherical virus (ALSV), Cherry rasp leaf virus (CRLV), Arracacha virus B (AVB), Currant latent virus (CuLV) and Stocky prune virus (StPV), while two tentative members have recently been discovered, trillium govanianum cheravirus (TgCV) and babaco cheravirus 1 (BabChV-1) [1][2][3][4][5][6][7][8][9]. Cheraviruses have bipartite, single-stranded positive-sense RNA genomes.…”

Section: Introductionmentioning

confidence: 99%

The Molecular Characterization of a New Prunus-Infecting Cheravirus and Complete Genome Sequence of Stocky Prune Virus

Khalili

Candresse

Brans

et al. 2022

Viruses

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As part of a virome characterization of Prunus species, a novel cheravirus was discovered in two wild species, Prunus brigantina and P. mahaleb, and in an apricot (P. armeniaca) accession. The sequence of the two genomic RNAs was completed for two isolates. The Pro-Pol conserved region showed 86% amino acid (aa) identity with the corresponding region of trillium govanianum cheravirus (TgCV), a tentative Cheravirus member, whereas the combined coat proteins (CPs) shared only 40% aa identity with TgCV CPs, well below the species demarcation threshold for the genus. This suggests that the new virus should be considered a new species for which the name alpine wild prunus virus (AWPV) is proposed. In parallel, the complete genome sequence of stocky prune virus (StPV), a poorly known cheravirus for which only partial sequences were available, was determined. A phylogenetic analysis showed that AWPV, TgCV and StPV form a distinct cluster, away from other cheraviruses.

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“…By analogy to the structures of the polyproteins from apple latent spherical virus (ALSV) [16], cherry rasp leaf virus (CRLV) [17], arracacha virus B (AVB) [18], CuLV [19], and stocky prune virus (StPV) [20], the polyprotein encoded from RNA1 appears to be cleaved into five different mature proteins: a protease cofactor (Pro-Co, aa 1-605), a helicase (Hel, aa 606-1173), a VPg (aa 1174-1235), a serine protease (Pro, aa 1236-1461), and an RdRp (aa 1462-2160), with specific cleavage sites of GQ/G, GQ/G, GE/G, and GQ/G, respectively. The Pro-Co protein contains an 480 FX 22 W 34 L 538 (F-W-L) motif, unlike the FX 26 WX 34 L motif identified in ALSV and the FX 30 WX 15 LX 20 L motif found in AVB [16,18]. The Hel protein has GKS (aa 790-792), DE (aa 836-837), and N (aa 859) domains, which are prevalent in +ssRNA viruses [21].…”

Section: Diversity Analysis Of Currant Latent Virusmentioning

confidence: 99%

Virome Analysis of Aconitum carmichaelii Reveals Infection by Eleven Viruses, including Two Potentially New Species

Yang,

Lan,

Wang

et al. 2023

IJMS

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Aconitum carmichaelii is a herbaceous herb indigenous to China that has been cultivated for traditional medicine for centuries. Virus-like symptoms of A. carmichaelii plants were observed on leaves in some A. carmichaelii plantations in Zhanyi and Wuding Counties, Yunnan Province, southwest China. High-throughput sequencing (HTS) was performed on 28 symptomatic plants, and the results revealed infection with 11 viruses, including 2 novel viruses and 9 previously described viruses: Aconitum amalgavirus 1 (AcoAV-1), aconite virus A (AcVA), cucumber mosaic virus (CMV), currant latent virus (CuLV), apple stem grooving virus (ASGV), chilli veinal mottle virus (ChiVMV), tomato spotted wilt orthotospovirus (TSWV), tobacco vein distorting virus (TVDV), and potato leafroll virus (PLRV). Two novel viruses tentatively named Aconitum potyvirus 1 and Aconitum betapartitivirus 1, were supported by sequence and phylogenetic analysis results of their genomes. We proposed the names Potyvirus aconiti and Betapartitivirus aconiti. RT-PCR assays of 142 plants revealed the predominance and widespread distribution of CMV, AcVA, and AcoPV-1 in plantations. The detection of isolates of CuLV, ASGV, ChiVMV, TSWV, TVDV, and PLRV infections for the first time in A. carmichaelii expands their known host ranges.

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Complete genome sequence of arracacha virus B: a novel cheravirus

Cited by 15 publications

References 23 publications

Plant Virus Metagenomics: Advances in Virus Discovery

Plant Virus Metagenomics: Advances in Virus Discovery

The Molecular Characterization of a New Prunus-Infecting Cheravirus and Complete Genome Sequence of Stocky Prune Virus

Virome Analysis of Aconitum carmichaelii Reveals Infection by Eleven Viruses, including Two Potentially New Species

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