Whole-genome sequence analysis of paris virus 1: a novel member of the genus Potyvirus infecting Paris polyphylla var. yunnanensis

Lu, Ciyong; Anane, Rex Frimpong; Wang, Zhe; Yang, Ling; Chen, Zeli; Geyi, Wen; Zhao, Mingfu

doi:10.1007/s00705-020-04560-3

Cited by 19 publications

(12 citation statements)

References 6 publications

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“…Thus, the two potyviruses were tentatively named Paris potyvirus 3 (ParPV-3) and Paris potyvirus 4 (ParPV-4), and the new nepovirus was named as Paris nepovirus 1 (ParNV-1), respectively. LycMoV and HCRV were the first report in P. yunnanensis, while PMNV and ParV1 were previously reported (Lan et al, 2018;Chen et al, 2020).…”

Section: Virus Particlesmentioning

confidence: 93%

“…The spherical particles were measured to be 25-30 nm in diameter (Figure 2A), and filamentous particles were 700 ~ 800 nm in length (Figure 2B). The results indicated that viruses with spherical shape, besides viruses with filamentous shape (Dong et al, 2007;Lan et al, 2018;Wen et al, 2019;Chen et al, 2020Chen et al, , 2021Yang et al, 2022), were associated with the viral diseases of P. yunnanensis. while two large contig of KMV-like potyvirus (91% nt identity between them) were found in Mshi-CL.…”

Section: Virus Particlesmentioning

confidence: 99%

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High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis

Lan

Yang

et al. 2022

Front. Microbiol.

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Paris spp. are important medicinal plant and main raw material for many Chinese patent medicines, but viral diseases have became serious problems in cultivation of this group of important medicinal plants in China. In this study, eight viruses were identified in the diseased plants of Paris yunnanensis by high-throughput sequencing (HTS) and RT–PCR. These viruses include three novel viruses (two potyviruses and one nepovirus), Hippeastrum chlorotic ringspot virus (HCRV), Lychnis mottle virus (LycMoV), Paris mosaic necrosis virus (PMNV), Paris virus 1 and pepper mild mottle virus. The three new viruses were tentatively named Paris potyvirus 3 (ParPV-3), Paris potyvirus 4 (ParPV-4), Paris nepovirus 1 (ParNV-1) and their complete genome sequences were determined. Sequence analyses showed ParPV-3 and ParPV-4 shared the highest amino acid (aa) sequence identities of 54.3% to each other and 53.0–57.8% to other known potyviruses. ParNV-1 had aa sequence identities of 28.8–63.7% at protease-polymerase (Pro-Pol) with other nepoviruses. Phylogenetic analyses further support that the three viruses are new members of their corresponding genera. Analyses of the partial sequences of HCRV and LycMoV infecting P. yunnanensis revealed they diverged from existing isolates by aa sequence identities of 97.1% at glycoprotein precursor of HCRV and 93.3% at polyprotein of LycMoV. These two viruses are reported for the first time in Paris spp. A total of 123 field samples collected from P. yunnanensis in four counties of Yunnan, Southwest China were tested by RT–PCR for detecting each of the eight viruses. Results showed that nearly half of the samples were positive for at least one of the eight viruses. Two potyviruses, ParPV-3 (26.8%) and PMNV (24.4%), were predominant and widely distributed in the fields, while other viruses occurred in low rates and/or had limited distribution. This study insights into the virome infecting P. yunnanensis and provides valuable information for diagnosis and control of viral diseases in P. yunnanensis.

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Section: Virus Particlesmentioning

confidence: 93%

Section: Virus Particlesmentioning

confidence: 99%

High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis

Lan

Yang

et al. 2022

Front. Microbiol.

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“…At present, four viruses have been reported to infect P. polyphylla var. yunnanensis, and these include the putative potexvirus Paris polyphylla virus X, the two potyviruses (Paris mosaic necrosis virus and Paris virus 1) and the tobamovirus Pepper mild mottle virus [5][6][7][8]. In this study, the complete genome sequence of a novel virus was identi ed in total RNAs extracted from diseased leaves of P. polyphylla var.…”

Section: Introductionmentioning

confidence: 99%

Complete genome sequence analysis of a novel bunyavirus isolated from Paris polyphylla var. yunnanensis

Chen

Anane

Wang

et al. 2021

Preprint

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A novel negative-stranded (ns) RNA virus tentatively named “Yunnan manyleaf paris rhizome negative-stranded virus 1” (YMPrNSV1), was isolated from a Paris polyphylla var. yunnanensis plant exhibiting leaf chlorosis and mosaic symptoms in Yunnan. Its complete genome sequence was determined using Illumina and Sanger sequencing. The genomes composed of three RNA segments (L, M and S) with each one containing a single open reading frame. Based on sequence identity and the presence of typical bunya-like domains/motifs, the proteins encoded by YMPrNSV1 were predicted to be: RNA-dependent RNA polymerase (RdRp), putative movement protein (MP), and nucleocapsid protein (NP). Sequence comparison analyses showed that the RdRp, MP and NP of YMPrNSV1 are highly similar to those of watermelon crinkle leaf-associated virus 2 (WCLaV-2), with 69.1%, 50.4% and 60.9% amino acid sequence identities respectively. Phylogenetic analysis based on deduced amino acid sequences of RdRp and NP suggested that YMPrNSV1 clustered with coguviruses in a clade, and that WCLaV-2 is the known closely related species to YMPrNSV1. Base on the above results, YMPrNSV1 should be regarded as a new member of genera Coguvirus, within the family Phenuiviridae.

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“…However, virus disease became daily serious with its extension of planting years and expansion of planting area. several viral pathogens, including Paris polyphylla virus X (PPVX) [2], Paris mosaic necrosis virus (PMNV) [3], pepper mild mottle virus (PMMoV) [4], Paris virus 1 (ParV1) [5], Paris virus 2 (ParV2) [6] and chilli veinal mottle virus [7] had been reported infecting the cultivation plants of P. yunnanensis and caused production declining. This paper investigated the viral disease of P. yunnanensis in Yunnan province, determined and characterized the complete genome sequence of a novel potyvirus from plants with leaf mottle.…”

Section: Introductionmentioning

confidence: 99%

Identification and characterization of a novel potyvirus infecting Paris yunnanensis

Lan

Cao

et al. 2021

Preprint

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The complete genomic sequence of a novel potyvirus from Paris yunnanensis was determined by high-throughput sequencing then confirmed by Sanger sequencing. Its genomic RNA consists 9600 nucleotides (nt) excluding the 3’-terminal poly (A) tail, containing a typical large open reading frame (ORF) of potyviruses and encoding a putative polyprotein of 3098 amino acids (aa). Pairwise comparison analysis showed the virus shares sequence identity with other members of Potyvirus was 53.0–57.8% at genome sequence level, and 39.3–51.2% at polyprotein sequence level. Phylogenetic analysis indicated that the virus was clustered as a single clade within the genus Potyvirus both using nt and aa level. These results suggest that the virus should be considered as a distinct species within the genus Potyvirus, and it was tentatively named as “Paris mottle virus” (PaMoV).

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Whole-genome sequence analysis of paris virus 1: a novel member of the genus Potyvirus infecting Paris polyphylla var. yunnanensis

Cited by 19 publications

References 6 publications

High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis

High-throughput sequencing reveals the presence of novel and known viruses in diseased Paris yunnanensis

Complete genome sequence analysis of a novel bunyavirus isolated from Paris polyphylla var. yunnanensis

Identification and characterization of a novel potyvirus infecting Paris yunnanensis

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