Complete genome sequence of a novel mitovirus detected in Paris polyphylla var. yunnanensis

Abstract A novel virus, Paris virus 2 (ParV2), was isolated from diseased Paris polyphylla var. yunnanensis, and its complete genome sequence was determined and analyzed. ParV2 is a positive-sense single-stranded RNA (+ssRNA) virus with a genome size of 4118 nucleotides. The ParV2 genome contains six putative open reading frames (ORFs) that encode proteins with predicted molecular weights of 40.14, 100.26, 7.31, 7.85, 26.09, and 8.77 kDa. The first ORF (ORF1) of ParV2 encodes a putative protein of 40.14 kDa (p40, nt: 20-1096), whiles the second ORF (ORF2, 888 aa) containing the GDD motif encodes the highly conserved RNA-dependent RNA polymerase protein (RdRP, nt:20-2683, p100, 100.26 kDa) of viruses in the family Tombusviridae. Multiple sequence alignments analysis showed that the complete genome sequence of ParV2 shares 31.7-55.5% nucleotide sequence identities with viruses in the family Tombusviridae. Ginger chlorotic fleck-associated tombusvirus (GCFaV-1,Accession No.QKE30557) had the highest sequence identity (55.5%) with ParV2, and also shares 59.2% RdRp and 34.9% CP amino acid sequence identity with GCFaV-1.Sequence comparisons and phylogenetic analysis of RdRp suggested that ParV2 is a novel member of the family Tombusviridae, and its closest known relative is GCFaV-1.

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

10.21203/rs.3.rs-209861/v1 ◽

2021 ◽

Author(s):

Zeli Chen ◽

Rex Frimpong Anane ◽

Zhe Wang ◽

Like Gao ◽

Lu Chen ◽

...

Keyword(s):

Amino Acid ◽

Genome Sequence ◽

Complete Genome Sequence ◽

Complete Genome ◽

Rna Virus ◽

Amino Acid Sequences ◽

Reading Frame ◽

Leaf Chlorosis ◽

Paris Polyphylla ◽

Complete Genome Sequence Analysis

Abstract 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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Complete genome sequence of a novel mitovirus isolated from Paris polyphylla var. yunnanensis

10.21203/rs.3.rs-890311/v1 ◽

2021 ◽

Author(s):

Zeli Chen ◽

Lu Chen ◽

Rex Frimpong Anane ◽

Zhe Wang ◽

Like Gao ◽

...

Keyword(s):

Genome Sequence ◽

Complete Genome Sequence ◽

Complete Genome ◽

Rna Virus ◽

Genome Structure ◽

Complementary Sequence ◽

Reading Frame ◽

A Genome ◽

Paris Polyphylla ◽

The Family

Abstract Paris mitovirus 1 (ParMV1) is a positive-sense RNA virus isolated from diseased Paris polyphylla var. yunnanensis plants in Wenshan, Yunnan. The complete genome sequence of ParMV1 consists of 2,751 nucleotides with a genome structure typical of the mitoviruses. ParMV1 genome has a single open reading frame (ORF: 358-2,637 nt) that encodes RNA-dependent RNA polymerase (RdRp) with a molecular mass of 86.42 kDa. ParMV1 contains six conserved motifs (Ι-VΙ) that are unique to mitoviruses. In addition, the 5′and 3′ terminals of the genome have a stable secondary structure, and the reverse complementary sequence forms a panhandle structure. Comparative genome analysis revealed that ParMV1 shares 23.1–40.6% amino acid (aa) and 32.3–45.7% nucleotide (nt) sequence identities with the RdRp of other mitoviruses. The phylogenetic tree inferred from RdRp aa sequence showed that ParMV1 clusters with mitoviruses, and hence should be considered as a new member of the genus Mitovirus in the family Motiviridae. This is the first report of a novel mitovirus infecting Paris polyphylla var. yunnanensis.

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