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

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.

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

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.

scholarly journals Complete genome sequence analysis of Seneca Valley virus-001, a novel oncolytic picornavirus

2008 ◽  
Vol 89 (5) ◽  
pp. 1265-1275 ◽  
Author(s):  
Laura M. Hales ◽  
Nick J. Knowles ◽  
P. Seshidar Reddy ◽  
Ling Xu ◽  
Carl Hay ◽  
...  
Keyword(s):  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Rna Virus ◽  
Encephalomyocarditis Virus ◽  
Entry Site ◽  
Internal Ribosome Entry ◽  
Reading Frame ◽  
Encephalomyelitis Virus ◽  
Seneca Valley Virus

The complete genome sequence of Seneca Valley virus-001 (SVV-001), a small RNA virus, was determined and was shown to have typical picornavirus features. The 7280 nt long genome was predicted to contain a 5′ untranslated region (UTR) of 666 nt, followed by a single long open reading frame consisting of 6543 nt, which encodes a 2181 aa polyprotein. This polyprotein could potentially be cleaved into 12 polypeptides in the standard picornavirus L-4-3-4 layout. A 3′ UTR of 71 nt was followed by a poly(A) tail of unknown length. Comparisons with other picornaviruses showed that the P1, 2C, 3C and 3D polypeptides of SVV-001 were related most closely to those of the cardioviruses, although they were not related as closely to those of encephalomyocarditis virus and Theiler's murine encephalomyelitis virus as the latter were to each other. Most other regions of the polyprotein differed considerably from those of all other known picornaviruses. SVV-001 contains elements of an internal ribosome entry site reminiscent of that found in hepatitis C virus and a number of genetically diverse picornaviruses. SVV-001 is a novel picornavirus and it is proposed that it be classified as the prototype species in a novel genus named ‘Senecavirus’.

scholarly journals Complete Genome Sequence of a Novel Putative RNA Virus, RiPV-2, from the Bean Bug Riptortus pedestris

2020 ◽  
Vol 9 (21) ◽  
Author(s):  
Yi-Ting Yang ◽  
Se Jin Lee ◽  
Yu-Shin Nai ◽  
Jae Su Kim
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Entomopathogenic Fungus ◽  
Complete Genome ◽  
Rna Virus ◽  
Content Type ◽  
Riptortus Pedestris ◽  
Bean Bug

ABSTRACT A novel putative single-stranded RNA virus was discovered from the transcriptome of a bean bug, Riptortus pedestris, infected with the entomopathogenic fungus Beaveria bassiana JEF-007. The complete genome sequence was 9,915 nucleotides long and encoded a 2,916-amino-acid polyprotein. This virus belonged to Iflaviridae based on phylogenetic analysis and was named RiPV-2.

scholarly journals Complete Genome Sequence of the First Isolate of Hibiscus Latent Singapore Virus Detected in Japan

2018 ◽  
Vol 6 (7) ◽  
Author(s):  
Tetsuya Yoshida ◽  
Yugo Kitazawa ◽  
Yutaro Neriya ◽  
Naoi Hosoe ◽  
Yuji Fujimoto ◽  
...  
Keyword(s):  
Amino Acid ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Nucleotide Identity ◽  
Japanese Isolate ◽  
Encoded Proteins

ABSTRACT The complete genome sequence of the first Japanese isolate of hibiscus latent Singapore virus (HLSV-J) was determined. The genomes of HLSV-J and a reported isolate from Singapore had only 86.7% nucleotide identity, while the encoded proteins shared amino acid identities of more than 95%.

Complete Genome Sequence of a Novel Ourmia-like Mycovirus Infecting the Phytopathogenic Fungus Botryosphaeria Dothidea

2021 ◽  
Author(s):  
Liying Sun ◽  
Ziqian Lian ◽  
Subha Das ◽  
Jingxian Luo ◽  
Ida Bagus Andika
Keyword(s):  
Amino Acid ◽  
Genome Sequence ◽  
Amino Acid Sequences ◽  
Shanxi Province ◽  
Phytopathogenic Fungus ◽  
Botryosphaeria Dothidea ◽  
Reading Frame ◽  
Ring Rot ◽  
Ssrna Virus ◽  
The Family

Abstract In this study, we describe the full-length genome sequence of a novel ourmia-like mycovirus, tentatively designated Botryosphaeria dothidea ourmia-like virus 1 (BdOLV1), isolated from the phytopathogenic fungus, Botryosphaeria dothidea strain P8, associated with apple ring rot in Shanxi province, China. The complete BdOLV1 genome is comprised of 2797 nucleotides, a positive-sense (+) single-stranded RNA (ssRNA) with a single open reading frame (ORF). The ORF putatively encodes a 642-amino acid polypeptide with conserved RNA-dependent RNA polymerase (RdRp) motifs, related to viruses of the family Botourmiaviridae. Phylogenetic analysis based on the RdRp amino acid sequences showed that BdOLV1 is grouped with oomycete-infecting unclassified viruses closely related to the genus Botoulivirus in Botourmiaviridae. This is the first report of a novel (+)ssRNA virus in B. dothidea related to the genus Botoulivirus in the family Botourmiaviridae.

scholarly journals Complete Genome Sequence of Porcine Deltacoronavirus Strain CH/JXJGS01/2016, Isolated in Jiangxi Province, China, 2016

2017 ◽  
Vol 5 (34) ◽  
Author(s):  
Min Zhang ◽  
Yu Ye ◽  
Wang Gong ◽  
Nannan Guo ◽  
Fanfan Zhang ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Jiangxi Province ◽  
Accession Number ◽  
Chinese Strain

ABSTRACT The complete genome sequence of a variant of porcine deltacoronavirus, isolated from a diarrheal piglet and designated CH/JXJGS01/2016, was sequenced and analyzed. Phylogenetic analysis demonstrated that CH/JXJGS01/2016 shares the highest nucleotide and amino acid identities with the Chinese strain NH (GenBank accession number KU981059).

Complete genome sequence of Pseudoalteromonas espejiana DSM9414T, an amino-acid-requiring strain from seawater

2018 ◽  
Vol 38 ◽  
pp. 21-23
Author(s):  
Jin-Cheng Rong ◽  
Qian-Qian Cha ◽  
Xue-Bing Ren ◽  
Bin-Bin Xie ◽  
Xiao-Yan Song
Keyword(s):  
Amino Acid ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome
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