scholarly journals Novel Fusari- and Toti-like Viruses, with Probable Different Origins, in the Plant Pathogenic Oomycete Globisporangiumultimum

Viruses ◽  
2021 ◽  
Vol 13 (10) ◽  
pp. 1931
Author(s):  
Miki Fukunishi ◽  
Shinsaku Sasai ◽  
Motoaki Tojo ◽  
Tomofumi Mochizuki
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Amino Acid Sequence ◽  
High Throughput Sequencing ◽  
Rna Virus ◽  
Pythium Ultimum ◽  
Plasmopara Viticola ◽  
Rna Detection ◽  
Double Stranded Rna ◽  
Different Origins

To further classify the oomycete viruses that have been discovered in recent years, we investigated virus infection in the plant-parasitic oomycete Globisporangium ultimum in Japan. Double-stranded RNA detection, high-throughput sequencing, and RT-PCR revealed that the G. ultimum isolate UOP226 contained two viruses related to fusarivirus and totivirus, named Pythium ultimum RNA virus 1 (PuRV1) and Pythium ultimum RNA virus 2 (PuRV2), respectively. Phylogenetic analysis of the deduced amino acid sequence of the RNA-dependent RNA polymerase (RdRp) showed that fusari-like PuRV1 belonged to a different phylogenetic group than Plasmopara viticola lesion-associated fusari virus (PvlaFV) 1–3 from oomycete Plasmopara viticola. Codon usage bias of the PuRV1 RdRp gene was more similar to those of fungi than Globisporangium and Phytophthora, suggesting that the PuRV1 ancestor horizontally transmitted to G. ultimum ancestor from fungi. Phylogenetic analysis of the deduced amino acid sequence of the RdRp of toti-like PuRV2 showed a monophyletic group with the other toti-like oomycete viruses from Globisporangium, Phytophthora, and Pl. viticola. However, the nucleotide sequences of toti-like oomycete viruses were not so homologous, suggesting the possibility of convergent evolution of toti-like oomycete viruses.

Non-AUG Translation Initiation in a Plant RNA Virus: a Forty-Amino-Acid Extension Is Added to the N Terminus of the Soil-Borne Wheat Mosaic Virus Capsid Protein

1998 ◽  
Vol 72 (2) ◽  
pp. 1677-1682 ◽  
Author(s):  
Yukio Shirako
Keyword(s):  
Amino Acid ◽  
Amino Acid Sequence ◽  
Mosaic Virus ◽  
Capsid Protein ◽  
Translation Initiation ◽  
Deletion Mutant ◽  
Rna Virus ◽  
The United States ◽  
Initiation Codon ◽  
N Terminus

ABSTRACT RNA 2 of soil-borne wheat mosaic virus (SBWMV), the type species of the genus Furovirus, encodes a protein previously hypothesized to be initiated at an in-frame non-AUG codon upstream of the AUG initiation codon (nucleotide positions 334 to 336) for the 19-kDa capsid protein. Site-directed mutagenesis and in vitro transcription and translation analysis indicated that CUG (nucleotides 214 to 216) is the initiation codon for a protein with a calculated molecular mass of 25 kDa composed of a 40-amino-acid extension to the N terminus of the 19-kDa capsid protein. A stable deletion mutant, which was isolated after extensive passages of a wild-type SBWMV, contained a mixture of two deleted RNA 2’s, only one of which coded for the 25-kDa protein. The amino acid sequence of the N-terminal extension was moderately conserved and the CUG initiation codon was preserved among three SBWMV isolates from Japan and the United States. This amino acid sequence conservation, as well as the retention of expression of the 25-kDa protein in the stable deletion mutant, suggests that the 25-kDa protein is functional in the life cycle of SBWMV. This is the first report of a non-AUG translation initiation in a plant RNA virus genome.

Amino acid sequence of a basic aspartate-49-phospholipase A2 from Trimeresurus flavoviridis venom and phylogenetic analysis of Crotalinae venom phospholipases A2

Toxicon ◽  
2005 ◽  
Vol 46 (2) ◽  
pp. 185-195 ◽  
Author(s):  
Takahito Chijiwa ◽  
Kazuki Abe ◽  
Tomohisa Ogawa ◽  
Nikolai N. Nikandrov ◽  
Shosaku Hattori ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Amino Acid Sequence ◽  
Phospholipase A2 ◽  
Phospholipases A2 ◽  
Trimeresurus Flavoviridis

scholarly journals Complete Genome Sequence of a Fusarium graminearum Double-Stranded RNA Virus in a Newly Proposed Family, Alternaviridae

2018 ◽  
Vol 6 (8) ◽  
Author(s):  
Hao He ◽  
Xiaoguang Chen ◽  
Pengfei Li ◽  
Dewen Qiu ◽  
Lihua Guo
Keyword(s):  
Phylogenetic Analysis ◽  
Fusarium Graminearum ◽  
Genome Sequence ◽  
Complete Genome Sequence ◽  
Complete Genome ◽  
Rna Virus ◽  
Phytopathogenic Fungus ◽  
Double Stranded Rna ◽  
First Report ◽  
The Family

ABSTRACT We describe here a double-stranded RNA mycovirus, termed Fusarium graminearum alternavirus 1 (FgAV1/AH11), from the isolate AH11 of the phytopathogenic fungus F. graminearum . Phylogenetic analysis showed that FgAV1/AH11 belongs to a newly proposed family, Alternaviridae . This is the first report of a mycovirus in the family Alternaviridae that infects F. graminearum .

scholarly journals Phylogenetic Analysis of European Brown Hare Syndrome Virus Strains from Poland (1992–2004)

Viruses ◽  
2021 ◽  
Vol 13 (10) ◽  
pp. 1999
Author(s):  
Andrzej Fitzner ◽  
Ewa Kwit ◽  
Wiesław Niedbalski ◽  
Ewelina Bigoraj ◽  
Andrzej Kęsy ◽  
...  
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Amino Acid Sequence ◽  
Single Amino Acid ◽  
Brown Hare ◽  
European Brown Hare ◽  
Genetic Groups ◽  
Vp60 Gene ◽  
European Brown Hare Syndrome ◽  
Virus Strains

European brown hare syndrome (EBHS) is lethal to several species of free-living hares worldwide. The genetic characterization of its virus (EBHSV) strains in European circulation and epidemiological knowledge of EBHSV infections is not yet complete. The study determined the nucleotide sequences of the genomes of EBHSV strains from Poland and analyzed their genetic and phylogenetic relationships to a group of hare lagoviruses. The genome of five virus strains detected in Poland between 1992 and 2004 was obtained by RT-PCR and sequencing of the obtained amplicons. The genetic relationships of the EBHSV strains were analyzed using the full genome and VP60 gene sequences. Additionally, the amino acid sequence of the VP60 gene was analyzed to identify mutations specific to recognized EBHSV subgroups. Partial amplification of the virus open reading frame (ORF)1 and ORF2 regions obtained nearly complete nucleotide genome sequences of the EBHSV strains. Phylogenetic analysis placed them in a GII.1 cluster with other European strains related to nonpathogenic hare caliciviruses. VP60 gene analysis allocated these EBHSV strains to the G1.2, G2.2–2.3 or G3 virus genetic groups. The amino acid sequence differences in the entire genome ranged from 1.1 to 2.6%. Compared to a reference French EBHSV-GD strain, 22 variable amino acid sites were identified in the VP60 region of the Polish strains, but only six were in VP10. Single amino acid changes appeared in different sequence positions among Polish and other European virus strains from different genetic groups, as well as in VP10 sequences of nonpathogenic hare caliciviruses. The results of the study showed a high genetic homogeneity of EBHSV strains from Poland despite their different location occurrence and initial detection times. These strains are also phylogenetically closely related to other EBHSV strains circulating in Europe, likely confirming the slow evolutionary dynamics of this lagovirus species.

Identification and Complete Genome Sequence of an Alternavirus From Airborne Spores of the Phytopathogenic Fungus Fusarium Bullatum

2021 ◽  
Author(s):  
Samira Mokhtari ◽  
Akhtar Ali
Keyword(s):  
Phylogenetic Analysis ◽  
Amino Acid ◽  
Amino Acid Sequences ◽  
Phytopathogenic Fungus ◽  
Sequencing Analysis ◽  
Airborne Spores ◽  
Double Stranded Rna ◽  
Rapid Amplification ◽  
Dsrna Mycovirus ◽  
Blastn Search

Abstract A double-stranded RNA (dsRNA) mycovirus was isolated from airborne spores of Fusarium bullatum and was named Fusarium bullatum alternavirus 1 (FbAV1). Sequencing analysis and the rapid amplification of cDNA ends (RACE) of 5’ and 3’-end confirmed three segments: dsRNA1 (3546 nt), dsRNA2 (2511 nt) and dsRNA3 (2484 nt). BLASTN search of sequences showed that FbAV1 has 92-96% identity with Fusarium incarnatum Alternavirus 1 (FiAV1). Phylogenetic analysis of the RdRp amino acid sequences suggested that the dsRNA mycovirus in this study clustered with the newly proposed family “Alternaviridae”. This is the first report of FbAV1 mycovirus from airborne spores of a fungus F. bullatum.

Sign in / Sign up

Export Citation Format

Share Document