Browse
Submit Data
Databases
API
Help

Dataset Information

22 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

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

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%.

SUBMITTER: Yoshida T

PROVIDER: S-EPMC5814506 | biostudies-literature | 2018 Feb

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

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

Yoshida Tetsuya T Kitazawa Yugo Y Neriya Yutaro Y Hosoe Naoi N Fujimoto Yuji Y Hagiwara-Komoda Yuka Y Maejima Kensaku K Yamaji Yasuyuki Y Namba Shigetou S

Genome announcements 20180215 7

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%. ...[more]

PMID: 29449391

Similar Datasets

Complete genome sequence of the first isolate of genotype C bovine parainfluenza virus type 3 in Japan.

Project description:Bovine parainfluenza virus type 3 (BPIV3) isolates are classified into three genotypes (BPIV3a to -c). Here, we report the complete genome sequence of the BPIV3c isolate for the first time in Japan. Our results indicate that new primer sets will be required to detect all genotypes of BPIV3 strains.

| S-EPMC4246162 | biostudies-literature

A game-theoretic model of interactions between Hibiscus latent Singapore virus and tobacco mosaic virus.

Project description:Mixed virus infections in plants are common in nature and their interactions affecting host plants would depend mainly on plant species, virus strains, the order of infection and initial amount of inoculum. Hence, the prediction of outcome of virus competition in plants is not easy. In this study, we applied evolutionary game theory to model the interactions between Hibiscus latent Singapore virus (HLSV) and Tobacco mosaic virus (TMV) in Nicotiana benthamiana under co-infection in a plant host. The accumulation of viral RNA was quantified using qPCR at 1, 2 and 8 days post infection (dpi), and two different methods were employed to predict the dominating virus. TMV was predicted to dominate the game in the long run and this prediction was confirmed by both qRT-PCR at 8 dpi and the death of co-infected plants after 15 dpi. In addition, we validated our model by using data reported in the literature. Ten out of fourteen reported co-infection outcomes agreed with our predictions. Explanations were given for the four interactions that did not agree with our model. Hence, it serves as a valuable tool in making long term predictions using short term data obtained in virus co-infections.

| S-EPMC3356392 | biostudies-literature

Complete Genome Sequence of a Lily virus X Isolate from Japan.

Project description:The complete genome sequence of Lily virus X (LVX), which infects lilies, was determined for the first time from lilies in Japan. As with previous reports, the genome of the Japanese LVX isolate lacked an AUG start codon for the triple gene block protein 3-like region.

| S-EPMC5786675 | biostudies-literature

First Complete Genome Sequence of a Subgenotype Vd Newcastle Disease Virus Isolate.

Project description:A Newcastle disease virus was isolated from a chicken from a live bird market in the Mbeya region of Tanzania. Complete genome characterization of the isolate identified it as a member of subgenotype Vd. This is the first complete genome sequence of this subgenotype.

| S-EPMC6606905 | biostudies-literature

First Complete Coding Sequence of a Spanish Isolate of Swine Vesicular Disease Virus.

Project description:Swine vesicular disease virus (SVDV) is a porcine pathogen and a member of the Enterovirus genus within the Picornaviridae family. The SVDV genome is composed of a single-stranded RNA molecule of positive polarity. Here, we report the first complete sequence of the coding region of a Spanish SVDV isolate (SPA/1/'93).

| S-EPMC4777768 | biostudies-literature

The first complete genome sequence of garlic common latent virus occurring in India.

Project description:The complete genome sequence of a garlic common latent virus (GarCLV) isolate collected from NHRDF, Karnal, India was determined. The whole genome of this GarCLV isolate consists of 8573 nucleotides, excluding the 3'-end poly-A tail. The sequence is 91-93% similar to rest of the five whole genome sequences available till date. It contains six open reading frames (ORFs) which encode polypeptide of 219 kDa, 25 kDa, 11 kDa, 7 kDa, 32.74 kDa and 15 kDa from ORF1, ORF2, ORF3, ORF4, ORF5 and ORF6 respectively. The phylogenetic study based on coat protein sequence demonstrated high diversity present among Indian population of GarCLV.

| S-EPMC6531568 | biostudies-literature

First Complete Genome Sequence of a Simian Foamy Virus Isolate from a Cynomolgus Macaque.

Project description:We report here the first complete proviral genome sequence (DDBJ/ENA/GenBank accession no. LC094267) of a simian foamy virus, SFVmfa/Cy5061, isolated from a cynomolgus macaque (Macaca fascicularis). This proviral genome consists of 12,965 nucleotides and has five open reading frames, gag, pol, env, tas, and bet, as with other foamy viruses.

| S-EPMC5137406 | biostudies-literature

Complete Genome Sequence of the Alfalfa latent virus.

Project description:The first complete genome sequence of the Alfalfa latent carlavirus (ALV) was obtained by primer walking and Illumina RNA sequencing. The virus differs substantially from the Czech ALV isolate and the Pea streak virus isolate from Wisconsin. The absence of a clear nucleic acid-binding protein indicates ALV divergence from other carlaviruses.

| S-EPMC4400424 | biostudies-literature

First complete genome sequence of an emerging cucumber green mottle mosaic virus isolate in north america.

Project description:The complete genome sequence (6,423 nucleotides [nt]) of an emerging cucumber green mottle mosaic virus (CGMMV) isolate on cucumber in North America was determined through deep sequencing of small (sRNA) and rapid amplification of cDNA ends. The virus shares 99% nucleotide sequence identity with the Asian genotype but only 90% with the European genotype.

| S-EPMC4424317 | biostudies-literature

First Complete Genome Sequence of a Feline Morbillivirus Isolate from Germany.

Project description:The first cell culture isolation and whole-genome sequence of a feline morbillivirus from Germany are described here. Phylogenetic analysis revealed highest similarity to isolates from Japan and a more distant relationship to strains from Italy, Hong Kong, and the United States. Therefore, feline morbilliviruses should be divided into two different genotypes.

| S-EPMC5908939 | biostudies-literature

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

OmicsDI Databases

PRIDE
PeptideAtlas
MassIVE
JPOST Repository
Physiome Model Repository

EGA
EVA
ENA
LINCS
PAXDB
Cell Collective

MetaboLights
Metabolomics Workbench
MetabolomeExpress
GNPS
BioModels
FAIRDOMHub

ArrayExpress
dbGaP
ExpressionAtlas
GEO
NODE

Information

Databases
Help
API
Contact us
Code on GitHub
Terms of use
Submit Data