Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Oryctes rhinoceros

ABSTRACT: Oryctes rhinoceros overview

PROVIDER: PRJNA486867 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other
	GCA_020654165.1_S4-7k-2v3_genomic.vcf.csi	Other
	GCA_020654165.1_S4-7k-2v3_genomic.vcf.gz	Vcf
	MT457815.1_S4_mitochondrion.vcf.csi	Other
	MT457815.1_S4_mitochondrion.vcf.gz	Vcf

Items per page:

1 - 5 of 51

Similar Datasets

Genomic structural and transcriptional variation of Oryctes rhinoceros nudivirus (OrNV) in Coconut Rhinoceros Beetle

Project description:Oryctes rhinoceros nudivirus (OrNV) is a dsDNA virus which has been used as a biocontrol agent to suppress Coconut Rhinoceros Beetle (Oryctes rhinoceros) in Southeast Asia and the Pacific Islands. Recently a new wave of O. rhinoceros incursions in Oceania is thought to be related to the presence of low virulence isolates of OrNV or virus tolerant haplotypes of beetles. Here, chronically infected beetles were collected from the Philippines, Fiji, PNG and the Solomon Islands (SI). RNAseq was performed to investigate the global viral gene expression profiles and comparative genomic analysis of structural variations. Maximum likelihood phylogenic analysis indicated that OrNV strains from the SI and the Philippines are closely related to while OrNV strains from PNG and Fiji formed a distinct adjacent clade. We detected several polymorphic sites with a frequency higher than 35% in 892 positions of the viral genome. Non-synonymous mutations were detected in several hypothetical proteins, and 15 nudivirus core genes such as gp034, lef-8, lef-4 and vp91. We found limited evidence of variation in viral gene expression among geographic populations. Only a few genes such as gp01, gp022 and gp107 were differentially expressed among different strains. Additionally, small RNA sequencing from SI population suggests that OrNV is targeted by the host RNA interference (RNAi) response with abundant 21nt small RNAs. Some of these structural changes are specific to the geographic population and could be related to particular phenotypic characteristics of the strain, such as viral pathogenicity or transmissibility, and this requires further investigation.

2020-08-26 | GSE152658 | GEO

Oryctes rhinoceros

Project description:Oryctes rhinoceros Transcriptome or Gene expression

| PRJNA486419 | ENA

Oryctes rhinoceros

Project description:Oryctes rhinoceros Transcriptome or Gene expression

| PRJNA486430 | ENA

Oryctes rhinoceros nudivirus

Project description:Oryctes rhinoceros nudivirus Raw sequence reads

| PRJNA413966 | ENA

Oryctes rhinoceros breed:Wild

Project description:Transcriptome of Oryctes rhinoceros (Iso-Seq PacBio)