Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Colugo, Galeopterus variegatus, Cynocephalus volans

ABSTRACT: Genomic analysis reveals remarkable hidden biodiversity within colugos, and the sister group to primates.

PROVIDER: PRJNA316732 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR3683850_1.fastq.gz	Fastqsanger.gz
	SRR3683850_2.fastq.gz	Fastqsanger.gz
	SRR3683860_1.fastq.gz	Fastqsanger.gz
	SRR3683860_2.fastq.gz	Fastqsanger.gz
	SRR3683870_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 136

Similar Datasets

Cynocephalus volans

Project description:Cynocephalus volans overview

| PRJNA911901 | ENA

Galeopterus variegatus

Project description:The Sunda flying lemur, or colugo, of Southeast Asia

| PRJNA20507 | ENA

Galeopterus variegatus

Project description:Galeopterus variegatus Transcriptome or Gene expression

| PRJNA387579 | ENA

Galeopterus variegatus

Project description:Flying lemur, or colugo, of Southeast Asia

| PRJNA20511 | ENA

Endogenous lentivirus in Malayan colugo (Galeopterus variegatus), a close relative of primates.

Project description:BackgroundA significant fraction of mammalian genomes is composed of endogenous retroviral (ERV) sequences that are formed by germline infiltration of various retroviruses. In contrast to other retroviral genera, lentiviruses only rarely form ERV copies. We performed a computational search aimed at identification of novel endogenous lentiviruses in vertebrate genomes.FindingsUsing the in silico strategy, we have screened 104 publicly available vertebrate genomes for the presence of endogenous lentivirus sequences. In addition to the previously described cases, the search revealed the presence of endogenous lentivirus in the genome of Malayan colugo (Galeopterus variegatus). At least three complete copies of this virus, denoted ELVgv, were detected in the colugo genome, and approximately one hundred solo LTR sequences. The assembled consensus sequence of ELVgv had typical lentivirus genome organization including three predicted accessory genes. Phylogenetic analysis placed this virus as a distinct subgroup within the lentivirus genus. The time of insertion into the dermopteran lineage was estimated to be more than thirteen million years ago.ConclusionsWe report the discovery of the first endogenous lentivirus in the mammalian order Dermoptera, which is a taxon close to the Primates. Lentiviruses have infiltrated the mammalian germline several times across millions of years. The colugo virus described here represents possibly the oldest documented endogenization event and its discovery can lead to new insights into lentivirus evolution. This is also the first report of an endogenous lentivirus in an Asian mammal, indicating a long-term presence of this retrovirus family in Asian continent.

| S-EPMC4198772 | biostudies-literature

Cynocephalus volans isolate:mCynVol1

Project description:Cynocephalus volans (Philippine flying lemur) genome mCynVol1, primary haplotype

| PRJNA911844 | ENA

Cynocephalus volans isolate:mCynVol1

Project description:Cynocephalus volans (Philippine flying lemur) genome mCynVol1, alternate haplotype

| PRJNA911845 | ENA

Galeopterus variegatus isolate:US047

Project description:Galeopterus variegatus isolate:US047 Genome sequencing and assembly

| PRJNA399345 | ENA

Project description:Concealed in plain sight: the hidden vault of global biodiversity data

| PRJNA936139 | ENA

A Hidden Human Proteome Encoded by the “Non-Coding” Genes

Project description:It has been a long debate whether the 98% “non-coding” fraction of human genome can encode functional proteins besides a “random noise” of translation. We used our established translatome sequencing (RNC-seq) to analyze human cells and found that up to 3330 long non-coding RNAs (lncRNAs) were bound to ribosomes and thus might be translated into proteins (with more than 50 amino acids). These new protein-coding genes distributed universally in all human chromosomes. We then used various experimental methods including mass spectrometry, immunoblotting, subcellular localization and phenotype assessments to verify the existence of such a hidden human proteome encoded by purported lncRNAs that can express functional proteins. These new proteins deviate from the canonical proteins in various physical and chemical properties, and emerged mostly in primates during evolution. In sum, we experimentally evidenced a hidden human functional proteome encoded by purported lncRNAs, suggesting that the human genome has to be systematically re-annotated.

2022-02-25 | PXD005291 | Pride

OmicsDI is part of the ELIXIR infrastructure

OmicsDI is an Elixir interoperability service. Learn more ›

Tweets

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