Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Effect of the depletion of RBP33 (Tb927.8.990) on the transcriptome of bloodstream and procyclic Trypanosome brucei [RNA-seq]

ABSTRACT: Effect of the depletion of RBP33 (Tb927.8.990) on the transcriptome of bloodstream and procyclic Trypanosome brucei [RNA-seq]

PROVIDER: PRJNA774552 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	SRR16573965_1.fastq.gz	Fastqsanger.gz
	SRR16573965_2.fastq.gz	Fastqsanger.gz
	SRR16573966_1.fastq.gz	Fastqsanger.gz
	SRR16573966_2.fastq.gz	Fastqsanger.gz
	SRR16573967_1.fastq.gz	Fastqsanger.gz

Items per page:

1 - 5 of 24

Similar Datasets

Effect of the depletion of RBP33 (Tb927.8.990) on the transcriptome of bloodstream and procyclic Trypanosome brucei [RNA-seq]

Project description:RBP33 depletion results in the overexpression of 40% (bloodstream) or 20% (procyclic) of all transcripts annotated in the 427 2018 genome

2022-11-03 | GSE186563 | GEO

Surface Proteome Analysis of Procyclic and Bloodstream forms of Trypanosoma brucei

Project description:Surface-exposed proteins of the bloodstream and procyclic forms of T. brucei were biotinylated, affinity purified using streptavidin, and analyzed by LC-MS/MS

2015-03-17 | MSV000079080 | MassIVE

Effect of the depletion of ZC3H41 (Tb927.11.1980) on the transcriptome of procyclic Trypanosome brucei

Project description:Effect of the depletion of ZC3H41 (Tb927.11.1980) on the transcriptome of procyclic Trypanosome brucei

| PRJNA878472 | ENA

Identification of CARP3-interacting proteins in Trypanosoma brucei bloodstream forms and procyclic forms

Project description:How flagellar signaling regulates the host interaction of parasites remains a challenge due to poor conservation of signaling systems with those in cilia of higher organisms. The trypanosome-specific cAMP response protein 3 (CARP3) shows developmentally regulated localization at the flagellar tip membrane, where it is essential for parasite swarming and colonization of the tsetse fly insect vector. This project describes identification of CARP3-YFP interacting proteins by GFP trap pull down followed by mass spectrometry in the bloodstream stage as well as in the procyclic stage of Trypanosoma brucei.

2022-08-31 | PXD025398 | Pride

RNAi of TbNMD3 in procyclic form Trypanosoma brucei lines

Project description:A procyclic form Trypansome brucei RNAi line (PTT parental line, transfected with pALC14 incorporating a TbNMD3 gene fragment) capable of inducing depletion of TbNMD3 was analysed for mRNA expression by RNAseq

2015-04-28 | GSE67246 | GEO

Time series RNA-seq of temperature-entrained and light-entrained bloodstream and procyclic form Trypanosoma brucei cultures

Project description:To address whether T. brucei has a circadian clock we probed its transcriptome by RNA-seq, searching for transcripts oscillating with a 24 hr period. For this we entrained/ synchronized parasites in vitro for three days using temperature and light as environmental stimuli and then collected parasite RNA every four hours for two consecutive days. Parasite RNA was subjected to RNA-seq analysis. We performed this protocol on two stages of the T. brucei life cycle (bloodstream and insect procyclic forms).

2017-02-10 | E-MTAB-4952 | biostudies-arrayexpress

Transcription profiling of T. brucei bloodstream and procyclic forms to look at differential expression of membrane-trafficking genes

Project description:To look at differential expression of membrane-trafficking genes, <br>we extracted RNA from exponentially growing cultures of T. brucei <br>bloodstream (BSF) and procyclic (PCF) forms, labelled and competitively <br>hybridised the cDNA to the microarray. 8 arrays, representing <br>6 BSF and 5 PCF biological replicates, as well as dye swaps were used.

2008-06-26 | E-MEXP-1529 | biostudies-arrayexpress

Effect of the depletion of ZC3H41 (Tb927.11.1980) on the transcriptome of procyclic Trypanosome brucei

Project description:Depletion of ZC3H41 has minor effects on the transcriptome of procyclic trypanosomes. In general, ZC3H41-regulated transcripts seem to be expressed at low abundance, and almost half of them (43%) are probably non-coding, since the corresponding encoded proteins have not been detected in proteomic surveys . A transcript encoding a trans-sialidase (Tb927.11.11410) was clearly upregulated in ZC3H41-depleted cells .

2023-03-29 | GSE212921 | GEO

Insight into the epigenetic regulation of gene expression in the bloodstream and procyclic forms of Trypanosoma brucei through the involvement of G-Quadruplexes

Project description:The study investigates the epigenetic role of G-quadruplexes (G4s) in the differentiation of Trypanosoma brucei brucei, specifically between its bloodstream form (BF) and procyclic form (PC). An in silico analysis identified 115,126 potential G4 sequences (PQSs) across the genome, with 63% having a high probability of G4 formation. These PQSs are unevenly distributed, with notable enrichment in regions associated with antigenic variation, such as variant surface glycoproteins and bloodstream expression sites. The differential distribution of PQSs correlates with regions of high densities of differentially expressed genes, suggesting a regulatory role in morphological transitions. The study assessed the effects of G4-ligands (AQ1, Pt-TTPY, and pyridostatin) on gene expression, revealing significant downregulation of DEGs and highlighting their therapeutic potential. Functional analysis using Gene Ontology indicated that G4-ligands impact various biological processes differently in BF and PC forms. These findings underscore the epigenetic complexity of T. brucei and the potential of G4 structures as key regulators of gene expression and differentiation, offering novel insights into therapeutic strategies targeting the parasite's adaptive mechanisms.

2024-08-31 | GSE275674 | GEO

TbSAP is a novel chromatin protein repressing metacyclic Variant Surface Glycoprotein expression sites in bloodstream form Trypanosoma brucei

Project description:The African trypanosome Trypanosoma brucei is a unicellular eukaryote, which relies on a protective Variant Surface Glycoprotein (VSG) coat for survival in the mammalian host. A single trypanosome has >2000 VSG genes and pseudogenes of which only one is expressed from one of ~15 telomeric bloodstream form expression sites (BESs). Infectious metacyclic trypanosomes present within the tsetse fly vector also express VSG from a separate set of telomeric metacyclic ESs (MESs). All MESs are silenced in bloodstream form T. brucei. As very little is known about how this is mediated, we performed a whole genome RNAi library screen to identify MES repressors. This allowed us to identify a novel SAP domain containing DNA binding protein which we called TbSAP. TbSAP is enriched at the nuclear periphery and binds both MESs and BESs. Knockdown of TbSAP in bloodstream form trypanosomes did not result in cells becoming more ‘metacyclic’-like. Instead, there was extensive global upregulation of transcripts including MES VSGs, VSGs within the silent VSG arrays as well as genes immediately downstream of BES promoters. TbSAP therefore appears to be a novel architectural chromatin protein playing an important role in silencing the extensive VSG repertoire of bloodstream form T. brucei.

2020-11-04 | GSE160713 | GEO

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