Browse
Submit Data
Databases
API
Help

Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Plant Viral Movement Protein-expressing Yeast Transcriptome compared with Non-Functional Plant Viral Movement Protein-expressing Yeast Transcriptome

ABSTRACT: Virus life cycle heavily depends on their ability to command the host machinery in order to translate their genomes. By using a yeast-based approach we have found that over expression of the PNRSV MP caused a severe growth defect in yeast cells. cDNA microarrays analysis carried out to characterise at the molecular level the growth interference phenotype reported the induction of genes related to amino acid deprivation suggesting that expression of MP activates the GCN pathway in yeast cells. Yeast cell cultures were grown 24h in minimal medium with doxycycline (100 mg/ml). These cultures were then diluted to an OD600 nm of 0.1 into fresh minimal medium without doxycycline. At 6 h total RNA was extracted from yeast cells transformed with the pCM:MPpnrsv and MPpnrsvΔHR, a non-functional MPpnrsv mutant lacking its hydrophobic region.

ORGANISM(S): Saccharomyces cerevisiae

SUBMITTER: Jose Gadea

PROVIDER: E-GEOD-26120 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

ACCESS DATA

Json Xml

Similar Datasets

Plant Viral Movement Protein-expressing Yeast Transcriptome compared with wild-type Yeast Transcriptome

Project description:Virus life cycle heavily depends on their ability to command the host machinery in order to translate their genomes. By using a yeast-based approach we have found that over expression of the PNRSV MP caused a severe growth defect in yeast cells. cDNA microarrays analysis carried out to characterise at the molecular level the growth interference phenotype reported the induction of genes related to amino acid deprivation suggesting that expression of MP activates the GCN pathway in yeast cells. Yeast cell cultures were grown 24h in minimal medium with doxycycline (100 mg/ml). These cultures were then diluted to an OD600 nm of 0.1 into fresh minimal medium without doxycycline. At 6 h total RNA was extracted from yeast cells transformed with the empty pCM262 vector (pCM construct) and pCM:MPpnrsv.

2011-12-01 | E-GEOD-26119 | biostudies-arrayexpress

Plant Viral Movement Protein-expressing Yeast Transcriptome compared with Non-Functional Plant Viral Movement Protein-expressing Yeast Transcriptome

2011-12-01 | GSE26120 | GEO

Plant Viral Movement Protein-expressing Yeast Transcriptome compared with wild-type Yeast Transcriptome

2011-12-01 | GSE26119 | GEO

Expression data from differentiating ES cells expressing Snail during Wnt inhibition

Project description:ES cells differentiated in the presence of the Wnt inhibitor DKK1 fail to express the transcription factor Snail and undergo EMT. We generated an ES cell line, A2.snail, that induced Snail expression upon addition of doxycycline addition. Microarrays were used to gain a global picture of ES cell differentiation at early timepoints after Snail was expressed during Wnt inhibition. A2.snail ES cells, which express Snail upon addition of doxycycline, were differentiated as embryoid bodies in differentiation media and DKK1. Total RNA was harvested from control (no doxycycline) and Snail-induced (doxycycline at day 2) cultures at 6, 12, and 24 hours after doxycycline addition (corresponding to days 2.25, 2.5, and 3 of differentiation).

2011-09-21 | E-GEOD-24291 | biostudies-arrayexpress

Expression data from differentiating ES cells expressing miR-200c and miR-141

Project description:ES cells express the miR-200 family which becomes down-regulated during the course of differentiation in serum. We generated an ES cell line which expresses miR-200c and miR-141 upon addition of doxycycline. Microarrays were used to gain a global picture of differentiation when miR-200c and miR-141 expression were maintained throughout differentiation through the addition of doxycycline. A2.miR200c ES cells, which express miR-200c/miR-141 upon addition of doxycycline, were differentiated as embryoid bodies in six petri dishes. Half of the samples were treated with doxycycline on days 2 and 4 of differentiation, and RNA was collected from all samples on days 3, 4, and 5.

2011-09-21 | E-GEOD-24289 | biostudies-arrayexpress

Yeast glutamine tRNA synthetase doxycycline shut-off

Project description:During protein synthesis, charged tRNAs deliver amino acids to translating ribosomes, and are then re-charged by tRNA synthetases (aaRS). In humans, mutant aaRS cause a diversity of neurological disorders, but their molecular aetiologies are incompletely characterised. To understand system responses to aaRS depletion, the yeast glutamine aaRS gene (GLN4) was transcriptionally regulated using doxycycline by tet-off control. Depletion of Gln4p inhibited growth, and induced a transcriptional GCN4 amino acid starvation response, indicative of uncharged tRNA accumulation and Gcn2 kinase activation. The GCN4 response was confirmed using SILAC proteomics, using heavy isotope labelling to identify changes in protein expression during glutamine tRNA synthetase depletion.

2020-02-12 | PXD017140 | Pride

Gene expression in cells expressing doxycycline-induced thymidylate synthase transgene

Project description:Gene expression was compared between a Tet-OFF transfomant expressing thymidylate synthase trasgene and its parental human colorectal cancer cell line, DLD-1, or the transformant exposed to doxycycline.

2015-03-31 | E-MTAB-3414 | biostudies-arrayexpress

Expression data from transgenic Nicotiana tabacum expressing a variant of coat protein and movement protein from Tobacco mosaic virus

Project description:Transgenic expression of viral proteins in natural host plants is a useful simplified system with the potential to understand the individual effect of each viral component. Transgenic expression of movement (MP) and a variant from coat protein (CPT42W) in tobacco, a TMV natural host, produces severe morphological changes, altered miRNAs accumulation and poor fertility. We used microarrays to characterize the gene expression changes caused by the co-expression of TMV capsid and movement proteins in Nicotiana tabacum comparing two isogenic lines MPxCPT42W and mpxcpT42W* (a line with both transgenes spontaneously silenced and with normal phenotype).

2012-12-01 | GSE37905 | GEO

Whole genome expression analysis of SaOS2 cells expressing anti-sense APC RNA

Project description:Osteoblasts represent an important cell type playing a role in not only bone formation but also regulate hematopoiesis by secreting factor as well as via contact with hematopoietic stem cells in the bone marrow. Since Wnt signalling plays an important role in osteoblast differentiation, we were interested in looking at how canonical Wnt signalling activation in osteoblastic cells is likely to affect hematopoietic cell adhesion and regulate their fate. Endogenous Wnt signaling activation in osteoblastic SaOS2 cells was achieved by generating doxycycline (DOX) inducible antisense-APC expressing SaOS2 cells. Gene expression profiling was performed on SaOS2 cells induced with DOX (1Î¼g/ml) for 3 days and further on DOX treated cells allowed to recover for 3 days. The results reveal changes in expression of a number of cell adhesion and extracellular matrix protein genes as well as genes involved in osteoblast differentiation. Doxycycline inducible antisense APC expressing SaOS2 cells were treated with DOX for 3 days and compared with control (untreated) cells. In addition, a set of DOX induced cells was further cultured for 3 days in absence of Dox to allow for the cells to recover and see the change in gene expression compared to Dox treated and control cells. All experiments were done in triplicates (in total 9 samples).

2016-03-03 | E-GEOD-78818 | biostudies-arrayexpress

Expression data from differentiating Flk1- and Flk1+ ES cells expressing Snail during Wnt inhibition

Project description:ES cells differentiated in the presence of the Wnt inhibitor DKK1 fail to express the transcription factor Snail and undergo EMT or mesoderm differentiation. We generated an ES cell line, A2.snail, that induced Snail expression upon addition of doxycycline addition. Microarrays were used to gain a global picture of Flk1- and Flk1+ cells generated one day after Snail was expressed during Wnt inhibition. A2.snail ES cells, which express Snail upon addition of doxycycline, were differentiated as embryoid bodies in differentiation media and DKK1. Snail-induced cultures uniquely develop a select population of Flk1+ cells. Total RNA was harvested from sorted control (no doxycycline) Flk1- cells and sorted Snail-induced (doxycycline at day 2) Flk1- and Flk1+ cells at day 3 of differentiation.

2013-10-23 | E-GEOD-26524 | biostudies-arrayexpress

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