Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Sporulation: MKT1 allele replacement strains WGS

ABSTRACT: Sporulation: MKT1 allele replacement strains WGS

PROVIDER: PRJEB8690 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
	ERR771124_1.fastq.gz	Fastqsanger.gz
	ERR771124_2.fastq.gz	Fastqsanger.gz
	ERR771129_1.fastq.gz	Fastqsanger.gz
	ERR771129_2.fastq.gz	Fastqsanger.gz

Items per page:

1 - 4 of 4

Similar Datasets

Sporulation: TAO3 replacement strains

Project description:Sporulation: TAO3 replacement strains

| PRJEB8698 | ENA

Gene expression profiling in allele replacement panel strains containing all combinations of four sporulation QTN in S. cerevisiae

Project description:We study the effect of four QTN in RME1, IME1 & RSF1 that are causative for variation in sporulation efficiency. We investigate the relationship between genotype, gene expression and phenotype and whether the amount of gene expression variation explained by the sporulation QTN is predictive of the amount of phenotypic variation explained by them. RNA-Seq analysis of 4 replicates each of 16 allele replacement panel strains containing all combinations of the four sporulation QTN after 2 hours in sporulation medium.

2014-05-30 | E-GEOD-55409 | biostudies-arrayexpress

Gene expression profiling in allele replacement panel strains containing all combinations of four sporulation QTN in S. cerevisiae

2014-05-30 | GSE55409 | GEO

Investigating the role of a coding polymorphism in TAO3 in sporulation efficiency variation in yeast

Project description:Temporal expression profiling during sporulation for TAO3(4477C) allele replacement strains in S288c. Raw gene expression data CEL files for control TAO3(4477G) allele strain are given in E-MTAB-3454 (see 9 array files from \S_Spo0h0m_Scerevisiae_tlg.CEL\ to \S_Spo8h30m_Scerevisiae_tlg.CEL\).

2015-12-31 | E-MTAB-3889 | biostudies-arrayexpress

Temporal Expression Profiling Identifies Pathways Mediating Effect of Causal Variant on Phenotype

Project description:Temporal expression profiling during sporulation for MKT1 allele replacement strains in S288c

2015-04-18 | E-MTAB-3454 | biostudies-arrayexpress

Pristionchus pacificus strains WGS

Project description:Pristionchus pacificus strains WGS

| PRJEB25919 | ENA

Interaction of Genetic Variants Activates Latent Metabolic Pathways in Yeast

Project description:Genetic interactions are fundamental to the architecture of complex traits, yet the molecular mechanisms by which variant combinations influence cellular pathways remain poorly understood. Here, we answer the question of whether interactions between genetic variants can activate unique pathways and if such pathways can be targeted to modulate phenotypic outcomes. The model organism Saccharomyces cerevisiae was used to dissect how two causal SNPs, MKT1(89G) and TAO3(4477C), interact to modulate metabolic and phenotypic outcomes during sporulation. By integrating time-resolved transcriptomics, absolute proteomics, and targeted metabolomics in isogenic allele replacement yeast strains, we show that the combined presence of these SNPs uniquely activates the arginine biosynthesis pathway and suppresses ribosome biogenesis, reflecting a metabolic trade-off that enhances sporulation efficiency. Functional validation demonstrates that the arginine pathway is essential for mitochondrial activity and efficient sporulation only in the double-SNP background. Our findings show how genetic variant interactions can rewire core metabolic networks, providing a mechanistic framework for understanding polygenic trait regulation and the emergence of additive effects in complex traits.

2025-07-22 | MTBLS12761 | MetaboLights

Gene expression during early sporulation in Phytophthora infestans

Project description:Transcriptional changes during asexual sporangia formation by the late blight pathogen Phytophthora infestans were identified using microarrays representing 15,650 genes and RNA from sporulation time-courses, purified spores, and sporulation-defective strains. Results were confirmed by reverse transcription-polymerase chain reaction analyses of sporulation on artificial media and infected tomato. During sporulation, about 12% of genes were found to be up-regulated and 5% down-regulated. The most prevalent induced genes had functions in signal transduction, flagella assembly, cellular organization, metabolism, and molecular or vesicular transport. Distinct patterns of expression were discerned based on the kinetics of mRNA induction and their persistence in sporangia. For example, most flagella-associated transcripts were induced very early in sporulation and maintained in sporangia, while many participants in metabolism or small molecule transport were also induced early but had low levels in sporangia. Data from this study are a resource for understanding sporogenesis, which is critical to the pathogenic success of P. infestans and other oomycetes.

2009-01-27 | GSE13580 | GEO

Global analysis of genes induced during sporulation of Clostridium difficile

Project description:Purpose: The goal of this study was to identify genes whose expression is induced during sporulation in a Spo0A-, σF-, σE-, σG-, and σK-dependent manner. Methods: Whole genome RNA sequencing was performed on wildtype, spo0A-, sigF-, sigE-, sigG-, and sigK- C. difficile strains (strain 630 background; JIR8094 = parent strain), and the transcriptional profiles of the different mutants during growth on 70:30 agar plates were determined using an Illumina HiSeq1000. Results: This analysis identified 185 genes whose expression is collectively activated by sporulation sigma factors: 150 were σF-dependent, 150 were σE-dependent, 30 were σG-dependent, and 31 were σK-dependent. A total of 237 genes were identified as requiring Spo0A for their expression when sporulation was induced on the 70:30 plates. Conclusions: These results provide the first genome-wide transcriptional analysis of genes whose expression is induced by specific sporulation sigma factors in the Clostridia and highlight that diverse mechanisms regulate sporulation sigma factor activity in the Firmicutes. For example, in contrast with the B. subtilis sporulation pathway, C. difficile σE was not required to fully activate σG, and σG was not required to activate σK.

2013-08-10 | GSE45977 | GEO

RNA-SEQ analysis of bdf1-Y187F-Y354F mutant strain during yeast sporulation

Project description:The aim of this study is to compare NGS-derived yeast transcriptome profiling (RNA-seq) of wild-type and bdf1-Y187F-Y354F mutant strains after sporulation induction (time points: 0h 4h and 8h).

2017-01-01 | GSE89530 | 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