Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Functional Landscape of the Fission Yeast Genome

ABSTRACT: Identification of functional genomic elements in Schizosaccharomyces Pombe using high-density transposon mutagenesis

PROVIDER: PRJEB27324 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

The fission yeast Schizosaccharomyces pombe

Project description:The fission yeast Schizosaccharomyces pombe

| PRJNA413028 | ENA

Functional genomics for the oleaginous yeast Yarrowia lipolytica

Project description:Oleaginous yeasts are valuable systems for biosustainable production of hydrocarbon-based chemicals. Yarrowia lipolytica is one of the best characterized of these yeast with respect to genome annotation and flux analysis of metabolic processes. Nonetheless, progress is hampered by a dearth of genomewide tools enabling functional genomics. The Hermes DNA transposon was expressed to achieve saturation mutagenesis of the Y. lipolytica genome. Over 535 thousand independent insertions were identified by next-generation sequencing. Poisson analysis of insertion density classified ~22% of genes as essential. As expected, most essential genes not only have homologues in Saccharomyces cerevisiae and Schizosaccharomyces pombe, but the majority of those are also essential. As an obligate aerobe, Y. lipolytica has significantly more respiration - related genes that are classified as essential than do S. cerevisiae and S. pombe. The findings provide insights into biosynthetic pathways, compartmentalization of enzymes, and distinct functions of paralogs. Contributions of nonessential genes to fitness were determined in log growth cultures with glucose and glycerol carbon sources. Fluorescence-activated cell sorting identified mutants in which lipid accumulation is increased. Biological contributions of genes to growth were used to evaluate two recent genome-scale models Y. lipolytica metabolism. This study is the first functional genomic analysis of an oleaginous yeast and provides an important resource for modeling and bioengineering of Y. lipolytica.

2018-12-06 | GSE90993 | GEO

Genome wide map of H3K9me2 in fission yeast Schizosaccharomyces pombe.

Project description:Genome wide map of H3K9me2 in 4 different strains of fission yeast Schizosaccharomyces pombe.

2019-01-03 | GSE119604 | GEO

Genome-wide map of RNA-Seq in fission yeast Schizosaccharomyces pombe

Project description:RNA-Seq from 3 different strains of fission yeast Schizosaccharomyces pombe.

2020-05-26 | GSE148191 | GEO

Genome wide map of heterochromatin state in fission yeast Schizosaccharomyces pombe

Project description:Genome wide map of heterochromatin state in fission yeast Schizosaccharomyces pombe via 4 different strains

2013-07-20 | GSE42848 | GEO

Expression profilings of fission yeast strains

Project description:We report gene expression profiling in the fission yeast Schizosaccharomyces pombe. We performed high-throughput sequencing of RNA isolated from wild-type, mmi1(W112A) mutant, erh1∆, and mmi1∆ strains. We find that mmi1(W112A) and erh1∆ derepress a shared subset of mmi1-repressed genes during vegetative growth.

2019-01-03 | GSE119605 | GEO

Expression profiles of lncRNAs and mRNAs in fission yeast.

Project description:We explored transcriptional profiles of the fission yeast Schizosaccharomyces pombe. RNA-seq was used to characterize changes in expression profiles of all known lncRNAs and mRNAs in wild type cells.

2024-03-04 | GSE168346 | GEO

small RNA discovery in fission yeast Schizosaccharomyces japonicus

Project description:We used massively parallel sequencing to discover and characterize small RNAs (sRNAs) from fission yeast Schizosaccharomyces japonicus. We found that, unlike in related S. pombe, a substantial fraction of sRNAs maps to transposons, both telomeric and centromeric.

2012-07-26 | GSE26902 | GEO

Transcriptional responses of fission yeast to DNA damage.

Project description:We explored transcriptional responses of the fission yeast Schizosaccharomyces pombe to DNA damage. RNA-seq was used to characterize changes in expression profiles of all known lncRNAs and mRNAs in response to four DNA damage agents: Camptothecin, Hydroxyurea, Methyl methanesulfonate, Phleomycin.

2024-03-04 | GSE168230 | GEO

Inorganic polyphosphate abets silencing of a sub-telomeric gene cluster in fission yeast

Project description:This RNA-Seq analysis compares gene expression of the vtc4∆ mutant contrasting to the wild-type fission yeast (Schizosaccharomyces pombe).

2022-11-21 | GSE213524 | 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