Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Saccharomyces cerevisiae CEN.PK113-7D

ABSTRACT: Arginine auxotrophy by deletion of the mitochondrial selectable marker ARG8 in Saccharomyces cerevisiae can be reverted by loss-of-function mutations in UME6

PROVIDER: PRJNA906461 | ENA |

REPOSITORIES: ENA

ACCESS DATA

Json Xml

Similar Datasets

Saccharomyces cerevisiae CEN.PK113-7D

Project description:Laboratory evolution of a biotin-requiring Saccharomyces cerevisiae strain for full biotin prototrophy and identification of causal mutations (Raw sequence reads)

| PRJNA383023 | ENA

Saccharomyces cerevisiae CEN.PK113-7D

Project description:Mutations in the galactose-transporter gene GAL2 enable anaerobic growth of glucose-phosphorylation-negative, arabinose-fermenting yeast strains in the presence of glucose

| PRJNA414371 | ENA

Saccharomyces cerevisiae strain:CEN.PK113-7D

Project description:A new laboratory evolution approach to select for constitutive acetic-acid tolerance in Saccharomyces cerevisiae and identification of causal mutations

| PRJNA313456 | ENA

Transcriptome regulation in response to respiratory inhibition with antimycin A in: (a) wild type fission yeast grown in minimal media (EMM) (b) minimal media supplemented with arginine or in (c) strain with deletion of ssp1 gene.

Project description:We observed that in fission yeast respiration inhibition with drug antimycin A results in arginine auxotrophy. To get insights into transcriptional response for respiratory inhibition and attenuating role of arginine supplementation we performed microarray experiment. Yeast were growing exponentially (OD600 around 0.5) in minimal media (EMM), transcript abundance was monitored immediately prior (Time 0), and 30 and 120 minutes after addition to the media antimycin A (to the concentration 0.15 µg/ml). We performed such experiment for wild type yeast (strain 972 h-), wild type yeast grown in minimal media supplemented with arginine (to the concentration 0.2g/L), and for ssp1 deletion strain grown in minimal media. Ssp1 regulates AMPK kinase and our microarray data show that is can modulate response for respiration block. Two biological samples for each condition (EMM, EMM with arginine and ssp1 deletion) was collected. Part of all the samples were pooled and used as reference in dye swap design.

2020-03-30 | E-MTAB-8805 | biostudies-arrayexpress

Nanopore sequencing enables near-complete de novo assembly of Saccharomyces cerevisiae reference strain CEN.PK113-7D.

Project description:The haploid Saccharomyces cerevisiae strain CEN.PK113-7D is a popular model system for metabolic engineering and systems biology research. Current genome assemblies are based on short-read sequencing data scaffolded based on homology to strain S288C. However, these assemblies contain large sequence gaps, particularly in subtelomeric regions, and the assumption of perfect homology to S288C for scaffolding introduces bias. In this study, we obtained a near-complete genome assembly of CEN.PK113-7D using only Oxford Nanopore Technology's MinION sequencing platform. Fifteen of the 16 chromosomes, the mitochondrial genome and the 2-μm plasmid are assembled in single contigs and all but one chromosome starts or ends in a telomere repeat. This improved genome assembly contains 770 Kbp of added sequence containing 248 gene annotations in comparison to the previous assembly of CEN.PK113-7D. Many of these genes encode functions determining fitness in specific growth conditions and are therefore highly relevant for various industrial applications. Furthermore, we discovered a translocation between chromosomes III and VIII that caused misidentification of a MAL locus in the previous CEN.PK113-7D assembly. This study demonstrates the power of long-read sequencing by providing a high-quality reference assembly and annotation of CEN.PK113-7D and places a caveat on assumed genome stability of microorganisms.

| S-EPMC5812507 | biostudies-literature

RNAseq analysis of mutants in coding and non-coding transcription of phosphate genes in the yeast Saccharomyces cerevisiae.

Project description:This study addresses the effect of mutations related to sense and antisense transcription of Saccharomyces cerevisiae phosphate genes using strand-specific RNAseq. Replacement of the transcriptional terminator of PHO84 by that of CYC1 resulted, unexpectedly, in an increased antisense transcription and a strongly reduced sense transcription of PHO84. Also RNA levels of SPL2 were strongly reduced. Deletion of the PHO84 coding region did not markedly affect the expression of SPL2, suggesting that antisense transcription of PHO84 and not the Pho84 transporter affects the expression of SPL2. Deletion of the two putative binding sites for the transcriptional regulator Ume6 in the SPL2 promoter resulted in a slightly increased level of SPL2 RNA, whereas deletion of the UME6 gene resulted in a decreased level of SPL2 and PHO84 RNA. These results suggests that Ume6 is involved in the regulation of SPL2 by a mechanism different from a simple binding to the putative Ume6 binding sites.

2024-03-06 | GSE226971 | GEO

Saccharomyces cerevisiae CEN.PK113-7D

Project description:Characterization and laboratory evolution of mRNA-sized RNA import in mitochondria of Saccharomyces cerevisiae

| PRJNA923502 | ENA

Saccharomyces cerevisiae CEN.PK113-7D

Project description:Expression data of Saccharomyces cerevisiae CEN.PK.113-7D grew in Batch and Chemostat condition using for comparison of RNA-seq and Microarray data

| PRJNA162311 | ENA

Saccharomyces cerevisiae CEN.PK113-7D

Project description:Saccharomyces cerevisiae CEN.PK113-7D genome sequencing

| PRJNA52955 | ENA

Saccharomyces cerevisiae CEN.PK113-7D

Project description:Design and experimental evaluation of a minimal, innocuous watermarking strategy to distinguish near-identical DNA and RNA sequences

| PRJNA554743 | ENA

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