Saccharomyces cerevisiae
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ABSTRACT:
PROVIDER: PRJNA85067 | ENA |
REPOSITORIES: ENA
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Project description:Wild type strain CEN.PK113-7D was grown in an aerobic batch cultivation with a start concentration of 20 g/L galactose. During exponential growth at a biomass concentration of 3 g dry weight/L LiCl was added to a concentration of 10 mM. Just before addition of LiCl (time 0) and 20, 40, 60 and 140 minutes after addition of LiCl samples were taken for transcription analysis. Lithium inhibits phosphoglucomutase whereby both galactose uptake and growth is strongly affected.
2007-07-07 | E-GEOD-461 | biostudies-arrayexpress
Project description:JM43 cells grown aerobically in galactose and treated with Antimycin A
| PRJNA93859 | ENA
Project description:Wild type strain CEN.PK113-7D was grown in an aerobic batch cultivation with a start concentration of 20 g/L galactose. During exponential growth at a biomass concentration of 3 g dry weight/L LiCl was added to a concentration of 10 mM. Just before addition of LiCl (time 0) and 20, 40, 60 and 140 minutes after addition of LiCl samples were taken for transcription analysis. Lithium inhibits phosphoglucomutase whereby both galactose uptake and growth is strongly affected. Keywords = Saccharomyces galactose lithium Keywords: time-course
2003-06-23 | GSE461 | GEO
Project description:Extensive transcriptional heterogeneity revealed by isoform profiling Application of TIF-Seq (Transcript IsoForm Sequencing) to S.cerevisiae. The method was applied to simultaneously identify the 5' capped mRNA transcription start site and the 3' polyadenylation site in different conditions: WT cells grown in glucose media [ypd, 2 biological replicates (bio) and 3 independent library preparations, technical replicates(lib)], WT cells grown in galactose media [ypgal, 4 biological replicates (bio) and 3 independent library preparations, technical replicates(lib)]. A modified protocol designed to enrich in long mRNA molecules was performed for WT cells grown in glucose media [ypd, 2 biological replicates (bio)] and in galactose media [ypgal, 2 biological replicates (bio)] conditions. Finally, control samples performed with a modified protocol designed to identify non-capped but polyadenylated molecules was performed in WT cells grown both in glucose (nypd) and galactose (nypgal) media.
2013-05-06 | E-GEOD-39128 | biostudies-arrayexpress
Project description:Deletion mutants mth1, std1, and mth1+std1 v. wild type yeast grown in galactose
| PRJNA118887 | ENA
Project description:The relationship between chromatin structure and transposable element (TE) integration is a fundamental question as nucleosomes can either mediate or inhibit TE insertion. The Ty1 element in Saccharomyces cerevisiae preferentially inserts upstream of RNA Polymerase III-transcribed genes, in a manner coincident with nucleosome positioning. Ty1 insertion positions have largely been inferred from nucleosome occupancy maps, but this approach is imperfect. Nucleosome occupancy maps are typically generated from wild-type Saccharomyces cerevisiae cells grown in standard conditions. Many Ty1 studies rely on a galactose-inducible expression system and it is not yet known if Ty1 overexpression from the GAL1 promoter itself alters nucleosome organization under inducing conditions. Here, we used a galactose-inducible Ty1 expression system and genome-wide MNase-seq to determine whether Ty1 donor plasmid transformation and overexpression alter nucleosome occupancy. We find that changes in carbon source do not substantially alter genome-wide nucleosome organization. In contrast, galactose induction of Ty1 expression revealed time-dependent changes in nucleosome occupancy. Nucleosome organization is unchanged across pre-induction, 6-hour galactose exposure, and post-induction repressing conditions, but nucleosome occupancy shifted at 12 and 24 hours, with changes evident at both Pol II and tRNA genes. We also found that Ty1 integration events are rare at early time points, emerge by 12 hours, and accumulate substantially by 24 hours. Ty1 preferentially targets nucleosomal DNA, but prolonged induction shifts insertion positions relative to nucleosomes. We also find that Ty1 preferentially targets nucleosomal DNA that lies in close proximity to histones, with this preference showing time-dependent shifts during induction.
2026-07-29 | GSE337686 | GEO
Project description:Transcriptome response to gcr1 deletion in raffinose, galactose, and glucose
| PRJNA95817 | ENA
Project description:Universal Microarray System (UMAS) to investigate yeast response to galactose
| PRJNA88043 | ENA
Project description:In response to carbon source switching from glucose to non-glucose, such as ethanol and galactose, yeast cells can directionally preprogram cellular metabolism to efficiently utilize the nutrients. However, the understanding of cellular responsive network to utilize a non-natural carbon source, such as xylose, is limited due to the incomplete knowledge on the xylose response mechanisms. Here, through optimization of the xylose assimilation pathway together with combinational evaluation of reported targets, we generated a series of mutants with varied growth ability. However, understanding how cells respond to xylose and remodel cellular metabolic network is far insufficient based on current information. Therefore, genome-scale transcriptional analysis was performed to unravel the cellular reprograming mechanisms underlying the improved growth phenotype.
2021-01-01 | GSE151478 | GEO
Project description:The goal of these experiments was to define the targets of Ty3 transposition in Saccharomyces cerevisiae. Ty3 is a retroviruslike element that is found at the transcription initiation site of chromosomal tRNA genes. A Ty3 that can be induced by growth in galactose-containing medium and which was marked by an insertion of HIS3 downstream of the second open reading frame of the element (POL3) was induced to undergo transposition by plating cells onto galactose containing medium and replica-plating onto medium selective for cells that had undergone transposition. These cells were collected, DNA was extracted, and inverse PCR was performed using primers inside the Ty3 element in order to generate a library of insertion sites flanked by Illumina sequence-compatible primers.
2011-09-02 | E-GEOD-31820 | biostudies-arrayexpress