Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Yeast genomic expression patterns in response to zymolyase treatment

ABSTRACT: The evaluation of zymolyase treatment using yeast gene expression comparison analysis. The yeast BY4743 strain was used for this study. Yeast cells were treated with Zymolyase (final conc. 300 U/ml), and incubated at 37 degree for ten minutes. Digestion process was not provided for control sample. Total RNA was isolated with commercial kit (FastRNA Pro Red kit, Q-Biogene), and amplified RNA (aRNA) was synthesized with 3'IVT Express kit (Affymetrix). All samples were hybridized with Gene Chip (Yeast Genome 2.0 Array, Affymetrix), then each array chip was scanned by GeneChip Sanner 3000 (Affymetrix).

ORGANISM(S): Saccharomyces cerevisiae Schizosaccharomyces pombe

PROVIDER: GSE36955 | GEO | 2013/03/21

SECONDARY ACCESSION(S): PRJNA157287

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

Yeast genomic expression patterns in response to zymolyase treatment

Project description:The evaluation of zymolyase treatment using yeast gene expression comparison analysis. The yeast BY4743 strain was used for this study. Yeast cells were treated with Zymolyase (final conc. 300 U/ml), and incubated at 37 degree for ten minutes. Digestion process was not provided for control sample. Total RNA was isolated with commercial kit (FastRNA Pro Red kit, Q-Biogene), and amplified RNA (aRNA) was synthesized with 3'IVT Express kit (Affymetrix). All samples were hybridized with Gene Chip (Yeast Genome 2.0 Array, Affymetrix), then each array chip was scanned by GeneChip Sanner 3000 (Affymetrix). Yeast were treated with zymolyase or left untreated. The only difference in conditions between the treated and untreated samples was the enzymatic digestion process. The conditioned samples were normalized with three replicates.

2013-03-21 | E-GEOD-36955 | biostudies-arrayexpress

Yeast genomic expression patterns in response to type B trichothecenes

2012-09-12 | GSE36954 | GEO

Yeast Genomic Expression Patterns in Response to Zymolyase Treatment

Project description:We used microarray to investigate the influence of zymolyase treatment which is used for degradation of yeast cell wall. Two types of RNA extraction methods were used, and zymolyase preprocessing was applied to one among them. The qualities of total RNA extracted by two extraction methods were checked, and then RNAs were used for generating cloned DNA and RNA. Finally, two types of cRNA were hybridized to Affymetrix yeast genome 2.0_array. Keywords: comparison of RNA extraction process Yeast BY4743 was grown in YPD media containing 0.01% SDS, and was applied for two types of RNA extraction method.

2010-04-12 | E-GEOD-18456 | biostudies-arrayexpress

Yeast genomic expression patterns in response to type B trichothecenes

Project description:The evaluation of mycotoxicity of type B trichothecenes using a yeast gene expression comparison analysis. The yeast BY4743 derivative PDR5 mutant was used for this study. The yeast cells were treated with trichothecene mycotoxins, and incubated at 25 degree for two hours, respectively. Total RNA was isolated with commercial kit (FastRNA Pro Red kit, Q-Biogene), and amplified RNA (aRNA) was synthesized with 3'IVT Express kit (Affymetrix). All samples were hybridized with Gene Chip (Yeast Genome 2.0 Array, Affymetrix), then each array chip was scanned by GeneChip Sanner 3000 (Affymetrix). The yeast strain was grown in YPD medium with 25 ppm of trichothecene mycotoxin (deoxynivalenol (DON), 3-acetyldeoxynivalenol (3ADON), 15-acetyldeoxynivalenol (15ADON), nivalenol (NIV), or fusarenone-X (FusX)). The same volume of DMSO was added to the control samples. The conditioned samples were normalized with three replicates.

2012-09-12 | E-GEOD-36954 | biostudies-arrayexpress

Yeast Genomic Expression Patterns in Response to Zymolyase Treatment

2010-03-31 | GSE18456 | GEO

Wild type 3 hour exposure to zymolyase

Project description:We did transcription profiling on the effect of Zymolyase in Saccharomyces cerevisiae using strains BY4741 (wild type). Yeast cells exposed to Zymolyase in YPD growth medium show a significant induction of cell wall compensatory mechanism. Keywords: cell wall stress response

2008-09-06 | GSE9930 | GEO

wild type two hours exposure to zymolyase

Project description:S. cerevisiae was grown on YEPD. For Zymolyase experiments, yeast cells were grown overnight at 24 °C to an optical density 0.8 - 1 (A600). The culture was refreshed to 0.2 O.D and grown at 24 °C for 2h 30min. Next, culture was divided into two parts. One continues growing under same conditions (non-treated culture) while the other was supplemented with 5units/ml Zymolyase 100T . Cells were collected at 2 hours of growth, frozen at -80 °C and processed for RNA extraction. Keywords: repeat sample

2004-02-16 | GSE966 | GEO

hog1, slt2, rlm1, and msn2/4 mutants exposed to zymolyase

Project description:This SuperSeries is composed of the following subset Series: GSE9930: Wild type 3 hour exposure to zymolyase GSE9931: hog1 mutant 3 hour exposure to zymolyase GSE9932: slt2 mutant 3 hour exposure to zymolyase GSE9933: rlm1 mutant 3 hour exposure to zymolyase GSE9934: msn2/4 mutant 3 hour exposure to zymolyase S. cerevisiae wild type (BY4741) and mutants were grown on YEPD. For Zymolyase experiments, yeast cells were grown overnight at 24 Â°C to an optical density 0.8 - 1 (A600). The culture was refreshed to 0.2 O.D and grown at 24 Â°C for 2h 30min. Next, culture was divided into two parts. One continues growing under same conditions (non-treated culture) while the other was supplemented with 5units/ml Zymolyase 100T. Cells were collected at 3 hours of growth, frozen at -80 Â°C and processed for RNA extraction. The total RNA from one culture was analyzed, and, in addition, for this sample two different hybridizations were performed, including fluorochrome swapping in order to minimize transcriptional changes due to technical variability. This therefore corresponded to two DNA microarrays analyzed.

2010-06-19 | E-GEOD-12684 | biostudies-arrayexpress

rlm1 mutant 3 hour exposure to zymolyase

Project description:We did transcription profiling on the effect of rlm1 deletion, gene involved in cell wall stress response Keywords: cell wall stress response S. cerevisiae (rlm1 mutant) was grown on YEPD. For Zymolyase experiments, yeast cells were grown overnight at 24 Â°C to an optical density 0.8 - 1 (A600). The culture was refreshed to 0.2 O.D and grown at 24 Â°C for 2h 30min. Next, culture was divided into two parts. One continues growing under same conditions (non-treated culture) while the other was supplemented with 5units/ml Zymolyase 100T. Cells were collected at 3 hours of growth, frozen at -80 Â°C and processed for RNA extraction. The total RNA from two different cultures was analyzed, and, in addition, for each sample two different hybridizations were performed, including fluorochrome swapping in order to minimize transcriptional changes due to technical variability. This therefore corresponded to four DNA microarrays analyzed for each condition.

2010-06-19 | E-GEOD-9933 | biostudies-arrayexpress

slt2 mutant 3 hour exposure to zymolyase

Project description:We did transcription profiling on the effect of slt2 deletion, gene involved in cell wall stress response Keywords: cell wall stress response S. cerevisiae (slt2 mutant) was grown on YEPD. For Zymolyase experiments, yeast cells were grown overnight at 24 Â°C to an optical density 0.8 - 1 (A600). The culture was refreshed to 0.2 O.D and grown at 24 Â°C for 2h 30min. Next, culture was divided into two parts. One continues growing under same conditions (non-treated culture) while the other was supplemented with 5units/ml Zymolyase 100T. Cells were collected at 3 hours of growth, frozen at -80 Â°C and processed for RNA extraction. The total RNA from two different cultures was analyzed, and, in addition, for each sample two different hybridizations were performed, including fluorochrome swapping in order to minimize transcriptional changes due to technical variability. This therefore corresponded to four DNA microarrays analyzed for each condition.

2010-06-19 | E-GEOD-9932 | 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