Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

JM43_Galactose_N2_AntimycinA

ABSTRACT: In previous temporal studies, we found the anaerobic response was biphasic when cells growing in galactose medium were shifted from aerobiosis to anaerobiosis, consisting of an acute, transitory phase (<60 min) followed by a more chronic but delayed phase (> 1 generation), but largely monophasic (delayed, chronic phase only) when cells were shifted in glucose medium. Gene network and functional analyses revealed the acute phase was comprised of genes associated with the retooling of metabolism (respiro-fermentative to strictly fermentative) and balancing energy supply and demand. A similar pattern of gene expression is seen when cells encounter other “environmentally stressful” conditions. However, cells shifted to anaerobiosis on glucose, in which no catabolic rearrangement is required nor change in growth rate observed, do not exhibit this pattern, suggesting the “stress” encountered is one associated with the abrupt cessation of galactose-dependent respiration and slowing of growth, not oxygen deprivation per se. In order to test this hypothesis, we added the respiratory inhibitor, antimycin A, under aerobiosis for three generations then shifted to anaerobiosis, which no catabolic rearrangement is required. Keywords: time course

ORGANISM(S): Saccharomyces cerevisiae

PROVIDER: GSE3706 | GEO | 2008/12/31

SECONDARY ACCESSION(S): PRJNA93861

REPOSITORIES: GEO

ACCESS DATA

Json Xml

Dataset's files

Source:

			Action	DRS
		Other

Items per page:

1 - 1 of 1

Similar Datasets

JM43 cells grown aerobically in galactose and treated with Antimycin A

Project description:In previous temporal studies, we found the anaerobic response was biphasic when cells growing in galactose medium were shifted from aerobiosis to anaerobiosis, consisting of an acute, transitory phase (<60 min) followed by a more chronic but delayed phase (> 1 generation), but largely monophasic (delayed, chronic phase only) when cells were shifted in glucose medium. Gene network and functional analyses revealed the acute phase was comprised of genes associated with the retooling of metabolism (respiro-fermentative to strictly fermentative) and balancing energy supply and demand. A similar pattern of gene expression is seen when cells encounter other “environmentally stressful” conditions. However, cells shifted to anaerobiosis on glucose, in which no catabolic rearrangement is required nor change in growth rate observed, do not exhibit this pattern, suggesting the “stress” encountered is one associated with the abrupt cessation of galactose-dependent respiration and slowing of growth, not oxygen deprivation per se. In order to test this hypothesis, we conducted this genomic study using the respiratory inhibitor, antimycin A, under aerobiosis, which mimicked the retooling of metabolism from respiro-fermentative to strictly fermentative growth. Keywords: time course

2008-12-31 | GSE3705 | GEO

JM43_Galactose_N2_AntimycinA

Project description:In previous temporal studies, we found the anaerobic response was biphasic when cells growing in galactose medium were shifted from aerobiosis to anaerobiosis, consisting of an acute, transitory phase (<60 min) followed by a more chronic but delayed phase (> 1 generation), but largely monophasic (delayed, chronic phase only) when cells were shifted in glucose medium. Gene network and functional analyses revealed the acute phase was comprised of genes associated with the retooling of metabolism (respiro-fermentative to strictly fermentative) and balancing energy supply and demand. A similar pattern of gene expression is seen when cells encounter other “environmentally stressful” conditions. However, cells shifted to anaerobiosis on glucose, in which no catabolic rearrangement is required nor change in growth rate observed, do not exhibit this pattern, suggesting the “stress” encountered is one associated with the abrupt cessation of galactose-dependent respiration and slowing of growth, not oxygen deprivation per se. In order to test this hypothesis, we added the respiratory inhibitor, antimycin A, under aerobiosis for three generations then shifted to anaerobiosis, which no catabolic rearrangement is required. Keywords: time course Sparged, fermentor cultures of a wild-type yeast strain (JM43) were aerobically grown on galactose medium (SSG-TEA) in the presence of Antimycin A for three generations. After three generations, the sparge gas was switched from air to O2-free N2 and samples were harvested after 0.04, 0.08, 0.13, 0.19, 0.25, 0.38, 0.5, 1, 2, and 3 generations of anaerobic growth in the presence of Antimycin A. Total RNA was reverse transcribed (Cy3) and hybridized against a reference (Cy5). The full time series was repeated in triplicate.

2008-12-31 | E-GEOD-3706 | biostudies-arrayexpress

JM43 cells grown aerobically in galactose and treated with Antimycin A

2008-12-31 | E-GEOD-3705 | biostudies-arrayexpress

Deciphering the transcriptional adaptation of Corynebacterium glutamicum in transition from aerobiosis via microaerobiosis to anaerobiosis via RNA-seq

Project description:To investigate the adaptation of Corynebacterium glutamicum to altering oxygen availabilities, we conceived a triple-phase fermentation process that describes a gradual reduction of dissolved oxygen depicting a shift from aerobiosis via microaerobiosis to anaerobiosis. The distinct process phases were clearly bordered by the bacteria’s physiologic response such as reduced growth rate, biomass substrate yield and altered yield of fermentation products. During the process, sequential samples were drawn at six points and analyzed via RNA-sequencing of Illumina TruSeq Stranded mRNA libaries sequenced paired end on an Illumina MiSeq system using 75 nt read length. We found transcriptional alterations of almost 50 % (1421 genes) of the entire protein coding genes and observed an upregulation of fermentative pathways, a rearrangement of respiration and mitigation of the basic cellular mechanisms such as transcription, translation and replication as a transient response related to the installed oxygen dependent process phases.

2018-03-31 | E-MTAB-6602 | biostudies-arrayexpress

low ORP anaerobiosis - Expanding the known repertoire of virulence factors produced by Bacillus cereus through early secretome profiling in three redox conditions

Project description:shotgun comparison of aerobiosis and high and low ORP anaerobiosis

2011-05-05 | PRD000192 | Pride

high ORP anaerobiosis - Expanding the known repertoire of virulence factors produced by Bacillus cereus through early secretome profiling in three redox conditions

Project description:shotgun comparison of aerobiosis to low and high ORP anaerobiosis

2011-05-05 | PRD000191 | Pride

full aerobiosis - Expanding the known repertoire of virulence factors produced by Bacillus cereus through early secretome profiling in three redox conditions

Project description:shotgun comparison of aerobiosis to low and high ORP anaerobiosis

2011-05-05 | PRD000193 | Pride

The soluble guanylate cyclase CYG12 is required for the acclimation to hypoxia and trophic regimes in Chlamydomonas reinhardtii

Project description:We studied the role of the soluble guanylate cyclase CYG12 in the response of Chlamydomonas reinhardtii to anoxia and darkness. To gain insights into potentially disturbed signaling pathways resulting in different responses of the transcriptome, we performed an RNA-sequencing study to obtain transcriptome profiles of the C. reinhardtii wild-type and a CYG12 knockdown strain in aerobiosis and anaerobiosis in darkness compared to normoxia in the light

2017-11-22 | GSE98442 | GEO

Bacillus cereus proteomics - Proteomic evidences for rex regulation of metabolism in toxin-producing Bacillus cereus ATCC 14579

Project description:This project contributes to the proteomic comparison of Bacillus cereus wild-type and Bacillus cereus mutant devoided of the Rex regulator. Aerobiosis and anaerobiosis conditions were assayed.

2016-07-09 | PXD000856 | Pride

Bacillus cereus proteomics - Proteomic Evidences for Rex Regulation of Metabolism in Toxin-Producing Bacillus cereus ATCC 14579

2014-09-25 | PXD000886 | Pride