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ABSTRACT:
PROVIDER: PRJNA1283971 | ENA |
REPOSITORIES: ENA
Similar Datasets
Project description:rs07-09_bou - catma1-bou - Autotrophic growth acquisition is abolished in the bou mutant in Arabidopsis thaliana. BOU encodes a putative mitochondrial acyl carnitine carrier. bou mutant is blocked at the cotyledon stage. Autotrophic growth of the bou mutant can be achieved with addition of sugar in the medium or in darkness. Moreover, BOU gene expression is activated by light and depends on plant developmental stage. We wish to determine what are the consequences of bou gene mutation at the transcriptome level. We wish to understand whether bou growth arrest is due to the modification of specific genes expression or to a general effect on metabolism at the transition from heterotrophic to autotrophic growth. - Seeds from a heterozygous plants were grown for either 5 or 8 days after germination on synthetic medium (MS/2) without sugar under continuous light. We harvested cotyledon-stage blocked plants (bou phenotype) from three independent Petri dishes and also green seedlings with true leaves and fully developed root (heterozygotes with a wild-type phenotype) . We also grew independently Col-O plants for 5 and 8 days to compare them with the bou mutants. Keywords: gene knock in (transgenic),normal vs disease comparison,time course
2009-02-05 | GSE10399 | GEO
Project description:rs07-09_bou - catma1-bou - Autotrophic growth acquisition is abolished in the bou mutant in Arabidopsis thaliana. BOU encodes a putative mitochondrial acyl carnitine carrier. bou mutant is blocked at the cotyledon stage. Autotrophic growth of the bou mutant can be achieved with addition of sugar in the medium or in darkness. Moreover, BOU gene expression is activated by light and depends on plant developmental stage. We wish to determine what are the consequences of bou gene mutation at the transcriptome level. We wish to understand whether bou growth arrest is due to the modification of specific genes expression or to a general effect on metabolism at the transition from heterotrophic to autotrophic growth. - Seeds from a heterozygous plants were grown for either 5 or 8 days after germination on synthetic medium (MS/2) without sugar under continuous light. We harvested cotyledon-stage blocked plants (bou phenotype) from three independent Petri dishes and also green seedlings with true leaves and fully developed root (heterozygotes with a wild-type phenotype) . We also grew independently Col-O plants for 5 and 8 days to compare them with the bou mutants. Keywords: gene knock in (transgenic),normal vs disease comparison,time course 5 dye-swap - CATMA arrays
2009-02-05 | E-GEOD-10399 | biostudies-arrayexpress
Project description:By using heterotrophic proteome as reference, 169 proteins were found to change their abundance during autotrophic growth. The up-regulated proteins indicated that M. cuprina fixed CO2 through the previously identified 3-HB-CoA/4-HB-CoA cycle and obtained energy by oxidation of elemental sulfur as energy source under autotrophic growth. Enzymes/proteins involved in semi- and non-phosphorylating Entner-Doudoroff (ED) pathway were down-regulated. We also found that some transporter proteins changed their abundances, suggest that they were likely playing pivotal roles for growth under the respective conditions.
2022-02-22 | PXD000676 | Pride
Project description:In order to unravel the role of regulation on transcript level in the central carbohydrate metabolism (CCM) of Thermoproteus tenax (glycolytic/gluconeogenic carbon switch), the focused DNA microarray was constructed by using ORFs supposed to be involved in the CCM pathways. Transcriptional profiling was performed comparing autotrophic growth on CO2/H2 versus heterotrophic growth on glucose.
2008-02-05 | E-MEXP-1376 | biostudies-arrayexpress
Project description:Metallosphaera sedula is an extremely thermoacidophilic archaeon that grows heterotrophically on peptides, and chemolithoautotrophically on hydrogen, sulfur, or reduced metals as energy sources. During autotrophic growth, carbon dioxide is incorporated into cellular carbon via the 3-hydroxypropionate /4-hydroxybutyrate cycle (3HP/4HB). To date, all of the steps in the pathway have been connected to enzymes encoded in specific ORFs, except for the one responsible for ligation of coenzyme A (CoA) to 4-hydroxybutyrate (4HB). While several candidates for this step have been identified through bioinformatic analysis of the M. sedula genome, none have been shown to catalyze this biotransformation. Transcriptomic analysis of cells grown under strict H2-CO2 autotrophy was used elucidate additional candidate genes involved in carbon fixation and identify the genes which encode for 4HB-CoA synthetase. Three slide loop for Mse cells includes 3 conditions tested in duplicate (biological repeats from tandem fermentors): autotrophic carbon limited (ACL), autotrophic carbon rich (ACR), and heterotrophic (HTR). Half of an RNA sample for one condition was labeled with Cy3 while the other half was labeled with Cy5. The two differently labeled samples were run on different slides. Each probe is spotted on each slide 5 times (5 replicates; spot intensities for all replicates on slide provided in associated raw data file).
2013-03-05 | E-GEOD-39944 | biostudies-arrayexpress
Project description:M. sedula transcriptional response under heterotrophic, autotrophic, and mixotrophic growth conditions
| PRJNA111881 | ENA
Project description:Ammonia is a toxic by-product of metabolism that causes cellular stress. Although a number of proteins are involved in adaptive stress response, specific factors that counteract ammonia-induced cellular stress and regulate cell metabolism that facilitate survival against toxicity have yet to be identified. We demonstrated that hypoxia-inducible factor-1α (HIF-1α) is stabilised and activated by ammonia stress. HIF-1α activated by ammonium chloride compromises ammonia-induced apoptosis. Furthermore, we identified glutamine synthetase (GS) as a key driver of cancer cell proliferation and glutamine-dependent metabolism under ammonia stress in ovarian cancer stem-like cells expressing CD90. Interestingly, activated HIF-1α counteracts glutamine synthetase function in glutamine metabolism by facilitating glycolysis and elevating glucose dependency. Our studies reveal the hitherto unknown functions of HIF-1α in biphasic ammonia stress management in cancer stem-like cells. GS facilitates proliferation and HIF-1α contributes to metabolic remodelling in cellular energy usage resulting in attenuated proliferation but conversely promoting cell survival.
2017-11-22 | GSE107251 | GEO