Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1164493 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR30782209_1.fastq.gz | Fastqsanger.gz | |||
| SRR30782209_2.fastq.gz | Fastqsanger.gz | |||
| SRR30782210_1.fastq.gz | Fastqsanger.gz | |||
| SRR30782210_2.fastq.gz | Fastqsanger.gz | |||
| SRR30782211_1.fastq.gz | Fastqsanger.gz |
Items per page: 5 1 - 5 of 62 |
Similar Datasets
Project description:A comparison between high and low sulfur source supplies, i.e., sulfate, methionine or cystine, was carried out in order to identify key steps in the biosynthetic and catabolic pathways of the sulfur amino acids.
2012-12-01 | GSE39834 | GEO
Project description:A comparison between high and low sulfur source supplies, i.e., sulfate, methionine or cystine, was carried out in order to identify key steps in the biosynthetic and catabolic pathways of the sulfur amino acids. Two conditions experiment, high versus low sulfur conditions (sulfate, cystine or methionine with a ratio of 1 to 1000). Three biological experiments with a dye swap for each for cystine and sulfate. Two biological experiments with a dye swap for each for methionine.
2012-12-01 | E-GEOD-39834 | biostudies-arrayexpress
Project description:Staphylococcus xylosus is used as starter culture for sausage fermentation for a long time but the molecular mechanisms for its adaptation in meat remained unknown. A global transcriptomic approach was carried out to determine these molecular mechanisms. S. xylosus modulated the expression of about 30% of the total genes during its growth and survival in the meat model. The expression of many genes encoding enzymes involved in glucose and lactate catabolism was up regulated. In parallel, genes encoding transport of peptides and peptidases that could furnish amino acids were up expressed and thus concomitantly a lot of genes involved in amino acids synthesis were down regulated. Finally S. xylosus responded to salt added in the meat model by over expressing genes involved in transport and synthesis of osmoprotectants, Na+ and H+ extrusion and in production of energy through the F0F1-ATPase. Microarray was used to evaluate modification in the transcriptome of S. xylosus C2a strain in the inoculum (Mx) or in meat (V). Three biological replicates were collected on separate days for samples and labelled following a dye-switch design; for each condition one labeling in Cy3 and one in Cy5.
2016-01-04 | E-GEOD-69743 | biostudies-arrayexpress
Project description:Staphylococcus xylosus is used as starter culture for sausage fermentation for a long time but the molecular mechanisms for its adaptation in meat remained unknown. A global transcriptomic approach was carried out to determine these molecular mechanisms. S. xylosus modulated the expression of about 30% of the total genes during its growth and survival in the meat model. The expression of many genes encoding enzymes involved in glucose and lactate catabolism was up regulated. In parallel, genes encoding transport of peptides and peptidases that could furnish amino acids were up expressed and thus concomitantly a lot of genes involved in amino acids synthesis were down regulated. Finally S. xylosus responded to salt added in the meat model by over expressing genes involved in transport and synthesis of osmoprotectants, Na+ and H+ extrusion and in production of energy through the F0F1-ATPase.
2016-01-04 | GSE69743 | GEO
Project description:Accurate nutrient sensing is important for rapid fungal growth and exploitation of available resources. Sulfur is an important nutrient source found in a number of biological macromolecules, including proteins and lipids. The model filamentous fungus Neurospora crassa is capable of utilizing sulfur found in a variety of sources from amino acids to sulfate. During sulfur starvation, the transcription factor CYS-3 is responsible for upregulation of genes involved in sulfur uptake and assimilation. Using a combination of RNA sequencing and DNA affinity purification sequencing, we performed a global survey of the N. crassa sulfur starvation response and the role of CYS-3 in regulating sulfur responsive genes. Along with genes known to be involved in sulfur metabolism, the CYS-3 transcription factor also directly activated the expression of a number of uncharacterized transporter genes, suggesting that regulating sulfur import is an important aspect of regulation by CYS-3. Additionally, CYS-3 directly regulated the expression of genes involved in mitochondrial electron transfer. During sulfur starvation, genes involved in nitrogen metabolism, such as amino acid and nucleic acid metabolic pathways, along with genes encoding proteases and nucleases that are necessary for scavenging nitrogen, were activated. Sulfur starvation also caused changes in the expression of genes involved in carbohydrate metabolism, such as those encoding glycosyl hydrolases. Thus, our data suggest a connection between sulfur metabolism and other aspects of cellular metabolism.
2021-07-12 | GSE173890 | GEO
Project description:A comparison between high and low sulfur source supplies, i.e., sulfate, methionine or cystine, was carried out in order to identify key steps in the biosynthetic and catabolic pathways of the sulfur amino acids. the transcriptomic study was carried out using Agilent 8X15k slides with a custom oligoset designed by V. Loux using the Kluyveromyces lactisORFeome extracted from genolevures database
2011-10-01 | GSE26013 | GEO
Project description:The Chlamydomonas reinhardtii transcriptome was characterized from nutrient-replete and sulfur-depleted wild-type and snrk2.1 mutant cells; the mutant is null for the regulatory serine-threonine kinase SNRK2.1, which is required for acclimation to sulfur deprivation. The transcriptome analyses involved microarray hybridization and RNA-seq technology; RT-qPCR evaluation of the data obtained by these techniques showed that RNA-seq is significantly more quantitative than microarray hybridizations. Sulfur-deprivation-responsive transcripts included those encoding proteins involved in sulfur acquisition and assimilation, recycling of sulfur-containing amino acids, synthesis of reduced sulfur metabolites and cofactors, and modification of cellular structures such as the cell wall and complexes associated with the photosynthetic apparatus. Moreover, the data suggest that cells deprived of sulfur favors accumulation of proteins with fewer sulfur-containing amino acids. Most of these sulfur-deprivation responses are controlled by the SNRK2.1 kinase. Furthermore, the snrk2.1 mutant exhibits a set of unique responses during both sulfur-replete and sulfur-depleted conditions that are not observed in wild-type cells. Many of these responses are likely to be elicited by singlet O2 accumulation in the mutant cells. The transcriptome results for the wild-type and mutant cells strongly suggest the occurrence of massive changes in cellular physiology and metabolism as the cells become depleted for sulfur, and reveal aspects of acclimation that are likely critical for cell survival. The three supplementary files GSE17970_supplemental_table_*.xls below include results of the differential expression analysis (expression estimates, fold changes and p-values), and different clusters of functionally related genes.
2010-07-08 | GSE17970 | GEO
Project description:A comparison between high and low sulfur source supplies, i.e., sulfate, methionine or cystine, was carried out in order to identify key steps in the biosynthetic and catabolic pathways of the sulfur amino acids. the transcriptomic study was carried out using Agilent 8X15k slides with a custom oligoset designed by V. Loux using the Kluyveromyces lactisORFeome extracted from genolevures database Two conditions experiment, high versus low sulfur conditions (sulfate, cystine or methionine with a ratio of 1 to 1000). Three biological experiments with a dye swap for each for methionine, cystine and sulfate.
2011-09-30 | E-GEOD-26013 | biostudies-arrayexpress
Project description:Plants utilize soil sulfate for production of sulfur-containing amino acids that serve as essential dietary sulfur sources for animals. Despite the global nutritional significance of this fundamental metabolic process in nature, transcription factors regulating the plant sulfur assimilation pathways have never been discovered. We isolated sulfur limitation1 (slim1) mutants from Arabidopsis, showing abnormally low expression of SULTR1;2 sulfate transporter, by screening responsiveness of SULTR1;2 promoter-GFP, as an indicator, to sulfur limitation. SLIM1 encoded an EIL-family transcription factor, EIL3. To clarify the siganificance of SLIM1 function in sulfur responsive gene expression, we analyzed the transcriptome profiles in slim1-1, slim1-2 and the parental line under +S and -S conditions. Keywords: comparison of mutant and wild type, sulfur limitation response, nutritional stress response
2006-12-19 | GSE4455 | GEO
Project description:Thermococcus kodakarensis preferentially utilizes amino acids as carbon and energy sources in the presence of elemental sulfur as a terminal electron acceptor, while it can assimilate and grow on starch or pyruvate using proton as a terminal acceptor, generating hydrogen in the absence of elemental sulfur. SurR is a transcriptional regulator controlling hydrogen and elemental sulfur metabolism. To identify the genes that are under the regulation of Tk-SurR, we investigated the transcriptional profiling of Tk-SurR deletion strain grown in the presence of elemental sulfur at 85˚C by comparing with the host strain, KU216.
2016-01-01 | GSE71984 | GEO