Specific features of the transcriptomic response to nitrogen starvation in methylotrophic yeast Komagataella phaffi
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PROVIDER: PRJNA1165720 | ENA |
REPOSITORIES: ENA
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Project description:Non-conventional methylotrophic yeast Komagataella phaffii is an important production host in biotechnology and an emerging model organism. In this work, we studied K. phaffii response to nitrogen starvation during cultivation in media with methanol as the sole carbon source. The results were compared with well-established model yeast Saccharomyces cerevisiae. Some of the observed effects of nitrogen starvation in K. phaffii were similar to those in S. cerevisiae, despite this yeast does not have metabolic pathway for methanol utilization. The effects include activation of autophagy, transport and catabolism of nitrogen-containing compounds, interconversions of amino acids, and biosynthesis of fatty acids. K. phaffii cells also demonstrated specific response to nitrogen starvation including suppression of genes involved in methanol metabolism and other peroxisomal processes and activation of purine catabolism genes.
2024-10-06 | GSE278110 | GEO
Project description:adt07-01_mirna-n - nitrogen starvation - Do nitrogen starvation and resupply change miRNAs ? - young plantlets were grown on N-sufficient medium and transfered on N-starvation medium for time course transcription analyses (T0, 24h, 4 days, 10 days.
2012-03-22 | GSE36621 | GEO
Project description:adt07-01_mirna-n - nitrogen starvation - Do nitrogen starvation and resupply change miRNAs ? - young plantlets were grown on N-sufficient medium and transfered on N-starvation medium for time course transcription analyses (T0, 24h, 4 days, 10 days. 12 dye-swap - time course
2012-03-22 | E-GEOD-36621 | biostudies-arrayexpress
Project description:Rheb, a ras-like small GTPase conserved from human to yeast, controls Tor kinase and plays a central role in regulation of cell growth depending on extracellular conditions. Fission yeast Rheb regulates amino acid uptake as well as response to nitrogen starvation. In this study we generated two mutants of Rheb, rhb1-DA4 and rhb1-DA8, and characterized them genetically. V17A mutation within the G1 box defined for the ras-like GTPases was responsible for rhb1-DA4, and Q52R I76F within the switch II domain for rhb1-DA8. In fission yeast, two events, induction of a meiosis initiating gene mei2+ and cell division without cell growth, are a typical response to nitrogen starvation. Under nitrogen-rich conditions, Rheb stimulates Tor kinase, which, in turn, suppresses the response to nitrogen starvation. While amino acid uptake was prevented by both rhb1-DA4 and rhb1-DA8 in a dominant fashion, the response to nitrogen starvation was prevented only by rhb1-DA4. rhb1-DA8 thereby allowed genetic dissection of the Rheb-dependent signaling cascade. We postulate that Rheb in fission may have two downstream elements, Tor kinase for regulation of the response to nitrogen starvation and the other element for regulation of amino acid uptake.
2009-09-29 | GSE14626 | GEO
Project description:Comparison of gene expression for Chlamydomonas cells grown for 24h, 48h, 72h, 96h under nitrogen starvation
2011-10-19 | GSE33041 | GEO
Project description:In the project «Phosphoproteomics of yeast strains undergoing nitrogen or phosphate starvation» phosphoproteomics and expression proteomics were performed. In biological triplicates label-free quantification of different S. cerevisiae strains was performed. Five strains were used:(a) Ctrl WT, (b) WT, (c) deltaAtg13, (d) deltaPho81, (e) deltaAtg13, deltaPho81 (DKO)
2023-12-15 | PXD045932 | Pride
Project description:Rheb, a ras-like small GTPase conserved from human to yeast, controls Tor kinase and plays a central role in regulation of cell growth depending on extracellular conditions. Fission yeast Rheb regulates amino acid uptake as well as response to nitrogen starvation. In this study we generated two mutants of Rheb, rhb1-DA4 and rhb1-DA8, and characterized them genetically. V17A mutation within the G1 box defined for the ras-like GTPases was responsible for rhb1-DA4, and Q52R I76F within the switch II domain for rhb1-DA8. In fission yeast, two events, induction of a meiosis initiating gene mei2+ and cell division without cell growth, are a typical response to nitrogen starvation. Under nitrogen-rich conditions, Rheb stimulates Tor kinase, which, in turn, suppresses the response to nitrogen starvation. While amino acid uptake was prevented by both rhb1-DA4 and rhb1-DA8 in a dominant fashion, the response to nitrogen starvation was prevented only by rhb1-DA4. rhb1-DA8 thereby allowed genetic dissection of the Rheb-dependent signaling cascade. We postulate that Rheb in fission may have two downstream elements, Tor kinase for regulation of the response to nitrogen starvation and the other element for regulation of amino acid uptake. Gene expression profile under nitrogen starvation in fission yeast. Type of experiment: Comparing between vegetatively-growing control cells and cells 3 hrs after nitrogen starvation. Experimental factor: Gene expression profile after nitrogen starvation in the rhb1-D4 or rhb1-D8 cells. Quality control steps taken: All experiments were repeated more than twice except for the tsc2D which was previously reported. Keywards: Nitrogen starvation, rhb1-D4, rhb1-D8
2009-09-28 | E-GEOD-14626 | biostudies-arrayexpress
Project description:gnp3-b4_nitrogen_starvation - nitrogen starvation and re-supply - What are the transcriptomic short- and long-term plant responses to nitrogen starvation and nitrogen re-supply? - WS Arabidopsis ecotype were grown on 6mM nitrate as sole nitrogen source during 35 days under short days . At T0, plants were then starved for nitrate for 10 days and root and shoot samples were harvested separately 2 and 10 days after treatment (T2, T10). Then, nitrate (6 mM) was re-supplied for 1 and 24 hours (T+1, T+24). Keywords: time course
2007-06-20 | GSE8031 | GEO
Project description:ngs2020_20_ideas-ideas- whole genome (nuclear and organellar) transcriptomic response to a moderate nitrogen starvation-In the IDEAS project, Arabidopsis thaliana Col0 plants were grown on soil from seed for 19 days on the Phenoscope (IJPB, Versailles). The plants were watered with nitrogen-sufficient or nitrogen-limiting solutions. 10 biological replicates were produced. For each sample, 3 rosettes were pooled to extract RNA. The libraries were generated with the Illumina Truseq stranded with ribozero plant leaf and sequenced on a NextSeq500 in single-end 75 bases.
2023-12-01 | GSE234377 | GEO
Project description:ideas-IDEAS project on nitrogen starvation
| PRJNA981151 | ENA