Ontology highlight
ABSTRACT:
PROVIDER: PRJNA1058621 | ENA |
REPOSITORIES: ENA
Dataset's files
| Action | DRS | |||
|---|---|---|---|---|
| SRR27376400.fastq.gz | Fastqsanger.gz | |||
| SRR27376401.fastq.gz | Fastqsanger.gz | |||
| SRR27376402.fastq.gz | Fastqsanger.gz | |||
| SRR27376403.fastq.gz | Fastqsanger.gz | |||
| SRR27376404.fastq.gz | Fastqsanger.gz |
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Project description:Analysis of transcriptome response of norflurazon treated or untreated 5-day old whole seedlings with genotypes: Col6-3 (wild type), gun1-9 and MORF2 overexpression lines. GUN1 and MORF2 are involved in chloroplast-to-nucleus retrograde signaling. Results provide insight into the nuclear genes expression profile under control of GUN1 retrograde pathways and the regulation similarity between gun1-9 and MORF2 overexpression lines.
2019-05-02 | GSE110125 | GEO
Project description:Retrograde signals emanate from the DNA-containing cell organelles (plastids and mitochondria) and control the expression of a large number of nuclear genes in response to environmental and developmental cues. GENOMES UNCOUPLED1 (GUN1) participating in multiple retrograde signaling pathways that collectively regulate the nuclear transcriptome. We used microarrays to further investigate the regulation of nuclear gene expression by PGE retrograde signals mediated by GUN1.
2019-06-05 | GSE122667 | GEO
Project description:GUN1 integrates retrograde signals in the chloroplast but the underlying mechanism is elusive. FUG1, a chloroplast translation initiation factor, and GUN1 are co-expressed at the transcript level, and FUG1 co-immunoprecipitates with GUN1. We used mutants of GUN1 (gun1-103) and FUG1 (fug1-3) to analyse their functional relationship at the physiological and systems-wide level, the latter including transcriptome and proteome analyses. Absence of GUN1 aggravates the effects of decreased FUG1 levels on chloroplast protein translation, resulting in transient additive phenotypes with respect to photosynthesis, leaf coloration, growth and cold acclimation. Variegation of the var2 mutant is enhanced by gun1-103 in terms of increasing the fraction of white sectors, in contrast to fug1-3 that acts as suppressor. The transcriptomes of fug1-3 and gun1-103 are very similar, but absence of GUN1 alone has almost no effects on protein levels, whereas chloroplast protein accumulation is markedly decreased in fug1-3. In gun1 fug1 double mutants, effects on transcriptomes and particularly proteomes are enhanced. Our results show that GUN1 function becomes critical when chloroplast proteostasis is perturbed by decreased translation (fug1) or degradation (var2) of chloroplast proteins. The functions of FUG1 and GUN1 appear to be related, corroborating the view that GUN1 operates in chloroplast proteostasis.
2019-04-23 | GSE123583 | GEO
Project description:Plastid gene expression (PGE) acts as a signal that regulates the expression of photosynthesis-associated nuclear genes (PhANGs) via GENOMES UNCOUPLED1 (GUN1)-dependent retrograde signaling. We recently isolated Arabidopsis sugar-inducible cotyledon yellow-192 (sicy-192), a gain-of-function mutant of plastidic invertase (INV-E), and showed that following the treatment of this mutant with sucrose, the expression of PhANGs decreased while that of nitrate reductase 1 (NIA1) increased. Plastid-encoded RNA polymerase (PEP)-dependent PGE was markedly suppressed in the sicy-192 mutant by the sucrose treatment. A double mutant of sicy-192 and gun1-101, a null mutant of GUN1, revealed that metabolic perturbation in the sucrose-treated sicy-192 mutant was, at least in part, dependent on GUN1. To confirm whether there is a relationship between plastid sugar metabolism and nuclear gene expression, we performed a microarray analysis using Suc-treated 3 genotypes consisting of wild-type, sicy-192, and sicy-192 gun1-101 plants.
2013-09-14 | GSE50857 | GEO
Project description:In the present study we investigated at the system level the proteome obtained from seedlings of Arabidopsis thaliana wild-type Col-0 and gun1-101 and gun1-102 mutant plants treated or not with lincomycin (Lin), a chloroplast translation inhibitor widely used to inhibit chloroplast biogenesis and to trigger the plastid-to-nucleus retrograde communication. Specifically, we attempted a description of cellular responses to Lincomycin in wild-type genetic background and in retrograde signaling-defective mutant gun1. Hypotheses and key players emerged by our holistic view were validated at the experimental level. Our findings suggest that, in the presence of Lincomycin, cell responses rely on the plastid compartment in a GUN1-dependent manner, while in the gun1-mutant background, the activity of extra-plastid compartments prevails. Moreover, results obtained by complementary approaches depict the Oxygen Evolving Complex subunit PsbO as an atypical Photosynthesis-related protein by accumulating in non-photosynthetic plastids and having a superhub role in modulating chloroplast dismantling upon impairment of plastid functions.
2025-07-14 | PXD051970 | Pride
Project description:Plastid gene expression (PGE) acts as a signal that regulates the expression of photosynthesis-associated nuclear genes (PhANGs) via GENOMES UNCOUPLED1 (GUN1)-dependent retrograde signaling. We recently isolated Arabidopsis sugar-inducible cotyledon yellow-192 (sicy-192), a gain-of-function mutant of plastidic invertase (INV-E), and showed that following the treatment of this mutant with sucrose, the expression of PhANGs decreased while that of nitrate reductase 1 (NIA1) increased. Plastid-encoded RNA polymerase (PEP)-dependent PGE was markedly suppressed in the sicy-192 mutant by the sucrose treatment. A double mutant of sicy-192 and gun1-101, a null mutant of GUN1, revealed that metabolic perturbation in the sucrose-treated sicy-192 mutant was, at least in part, dependent on GUN1. To confirm whether there is a relationship between plastid sugar metabolism and nuclear gene expression, we performed a microarray analysis using Suc-treated 3 genotypes consisting of wild-type, sicy-192, and sicy-192 gun1-101 plants. Wild-type, sicy-192, and sicy-192 gun1-101 plants were grown on MS medium containing 100 mM sucrose in a growth chamber kept at 25°C during 16 h of light (100 µmol/m2/s) and at 22°C during 8 h of darkness for 4 days. At 4 days of age, cotyledons were collected as samples for microarray analysis.
2013-09-14 | E-GEOD-50857 | biostudies-arrayexpress
Project description:Transcriptome profile of Arabidopsis wild-type (Col-0) and mutants of the plastidic retrograde signalling pathway (gun1-1,gun4-1, gun5-1) germinated in the presence of 5µM Norflurazon for 5d in continious light (100µE). Analysis was performed on biological triplicates of total leaf RNA using paired-end Illumina Hi/MiSeq technology.
2019-10-18 | GSE104868 | GEO
Project description:We analyzed the root transcriptome profiles in WT, gun1-101, nac103-11, rab8d-2, gun1-101 rab8d-2, and nac103-11 rab8d-2. Our analysis showed that, compared to WT, approximately 108 genes were misregulated in gun1-101, while 78 genes were affected in nac103-11. Only two genes were influenced by both gun1-101 and nac103-11. In contrast, in the rab8d-2 background, blocking the function of GUN1 (gun1-101 rab8d-2) or NAC103 (nac103-11 rab8d-2) significantly altered the expression levels of approximately 948 and 267 genes, respectively. Importantly, over 72% (about 193) of the misregulated genes in nac103-11 rab8d-2 overlapped with those in gun1-101 rab8d-2, indicating a convergence of the GUN1- and NAC103-dependent signaling pathways in rab8d-2.
2023-12-24 | GSE242010 | GEO
Project description:Investigation of the function of GUN1 in the chloroplast (post)-transcriptome We performed gene expression profiling analysis using data obtained from lncRNA-seq of gun1 seedlings with white, marble or green cotyledons
2024-09-12 | GSE247732 | GEO
Project description:Series of 8 repetitions of hybridization of treatment (gun1) and control (WT) each. Comparison of Arabidopsis gun1-1 mutant defective in plastid signaling (protein unknown) versus WT. R.E. Susek et al., Cell 74 (1993), pp. 787-799 Keywords: repeat sample
2005-01-01 | GSE1185 | GEO