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BCAA catabolic mutants in prolonged darkness

ABSTRACT: We used RNA-Seq to ask whether the transcripts for the proposed BCKDH subunits are upregulated in wild-type plants subjected to prolonged darkness. These experiments were performed using rosette leaves from 5-week-old, short-day-grown (8h light/16h dark) Col-0 wild-type plants moved to constant darkness for 6h, 24h, 48h and 72h, and grown in short day for 72h as control. The transcripts of eight BCAA catabolism genes were increased nine- to 400-fold within the first 6h of prolonged darkness, and remained high until the last time point. These results are consistent with the hypothesis that BCAA catabolic enzymes - including BCKDH subunits E1A1, E1B1, E1B2 and E2 - have one or more physiological roles in the dark.

ORGANISM(S): Arabidopsis thaliana

PROVIDER: GSE67956 | GEO | 2015/04/16

SECONDARY ACCESSION(S): PRJNA281364

REPOSITORIES: GEO

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BCAA catabolic mutants in prolonged darkness

Project description:We used RNA-Seq to ask whether the transcripts for the proposed BCKDH subunits are upregulated in wild-type plants subjected to prolonged darkness. These experiments were performed using rosette leaves from 5-week-old, short-day-grown (8h light/16h dark) Col-0 wild-type plants moved to constant darkness for 6h, 24h, 48h and 72h, and grown in short day for 72h as control. The transcripts of eight BCAA catabolism genes were increased nine- to 400-fold within the first 6h of prolonged darkness, and remained high until the last time point. These results are consistent with the hypothesis that BCAA catabolic enzymes - including BCKDH subunits E1A1, E1B1, E1B2 and E2 - have one or more physiological roles in the dark. Rosette leaf mRNA profiles of 5-week old Col wild type (WT, CS60000) and BCAA catabolic mutants ivd1-2 and hml1-2 were generated byRNA sequencing, in duplicate, using Illumina HiSeq2500.

2015-04-16 | E-GEOD-67956 | biostudies-arrayexpress

Arabidopsis thaliana

Project description:BCAA catabolic mutants in prolonged darkness

| PRJNA281364 | ENA

Effects of a 6h-long treatment with 90 mM sucrose to 4-d old, dark grown Arabidopsis seedlings

Project description:Dark grown Arabidopsis seedlings (Columbia gl1) were grown in the dark at 23°C for 4 days before adding 90 mM sucrose for 6h. Keywords: Response to nutrients; sugar sensing

2005-12-03 | GSE3704 | GEO

The effect of a BCCA-free diet on 2W pressure overload-induced H3K23-propionyl [BCAA-free-2W-TAC-ChIP-Seq]

Project description:Identifying branched-chain amino acid (BCAA) oxidation enzymes in the nucleus led us to predict that they are a source of propionyl-CoA that could be utilized for histone propionylation and, thereby, regulate gene expression. To investigate this and its effect on the development of cardiac hypertrophy and failure, we applied pressure overload on the heart in mice maintained on a diet with standard levels of BCAA (BCAA-control) versus a BCAA-free diet. The former was associated with an increase in H3K23-propionyl (H3K23Pr) at the promoters of upregulated genes [e.g., cell signaling and extracellular matrix (ECM) genes] and a decrease at the promoters of downregulated genes [e.g., electron transfer complex (ETC I-V) and metabolic genes]. Intriguingly, the BCAA-free diet diminished the increase in promoter-H3K23Pr and significantly reduced ECM gene expression and collagen deposition. Conversely, the BCAA-free diet abolished the downregulation of ETC I-V subunits, enhanced mitochondrial respiration, and curbed cardiac hypertrophy. Thus, lowering the intake of BCAA reduces histone propionylation, which moderates the effects of stress on the heart.

2023-08-25 | GSE227228 | GEO

The effect of a BCCA-free diet on 1W pressure overload-induced H3K23-propionyl [BCAA-free-1W-TAC-ChIP-Seq]

2023-08-25 | GSE227227 | GEO

The effect of a BCCA-free diet on 2W pressure overload-induced cardiac gene expression [BCAA-free-2W-TAC-RNA-Seq]

2023-08-25 | GSE229128 | GEO

Carbon fixation (endogenous sugar) and light-dependent gene expression

Project description:Internal sugar and light specific dependent regulation of leaf gene expression was addressed by changing [CO2] to lower than compensation point [CO2] in combination with light or prolonged darkness. Plants were grown on soil in a 12/12 h light/dark rhythm at 20°C day and night and under normal [CO2]. 5 weeks after germination, the above-ground rosettes of the non-flowering plants were harvested, 12 plants per sample. Plants were harvested 4hrs after the end of night (i) under low (< 50 ppm) [CO2] and 150 µE fluorescent light , (ii) under normal [CO2] and light, and, (iii) under low [CO2] and prolonged darkness. The low [CO2] treatment started 30 min before the end of night and stopped with harvesting. Keywords: repeat

2005-12-01 | GSE3423 | GEO

The effect of a BCCA-free, with 1% propionate, diet on 1W pressure overload-induced H3K23-propionyl [BCAA-free-1W-TAC with propionate-ChIP-Seq]

2023-08-25 | GSE227226 | GEO

Transcription profiling of Arabidopsis dark grown seedlings response to 6h-long treatment with 90 mM sucrose

Project description:Dark grown Arabidopsis seedlings (Columbia gl1) were grown in the dark at 23Â°C for 4 days before adding 90 mM sucrose for 6h. Experiment Overall Design: Arabidopsis thaliana ecotype Columbia glabra (gl1-1) was used in this study. Seeds were sterilized with diluted bleach (10 min incubation in 1.7% sodium hypochlorite, rinsing and washing thoroughly in sterile water), and incubated in 2.5 ml liquid growing medium [Murashige-Skoog (MS) half strength solution] in 6-well plates (fully aerobic, with shaking). Plates were incubated in the darkness at 4Â°C for 2 days and finally transferred to 23Â°C for 4 days before the sugar treatments (with 90 mM sucrose, lasting 6h). Two independent, replicated experiments were performed for sucrose treatments. Each independent experiment consisted of four replicated seedlings cultures, pooled after RNA extraction. Experiment Overall Design: AIR EXPERIMENT 1: Control without added sucrose Experiment Overall Design: AIR EXPERIMENT 2: Control without added sucrose Experiment Overall Design: Sucrose 90 mM, 6h treatment in the dark, Biological Replicate 1 Experiment Overall Design: Sucrose 90 mM, 6h treatment in the dark, Biological Replicate 2

2008-06-12 | E-GEOD-3704 | biostudies-arrayexpress

The effect of a BCCA-free diet, with 1% propionate, on 1W pressure overload-induced cardiac gene expression [BCAA-free w propionate-1W-TAC-RNA-Seq]

2023-08-25 | GSE227225 | GEO

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