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E-MEXP-2267

ABSTRACT: Transcription profiling time course of rice germination under anaerobic conditions, aerobic to anaerobic switch and anaerobic to aerobic switch

OTHER RELATED OMICS DATASETS IN: MEX9MEX7MEX8

PROVIDER: E-MEXP-2267 | ExpressionAtlas | 2015-11-27

REPOSITORIES: ExpressionAtlas

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Dataset's files

Source:

			Action	DRS
	E-MEXP-2267-analysis-methods.tsv	Tabular
	E-MEXP-2267-atlasExperimentSummary.Rdata	Rdata
	E-MEXP-2267-configuration.xml	Xml
	E-MEXP-2267-percentile-ranks.tsv	Tabular
	E-MEXP-2267.condensed-sdrf.tsv	Tabular

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E-MEXP-1766

Project description:Transcription profiling of rice over the first 24 hours of germination under aerobic conditions

2015-11-20 | E-MEXP-1766 | ExpressionAtlas

Transcription profiling time course of rice germination under anaerobic conditions, aerobic to anaerobic switch and anaerobic to aerobic switch

Project description:Transcript abundance profiles were examined over the first 24 hours of germination in rice grown under anaerobic conditions. Transcript abundance profiles were also examined for rice grown under aerobic conditions for 24 h and then switched to anaerobic conditions and vice versa.

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Project description:During germination, the availability of sugars, oxygen, or cellular energy fluctuates under dynamic environmental conditions, and the global RNA profile of rice genes can be affected by their availabilities. In the aerobically germinating rice embryos, most sugar-regulated genes are responsive to low energy and anaerobic conditions, indicating that sugar-regulation is closely associated with energy and anaerobic signaling. The interference pattern of sugar-regulation by either anaerobic or low energy conditions indicates that induction is likely the more prevalent regulatory mechanism than repression for the alteration in the expression of sugar-regulated genes in aerobically germinating rice embryos. Among the aerobically sugar-regulated genes, limited genes exhibit sugar regulation under anaerobic conditions, indicating that anaerobic conditions strongly influence sugar-regulated gene expression. Anaerobically responsive genes are highly overlapped with low-energy responsive genes. In particular, the expression levels of anaerobically downregulated genes are consistent with those induced by low energy-conditions, suggesting that anaerobic downregulation results from the prevention of aerobic respiration due to the absence of the final electron acceptor, i.e., molecular oxygen. It was noted that abscisic acid (ABA)-responsive genes were over-representative of the genes upregulated under low energy conditions, in contrast to the downregulated genes. This suggests that either ABA itself or upstream signaling components of the ABA signaling pathway are likely to be involved in the signaling pathways activated by low energy conditions.

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