Transcriptomics

Dataset Information

9

Transcription profiling by array of Arabidopsis mutant for toc1 after treatment with nicotinamide sampled over a circadian time course


ABSTRACT: Our aim is to identify circadian transcripts that are co-regulated with [Ca2+]cyt, with the eventual goal of identifying genetic regulators and targets for circadian oscillations of [Ca2+]cyt. We have identified two conditions in which [Ca2+]cyt behaves differently to other circadian outputs. 1. Treatment of plants with nicotinamide, a metabolic inhibitor of ADPR cyclase, abolishes the circadian oscillations of [Ca 2+]cyt. However, leaf movement, CCA1, LHY, TOC1 and CAB transcript abundance and CAB promoter activity are all rhythmic albeit with a longer period (Dodd et al., 2007). 2. The toc1-1 mutant, which shortens the circadian period of all other rhythms tested, has no effect on the period of [Ca2+]cyt oscillations (Xu et al., 2007). We will measure the circadian regulation of transcript abundance in wild type (C24), toc1-1 and nicotinamide (C24)-treated plants. Method: Wild type (C24) and toc1-1 seeds were sown on 1/2MS 0.8% agar plates and imbibed at 4 C for 48 hours. Seedlings were grown in LD cycles of 12hL:12hD at 19 C for 11 days to entrain the oscillator. Following transfer to LL at dawn on the 12th day, 50% of the wild type seedlings were dosed with 50 mM nicotinamide every 2 hours over the entire course of the experiment. Wild type, toc1-1 and nicotinamide-treated seedlings (approx. 100 for each sample, excluding roots) were harvested at 4 hour intervals from 49 to 93 hours in LL (12 time points covering the entire third and fourth circadian cycles). Two independent replicates of the whole experiment will be hybridised. 72 samples were used in this experiment.

ORGANISM(S): Arabidopsis thaliana  

SUBMITTER: Nottingham Arabidopsis Stock Centre (NASC)   Fiona Robertson 

PROVIDER: E-GEOD-19271 | ArrayExpress | 2009-12-09

SECONDARY ACCESSION(S): GSE19271PRJNA120947

REPOSITORIES: GEO, ArrayExpress

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Publications

Correct biological timing in Arabidopsis requires multiple light-signaling pathways.

Dalchau Neil N   Hubbard Katharine E KE   Robertson Fiona C FC   Hotta Carlos T CT   Briggs Helen M HM   Stan Guy-Bart GB   Gonçalves Jorge M JM   Webb Alex A R AA  

Proceedings of the National Academy of Sciences of the United States of America 20100701 29


Circadian oscillators provide rhythmic temporal cues for a range of biological processes in plants and animals, enabling anticipation of the day/night cycle and enhancing fitness-associated traits. We have used engineering models to understand the control principles of a plant's response to seasonal variation. We show that the seasonal changes in the timing of circadian outputs require light regulation via feed-forward loops, combining rapid light-signaling pathways with entrained circadian osci  ...[more]

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