Dataset Information

Arabidopsis circadian proteomics and phosphoproteomics in Col0 and CCA1-Ox

ABSTRACT: Proteomics and phosphoproteomics analyses of circadian time course samples of Arabidopsis thaliana rosettes (22 DAS) in constant light. Two independent experiments, with global proteomics and phosphoproteomics analyses for each. Experiment I has a time point every 4h from ZT12 to ZT32, experiment 2 has a time point every 4h from ZT24 to ZT52. In each experiment, two genotypes were used - WT Col0 and the transcriptionally arrhythmic CCA1-Ox line.

INSTRUMENT(S): LTQ Orbitrap XL

ORGANISM(S): Arabidopsis Thaliana (ncbitaxon:3702)

SUBMITTER: Prof Andrew Millar

PROVIDER: MSV000082175 | MassIVE | Fri Mar 16 07:02:00 GMT 2018

SECONDARY ACCESSION(S): PXD009230

REPOSITORIES: MassIVE

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Publications

The Circadian Clock Gene Circuit Controls Protein and Phosphoprotein Rhythms in Arabidopsis thaliana.

Krahmer Johanna J Hindle Matthew M Perby Laura K LK Mogensen Helle K HK Nielsen Tom H TH Halliday Karen J KJ van Ooijen Gerben G Le Bihan Thierry T Millar Andrew J AJ

Molecular & cellular proteomics : MCP 20211103 1

Twenty-four-hour, circadian rhythms control many eukaryotic mRNA levels, whereas the levels of their more stable proteins are not expected to reflect the RNA rhythms, emphasizing the need to test the circadian regulation of protein abundance and modification. Here we present circadian proteomic and phosphoproteomic time series from Arabidopsis thaliana plants under constant light conditions, estimating that just 0.4% of quantified proteins but a much larger proportion of quantified phospho-sites ...[more]

PMID: 34740825

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Project description:Background. Aedes aegypti is arguably the most studied of all mosquito species in the laboratory and is the primary vector of both Dengue and Yellow Fever flaviviruses in the field. A large number of transcriptional studies have been made in the species and these usually report transcript quantities observed at a certain age or stage of development. However, circadian oscillation is an important characteristic of gene expression in many animals and plants, modulating both their physiology and behavior. Circadian gene expression in mosquito species has been previously reported but for only a few genes directly involved in the function of the molecular clock. Results. Herein we analyze the transcription profiles of 21,494 messenger RNAs using an Ae. aegypti Agilent® microarray. Transcripts were quantified in adult female heads at 24 hours and then again at 72 hours and eight subsequent time points spaced four hours apart. We document circadian rhythms in multiple molecular pathways essential for growth, development, immune response, detoxification/pesticide resistance. Circadian rhythms were also noted in ribosomal protein genes used for normalization in reverse transcribed PCR (RT-PCR) to determine transcript abundance. We report pervasive oscillations and intricate synchronization patterns relevant to all known biological pathways. Conclusion. These results argue strongly that transcriptional analyses either need to be made over time periods rather than confining analyses to a single time point or development stage or exceptional care needs to be made to synchronize all mosquitoes to be analyzed and compared among treatment groups. 12 samples representing 48h timeline sampled every 4h. Each chip has one channel taken by sample at ZG24h and the other by ZG72h, ZG76h and so on. Each time point has two independent replicates from two independent pools of mosquitoes sampled on the same calendar day. These time series are concatenated to form one continuous 48h time series for each gene. The circadian expression analysis presented in the associated paper encompasses a test timeframe of 72 – 92 hour (Cy3-labeled). Supplementary file: The unabridged matrix of processed data (includes duplicated features) is linked below.

Dataset Information

Arabidopsis circadian proteomics and phosphoproteomics in Col0 and CCA1-Ox

Publications

The Circadian Clock Gene Circuit Controls Protein and Phosphoprotein Rhythms in Arabidopsis thaliana.

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