Unknown,Transcriptomics,Genomics,Proteomics

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Molecular characterization of the submergence response of Arabidopsis thaliana ecotype Columbia


ABSTRACT: This study profiles transcriptomic changes of Arabidopsis thaliana Col-0 in response to submergence. This dataset includes CEL files, RMA signal values and MAS5 P/M/A calls from total mRNA populations of plants at 9 to 10 leaf rosette stage. Biological replicates of root and shoot tissues were harvested after 7 h and 24 h of submergence in darkness along with corresponding non-submerged dark controls. To characterize the dark response, non-submerged light controls plants were harvested at the 0 h time point. Quantitative profiling of cellular mRNAs was accomplished with the Affymetrix ATH1 platform. Changes in the transcriptome in response to submergence and early darkness were evaluated, and the data led to identification of genes co-regulated at the conditional and organ-specific level. 20 samples, 5 conditions (7 h submergence in darkness, 7 h darkness, 24 h submergence in darkness, 24 h darkness, 0 h light control), 2 RNA pools (rosette leaf and root tissues), 2 independent biological replicate experiments

ORGANISM(S): Arabidopsis thaliana

SUBMITTER: Seung Cho Lee 

PROVIDER: E-GEOD-24077 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

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Publications

Molecular characterization of the submergence response of the Arabidopsis thaliana ecotype Columbia.

Lee Seung Cho SC   Mustroph Angelika A   Sasidharan Rashmi R   Vashisht Divya D   Pedersen Ole O   Oosumi Teruko T   Voesenek Laurentius A C J LA   Bailey-Serres Julia J  

The New phytologist 20110113 2


• A detailed description of the molecular response of Arabidopsis thaliana to submergence can aid the identification of genes that are critical to flooding survival. • Rosette-stage plants were fully submerged in complete darkness and shoot and root tissue was harvested separately after the O(2) partial pressure of the petiole and root had stabilized at c. 6 and 0.1 kPa, respectively. As controls, plants were untreated or exposed to darkness. Following quantitative profiling of cellular mRNAs wi  ...[more]

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