{"database":"ENA","file_versions":[],"scores":null,"additional":{"omics_type":["Genomics","Multiomics"],"center_name":["King Abdullah University of Science and Technology"],"full_dataset_link":["https://www.ebi.ac.uk/ena/browser/view/PRJNA145115"],"scientific_name":["Arabidopsis thaliana"],"tag":["xref:PubMed:23220693"],"long_description":["Control of mRNA half-life is a powerful strategy to adjust individual mRNA levels to various stress conditions, because the mRNA degradation rate controls not only the steady-state mRNA level but also the transition speed of mRNA levels. Here, we analyzed mRNA half-life changes in response to cold stress in Arabidopsis cells using genome-wide analysis, in which mRNA half-life measurements and transcriptome analysis were combined. Half-lives of average transcripts were determined to be elongated under cold conditions. Taking this general shift into account, we identified more than a thousand transcripts that were classified as relatively stabilized or relatively destabilized. The relatively stabilized class was predominantly observed in functional categories that included various regulators involved in transcriptional, post-transcriptional and post-translational processes. On the other hand, the relatively destabilized class was enriched in categories related to stress and hormonal response proteins, supporting the idea that rapid decay of mRNA is advanta- geous for swift responses to stress. In addition, pentatricopeptide repeat, cyclin-like F-box and Myb transcription factor protein families were significantly over-represented in the relatively destabilized class. The global analysis presented here demonstrates not only the importance of mRNA turn-over control in the cold stress response but also several structural characteristics that might be important in the control of mRNA stability. Overall design: To demonstrate the importance of mRNA stability control in cold stress response, we investigated global changes in mRNA half-lives in response to cold treatment by micaroarray using Arabidopsis suspension cell cultures (T87 cells). Control cells were collected prior to transcriptional inhibitor (cordycepin) treatment (0 h), and 1 and 3 h after the start of cordycepin treatment. For cold-treated cells, 6 h samples were also used for microarray analyses. The experiments were performed with triplicate sets for each time point."],"repository":["ENA"],"description_synonyms":["T22F8.160, and rna binding 2, DISEASE (COPD), A., Chronic Airflow Obstructions, Degradation, mRNA Stability, CAO - Chronic airflow obstruction, chronic obstructive pulmonary disease (COPD), circadian rhythm, CHRONIC OBSTRUCTIVE PULM DIS, Chronic obstructive pulmonary disease NOS, and RNA binding 1, Cardaminopsis, Chronic obstructive pulmonary disease finding, Stability, Cold, PULMONARY DISEASE (COPD), Arabidopsis thalianas, Pulmonary Disease, T22F8_160, ATGPR7, A. thalianas, chronic obstructive airways disease NOS (disorder), Chronic irreversible airway obstruction, thalianas, GRP8, GRP7, Cell., mRNA Transcript, Chronic Obstructive Pulmonary Disease (COPD), Cold Temperatures, COLD (chronic obstructive lung disease), NEC in ICD9CM_2006, Cresses, Mouse-ear Cress, CAFL - Chronic airflow limitation, Chronic Obstructive, Mouse-ear, Chronic airflow limitation, ATGRP7, disease (COPD), GLYCINE RICH PROTEIN 7, ATGRP8, NEC, mRNA Transcript Degradation, Chronic, Cress, Mouse ear, Decay, glycine-rich RNA-binding protein 8, Arabidopses, CHRONIC OBSTRUCTIVE PULMONARY DISEASE, COPD, RNA Degradation, CHRONIC, RNA, COAD - Chronic obstructive airways disease, chronic obstructive lung disease [Ambiguous], obstructive lung disease, chronic obstructive airways disease NOS, not elsewhere classified, COAD, Arabidopsis thaliana, A. thaliana, COLD - Chronic obstructive lung disease, chronic, PULM DIS CHRONIC OBSTRUCTIVE, Airflow Obstructions, Chronic obstructive pulmonary disease finding (finding), CHRONIC OBSTRUCTIVE AIRWAY DIS, pulmonary disease (COPD), macromolecular stability of mRNA, Temperatures, CHRONIC OBSTRUCTIVE, chronic obstructive pulmonary disease and allied conditions, mRNA Instability, Chronic airway disease, NOS, GLYCINE-RICH RNA-BINDING PROTEIN 7, (COPD), chronic airway obstruction, mRNA Decay, Airflow Obstruction, chronic obstructive, RNA Decay, RNA Instability, CAL - Chronic airflow limitation, COPD NOS, CHRONIC OBSTRUCTIVE LUNG DIS, chronic obstructive airway disease, GLYCINE-RICH PROTEIN 8, Chronic Obstructive Airways Disease, Temperature, Chronic airway obstruction, Chronic obstructive lung disease, mRNA, cold, Dops, GR-RBP7, GR-RBP8, thaliana, mRNA Degradation, Transcript Degradation, Mouse-ear Cresses, Chronic Airflow Obstruction, Arabidopsis, F2G1.4, OBSTRUCTIVE PULMONARY DISEASE (COPD), COPD - Chronic obstructive pulmonary disease, chronic obstructive lung disease (disorder), chronic obstructive airways disease, cold (chronic obstructive lung disease), Chronic Obstructive Lung Disease, obstructive pulmonary disease (COPD), Instability, chronic obstructive lung disease, COLD, chronic obstructive pulmonary disease"],"name_synonyms":["thale cress, mouse-ear cress, thale-cress, Arabidopsis thalianas, Arbisopsis thaliana, Cresses, A., A. thalianas, thalianas, Arabidopsis thaliana, Mouse-ear Cress, Arabidopsis thaliana (thale cress), Arabidopsis., Cress, thaliana, Mouse ear, A. thaliana, Arabidopses, Mouse-ear Cresses, Mouse-ear, Arabis thaliana"],"additional_accession":[]},"is_claimable":false,"name":"Arabidopsis thaliana","description":"Changes in mRNA Stability Associated with Cold Stress in Arabidopsis Cells","dates":{"last_updated":"2025-09-24","first_public":"2014-02-11"},"accession":"PRJNA145115","cross_references":{"GEO":["GSE31837"],"taxon":["3702"],"PubMed":["23220693"]}}