characteristics.text: 2013-06-03T13:10:15Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2018-03-08T16:27:04Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA1906751
characteristics.characteristic: External Id
characteristics.text: University of Glasgow
characteristics.characteristic: INSDC center name
characteristics.text: 2013-06-03T13:10:15Z
characteristics.characteristic: INSDC first public
characteristics.text: 2018-03-08T16:27:04Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS246890
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-1663:24hCR
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: thale cress
characteristics.characteristic: common name
characteristics.text: Protocols: Arabidopsis thaliana (Col-0) seeds were germinated on vertical agar plates containing 70 ml of nutrient solution containing 0.5 mM CaCl2, 0.25 mM MgSO4, 2 mM KNO3, 1 mM NaCl, 0.5 mM NaH2PO4, 42.5 uM Fe(III)Na-EDTA, 1.8 uM MnSO4, 45 uM H3BO3, 0.38 uM ZnSO4, 0.015 uM (NH4)6Mo7O24, 0.16 uM CuSO4, and 0.01 uM CoCl2, supplemented with 3% sucrose and 1% agar. Plants were grown at 22 degreesC with a 10/14 h light/dark period and a light intensity of 120 uMol m-2s-1. When seedlings had reached the 4-leaf stage the priming treatment was applied directly to the roots. In a first experiment (24h short memory) roots and shoots were harvested immediately after the priming treatment . The tissue was fixed and stored at -80 degreesC. In a second experiment (10d long memory), primed and non-primed plants were transferred to hydroponic culture, and allowed to grow in (salt-free) nutrient solution for another 10 days before harvesting root and shoot material of the mature plants The material was again fixed and stored at -80 degreesC ('10 d' samples). The priming treatment consisted in application of 5 ml of growth medium supplemented with 50 mM NaCl directly to the roots of the plate-grown seedlings. Control plants were treated in the same way using nutrient medium without NaCl added. Plants were incubated with the priming (or control) solution for 24 hours. Chromatin extraction and immunoprecipitation (ChIP) were carried out following a published protocol (Saleh A. et al. 2008, Plant Cell, 20:568-579). In brief, tissue samples were incubated in 1% (w/v) formaldehyde for 15 min under vacuum. Cross-linking was stopped by adding 125 mM glycine, and tissues were rinsed, blotted dry and frozen. Chromatin extracts were incubated with antibodies against the following four histone modifications: H3K4me2 (Diagenode pAb-035-050), H3K4me3 (Diagenode pAb-003-050), H3K9me2 (17-681, Millipore) or H3K27me3 (Diagenode, pAb-069-050). Immunoprecipitated chromatin-DNA (IP-DNA) or input chromatin-DNA was reverse cross-linked and residual protein was removed by proteinase K treatment. DNA was recovered by phenol/chloroform extraction and ethanol precipitation. ChIP DNA from three independently grown and treated plant batches were pooled for sequencing. A DNA library was prepared using the ChIP-SEQ Sample Prep Kit (Illumina), according to the manufacturer's protocols. Briefly, the overhangs were converted into phoshorylated blunt ends and 3'-ends adenylated, followed by adapter ligation. The library was size selected on an agarose gel and amplified by PCR.
characteristics.characteristic: description
characteristics.text: Seedling 4L
characteristics.characteristic: developmental stage
characteristics.text: Columbia
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0005147
characteristics.characteristic: ecotype
characteristics.text: no salt treatment
characteristics.characteristic: growth condition
characteristics.text: Arabidopsis thaliana
characteristics.characteristic: organism
characteristics.text: Arabidopsis thaliana
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/NCBITaxon_3702
characteristics.characteristic: organism
characteristics.text: root
characteristics.characteristic: organism part
characteristics.text: 0 hour
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/UO_0000032
characteristics.characteristic: sampling time point
characteristics.text: Arabidopsis thaliana
characteristics.characteristic: scientific_name
characteristics.text: frozen specimen
characteristics.ontologyTerms: http://purl.obolibrary.org/obo/OBI_0000922
characteristics.characteristic: specimen with known storage state
characteristics.text: 24hCR
characteristics.characteristic: title