organism: Arabidopsis thaliana
description: Protocols: Roots from 4-day-old A. thaliana seedlings were treated with either Caulobacter RHG1 or Bacillus sp. and harvested at 12 or 48 hours after treatment. Arabidopsis thaliana ecotype Col0 seeds were surface sterilized with chlorine gas followed by stratification at 4 ⁰C in the dark for 2 days. Seeds were sown on agar-solidified plant growth medium (2.3 g/l MS, 0.5 g/l MES, 8 g/l plant tissue culture agar; pH 5.7) with a nylon mesh (mesh size 20 µM, Prosep) and incubated vertically in a tissue culture room at 21 ⁰C under long-day conditions (16 h light/8 h dark) for 4 days. Four-day-old A. thaliana seedlings were treated with either Caulobacter RHG1 or Bacillus inoculum (OD600=0.01) and roots were harvested at 12 and 48 hours after treatment. RNA was extracted with the RNeasy Plant Mini Kit (Qiagen) and RNA concentrations were measured with a ND-1000 Spectrophotometer (Thermo Fisher Scientific Nanodrop). Library preparation was done using the TruSeq stranded RNA Sample Preparation Kit v3 (Illumina).
identifiers.namespace: BioSample
identifiers.id: SAMEA112701806
attributes.tag: ENA-FIRST-PUBLIC
attributes.value: 2023-03-11
attributes.tag: ENA-LAST-UPDATE
attributes.value: 2023-03-11
attributes.tag: External Id
attributes.value: SAMEA112701806
attributes.tag: INSDC center alias
attributes.value: Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium VIB Center for Plant Systems Biology, VIB, Gent, Belgium
attributes.tag: INSDC center name
attributes.value: Department of Plant Biotechnology and Bioinformatics, Ghent University, Gent, Belgium VIB Center for Plant Systems Biology, VIB, Gent, Belgium
attributes.tag: INSDC first public
attributes.value: 2023-03-11T00:19:00Z
attributes.tag: INSDC last update
attributes.value: 2023-03-11T00:19:00Z
attributes.tag: INSDC status
attributes.value: public
attributes.tag: Submitter Id
attributes.value: E-MTAB-12690:48h_bacillus_BR1
attributes.tag: age
attributes.value: 4
attributes.tag: broker name
attributes.value: ArrayExpress
attributes.tag: common name
attributes.value: thale cress
attributes.tag: developmental stage
attributes.value: seedling development stage
attributes.tag: ecotype
attributes.value: Col-0
attributes.tag: genotype
attributes.value: wild type genotype
attributes.tag: infect
attributes.value: Bacillus
attributes.tag: organism part
attributes.value: root
attributes.tag: sample name
attributes.value: E-MTAB-12690:48h_bacillus_BR1
attributes.tag: scientific_name
attributes.value: Arabidopsis thaliana