Sample 10
Arabidopsis thaliana
Protocols: Detached roots were harvested in dark conditions using a green safe-light and immediately frozen in liquid nitrogen. Each sample comprised material from 40 roots, which were stored at -80 °C until RNA extraction. seeds were surface-sterilised and then sowed on 1/10th Murashige and Skoog medium including vitamins (Duchefa Biochemie), supplemented with 0.5 g/ l MES (Duchefa Biochemie) and 0.8% Diashin Agar (Duchefa Biochemie), pH5.8. After 3-4 days of stratification in dark at 4˚C, plates with seed were then placed vertically at 90˚ in a growth chamber for 3 days in white light (100µE, 16h photoperiod, 20˚C) to stimulate germination. At day 3, roots were detached and placed on the same media, supplemented with 5 mM sucrose (Duchefa Biochemie) unless otherwise stated. For osmotic stress and ABA treatments, the medium was additionally supplemented with 25 mM sorbitol (Duchefa Biochemie), 25 mM mannitol (Duchefa Biochemie), 12.5 mM NaCl (Duchefa Biochemie) or 30 nM ABA (Duchefa Biochemie) unless otherwise stated. Root tip position was marked after detachment, and roots were grown in darkness for another 4 days at either 20˚C or 28˚C.  seeds were surface-sterilised and then sowed on 1/10th Murashige and Skoog medium including vitamins (Duchefa Biochemie), supplemented with 0.5 g/ l MES (Duchefa Biochemie) and 0.8% Diashin Agar (Duchefa Biochemie), pH5.8. After 3-4 days of stratification in dark at 4˚C, plates with seed were then placed vertically at 90˚ in a growth chamber for 3 days in white light (100µE, 16h photoperiod, 20˚C) to stimulate germination. At day 3, roots were detached and placed on the same media, supplemented with 5 mM sucrose (Duchefa Biochemie) unless otherwise stated. For osmotic stress and ABA treatments, the medium was additionally supplemented with 25 mM sorbitol (Duchefa Biochemie), 25 mM mannitol (Duchefa Biochemie), 12.5 mM NaCl (Duchefa Biochemie) or 30 nM ABA (Duchefa Biochemie) unless otherwise stated. Root tip position was marked after detachment, and roots were grown in darkness for another 4 days at either 20˚C or 28˚C.  Samples were ground in Retsch shaker mill with two 1/8” metal ball bearings per sample, at a frequency of 25 Hz for 30 seconds twice. Total RNA was extracted using RNeasy Plant Mini kit (Qiagen), according to manufacturer instructions. RNA poly-A enrichment library preparation were carried out by Novogene.
ENA first public
2025-05-21
INSDC center name
Wageningen University, Plant Physiology group
INSDC status
public
Submitter Id
E-MTAB-15125:Sample 10
age
4
broker name
ArrayExpress
collection date
not collected
common name
thale cress
developmental stage
seedling developmental stage
genotype
wild type genotype
geographic location (country and/or sea)
not collected
isolate
not applicable
organism part
root
sample name
E-MTAB-15125:Sample 10
scientific_name
Arabidopsis thaliana
stimulus
28 degree
ecotype
Col-0