2024-04-29
ENA first public
ERC000011
ENA-CHECKLIST
SAMEA114409978
External Id
ITQB NOVA
INSDC center name
2023-09-21T21:22:37Z
INSDC last update
public
INSDC status
ERS16398645
SRA accession
E-MTAB-13376:WellWatered_Phellem_rep2
Submitter Id
1.5
year
age
ArrayExpress
broker name
not collected
collection date
Protocols: Xylem, inner bark (including phloem and cortex), and outer bark (phellem) layers were manually peeled from the first 10 cm segments of the main stem taken above root collar and frozen in liquid nitrogen. Phellem and inner bark layers were collected using the natural breaking regions occurring at the vascular cambium and phellogen, by quickly stripping the full bark layer. Debarked stems were immediately placed in liquid nitrogen and developing xylem was collected by scraping the wood with a scalpel blade. Plants were grown in a glasshouse, in 7 L pots containing a mixture of soil and sand (1:1); well watered plants were treated with 300ml water/day for 18 months; water deficit plants were treated with 300ml water/day for 12 months followed by water witholding for 1 month and 5 months with 300ml water/week. Frozen samples were ground with a mortar and pestle in liquid nitrogen and RNA extraction was performed according to (Reid et al., 2006; DOI:10.1186/1471-2229-6-27) with minor modifications described in (Leal et al., 2022; DOI:10.1093/treephys/tpab176) 1)mRNA enrichment and purification: Oligo dT Selection to enrich the mRNA; 2)RNA fragment and reverse transcription; 3)End repair, add A and adaptor ligation; 4)PCR;5)Single strand separation and cyclization; 6)DNA nanoball synthesis
description
plant tissue development stage
developmental stage
none (well watered)
environmental stress
wild type genotype
genotype
not collected
geographic location (country and/or sea)
not applicable
isolate
Quercus suber
organism
Quercus suber
organism
Cork oak
organism common name
phellem
organism part
2
replicate
first 10 cm segment of the main stem
sampling site
Quercus suber
scientific_name
WellWatered_Phellem_rep2
title