characteristics.text: 2026-01-01
characteristics.characteristic: ENA first public
characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: IGBMC
characteristics.characteristic: INSDC center name
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS27218375
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-16072:control_1
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.characteristic: broker name
characteristics.text: not collected
characteristics.characteristic: collection date
characteristics.text: fruit fly
characteristics.characteristic: common name
characteristics.text: Protocols: ATAC-seq was performed on Wl3 CNS from rad50∆5.1 or w1118 animals in triplicates. 20 CNS for each replicate were dissected on ice in PBS supplemented with 1% BSA. Cells were extracted in 200µL collagenase IV (Gibco ref: 17104019) at 1mg/mL at 37°C for 30’. To enhance dissociation, samples were pipetted 50 times every 10’ and 100 times at t=30’. Cells were counted on hemocytometer and 200.000 cells for each reaction were used. Upon dissociation, cells were pellet for 10’ at 600g 4°C and nuclei were extracted in nuclei extraction buffer (HEPES pH8.0 20mM, KCl 10mM, Glycerol 20%, triton X-100 0.1%, spermidine trihydrochloride 0.5mM) for 10’ on ice. Nuclei were pellet at 1200g for 10’ at 4°C.  Tagmentation was performed on extracted nuclei at 37°C for 30’ at 800 rpm in tagmentation buffer (Tris-HCl pH 8 33mM, DMF 16%, K-Ac 66mM, MgCl2 10mM, digitonin 0.001%, Tween-20 0.01%, PBS 0.4X) using pre-indexed assembled Tn5 transposomes (Active Motif, ref 53152). DNA was recovered using MinElute purification kit (Qiagen ref: 28004). Libraries were prepared from the whole tagmented DNA using Q5® High-Fidelity 2X Master Mix (NEB) and P5/P7 primers at 1µM final concentration in 50µL total reaction volume and following PCR procedure: 72°C 5’/ 98°C 30’’/ (98°C 10’’, 63°C 30’’, 72°C 1’)*12. PCR clean-up was performed using SPRIselect size selection beads (Beckman coulter) with a ratio of 1.2. Library quality was assessed on bioanalyzer using High sensitivity Chips. If adapters remained, those were removed with another size selection step with 1.2 or 1.1 ratio according to amount of contamination.
characteristics.characteristic: description
characteristics.text: third instar larva stage
characteristics.characteristic: developmental stage
characteristics.text: w1118
characteristics.characteristic: genotype
characteristics.text: not collected
characteristics.characteristic: geographic location (country and/or sea)
characteristics.text: 20 per samples
characteristics.characteristic: individual
characteristics.text: not applicable
characteristics.characteristic: isolate
characteristics.text: Drosophila melanogaster
characteristics.characteristic: organism
characteristics.text: Drosophila melanogaster
characteristics.characteristic: organism
characteristics.text: central nervous system
characteristics.characteristic: organism part
characteristics.text: Drosophila melanogaster
characteristics.characteristic: scientific_name
characteristics.text: mixed
characteristics.characteristic: sex
characteristics.text: control_1
characteristics.characteristic: title