ERC000011
ENA-CHECKLIST
2023-12-01T00:42:58Z
ENA-FIRST-PUBLIC
2023-12-01T00:42:58Z
ENA-LAST-UPDATE
SAMEA114541616
External Id
IGBMC
INSDC center name
2023-12-01T00:42:58Z
INSDC first public
2023-12-01T00:42:58Z
INSDC last update
public
INSDC status
ERS16522945
SRA accession
E-MTAB-13491:ATACseq_E16_neurons_n1
Submitter Id
1
day
age
ArrayExpress
broker name
not collected
collection date
fruit fly
common name
Protocols: Brains : 70 brains dissected in PBS 250µL, pellet 3' at 4°C 600g, resuspent in 200µL 1mg/mL collagenase D 1h at 700rpm 37°C. Isolated cells washed once in PBS at 600g 10' 4°C and resuspend in 300µL PBS and pass through FACS filter for sorting. 10 oregon brains were used as negative control for FACS. E16 embryos are collected, washed, dechorionated 1min in bleach, washed extensively and crushed using a dounce tissue grinder, first using the loose pestle than the tight one. Cells are FACSed using 100µm nozzle. Strain used : elav-nRFP Nuclei isolation : Add 200µL ice cold nuclear extraction buffer (HEPES-KOH pH 7.9 20mM, KCl 10mM, Spermidine 0.5mM, triton X-100 0,1%, glycerol 20%, PIC 1X), mix well and incubate on balancelle 10'. Pellet isolated nuclei at 1400rcf 15' 4°C, wash once in 250mL PBS, 1400g, 10' 4°C Tagmentation: Resuspend isolated nuclei in 50µL tagmentation buffer (33mM tris-acetate pH 7.8, 66mM potassium acetate, 10mM Mg-acetate, 16% dimethylformamide, 0.01% digitonin) + 0.5µL pre-loaded Tn5, mix well. Incubate 60' at 37°C 300rpm. DNA isolation add 50µL STOP buffer (EDTA 20mM, tris-HCl pH 7.5 10mM) add 200µL H20, mix well, add 300µL basic Phenol-chloroforme-isoamyl alcool, vortex 10s, incubate RT 10', centrifuge 15' 160000g 4°C Collect supernatent, add 1V chloroforme, vortex 10s, centrifuge 15' 4°C 160000g Collect supernatent, add 2V Et-OH 100%, 1/10V NaAc 3M, incubate at -20°C ON Centrifuge 16000g 15' 4°, remove supernatent, add 500µL 75% Et-OH, centrifuge 15' 4°C 16000g, repeat twice Air-dry 10', 65°C 5', resuspend in 25µL H20. Amplify purified library : 1. 72°C 5' 2. 98°C 30\" 3. 98°C 10\" 4. 63°C 30\" 5. 72°C 1' 6. Hold 4°C repeat Step 3-4 14 times
description
embryonic stage 16
developmental stage
elav-nRFP
genotype
not collected
geographic location (country and/or sea)
not applicable
isolate
Drosophila melanogaster
organism
Drosophila melanogaster
organism
embryonic central brain neuron
organism part
1
replicate
Drosophila melanogaster
scientific_name
mixed
sex
WT
strain
ATACseq_E16_neurons_n1
title