characteristics.text: ERC000011
characteristics.characteristic: ENA-CHECKLIST
characteristics.text: 2019-04-01T17:02:34Z
characteristics.characteristic: ENA-FIRST-PUBLIC
characteristics.text: 2017-04-19T13:30:49Z
characteristics.characteristic: ENA-LAST-UPDATE
characteristics.text: SAMEA103983248
characteristics.characteristic: External Id
characteristics.text: Freie Universitat Berlin Institut fur Biologie-Mikrobiologie
characteristics.characteristic: INSDC center name
characteristics.text: 2019-04-01T17:02:34Z
characteristics.characteristic: INSDC first public
characteristics.text: 2017-04-19T13:30:49Z
characteristics.characteristic: INSDC last update
characteristics.text: public
characteristics.characteristic: INSDC status
characteristics.text: ERS1672416
characteristics.characteristic: SRA accession
characteristics.text: E-MTAB-5667:Staph_aureus_Allicin_II
characteristics.characteristic: Submitter Id
characteristics.text: ArrayExpress
characteristics.ontologyTerms: http://www.ebi.ac.uk/efo/EFO_0009737
characteristics.characteristic: broker name
characteristics.text: Protocols: To monitor the global changes in gene expression of Staphylococcus aureus USA300 TCH1516 under Allicin stress by RNA-seq, cultivation was performed in Luria Bertani (LB) medium in triplicate at 37°C until cells have reached an optical density at 540 nm of 2.0. Cells were harvested by centrifugation, washed with Belitsky minimal medium (BMM) and adapted to BMM for one hour before exposure to 300 µM Allicin stress. S. aureus cells of 3 replicate experiments were harvested before and 30 min after exposure to 300 µM Allicin S. aureus cells were harvested before and 30 min after exposure to 300 µM Allicin and disrupted in 3 mM EDTA/ 200 mM NaCl lysis buffer with a Precellys24 Ribolyzer. RNA isolation was performed using the phenol-chloroform-isoamylalcohol approach. After precipitation with 3 M sodium acetate and isopropanol, the total RNA was washed with cold ethanol and the pellet was solved in sterile water. Initially RNA quality was checked by Trinean Xpose (Gentbrugge,Belgium) and Agilent RNA Nano 6000 kit on Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany). Samples contaminated with DNA were treated with DNase (Qiagen), cleaned as described above and rechecked by Xpose and Agilent Bioanalyzer. Finally RNA was free of DNA with an RNA Integrity Number (RIN) > 9 and rRNA Ratio [23s / 16s] > 1.5. Ribo-Zero rRNA Removal Kit (Bacteria) from Illumina (San Diego, CA, USA) was used to remove the ribosomal RNA molecules from the isolated total RNA. Removal of rRNA was checked by Agilent RNA Pico 6000 kit on Agilent 2100 Bioanalyzer (Agilent Technologies, Böblingen, Germany). RNA was free of detectable rRNA. TruSeq Stranded mRNA Library Prep Kit from Illumina (San Diego, CA, USA) was used to prepare cDNA libraries.
characteristics.characteristic: description
characteristics.text: Staphylococcus aureus subsp. aureus USA300
characteristics.characteristic: organism
characteristics.text: Staphylococcus aureus subsp. aureus USA300
characteristics.characteristic: organism
characteristics.text: Staphylococcus aureus subsp. aureus USA300
characteristics.characteristic: scientific_name
characteristics.text: Staph_aureus_Allicin_II
characteristics.characteristic: title