Dataset features


Application: Gene expression microarray analysis
Number of samples: 1
Release date: Jul 25 2007
Last update date: Sep 18 2012
Access: Public
Chemicals: Carbon, Chloramphenicol
Dataset link Genomic and Proteomic Analysis of the Alkaline-Tolerance Response (AlTR) in Listeria monocytogenes 10403S

Experimental Protocol

Overnight grown Listeria monocytogenes 10403S culture (100 µl) was inoculated into a 250 ml Erlenmeyer flask with 100 ml of BHI, and cultures were incubated at 30° C with shaking at 200 rpm. Cells were harvested by centrifugation when the optical density at 600 nm reached ~0.4, and then rapidly transferred to prewarmed (30 ° C) alkali adjusted BHI pH 9.5 (Adapted cultures) or not adjusted BHI (Control cultures) for 60 min. The pH of BHI medium was adjusted to 9.5 with a glycine-NaOH-NaCl buffer. Control and alkali adapted cells were used for transcriptomic and proteomic studies. In array analysis several controls were employed to minimise technical and biological variations, and ensure the quality of the data, i.e. i) each ORF was present in duplicate in each array, ii) each RNA preparation was used to make probes for at least two-separate arrays with reversal of incorporated dye and iii) three independent RNA batches from each condition were analysed. Only differences of ≥ 2 fold change in the levels of gene expression, which also had SAM 'q' values of 0.05, were recorded as significant.







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