E-GEOD-57288 - Expression analysis of a full Lsr locus knockout on the luxS knockout background of Haemophilus influenzae strain CZ4126/02

Status
Released on 6 May 2014, last updated on 12 May 2014
Organism
Haemophilus influenzae
Samples (64)
Arrays (2)
Protocols (7)
Description
Investigation of whole genome gene expression differences between a full (nine-gene) Lsr locus deletion and a luxS deletion strain (double knock-out) compared to a luxS isogenic mutant strain (each derived from the CZ4126/02 parent strain). Both strains are unable to produce the autoinducer-2 (AI-2) quorum sensing molecule. In addition, the Lsr mutant is unable to import AI-2 nor mediate any potential LsrR-based transcriptional regulation. ΔluxS and ΔlsrΔluxS strains were grown in a chemically defined media (CDM) to two different time-points with or without the addition of 3µM synthetic AI-2. RNA was extracted from these sampling conditions in two separate cultures (biological replicates). Each of these RNA samples was run on two different H. influenzae supragenome arrays (technical replicates). 3-13 probes represent each subcluster(gene) and two replicate probe sets are included on each custom NTHi supragenome chip thus under each sampling condition 8 separate values are obtained per strain and used for WT:Lsr-KO comparisons.
Experiment type
transcription profiling by array 
Contacts
Benjamin Janto <bjanto@drexelmed.edu>, Azad Ahmed, Benjamin A Janto, Byers Barbara, Christopher J Post, Evan Powell, Fen Z Hu, Garth D Ehrlich, Jennifer Kress-Bennett, Joshua Earl, Luisa N Hiller, Margaret E Dahlgren, Mike Passineau, Ramaz Geguchadze, Rory Eutsey
MIAME
PlatformsProtocolsFactorsProcessedRaw
Files
Investigation descriptionE-GEOD-57288.idf.txt
Sample and data relationshipE-GEOD-57288.sdrf.txt
Processed data (1)E-GEOD-57288.processed.1.zip
Array designsA-GEOD-16197.adf.txt, A-GEOD-18645.adf.txt
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