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Series GSE41547 Query DataSets for GSE41547
Status Public on Jun 06, 2013
Title Identification of genes essential for Moraxella catarrhalis growth under iron-limiting conditions using Genomic Array Footprinting (GAF): Expression analysis of directed gene deletion mutants.
Organism Moraxella catarrhalis BBH18
Experiment type Expression profiling by array
Summary Iron-sequestration by the human host is a first line defense against respiratory pathogens like Moraxella catarrhalis, which consequently experiences a period of iron-starvation during colonization and infection. We determined the genetic requirements for M. catarrhalis growth during iron-starvation using the high-throughput genome-wide screening technology genomic array footprinting (GAF). To further characterize the functional consequences of the gene deletions (GAF identified genes), we determined transcriptome profiles of the wild-type and directed mutant strains during exponential growth in BHI medium. The results described in this study are further discussed in Stefan P.W. de Vries, Peter Burghout, Jeroen D. Langereis, Aldert Zomer, Peter W.M. Hermans, Hester J. Bootsma: Genetic requirements for Moraxella catarrhalis growth under iron-limiting conditions, Molecular Microbiology.
 
Overall design M. catarrhalis BBH18 directed mutants (n = 3) and their parental wild-type BBH18 strain (n = 4) were expanded to mid-log phase (OD620nm, 1.2 to 1.4) and RNA was isolated as previously described (de Vries et al., 2010 J Bacteriol 192: 3574-3583). Total RNA was labeled according to standard Nimblegen gene expression array protocols and hybridized to 4x72K custom design Nimblegen arrays for read-out.
 
Contributor(s) de Vries SW, Burghout P, Langereis JD, Zomer A, Hermans PM, Bootsma HJ
Citation(s) 23163337
Submission date Oct 12, 2012
Last update date Sep 09, 2013
Contact name Hester Bootsma
E-mail(s) h.bootsma@cukz.umcn.nl
Phone +31-243666332
Organization name Radboud University Medical Centre
Department Pediatrics
Lab Laboratory of Pediatric Infectious Diseases
Street address Kapittelweg 29
City Nijmegen
ZIP/Postal code 6525 EN
Country Netherlands
 
Platforms (1)
GPL16172 NimbleGen Moraxella catarrhalis BBH18 4x72K custom design expression array (genes)
Samples (76)
GSM1018865 Wild-type biological repl 1 repl spot 1
GSM1018866 Wild-type biological repl 1 repl spot 2
GSM1018867 Wild-type biological repl 1 repl spot 3
This SubSeries is part of SuperSeries:
GSE41548 Identification of genes essential for Moraxella catarrhalis growth under iron-limiting conditions
Relations
BioProject PRJNA177407

Download family Format
SOFT formatted family file(s) SOFTHelp
MINiML formatted family file(s) MINiMLHelp
Series Matrix File(s) TXTHelp

Supplementary file Size Download File type/resource
GSE41547_RAW.tar 88.5 Mb (http)(custom) TAR (of PAIR)
Processed data included within Sample table

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