Unknown,Transcriptomics,Genomics,Proteomics

Dataset Information

0

The effect of hfq on global gene expression and virulence in Neisseria gonorrhoeae


ABSTRACT: Hfq is an RNA chaperone, which functions as a pleiotropic regulator for RNA metabolism in bacteria. To characterize the role of Hfq in pathogenicity of Neisseria gonorrhoeae we generated a N. gonorrhoeae hfq mutant, MS11hfq.Transcriptional analysis using a custom-made N. gonorrhoeae microarray revealed that 369 open reading frames were differentially regulated in MS11hfq compared to the wild-type (wt) strain (202 were upregulated, 167 were downregulated). Arrays were generated as custom 8x15 K microarrays (Agilent Technologies) covering all open reading frames (ORFs) from N. gonorrhoeae strain FA1090 (accession number AE004969) supplemented with all ORFs from the gonoccoccal genetic island of strain MS11 (accession number AY803022) by 6 specific 60-mer oligonucleotides per gene on average. Microarray analysis was performed as dual-color hybridization with dye-reversal color-swaps as technical replicates for Cy-dye specific effect compensation and three independent biological replicates. Microarray features were extracted with the FE 9.5.3.1 software from Agilent Technologies using the GE2-v4_95_Feb07 protocol with default settings. Data were loaded into Resolver (Rosetta Biosoftware) using the MAGE-ML loader and analyzed for differential gene expression. Ratio profiles were combined into ratio experiments and regulated genes were identified with a threshold of 1.75 fold-change and anti-correlation of the color-swapped dye reversals, rendering the analysis highly stringent and robust with P values <0.0001 of the results.

ORGANISM(S): Neisseria gonorrhoeae

SUBMITTER: Alexandra Friedrich 

PROVIDER: E-GEOD-16046 | biostudies-arrayexpress |

REPOSITORIES: biostudies-arrayexpress

altmetric image

Publications

The effect of hfq on global gene expression and virulence in Neisseria gonorrhoeae.

Dietrich Manuela M   Munke Rebekka R   Gottschald Marion M   Ziska Elke E   Boettcher Jan Peter JP   Mollenkopf Hans H   Friedrich Alexandra A  

The FEBS journal 20090818 19


Hfq is an RNA chaperone that functions as a pleiotropic regulator for RNA metabolism in bacteria. In several pathogenic bacteria, Hfq contributes indirectly to virulence by binding to riboregulators that modulate the stability or translation efficiency of RNA transcripts. To characterize the role of Hfq in the pathogenicity of Neisseria gonorrhoeae, we generated an N. gonorrhoeae hfq mutant. Infectivity and global changes in gene expression caused by the hfq mutation in N. gonorrhoeae strain MS1  ...[more]

Similar Datasets

2012-04-02 | E-GEOD-29388 | biostudies-arrayexpress
2010-07-06 | E-GEOD-18163 | biostudies-arrayexpress
2008-03-17 | E-GEOD-10864 | biostudies-arrayexpress
2008-01-31 | E-GEOD-9842 | biostudies-arrayexpress
2011-11-21 | E-GEOD-26692 | biostudies-arrayexpress
2010-05-17 | E-GEOD-15216 | biostudies-arrayexpress
2010-09-30 | E-GEOD-10114 | biostudies-arrayexpress
2011-07-01 | E-GEOD-26573 | biostudies-arrayexpress
2008-09-01 | E-GEOD-12258 | biostudies-arrayexpress
2010-12-22 | E-GEOD-18109 | biostudies-arrayexpress