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Series GSE18523 Query DataSets for GSE18523
Status Public on Dec 31, 2014
Title Phylogenetic footprinting and transcriptome profiling reveal new roles for two Bacillus cereus two-component systems
Organism Bacillus cereus ATCC 14579
Experiment type Expression profiling by array
Summary Members of the Bacillus cereus group can adapt to a wide range of environmental challenges. In bacteria, these challenges are often translated into a transcriptional response via the cognate response regulators (RRs) of specialized two-component systems (TCSs). We have previously developed a phylogenetic footprinting approach that was successfully implemented to predict specific binding sites (operators) and target genes for the RRs of B. cereus and related species. In this study, this footprinting approach was integrated with transcriptome analyses of two B. cereus TCS deletion mutants, involving the TCSs YvrHG and YufLM. Comparison of mutant versus wild-type transcriptomes revealed that the respective TCSs were significantly active during the exponential growth phase in rich medium and that the footprinting-based predictions were accurate for the two TCSs. Moreover, the predicted specific operators were used in combination with the transcriptome data to guide the identification of more extended TCS regulons. This revealed new roles for the respective TCSs, including the participation in an intricate transcriptional network involved in antibiotic resistance, including the confirmed resistance to oxolinic acid (YvrHG) and the confirmed uptake and metabolism of fumarate and the repression of fermentative pathways (YufLM).
 
Overall design Two different comparisons were performed (both in duplo and Cy5-Cy3 dye-swapped):

(1) B. cereus WT 30°C (mid-exponential) versus B. cereus delta-yufLM 30°C (mid-exponential)
(2) B. cereus WT 30°C (mid-exponential) versus B. cereus delta-yvrHG 30°C (mid-exponential)
 
Contributor(s) de Been M, Brillard J, Brousolle V, Abee T
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Submission date Oct 12, 2009
Last update date Dec 31, 2014
Contact name Mark de Been
Organization name Wageningen UR
Department Agrotechnology and Food Sciences Group
Lab Laboratory of Food Microbiology
Street address Bomenweg 2
City Wageningen
ZIP/Postal code 6703 HD
Country Netherlands
 
Platforms (1)
GPL8114 Bacillus cereus ATCC 14579 - design 3
Samples (4)
GSM461404 DyufLM vs WT
GSM461405 WT vs DyufLM
GSM461406 DyvrHG vs WT
Relations
BioProject PRJNA120197

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Supplementary data files not provided
Raw data included within Sample table
Processed data included within Sample table

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