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Series GSE14015 Query DataSets for GSE14015
Status Public on Dec 11, 2009
Title Mycoplasma pneumoniae expression profiling
Organism Mycoplasmoides pneumoniae M129
Experiment type Expression profiling by array
Summary Two main articles have used this data. The small bacterium Mycoplasma pneumoniae with its annotated 689 protein-coding genes and 44 RNAs constitutes an ideal system for global and conditional transcription analysis in bacteria. We have combined spotted arrays under more than 120 conditions with several strand-specific, high resolution tiling arrays to obtain an unprecedented level of detail of bacterial gene expression. We have found 68 new non-annotated transcripts, of which the vast majority are potential regulatory RNAs, 53 of them in antisense to known genes. Integration of all data confirmed a dynamic and complex view of bacterial transcription: Under reference conditions in a rich medium, 138 polycistronic and 212 monocistronic transcripts could be identified, with almost half of the polycistronic operons showing a ‘staircase’-like expression pattern, i.e. the expression level within each gene is constant, but succeeding genes have lower expression. Furthermore, under different conditions, operons can divide into smaller transcriptional units, possibly by utilization of internal promoters resulting in many alternative transcripts. More complex bacteria show similar responses to external stresses, although M. pneumoniae lacks the respective transcription regulators, indicating the existence of yet uncharacterized common response mechanisms. This is supported by the concerted expression of genes, some of which with common upstream DNA motifs, form distinct operons under different conditions indicating additional factors regulating their expression. Frequent antisense transcripts, alternative transcripts and multiple regulators per gene thus cannot longer be seen as indicators of eukaryote-specific regulatory complexity.

Keywords: Stress, genetic modification, time series, drug treatment
 
Overall design 252 samples are analyzed including genetic mutants, time series, drug treatment, stress
 
Contributor(s) Yus E, Güell M, Schmidt S, Benes V, Anne-Claude G, Serrano L
Citation(s) 19965477, 19965476, 19965468, 20519413
Submission date Dec 17, 2008
Last update date Mar 20, 2012
Contact name Marc Güell
E-mail(s) marc.guell@crg.es
Organization name Centre for Genomic Regulation
Department Systems Biology
Lab Design of Biological Systems
Street address C/ Dr.Aiguader 88
City Barcelona
ZIP/Postal code 08003
Country Spain
 
Platforms (1)
GPL7822 EMBL Mycoplasma pneumoniae Operon Oligonucleotide Array
Samples (252)
GSM351798 X37.2ºC
GSM351799 Heat.Shock
GSM351800 Mild.Oxidative.Stress._1
This SubSeries is part of SuperSeries:
GSE14019 Transcriptome/Expression analysis in Mycoplasma pneumoniae
Relations
BioProject PRJNA114531

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
GSE14015_RAW.tar 42.5 Mb (http)(custom) TAR (of GPR)
Processed data included within Sample table
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