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Quantitative Analysis of Worms after P. aeruginosa Infection

ABSTRACT: Quantitative Analysis of Worms after P. aeruginosa Infection

PROVIDER: PRJNA495621 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR21776455_1.fastq.gz	Fastqsanger.gz
	SRR21776455_2.fastq.gz	Fastqsanger.gz
	SRR21776456_1.fastq.gz	Fastqsanger.gz
	SRR21776456_2.fastq.gz	Fastqsanger.gz
	SRR21776457_1.fastq.gz	Fastqsanger.gz

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Quantitative Analysis of Worms after P. aeruginosa Infection

Project description:To clarify the mechanisms of innate immune responses mediated by epithelial barrier disruption. Reveal the host’s broad transcriptional response to P. aeruginosa infection during disruption of the intestinal barrier. We used RNA-Seq analysis to study the transcriptomic profiles of wt worms were exposed to either P. aeruginosa PA14 or E. coli OP50 for 24 hours, and the transcriptomic profiles of egl-44(MT2247) mutants fed E. coli OP50 for 24 hours. Differential expression analysis was performed by comparing wt worms exposed to PA14 versus wt worms exposed to E. coli OP50, and egl-44(MT2247) mutants fed E. coli OP50 versus WT worms fed E. coli OP50.

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Project description:Synchronized C. elegans cultures were prepared using standard techniques (http://cmgm.stanford.edu/~kimlab/index_methods.html). Live young adult worms were split between NG plates pre-seeded with the non-pathogenic E. coli strain OP50 or the Pseudomonas aeruginosa clinical isolate PA14 and incubated at 25C for 4, 12 or 24 hours before harvesting. This experiment was repeated three times on independent occasions. cDNA probes were prepared from experimental samples and from reference mRNA extracted from mixed stage wild type worms grown at 25C, and were labeled with Cy3 or Cy5, respectively. In the paper corresponding to this experiment set colors were flipped for easier visualization (probes from experimental samples are represented with red, probes from reference RNA are represented with green). Groups of assays that are related as part of a time series. Infection: Exposure to the non-pathogenic E. coli strain OP50 or to the pathogenic Pseudomonas aeruginosa strain PA14 Time: Time from the beginning of exposure Michael Shapira, Brigham J. Hamlin, Jiming Rong, Karen Chen, Michal Ronen, and Man-Wah Tan , A Conserved Role for a GATA Transcription Factor in Regulating Epithelial Innate Immune Responses, Shapira et al. PNAS(in press), 2006-10-01 Computed

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