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Analysis of bacterial and macrophage transcripts in ISRE-positive and negative infected macrophages

ABSTRACT: Analysis of bacterial and macrophage transcripts in ISRE-positive and negative infected macrophages

PROVIDER: PRJNA274280 | ENA |

REPOSITORIES: ENA

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			Action	DRS
	SRR1784830_1.fastq.gz	Fastqsanger.gz
	SRR1784830_2.fastq.gz	Fastqsanger.gz
	SRR1784831_1.fastq.gz	Fastqsanger.gz
	SRR1784831_2.fastq.gz	Fastqsanger.gz
	SRR1784832_1.fastq.gz	Fastqsanger.gz

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Analysis of bacterial and macrophage transcripts in ISRE-positive and negative infected macrophages

Project description:To identify bacterial transcripts that may be associated with type I IFN production in Salmonella enterica subsp typhimurium (SL1344) infected macrophages we transformed macrophages with an ISRE-GFP reporter construct and sorted separate populations of GFP positive and GFP negative infected macrophages. We then did whole transcriptome profiling, collecting both host and bacterial transcripts, for differential expression analysis Analysis of ISRE positive, negative, and mixed populations at two time points (unexposed and 24hours) in duplicate (biological replicates). A sample consisting of Salmonella prior to infection was also included

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Analysis of bacterial and macrophage transcripts in ISRE-positive and negative infected macrophages

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Project description:The Epstein-Barr virus (EBV) encodes its own microRNAs (miRNAs); however, their biological roles remain elusive. The commonly used EBV B95-8 strain lacks a 12 kb genomic region, known as BamHI A Rightward Transcripts (BART) locus, which encodes a number of viral miRNAs (BART miRNAs). These miRNAs are expressed abundantly in EBV-positive epithelial malignancies, suggesting that the 12 kb region somehow contributes to EBV-mediated epithelial carcinogenesis. Bacterial artificial chromosome (BAC) technology was used to generate an EBV B95-8 strain in which the 12 kb region was fully restored at its native locus (BART-restored virus). HEK293 and AdAH cells infected with either the parental BART-deleted virus or the BART-restored virus were established. The gene expression profiles of these cells were examined to identify cellular target genes of BART miRNAs. Total RNAs of 2 independent v-miRNA-positive HEK293 (or AdAH) cells and 2 independent v-miRNA-negative cells HEK293 (or AdAH) cells were processed for Microarray analysis using 3D-Gene human Oligo chip 25k (Toray, Tokyo, Japan).

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