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MRNA sequencing time course of C. elegans samples at time point 1 hours until time point 16 hours at room temperature

ABSTRACT: We find gene expression oscillations which arise after a time lag of around 7 hours.

ORGANISM(S): Caenorhabditis elegans

PROVIDER: GSE133421 | GEO | 2020/09/01

REPOSITORIES: GEO

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mRNA sequencing time course of C. elegans samples at time point 0 hours until time point 15 hours at 25 degree.

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mRNA sequencing time course of C. elegans samples at time point 1 hours until time point 16 hours at room temperature

Project description:mRNA sequencing time course of C. elegans samples at time point 1 hours until time point 16 hours at room temperature

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Next Generation Sequencing for Transcriptomes Analysis for LAG-1 time course by auxin treatment.

Project description:Purpose: Ultilize Next Generation Sequencing to identify genes that are activated or repressed by LAG-1 (following auxin treatment to specifically deplete LAG-1 in C. elegans germline). The list of genes generated from RNA-seq identify primary and secondary targets of LAG-1 in C. elegans germline stem cells. Methods: RNA isolated from hand dissected C. elegans germline tumor (one day old adult animals) were used for RNA-seq library. Results: two genes (lst-1 and sygl-1) were identified as primary target for LAG-1 (2 hours auxin treatment); five additional genes are identified as secondary targets of LAG-1 based on their RNA accumulation depend on primary targets lst-1 and sygl-1 activity (4 hours auxin treatment). 94 genes are identified to be activated by LAG-1 (48 hours auxin treatment) from 4 biological replicates with the following criteria: gene counts per million greater than 2.0; fold of change greater than 2.0; false discovery rate (FDR) <0.05. Conclusions: lst-1 and sygl-1, two previously reported genes, are identified as primary transcriptional target for LAG-1 in C. elegans germline stem cells.

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Project description:Microarray analyses comparing the transcriptional profile of wild-type EGDe relative to ∆lmo0688 (L. monocytogenes) during standing growth at RT in BHI broth. These analyses revealed that Lmo0688 is required for expression of flagellar motility genes during growth at RT. In this study, we identify an additional component of the molecular circuitry governing temperature-dependent flagellar gene expression. At low temperatures (30˚C and below), MogR repression activity is specifically inhibited by an anti-repressor, GmaR. We demonstrate that GmaR forms a stable complex with MogR, preventing MogR from binding its DNA target sites. GmaR anti-repression activity is temperature-dependent due to DegU-dependent transcriptional activation of gmaR at low temperatures. Thus, GmaR production represents the first committed step for flagella production in L. monocytogenes. Interestingly, GmaR also functions as a glycosyltransferase exhibiting O-linked N-acetylglucosamine transferase (OGT) activity for flagellin (FlaA). GmaR is the first OGT to be identified and characterized in prokaryotes. Unlike the well-characterized, highly conserved OGT regulatory protein in eukaryotes, the catalytic activity of GmaR is functionally separable from its anti-repression function. Keywords: EGDe vs ∆688, Temperature, Growth condition

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