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RNA Sequencing of BV2 cells stimulated by sTREM-1

ABSTRACT: Purpose: The goals of this study are to compare the transcriptome of BV2 cells stimulated with or without sTREM-1, explore its effect on the phenotype and function of BV2 cells, and explore potential signaling pathways. Methods: BV2 cells were incubated with or without sTREM-1 recombinant protein (1ug/mL) for 6 h, then the mRNA profiles were generated by deep sequencing, in triplicate, using Illumina GAIIx. Results: Sequencing libraries were generated using the NEBNext®UltraTMRNA Library Prep Kit for Illumina® (NEB, USA) and sequenced on an Illumina platform. Paired-end reads were then generated and evaluated for quality control. Clean raw data with high quality were aligned to the reference genome using Spliced Transcripts Alignment to a Reference (STAR) software. For quantification, FeatureCouts was used to count the read numbers mapped of each gene, 17047 transcripts were identified. Differential expression analysis between two groups was performed using the Edge R package. Genes with an adjusted RNAs with P < 0.05 and |log2FC | > 1 were identified as differentially expressed. Hierarchical clustering of differentially expressed genes uncovered several as yet uncharacterized genes that may contribute to sTREM-1 function. Gene ontologies (GO) Analyses were conducted to assess biological processes, molecular functions, and cellular components. Conclusions: Our study represents the detailed analysis of BV2 cells transcriptomes, with biologic replicates, generated by RNA-seq technology. The optimized data analysis workflows reported here should provide a framework for comparative investigations of expression profiles. Our results show that BV2 cells are activated after sTREM-1 recombinant protein stimulation, and the phagocytic function is enhanced.

ORGANISM(S): Mus musculus

PROVIDER: GSE185830 | GEO | 2022/05/04

REPOSITORIES: GEO

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Project description:Murine BV2 microglia cells were transfected either with siRNA negative control or siRNA against caspase-3 for 48h. Later on some the of the BV2 transfected cells were co-cultured with C6 glioma cells during 6h. We used the SA Biosciences Mouse Wound Healing PCR Array (PAMM-121Z) to quantitate gene expression of relevant genes related to the wound healing process Glioma cells recruit and exploit microglia, resident immune cells of the brain, for their proliferation and invasion capability. The underlying molecular mechanism used by glioma cells to transform microglia into a tumor-supporting phenotype remains elusive. Here, we report that glioma-induced microglia conversion is coupled to a reduction of basal microglial caspase-3 activity, increased S-nitrosylation of mitochondria-associated caspase-3 through inhibition of thioredoxin-2 activity, and demonstrate that caspase-3 inhibition regulates microglial tumor-supporting function. Further, we identified nitric oxide synthase-2 (NOS2) activity originating from the glioma cells as a driving stimulus in the control of microglial caspase-3 activity. Repression of glioma NOS2 expression in vivo led to reduction in both microglia recruitment and tumor expansion, whereas depletion of the microglial caspase-3 gene promoted tumor growth. This study provides evidence that the inhibition of Trx2-mediated denitrosylation of SNO-procaspase-3 is part of the microglial pro-tumoral activation pathway initiated by glioma cancer cells. qPCR gene expression profiling. Three independent experiments of siControl BV2 monoculture, siCaspase3 BV2 monoculture, siControl BV2 cocultured 6h with C6 glioma cells and siCaspase3 BV2 cocultured 6h with C6 glioma cells. Equal amount total RNA from each culture was used for the gene expression analysis. Please note that the raw data for three independent experiments (prior to averaging the data) is provided in the 'Raw_Data_File_with_the_Ct_values_for_3_indep_experiments.txt'.

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RNA Sequencing of BV2 cells stimulated by sTREM-1

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