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SRX9706755: GSM4981576: HB_WT_2; Caenorhabditis elegans; RNA-Seq
1 ILLUMINA (NextSeq 500) run: 20.4M spots, 1.6G bases, 663.3Mb downloads

Submitted by: NCBI (GEO)
Study: TENT5 cytoplasmic non-canonical poly(A) polymerases regulate the innate immune response in animals
show Abstracthide Abstract
Innate immunity, the first line of host defense against pathogens, is tightly regulated both transcriptionally and post-transcriptionally. Through global transcriptome and proteome analyses in Caenorhabditis elegans, we uncover a modulation of the expression of secreted innate immunity effector proteins by TENT5, one of a recently described family of cytoplasmic poly(A) polymerases. Direct RNA sequencing revealed that TENT-5 polyadenylates mRNAs with signal peptide-encoding sequences, that are translated at the endoplasmic reticulum. Loss of tent-5 function makes worms more susceptible to bacterial infection. Importantly, we demonstrate that the function of TENT-5 in innate immunity is evolutionarily conserved, as its orthologs, TENT5A and TENT5C are induced during macrophage activation and polyadenylate mRNAs, some of which are of genes orthologous to C. elegans TENT-5 targets. In summary, our study reveals cytoplasmic polyadenylation to be a previously unknown component of the post-transcriptional regulation of innate immunity in animals. Overall design: Global transcriptomic analysis of L4-stage tent-5-deficient (TENT-5) and wild-type (WT) worms grown on non-pathogenic Escherichia coli strain HB101 (HB) or infected with Staphylococcus aureus NCTC 8325 (SA) for 8 hours. Other tent-5 IDs: F55A12.9, pqn-44. Transcriptomic analysis of bone marrow-derived macrophages (BMDM) treated with LPS for 8h compared to untreated samples.
Sample: HB_WT_2
SAMN17120524 • SRS7901802 • All experiments • All runs
Library:
Instrument: NextSeq 500
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: SINGLE
Construction protocol: Total RNA from C. elegans and BMDM cells was isolated with TRI Reagent (Sigma-Aldrich) according to the manufacturer's instructions. Before RNA-seq library preparation, total RNA samples were treated with TURBO DNase (Thermo Fisher Scientific) to remove DNA contamination. RNA was then purified by phenol/chloroform extraction and ethanol precipitation. Ribosomal RNA was removed from samples using a Ribo-Zero rRNA Removal Kit (Human/Mouse/Rat, Epicentre). Strand-specific libraries were prepared using a dUTP protocol (KAPA Stranded RNA-Seq Library Preparation Kit), according to the manufacturer. Library quality was assessed using chip electrophoresis performed on an Agilent 2100 Bioanalyzer (Agilent Technologies, Inc.).
Experiment attributes:
GEO Accession: GSM4981576
Links:
Runs: 1 run, 20.4M spots, 1.6G bases, 663.3Mb
Run# of Spots# of BasesSizePublished
SRR1327695020,415,9741.6G663.3Mb2022-11-10

ID:
12694929

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