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SRX11048992: GSM5352339: NFkB shRNA 1, 2'3'-cGAMP 2; Nematostella vectensis; RNA-Seq
1 ILLUMINA (Illumina NovaSeq 6000) run: 28.1M spots, 8.5G bases, 2.6Gb downloads

Submitted by: NCBI (GEO)
Study: Cyclic dinucleotide stimulation of Nematostella vectensis
show Abstracthide Abstract
In mammals, the cGAS-cGAMP-STING pathway is crucial for sensing viral infection and initiating an anti-viral type I interferon response. cGAS and STING are highly conserved genes that originated in bacteria and are present in most animals. By contrast, interferons only emerged in vertebrates; thus, the function of STING in invertebrates is unclear. Here, we use the STING ligand 2'3'-cGAMP to activate immune responses in a model cnidarian invertebrate, the starlet sea anemone Nematostella vectensis. Using RNA-Seq, we found that 2'3'-cGAMP induces robust transcription of both anti-viral and anti-bacterial genes, including the conserved transcription factor NF-?B. Knockdown experiments identified a role for NF-?B in specifically inducing anti-bacterial genes downstream of 2'3'-cGAMP, and some of these genes were also found to be induced during Pseudomonas aeruginosa infection. Furthermore, we characterized the protein product of one of the putative anti-bacterial genes, the N. vectensis homolog of Dae4, and found that it has conserved anti-bacterial activity. This work describes an unexpected role of a cGAMP sensing pathway in anti-bacterial immunity and suggests that a broad transcriptional response is an evolutionarily ancestral output of 2'3'-cGAMP signaling in animals. Overall design: Examine the response of N. vectensis polyps with cyclic dinucleotides (untreated, c-di-AMP, c-di-GMP, 2'3'-cGAMP, 3'3'-cGAMP). To determine factors required for the response to 2'3'-cGAMP, microinjected N. vectensis embryos with shRNAs targeting GFP (control), nvSTING, nvSTAT, and nvNF-kB and treated with 2'3'-cGAMP.
Sample: NFkB shRNA 1, 2'3'-cGAMP 2
SAMN19494028 • SRS9117026 • All experiments • All runs
Library:
Instrument: Illumina NovaSeq 6000
Strategy: RNA-Seq
Source: TRANSCRIPTOMIC
Selection: cDNA
Layout: PAIRED
Construction protocol: For polyps, total RNA was extracted using Qiagen RNeasy Mini kits according to the manufacturer's protocol. Embryos were homogenized in Trizol (Thermo Fisher Scientific) and RNA was extracted according to the manufacturer's protocol For polyps, libraries were prepared using WaferGen PrepX library prep kits with oligo dT beads for mRNA enrichment according to the manufacturer's protocol. For embryos, libraries were prepared as follows: oligo dT beads from the KAPA mRNA Capture Kit (KK8581) were used for mRNA enrichment; fragmentation, adapter ligation and cDNA synthesis were performed using the KAPA RNA HyperPrep kit (KK8540); libraries were pooled evenly by molarity and sequenced to generate 25M read pairs per sample
Experiment attributes:
GEO Accession: GSM5352339
Links:
Runs: 1 run, 28.1M spots, 8.5G bases, 2.6Gb
Run# of Spots# of BasesSizePublished
SRR1471098228,076,1748.5G2.6Gb2021-06-06

ID:
14699230

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