Omics · study · 2026
Transcriptomic response of largemouth bass (Micropterus nigricans) gill and spleen to bacterial coinfection
Listed in NCBI GEO
Largemouth bass (Micropterus salmoides) were challenged with Aeromonas veronii (Av), Aeromonas hydrophila (Ah), Flavobacterium columnare (Fc), and coinfections (AvFc, AhFc), alongside mock-challenged and pre-challenge controls.
Description
Gill and spleen tissues were sampled at 0h (pre-challenge baseline), 12h, and 24h post-challenge. RNA-Seq was performed on 161 samples (79 gill, 82 spleen; 6 biological replicates per treatment/timepoint group, 10 for pre-challenge).
Three gill samples were excluded due to low mapping rates consistent with gDNA contamination (11B3G, 15J2G, 29R3G). Differential expression analysis was performed using DESeq2 across 72 pairwise contrasts per tissue.
Links
Get the data
- GEO FTP directory ftp.ncbi.nlm.nih.gov/geo/series/GSE333nnn/GSE333434 ↗
download · from NCBI GEO
Where it is published
- GEO accession page ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE333434 ↗
landing page · from NCBI GEO
Documentation and papers
- PRJNA1471106 ncbi.nlm.nih.gov/bioproject/PRJNA1471106 ↗
project · from NCBI GEO
Topics
- Stated by source
- Expression profiling by high throughput sequencing
- From keywords
- Life Sciences
- Inferred from text
- RNA sequencing 65%
Provenance · 1 source records, 7 field assertions
| Source | Key | Last seen | Raw |
|---|---|---|---|
| NCBI GEO | GSE333434 | 15 d ago | JSON v1 |
| Field | Assertion | Extractor | Evidence |
|---|---|---|---|
| access_level | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[field].local:field:life-sciences | mapping · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| concepts[method].geo_series_type:expression-profiling-by-high-throughput-sequencing | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /gdstype |
| concepts[modality].local:modality:rna-seq | enrichment · NCBI GEO | keyword-concept-rules@1.0.0 | title+description (65%) |
| description | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /summary |
| publication_date | source · NCBI GEO | connector:ncbi_geo@1.0.0 | |
| title | source · NCBI GEO | connector:ncbi_geo@1.0.0 | /title |