Atlantic Salmon Gut Metatranscriptomic Data with SMGA Reference

Metatranscriptomic data from the gut of freshwater juvenile Atlantic salmon fed a commercial diet. The dataset, 202.7 MB in size, was uploaded by Ronja Marlonsdotter Sandholm and last updated on April 16, 2026. Reads are pseudo-aligned against the Salmon Metagenome Atlas (SMGA) and the bacterial isolate Rhodococcus sp. ASF-10.

Use Cases

• Profile microbial community activity in salmon gut based on metatranscriptomic reads.
• Study host-microbe interactions in Atlantic salmon based on gene expression data.
• Benchmark alignment tools against the Salmon Metagenome Atlas (SMGA) reference.
• Investigate the role of specific bacterial isolates like Rhodococcus sp. ASF-10 in salmon health.

Strengths

• Data is pseudo-aligned against a specialized reference, the Salmon Metagenome Atlas (SMGA).
• Includes alignment against a specific bacterial isolate (Rhodococcus sp. ASF-10) from salmon fry.
• Dataset size is 202.7 MB, indicating a medium-scale analysis.
• Released under a permissive CC-BY-4.0 license.

Limitations

• Column-level documentation is absent; field semantics must be inferred after download.
• Row count is unknown, which may limit suitability assessment.
• Description metadata is limited; actual data quality requires manual inspection after download.

Provenance

Source

figshare

Collection Method

Metatranscriptomic sequencing of gut samples from freshwater juvenile Atlantic salmon.

Time Range

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Freshness

Last updated 2026-04-16 20:12:57; freshness should be verified.

Geography

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