Table 6 Temperature stress response discovery analysis. Discovery analysis utilized the MGL 2007-2009 Temperature data set (cGRASP44K) from Jeffries et al. [9], and publicly available data from the Quinn et al. [32] study on chronic, sub-lethal heat stress in Arctic charr gill tissue (cGRASP32K). Validation analyses were based on robustness signatures CS0101i and CS0101u, and published signatures ES0013 (cGRASP44K), ES0012, ES0020, ES0021, ES0022 (GRASP16K), and ES0023 and ES0024 (cGRASP32K)
From: Developing specific molecular biomarkers for thermal stress in salmonids
Signature | Data set | Species | Exposure duration | Tissue | Array platform | Signature |
|---|---|---|---|---|---|---|
ES0012 | Jeffries et al. [30], Chronic heat (survivors) | Sockeye salmon | Chronic | Gill | cGRASP16K | Publication Table S1A [30] |
ES0013 | Jeffries et al. [9], Chronic heat | Pink and Sockeye salmon | Chronic | Gill | cGRASP44K | Publication Table S4 [9] |
ES0024 | Quinn et al. [32], Chronic heat | Arctic charr | Chronic | Gill | cGRASP32K | Publication Table S1 [32] |
ES0023 | Quinn et al. [33], Heat tolerance | Arctic charr | Acute | Gill | cGRASP32K | Publication Table S2 [33] (union A-G; 444 features) |
ES0020 | Lewis et al. [34], 24 h post-treatment | Rainbow trout | Acute | Red blood cells | cGRASP16K | Publication Table 4 [34] |
ES0021 | Lewis et al. [34], 4 h post-treatment | Rainbow trout | Acute | Red blood cells | cGRASP16K | Publication Table 2 [34] |
ES0022 | Anttila et al. [12], Cardiac response to warming | Sockeye salmon | Chronic | Cardiac | cGRASP16K | Publication Table SI [12] |
DS0101 | 2007 Robust limma signature (FDR < 0.01) | Sockeye salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
DS0102 | 2008 Robust limma signature (FDR < 0.01) | Sockeye salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
DS0103 | 2009 Robust limma signature (FDR < 0.01) | Pink salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
CS0101i | Temperature 2007–2009 Discovery (FDR < 0.01; Intersection) | Pink and Sockeye salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
CS0101u | Temperature 2007–2009 Discovery (FDR < 0.01; Union) | Pink and Sockeye salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
EX0101a | 2009 Temperature Gene Shaving Cluster 5 (“Shave5”) | Pink salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
EX0102a | 2007 Temperature Gene Shaving Cluster 4 (“Shave4”) | Sockeye salmon | Chronic | Gill | cGRASP16K | Derived in discovery analysis |
EX0103a | 2008 Temperature Combined sPCA2 + sPCA3 | Sockeye salmon | Chronic | Gill | cGRASP44K | Derived in discovery analysis |
DS0104 | Robust limma signature (FDR < 0.01), Heat tolerance data | Arctic Charr | Acute | Gill | cGRASP32K | Derived in discovery analysis |