{"id":3010,"date":"2026-04-02T14:20:10","date_gmt":"2026-04-02T18:20:10","guid":{"rendered":"https:\/\/gen-fish.ca\/?page_id=3010"},"modified":"2026-04-21T14:16:34","modified_gmt":"2026-04-21T18:16:34","slug":"stp-chips","status":"publish","type":"page","link":"https:\/\/gen-fish.ca\/fr\/stp-chips\/","title":{"rendered":"STP-Chips"},"content":{"rendered":"
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Stress-Response Transcriptional Profiling (STP-Chip) Resources<\/h2>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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GEN-FISH greatly adapted from its initial vision of developing one \u201cuniversal\u201d stress-response transcriptional profiling (STP) chip; when it became clear that the candidate genes were not universally expressed across taxonomic groups, our team pivoted to no fewer than 20 iterative, order-specific STP-Chips.<\/strong> These chips can address and investigate stressors ranging from transport stress to circadian rhythm to osmoregulatory stressors across 6 orders<\/strong> of fishes.<\/p>

On top of that, there have been multiple chips developed that were not part of the original proposal, including an American Eel chip and a chip that can target genes expressed in mucus, allowing for truly non-lethal and minimally-invasive sample collection. A tremendous amount of time and dedicated work has gone into each version of each STP-Chip.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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\"Hotspot
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SAL_CIR1V1_28<\/span><\/h6>
Thraya, M., Patel, A., Stewart, K., Abou-Akl, H., Roberts, D., Heath, D., Pitcher, T.E., Carmona-Alcocer, V., Karpowicz, P. 2025. Integration of photoperiod and time-restricted feeding on the circadian gene expression rhythms in juvenile salmon . Scientific Reports 15:16156. https:\/\/doi.org\/10.1038\/s41598-025-01069-0<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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SAL_NEU1V1_28<\/span><\/h6>
Banousse, G., Semeniuk, C., Garant, D., Jeffrey, J., Islam, S.K.S., Bernier, N., Jeffries, K., Audet, C. 2025. Genetic and environmental basis of transcriptional thermal plasticity of brook charr (Salvelinus fontinalis) fry. Canadian Journal of Fisheries and Aquatic Sciences 82:1\u201315. https:\/\/doi.org\/10.1139\/cjfas-2024-0205<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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SAL_NEU1V1_28<\/span><\/h6>
Beach, R.K., Dycha, G.M., Wilder, A., Semeniuk, C.A.D., Heath, D.D., Higgs, D.M. 2025. No trout about it: behavioural and transcriptional effects of long-term noise exposure in brook trout (Salvelinus fontinalis). Canadian Journal of Fisheries and Aquatic Sciences 82:1\u201316. https:\/\/doi.org\/10.1139\/cjfas-2024-0288<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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SAL_NEU1V1_28<\/span><\/h6>
Frank, C.E., Sadeghi, .J, Heath, D.D., Semeniuk, C.A.D. 2024. Behavioral transcriptomic effects of triploidy and probiotic therapy (Bifidobacterium, Lactobacillus, and Lactococcus mixture) on juvenile Chinook salmon (Oncorhynchus tshawytscha). Genes Brain Behav 23:e12898. https:\/\/doi.org\/10.1111\/gbb.12898<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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SAL_STP2V1_56<\/span><\/h6>
Best, C., Durhack, T.C., Chapelsky, A.J., Aminot, M., Islam, S.S., Heath, D.D., Mochnacz, N.J., Jeffries, K.M. 2025. Transcriptional profiling provides insights on sublethal thermal stress thresholds in juvenile bull trout. Canadian Journal of Fisheries and Aquatic Sciences 0:0. https:\/\/doi.org\/10.1139\/cjfas-2024-0378<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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SAL_STP2V1_56<\/span><\/h6>
Sadeghi, J., Zaib, F., Heath, D.D. 2024. Genetic architecture and correlations between the gut microbiome and gut gene transcription in Chinook salmon (Oncorhynchus tshawytscha). Heredity 133:54\u201366. https:\/\/doi.org\/10.1038\/s41437-024-00692-3<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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SAL_STP2V2_56<\/span><\/h6>
Weinrauch, A.M., Lazaro-C\u00f4t\u00e9, A., Durhack, T.C., Enders, E.C., Jeffries, K.M. 2025. Cellular responses to thermal stress and moderate oxygen limitation in juvenile lake trout. Journal of Fish Biology :1\u201317. https:\/\/doi.org\/10.1111\/jfb.70111<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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PER_STP1V1_28<\/span><\/h6>
Beach, R.K., LeBlanc, J., Higgs, D.M. 2025. An Integrated Approach to Understanding Noise Stress in Two Auditorily Diverse Species of Freshwater Fish. Canadian Journal of Fisheries and Aquatic Sciences 0:0. In Press. https:\/\/cdnsciencepub.com\/doi\/10.1139\/cjfas-2024-0290<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div>
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CYP_STP1V1_28<\/span><\/h6>
Beach, R.K., LeBlanc, J., Higgs, D.M. 2025. An Integrated Approach to Understanding Noise Stress in Two Auditorily Diverse Species of Freshwater Fish. Canadian Journal of Fisheries and Aquatic Sciences 0:0. In Press. https:\/\/cdnsciencepub.com\/doi\/10.1139\/cjfas-2024-0290<\/span><\/div><\/a><\/div>\n\n\t\t\t\t\t<\/div><\/div><\/div>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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PROOF OF CONCEPT STRESSOR TRIALS<\/h5>\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t
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These experiments served to verify the effectiveness of the STP-Chips within and across species and stressors. Click each species to learn more.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t

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Arctic Char + Thermal Stress: <\/strong>PhD student Shayla Larson-Hossack is studying the effects of depleted energy reserves on thermal tolerance in Arctic Char. Using the Salmoniformes General Stress STP-Chip, liver and gill transcriptional profiling will be performed to gain insight into the metabolic and physiological responses associated with fasting and thermal challenges in Arctic Char. The experimental component of this work was performed at the Ontario Aquaculture Research Centre (Agricultural Research and Innovation Ontario). Analyses are ongoing. PI: Dr. Nicholas Bernier, University of Guelph.<\/p>

Arctic Charr + Immune Stress + Diet Stress:<\/strong> PhD student Shayla Larson-Hossack is studying the effects of depleted energy reserves on immune performance in Arctic char. Using the Salmoniformes General Stress STP-Chip, transcriptional profiling of the liver, spleen, head kidney, and gills will be performed to gain insight into the immune and metabolic responses associated with fasting and immunization with a novel multivalent salmonid vaccine developed by Merck Animal Health Canada, Forte VII. The experimental component of this work was performed at the Ontario Aquaculture Research Centre (Agricultural Research and Innovation Ontario). Analyses are ongoing. PI: Dr. Nicholas Bernier, University of Guelph.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/details>\n\t\t\t\t\t\t

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Atlantic Salmon + Thermal Stress:<\/strong> As part of a collaboration with the Nova Scotia Salmon Association, the Margaree Salmon Association, and the Unamag\u2019i Institute of Natural Resources, we are studying the behavioural transcriptomics of juvenile Atlantic Salmon to temperature stress and predation stress by Smallmouth Bass in the Southwest Margaree River, NS. MSc student Holly Mosco\u2019s study will be validating in-field use of the Salmoniformes Mucus (Nonlethal) General Stress chip (in comparison to the Salmoniformes Osmoregulatory chip), determining whether pulses in Smallmouth Bass movements cause detectable changes in both salmon behavioural and molecular (i.e., transcriptomic) stress responses. We will also be using eDNA to determine relative Smallmouth Bass abundances throughout the season as the fish collectively move upstream \u00a0and downstream, varying their exposure to juvenile salmon. PI: Dr. Christina Semeniuk, University of Windsor.<\/p>\t\t\t\t\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t<\/div>\n\t\t\t\t\t<\/details>\n\t\t\t\t\t\t

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Atlantic Sturgeon + Thermal Stress:<\/strong> PhD student Faith Penny performed pioneering work on the transcriptomics of heat stress. She was the first to compare Atlantic Sturgeon (dipliod) and Shortnose Sturgeon (polyploid) and found they had completely different transcriptomic responses to heat stress. PI: Dr. Scott Pavey, University of New Brunswick<\/p>

Atlantic Sturgeon + Thermal Stress + Diet Stress:<\/strong> HQP Hossein Haghighi and Kye Madden used RNA-sequencing data from Atlantic Sturgeon, Shortnose Sturgeon, and Lake Sturgeon to generate sequence data for designing a 56 gene Acipenser sturgeons STP-Chip. The chip was tested on Lake Sturgeon that were acutely exposed to high temperatures or were fasted. PI: Dr. Ken Jeffries, University of Manitoba.<\/p>