Polley, T. | Search bioRxiv

bioRxiv2026

Geographic distribution of Adult Salmon Enteritis (ASE), Enterocytozoon schreckii, and Ceratonova shasta in Chinook Salmon Oncorhynchus tshawytscha (Walbaum, 1792) in Oregon and Washington state and expanded histopathologic description of ASE

Adult salmon enteritis (ASE) is a severe intestinal disease affecting spring Chinook Salmon (Oncorhynchus tshawytscha) in the Pacific Northwest. ASE is strongly associated with pre-spawn mortality (PSM), a critical concern for endangered populations and continued Chinook Salmon management. This study characterizes the geographic distribution of ASE across Oregon and Washington watersheds, examines its association with two common parasites (Ceratonova shasta and Enterocytozoon schreckii), and provides detailed histopathological characterization of the disease. We examined intestinal tissues from 259 adult spring Chinook Salmon collected from multiple hatcheries across the Columbia River Basin and Puget Sound between 2022 and 2025 using routine histopathology, specific histochemical stains, and immunohistochemistry. ASE was highly prevalent in all Columbia Basin populations, with chronic ulcerative and necrotizing enteritis, but was absent in Puget Sound populations. C. shasta prevalence was high in most Columbia Basin locations (10-100%), while E. schreckii prevalence was more variable (0-67%). Consistent histopathological findings of ASE included [≥] 10% mucosal ulceration, mixed inflammation expanding the lamina propria and extending into surrounding intestinal layers, and dissolution of the stratum granulosum. In chronic ASE lesions, we further characterized granulation tissue formation. Cold water holding of spawning adults appears to slow disease progression and reduce PSM without preventing ASE development. These findings demonstrate that ASE is a geographically restricted disease of the Columbia Basin that may have associations with diverse environmental exposures including water temperature and pathogens.

pathology↗

bioRxiv2018

Effect of the macroalgae Asparagopsis taxiformis on methane production and the rumen microbiome assemblage

BackgroundRecent studies using batch-fermentation suggest that the red macroalgae Asparagopsis taxiformis might reduce methane (CH4) emission from beef cattle by up to ~99% when added to rhodes grass hay, a common feed in the Australian beef industry. These experiments have shown significant reductions in methane without compromising other fermentation parameters (i.e. volatile fatty acid production) with A. taxiformis organic matter (OM) inclusion rates of up to 5%. In the study presented here, A. taxiformis was evaluated for its ability to reduce methane production from dairy cattle fed a mixed ration widely utilized in California; the largest milk producer in the US.\n\nResultsFermentation in a semi-continuous in-vitro rumen system suggests that A. taxiformis can reduce methane production from enteric fermentation in dairy cattle by 95% when added at a 5% OM inclusion rate without any obvious negative impacts on volatile fatty acid production. High-throughput 16S ribosomal RNA (rRNA) gene amplicon sequencing showed that seaweed amendment effects rumen microbiome communities consistent with the Anna Karenina hypothesis, with increased beta-diversity, over time scales of approximately three days. The relative abundance of methanogens in the fermentation vessels amended with A. taxiformis decreased significantly compared to control vessels, but this reduction in methanogen abundance was only significant when averaged over the course of the experiment. Alternatively, significant reductions of methane in the A. taxiformis amended vessels was measured in the early stages of the experiment. This suggests that A. taxiformis has an immediate effect on the metabolic functionality of rumen methanogens whereas its impact on microbiome assemblage, specifically methanogen abundance, is delayed.\n\nConclusionsThe methane reducing effect of A. taxiformis during rumen fermentation makes this macroalgae a promising candidate as a biotic methane mitigation strategy in the largest milk producing state in the US. But its effect in-vivo (i.e. in dairy cattle) remains to be investigated in animal trials. Furthermore, to obtain a holistic understanding of the biochemistry responsible for the significant reduction of methane, gene expression profiles of the rumen microbiome and the host animal are warranted.

systems biology↗