| Summary: | In aquaculture, recurrence rates of amoebic gill disease (AGD) caused by the ectoparasite <i>Paramoeba perurans</i> are high and no prophylactic strategies exist for disease prevention. In this study, Atlantic salmon (<i>Salmo salar</i>) were initially inoculated with <i>P. perurans</i> and following the development of amoebic gill disease were treated with freshwater immersion on day 21 and day 35 post inoculation. Fish were re-inoculated following a negative qPCR analysis for the presence of <i>P. perurans</i>. The gill host immune response was investigated at 7, 14, and 18 days post re-inoculation. Differential proteome expression of immune related proteins was assessed by comparison of each time point against naïve controls. In the gill, some proteins of the innate immune system were expressed in response to gill re-colonization by <i>P. perurans</i>, while no features of adaptive immunity were found to be differentially expressed. Many of the proteins identified are novel in the context of AGD and their expression profiles suggest that their roles in the response to disease development and progression in single or multiple infections warrant further investigation.
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