Beschreibung:
<jats:title>Abstract</jats:title><jats:p>Understanding disease aetiology and pathologic mechanisms is essential for fish health evaluation. Carp edema virus (CEV) is the causative agent of a disease (CEVD) responsible for high mortality rates in both wild and cultured common carp <jats:italic>Cyprinus carpio</jats:italic>. Inspection of two carp specimens from a pond with high fish mortality revealed CEV infection in both the host and its ectoparasite (<jats:italic>Argulus foliaceus</jats:italic>). In addition to flavobacteria, well known to be associated with gill lesions, we found that free‐living eukaryotes (amoebae and ciliates) and a temporary parasite (<jats:italic>Ichthyobodo</jats:italic> spp.) colonizing the gills may also contribute to alterations in gill structure and/or function, either directly, through firm (<jats:italic>Ichthyobodo</jats:italic>) or weak (amoebae) attachment of trophozoites to the gill epithelium, or indirectly, through carriage of pathogenic bacteria. Bacterial assemblages rich in families and genera, with predominance of <jats:italic>Cetobacterium</jats:italic> spp. in low‐intensity alteration of the gill tissue and of <jats:italic>Flavobacterium</jats:italic> spp. in gills with extensive necrotic lesions, were detected in gills and within the cytoplasm of associated amoebae using high‐throughput sequencing. Quantitative PCR indicated <jats:italic>F</jats:italic>. <jats:italic>swingsii</jats:italic> as the prevailing flavobacterial species within amoebae from less affected gills and <jats:italic>F</jats:italic>. <jats:italic>psychrophilum</jats:italic> within amoebae from extensively affected gills. This case study suggests that eukaryotic organisms as part of the gill pathobiome may also contribute to irreversible gill lesions seen in CEVD. Emphasizing the complexity of mutual relationships between bacterial assemblages and eukaryotic co‐pathogens, further studies regarding factors that trigger pathology and influence severity in the CEV‐positive carp are needed.</jats:p>