The microflora of rainbow trout intestine : a comparison of traditional and molecular identification

The culturability of the intestinal microflora of 48 rainbow trout was detected by comparing direct microscopic counts (4',6-diamidino-2-phenylindole, DAPI) with plate counts (tryptone soya agar, TSA). In general, a high percentage (average 50%) of the microflora could be cultured. The counts of the intestinal microflora varied 3-5 log units between fish within the same sampling point. A total of 504 bacteria were identified by physiologic criteria and 153 strains also by partial sequencing of the 16S rRNA gene. High agreement was found between classical and molecular identification. The dominant intestinal microflora was identified as bacteria belonging to the gamma subclass of Proteobacteria (of the genera Citrobacter, Aeromonas and Pseudomonas), to the Gram- positive bacteria with low G + C-content (of the genus Carnobacterium) and as bacteria belonging to the beta subclass of Proteobacteria. However, the composition of the intestinal microflora showed high variation among three investigated fish farms and also at different time points within one fish farm. (C) 2000 Elsevier Science B.V. All rights reserved.