Full‐length 16S rRNA gene classification of Atlantic salmon bacteria and effects of using different 16S variable regions on community structure analysis

• DOI: 10.1002/mbo3.898
• Publication Date: 2019-07-04T17:08:41Z
• Authors: Terje Klemetsen; Nils Peder Willassen; Christian René Ka...
• Keywords: Operational taxonomic unit; Housekeeping gene

Abstract Understanding fish‐microbial relationships may be of great value for fish producers as growth, development and welfare are influenced by the microbial community associated with rearing systems surfaces. Accurate methods to generate analyze these communities would an important tool help improve understanding effects in industry. In this study, we performed taxonomic classification determination operational units on Atlantic salmon microbiota taking advantage full‐length 16S rRNA gene sequences. Skin mucus was dominated genera Flavobacterium Psychrobacter . Intestinal samples were Carnobacterium, Aeromonas, Mycoplasma sequences assigned order Clostridiales. Applying Sanger sequencing bacterial from pool 46 isolates obtained study showed a clear assignment PacBio down genus level. One bottlenecks comparing profiles is that different studies use regions. Comparisons sequence assignments between silico derived variable regions phylogenetic groups ranks.