Examination of the microbiome of bastard sturgeon cultivated in the conditions of recirculated water

Abstract

The research was aimed at analyzing the microbiome of the skin, the gill lamellae, and the intestines of sturgeon fish. After examining the structure of the microbial community of bastard sturgeon bred in the conditions of closed-circuit water supply, a conclusion can be made both about the physiological state of the fish and about possible pathologies. For making a collection, the following samples were taken from five bions in pool No. 3 and five bions in pool No. 6: the surface of the skin, namely, pieces of fins of sturgeon fish of Bastard Sturgeon species, and gill lamellae (by slicing the gills), and from the intestines (by introducing a swab through the cloaca). The samples were fixed in 96 % ethanol at the material collection locations. Each sample was assigned an identification number. DNA was isolated from the tissues of sturgeon using the set of reagent (MACHEREY-NAGEL NucleoSpin Soil) made by MACHEREY-NAGEL (Germany). The obtained sequences were processed using the Trimmomatic Fastq-Join toolkits, and OTU-picking was performed using the QIIME package. The studies showed that the greatest differences between the pools were in the microbiomes of the intestinal hole, and the least — in the microbiomes of the fin surface, i.e., the effect of a pool on the expression of the differences between the microbiomes increased in the following row: fins – gills – intestinal communities.