Journal of Microbiology and Biotechnology

The Korean Society for Microbiology and Biotechnology (한국미생물·생명공학회)
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Insights into the Gut Microbiota of Freshwater Shrimp and Its Associations with the Surrounding Microbiota and Environmental Factors

  • Zhao, Yanting (State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University) ;
  • Duan, Cuilan (Fisheries Technology Extension Center of Jiangsu Province) ;
  • Zhang, Xu-xiang (State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University) ;
  • Chen, Huangen (Fisheries Technology Extension Center of Jiangsu Province) ;
  • Ren, Hongqiang (State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University) ;
  • Yin, Ying (State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University) ;
  • Ye, Lin (State Key Laboratory of Pollution Control and Resource Reuse, School of the Environment, Nanjing University)
  • Received : 2017.09.26
  • Accepted : 2018.03.08
  • Published : 2018.06.28
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Abstract

The gut microbiota of aquatic animals plays a crucial role in host health through nutrient acquisition and outcompetition of pathogens. In this study, on the basis of the high-throughput sequencing of 16S rRNA gene amplicons, we examined the bacterial communities in the gut of freshwater shrimp (Macrobrachium nipponense) and in their living environments (sediment and pond water) and analyzed the effects of abiotic and biotic factors on the shrimp gut bacterial communities. High bacterial heterogeneity was observed in the freshwater shrimp gut samples, and the result indicated that both the surrounding bacterial community and water quality factors (particularly dissolved oxygen and temperature) could affect the shrimp gut bacterial community. Despite the observed heterogeneity, 57 genera, constituting 38-99% of the total genera in each of the 40 shrimp gut samples, were identified as the main bacterial population in the gut of M. nipponense. In addition, a high diversity and abundance of lactic acid bacteria (26 genera), which could play significant roles in the digestion process in shrimp, were observed in the shrimp gut samples. Overall, this study provides insights into the gut bacterial communities of freshwater shrimp and basic information for shrimp farming regarding the application of probiotics and disease prevention.

Keywords

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