Indian Journal of Microbiology

, Volume 58, Issue 4, pp 397–414 | Cite as

Fish Gut Microbiome: Current Approaches and Future Perspectives

  • Chandni Talwar
  • Shekhar Nagar
  • Rup Lal
  • Ram Krishan Negi
Review Article


In recent years, investigations of microbial flora associated with fish gut have deepened our knowledge of the complex interactions occurring between microbes and host fish. The gut microbiome not only reinforces the digestive and immune systems in fish but is itself shaped by several host-associated factors. Unfortunately, in the past, majority of studies have focused upon the structure of fish gut microbiome providing little knowledge of effects of these factors distinctively and the immense functional potential of the gut microbiome. In this review, we have highlighted the recently gained insights into the diversity and functions of the fish gut microbiome. We have also delved on the current approaches that are being employed to study the fish gut microbiome with an aim to collate all the knowledge gained and make accurate conclusions for their application based perspectives. The literature reviewed indicated that the future research should shift towards functional microbiomics to improve the maximum sustainable yield in aquaculture.


Fish Microbiome Gut Metagenomics High-throughput sequencing 



The authors acknowledge funds from ICAR-National Bureau of Agriculturally Important Microorganisms NBAIM. CT and SN gratefully acknowledge Council of Scientific & Industrial Research (CSIR) and Department of Biotechnology (DBT), Govt. of India respectively, for providing doctoral fellowships.

Author Contributions

RL and RKN conceived the idea. CT wrote the manuscript and SN helped shape the manuscript. RL and RKN critically reviewed the manuscript.

Compliance with Ethical Standards

Conflict of interest

The authors declare no conflict of interest.


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Copyright information

© Association of Microbiologists of India 2018

Authors and Affiliations

  1. 1.Department of ZoologyUniversity of DelhiDelhiIndia

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