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16 S rRNA gene diversity and gut microbial composition of the Indian white shrimp (Penaeus indicus)

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Abstract

The endemic Indian white shrimp (Penaeus indicus) is an economically important crustacean species, distributed in the Indo-West Pacific region. Knowledge of its gut microbial composition helps in dietary interventions to ensure improved health and production. Here we analyzed V3-V4 hypervariable regions of the 16 S rRNA gene to examine intestinal microbiota in wild and domesticated farmed P. indicus. The study revealed that Proteobacteria, Fusobacteria, Tenericutes, and Bacteroidetes, were the dominant phyla in both the groups although there were differences in relative abundance. The dominant genera in case of the wild group were Photobacterium (29.5 %) followed by Propionigenium (13.9 %), Hypnocyclicus (13.7 %) and Vibrio (11.1 %); while Vibrio (46.5 %), Catenococcus (14 %), Propionigenium (10.3 %) and Photobacterium (8.7 %) were dominant in the farmed group. The results of the study suggest the role of environment on the relative abundance of gut bacteria. This is the first report characterizing gut microbial diversity in P. indicus, which can be used to understand the role of gut microbiota in health, nutrition, reproduction, and growth.

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Data availability

The raw sequences obtained in this study are available through the NCBI BioProject ID (PRJNA610456).

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Acknowledgements

We acknowledge Director, ICAR-CIBA for providing research infrastructures to carry-out the study.

Funding

This work was supported by Consortia Research Platform (CRP) on Vaccine and Diagnostics (CRP-V&D) 1007611.

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  1. Prasanna Kumar Patil and Tharabenahalli Nagaraju Vinay have contributed equally and share first authorship.

Authors and Affiliations

  1. ICAR-Central Institute of Brackishwater Aquaculture, 75, Santhome High Road, MRC Nagar, Chennai, 600028, India

    Prasanna Kumar Patil, Tharabenahalli Nagaraju Vinay, Viswanathan Baskaran & Satheesha Avunje

  2. Nitte University Centre for Science Education and Research (NUCSER), NITTE (Deemed to be University), Mangalore, India

    Sudeep Darbhe Ghate

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  1. Prasanna Kumar Patil
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  2. Tharabenahalli Nagaraju Vinay
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  5. Satheesha Avunje
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Contributions

Prasanna Kumar Patil and Vinay Tharabenahalli Nagaraju conceived and designed the project. Vinay Tharabenahalli Nagaraju collected the samples. Satheesha Avunje and Viswanathan Baskaran extracted the DNA and sequencing. Sudeep Darbhe Ghate and Vinay Tharabenahalli Nagaraju conducted bioinformatic analysis. Prasanna Kumar Patil, Vinay Tharabenahalli Nagaraju and Sudeep Darbhe Ghate analyzed the data, and wrote the manuscript. All authors reviewed and approved the manuscript.

Corresponding author

Correspondence to Tharabenahalli Nagaraju Vinay.

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The research undertaken complies with the current animal welfare laws in India. The experimental animal Penaeus indicus is not an endangered shrimp; the provisions of the Govt. of India’s Wildlife Protection Act of 1972 are not applicable for experiments on this shrimp.

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Patil, P.K., Vinay, T.N., Ghate, S.D. et al. 16 S rRNA gene diversity and gut microbial composition of the Indian white shrimp (Penaeus indicus). Antonie van Leeuwenhoek 114, 2019–2031 (2021). https://doi.org/10.1007/s10482-021-01658-9

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