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Mining the Core Gut Microbiome from a Sample Indian Population

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Abstract

Human gut microbiome studies are increasing at a rapid pace to understand contributions of the prokaryotic life to the innate workings of their eukaryotic host. Majority of studies focus on the pattern of gut microbial diversity in various diseases, however, understanding the core microbiota of healthy individuals presents a unique opportunity to study the microbial fingerprint in population specific studies. Present study was undertaken to determine the core microbiome of a healthy population and its imputed metabolic role. A total of 8990, clone library sequences (> 900 bp) of 16S rRNA gene from fecal samples of 43 individuals were used. The core gut microbiota was computed using QIIME pipeline. Our results show the distinctive predominance of genus Prevotella and the core composition of genera Prevotella, Bacteroides, Roseburia and Megasphaera in the Indian gut. PICRUSt analysis for functional imputation of the microbiome indicates a higher potential of the microbiota for carbohydrate metabolism. The presence of core microbiota may indicate key functions played by these microbes for the human host.

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Acknowledgements

We acknowledge the support of faculty from Department of Microbiology, Modern College of Arts, Science and Commerce, Ganeshkhind, Pune. We extend our thanks to Dr. Shrikant Bhute, Dr. Mangesh Suryawanshi, Dr. Deepak Patil, Dr. Nachiket Marathe, Diptaraj Chaudhari and Sudarshan Shetty for their support. We also acknowledge the support extended by all lab members at the YSS lab and NCMR.

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Authors and Affiliations

  1. National Centre for Cell Science (NCCS), University of Pune Campus, Ganeshkhind, Pune, 411007, India

    Abhijit S. Kulkarni, Shreyas V. Kumbhare & Yogesh S. Shouche

  2. National Centre for Microbial Resource (NCMR), National Centre for Cell Science (NCCS), Central Tower, SAI Trinity Complex, Pashan, Pune, 411021, India

    Dhiraj. P. Dhotre & Yogesh S. Shouche

Authors
  1. Abhijit S. Kulkarni
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  2. Shreyas V. Kumbhare
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  3. Dhiraj. P. Dhotre
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  4. Yogesh S. Shouche
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Contributions

YSS and DD conceptualized the work. AK performed the bioinformatic analysis, compiled the data and wrote the manuscript. YSS, DD and SK gave crucial inputs for analysis and manuscript revision.

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Correspondence to Yogesh S. Shouche.

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The authors declare that they have no conflict of interest.

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Kulkarni, A.S., Kumbhare, S.V., Dhotre, D.P. et al. Mining the Core Gut Microbiome from a Sample Indian Population. Indian J Microbiol 59, 90–95 (2019). https://doi.org/10.1007/s12088-018-0742-0

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  • DOI: https://doi.org/10.1007/s12088-018-0742-0

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