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Rapid and efficient method to extract metagenomic DNA from estuarine sediments

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Abstract

Metagenomic DNA from sediments of selective estuaries of Goa, India was extracted using a simple, fast, efficient and environment friendly method. The recovery of pure metagenomic DNA from our method was significantly high as compared to other well-known methods since the concentration of recovered metagenomic DNA ranged from 1185.1 to 4579.7 µg/g of sediment. The purity of metagenomic DNA was also considerably high as the ratio of absorbance at 260 and 280 nm ranged from 1.88 to 1.94. Therefore, the recovered metagenomic DNA was directly used to perform various molecular biology experiments viz. restriction digestion, PCR amplification, cloning and metagenomic library construction. This clearly proved that our protocol for metagenomic DNA extraction using silica gel efficiently removed the contaminants and prevented shearing of the metagenomic DNA. Thus, this modified method can be used to recover pure metagenomic DNA from various estuarine sediments in a rapid, efficient and eco-friendly manner.

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Acknowledgements

Kashif Shamim is grateful to the University Grants Commission, Government of India for financial support as Maulana Azad National Fellowship (JRF & SRF). He is also thankful to Microbiology Department, Goa University for providing laboratory facilities.

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Authors and Affiliations

  1. Laboratory of Bacterial Genetics and Environmental Biotechnology, Department of Microbiology, Goa University, Taleigao Plateau, Goa, 403206, India

    Kashif Shamim, Jaya Sharma & Santosh Kumar Dubey

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  1. Kashif Shamim
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  2. Jaya Sharma
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  3. Santosh Kumar Dubey
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Correspondence to Santosh Kumar Dubey.

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Shamim, K., Sharma, J. & Dubey, S.K. Rapid and efficient method to extract metagenomic DNA from estuarine sediments. 3 Biotech 7, 182 (2017). https://doi.org/10.1007/s13205-017-0846-y

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