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Updated: Oct 23, 2025

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Collection and Extraction of Saliva DNA for Next Generation Sequencing
Published on: August 27, 2014
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Host DNA Depletion in Saliva Samples for Improved Shotgun Metagenomics
Clarisse Marotz1, Cristal Zuniga2, Livia Zaramela2
1Department of Pediatrics, University of California San Diego, La Jolla, CA, USA. cmarotz@ucsd.edu.
Methods in Molecular Biology (Clifton, N.J.)
|August 19, 2021
Abstract:
Host DNA makes up the majority of DNA in a saliva sample. Therefore, shotgun metagenomics can be an inefficient way to evaluate the microbial populations of saliva since often <10% of the sequencing reads are microbial. In this chapter, we describe a method to deplete human DNA from fresh or frozen saliva samples, allowing for more efficient shotgun metagenomic sequencing of the salivary microbial community.

