Pragmatic Considerations When Extracting DNA for Metagenomics Analyses of Clinical Samples.

ABSTRACT: Microbiome analyses are essential for understanding microorganism composition and diversity, but interpretation is often challenging due to biological and technical variables. DNA extraction is a critical step that can significantly bias results, particularly in samples containing a high abundance of challenging-to-lyse microorganisms. Taking into consideration the distinctive microenvironments observed in different bodily locations, our study sought to assess the extent of bias introduced by suboptimal bead-beating during DNA extraction across diverse clinical sample types. The question was whether complex targeted extraction methods are always necessary for reliable taxonomic abundance estimation through amplicon sequencing or if simpler alternatives are effective for some sample types.

SUBMITTER: Neidhofer C 

PROVIDER: S-EPMC10379426 | biostudies-literature | 2023 Jul

REPOSITORIES: biostudies-literature