A comparison of six DNA extraction protocols for 16S, ITS and shotgun metagenomic sequencing of microbial communities.

ABSTRACT: Microbial communities contain a broad phylogenetic diversity of organisms; however, the majority of methods center on describing bacteria and archaea. Fungi are important symbionts in many ecosystems and are potentially important members of the human microbiome, beyond those that can cause disease. To expand our analysis of microbial communities to include data from the fungal internal transcribed spacer (ITS) region, five candidate DNA extraction kits were compared against our standardized protocol for describing bacteria and archaea using 16S rRNA gene amplicon- and shotgun metagenomics sequencing. The results are presented considering a diverse panel of host-associated and environmental sample types and comparing the cost, processing time, well-to-well contamination, DNA yield, limit of

SUBMITTER: Shaffer JP 

PROVIDER: S-EPMC9361692 | biostudies-literature | 2022 Jun

REPOSITORIES: biostudies-literature