Whole microbial community viability is not quantitatively reflected by propidium monoazide sequencing approach.

ABSTRACT:

Background

High-throughput sequencing provides a powerful window into the structural and functional profiling of microbial communities, but it is unable to characterize only the viable portion of microbial communities at scale. There is as yet not one best solution to this problem. Previous studies have established viability assessments using propidium monoazide (PMA) treatment coupled with downstream molecular profiling (e.g., qPCR or sequencing). While these studies have met with moderate success, most of them focused on the resulting "viable" communities without systematic evaluations of the technique. Here, we present our work to rigorously benchmark "PMA-seq" (PMA treatment followed by 16S rRNA gene amplicon sequencing) for viability assessment in synthetic and realistic micro

SUBMITTER: Wang Y 

PROVIDER: S-EPMC7819323 | biostudies-literature | 2021 Jan

REPOSITORIES: biostudies-literature