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Whole Microbial Community Viability Is Not Quantitatively Reflected by Propidium Monoazide Sequencing Approach by Wang, Ya (author);Yan, Yan (author);Thompson, Kelsey N. (author);Bae, Sena (author);Accorsi, Emma K. (author);Zhang, Yancong (author);Shen, Jiaxian (author);Vlamakis, Hera (author);Hartmann, Erica M. (author);Huttenhower, Curtis (author) is a Biochemistry, Genetics and Molecular Biology article available to read on EtoBox.
What is Whole Microbial Community Viability Is Not Quantitatively Reflected by Propidium Monoazide Sequencing Approach about?
## 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 microbial communities. ## Results PMA-seq was able to successfully reconstruct simple synthetic communities comprising viable/heat-killed Escherichia coli and Streptococcus sanguinis. However, in realistically complex communities (computer screens, computer mice, soil, and human saliva) with E. coli spike-in controls, PMA-seq did not accurately quantify viability (even relative to variability in
Who reads Whole Microbial Community Viability Is Not Quantitatively Reflected by Propidium Monoazide Sequencing Approach?
It is typically read by researchers, students, and practitioners in Biochemistry, Genetics and Molecular Biology.
- Author
- Wang, Ya (author);Yan, Yan (author);Thompson, Kelsey N. (author);Bae, Sena (author);Accorsi, Emma K. (author);Zhang, Yancong (author);Shen, Jiaxian (author);Vlamakis, Hera (author);Hartmann, Erica M. (author);Huttenhower, Curtis (author)
- Publisher
- Springer Science and Business Media LLC
- Published
- 2021
- Language
- EN
- Field
- Biochemistry, Genetics and Molecular Biology (Life Sciences)