- Flow cytometric monitoring of the bacterial phenotypic diversity in aquatic ecosystems
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Jin-Kyung Hong , Soo Bin Kim , Seok Hyun Ahn , Yongjoo Choi , Tae Kwon Lee
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J. Microbiol. 2021;59(10):879-885. Published online September 23, 2021
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DOI: https://doi.org/10.1007/s12275-021-1443-7
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Flow cytometry is a promising tool used to identify the phenotypic
features of bacterial communities in aquatic ecosystems
by measuring the physical and chemical properties of
cells based on their light scattering behavior and fluorescence.
Compared to molecular or culture-based approaches, flow
cytometry is suitable for the online monitoring of microbial
water quality because of its relatively simple sample preparation
process, rapid analysis time, and high-resolution phenotypic
data. Advanced statistical techniques (e.g., denoising
and binning) can be utilized to successfully calculate phenotypic
diversity by processing the scatter data obtained from
flow cytometry. These phenotypic diversities were well correlated
with taxonomic-based diversity computed using nextgeneration
16S RNA gene sequencing. The protocol provided
in this paper should be a useful guide for a fast and reliable
flow cytometric monitoring of bacterial phenotypic diversity
in aquatic ecosystems.
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Citations
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- Microbial phenomics linking the phenotype to function: The potential of Raman spectroscopy
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Jin-Kyung Hong , Soo Bin Kim , Eun Sun Lyou , Tae Kwon Lee
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J. Microbiol. 2021;59(3):249-258. Published online January 26, 2021
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DOI: https://doi.org/10.1007/s12275-021-0590-1
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Abstract
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Raman spectroscopy is a promising tool for identifying microbial
phenotypes based on single cell Raman spectra reflecting
cellular biochemical biomolecules. Recent studies
using Raman spectroscopy have mainly analyzed phenotypic
changes caused by microbial interactions or stress responses
(e.g., antibiotics) and evaluated the microbial activity or substrate
specificity under a given experimental condition using
stable isotopes. Lack of labelling and the nondestructive pretreatment
and measurement process of Raman spectroscopy
have also aided in the sorting of microbial cells with interesting
phenotypes for subsequently conducting physiology
experiments through cultivation or genome analysis. In this
review, we provide an overview of the principles, advantages,
and status of utilization of Raman spectroscopy for studies
linking microbial phenotypes and functions. We expect Raman
spectroscopy to become a next-generation phenotyping
tool that will greatly contribute in enhancing our understanding
of microbial functions in natural and engineered
systems.
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