Domain-level identification and quantification of relative prokaryotic cell abundance in microbial communities by Micro-FTIR spectroscopy

Motoko Igisu, Ken Takai, Yuichiro Ueno, Manabu Nishizawa, Takuro Nunoura, Miho Hirai, Masanori Kaneko, Hiroshi Naraoka, Mie Shimojima, Koichi Hori, Satoru Nakashima, Hiroyuki Ohta, Shigenori Maruyama, Yukio Isozaki

    Research output: Contribution to journalArticle

    11 Citations (Scopus)

    Abstract

    Domain-level identification of microbial cells or cell-like structures is crucial for investigating natural microbial communities and their ecological significance. By using micro-Fourier transform infrared (micro-FTIR) spectroscopy, we established a technical basis for the domain-level diagnosis and quantification of prokaryotic cell abundance in natural microbial communities. Various prokaryotic cultures (12 species of bacteria and 10 of archaea) were examined using micro-FTIR spectroscopic analysis. The aliphatic CH 3/CH 2 absorbance ratios (R 3/2) showed domain-specific signatures, possibly reflecting distinctive cellular lipid compositions. The signatures were preserved even after chemical cell fixation (formaldehyde) and nucleic acid staining (DAPI) processes - techniques that are essential in studying microbial ecology. The micro-FTIR technique was successfully applied for quantification of the bacteria/archaea abundance ratio in an active microbial mat community in a subsurface hot aquifer stream. We conclude that the micro-FTIR R 3/2 measurement is both fast and effective for domain-level diagnosis and quantification of first-order prokaryotic community structures.

    Original languageEnglish
    Pages (from-to)42-49
    Number of pages8
    JournalEnvironmental Microbiology Reports
    Volume4
    Issue number1
    DOIs
    Publication statusPublished - Feb 1 2012

    ASJC Scopus subject areas

    • Ecology, Evolution, Behavior and Systematics
    • Agricultural and Biological Sciences (miscellaneous)

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  • Cite this

    Igisu, M., Takai, K., Ueno, Y., Nishizawa, M., Nunoura, T., Hirai, M., Kaneko, M., Naraoka, H., Shimojima, M., Hori, K., Nakashima, S., Ohta, H., Maruyama, S., & Isozaki, Y. (2012). Domain-level identification and quantification of relative prokaryotic cell abundance in microbial communities by Micro-FTIR spectroscopy. Environmental Microbiology Reports, 4(1), 42-49. https://doi.org/10.1111/j.1758-2229.2011.00277.x