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 2012
Externally publishedYes

Fingerprint

Prokaryotic Cells
Fourier Analysis
Fourier Transform Infrared Spectroscopy
prokaryotic cells
FTIR spectroscopy
Fourier transform
microbial communities
microbial community
spectroscopy
Spectrum Analysis
Archaea
Bacteria
Biota
bacterium
microbial ecology
microbial mat
bacteria
Groundwater
Fourier transform infrared spectroscopy
nucleic acid

ASJC Scopus subject areas

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

Cite this

Domain-level identification and quantification of relative prokaryotic cell abundance in microbial communities by Micro-FTIR spectroscopy. / Igisu, Motoko; Takai, Ken; Ueno, Yuichiro; Nishizawa, Manabu; Nunoura, Takuro; Hirai, Miho; Kaneko, Masanori; Naraoka, Hiroshi; Shimojima, Mie; Hori, Koichi; Nakashima, Satoru; Ohta, Hiroyuki; Maruyama, Shigenori; Isozaki, Yukio.

In: Environmental Microbiology Reports, Vol. 4, No. 1, 02.2012, p. 42-49.

Research output: Contribution to journalArticle

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, vol. 4, no. 1, pp. 42-49. https://doi.org/10.1111/j.1758-2229.2011.00277.x
Igisu, Motoko ; Takai, Ken ; Ueno, Yuichiro ; Nishizawa, Manabu ; Nunoura, Takuro ; Hirai, Miho ; Kaneko, Masanori ; Naraoka, Hiroshi ; Shimojima, Mie ; Hori, Koichi ; Nakashima, Satoru ; Ohta, Hiroyuki ; Maruyama, Shigenori ; Isozaki, Yukio. / Domain-level identification and quantification of relative prokaryotic cell abundance in microbial communities by Micro-FTIR spectroscopy. In: Environmental Microbiology Reports. 2012 ; Vol. 4, No. 1. pp. 42-49.
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