Heavy water-labeled Raman spectroscopy reveals carboxymethylcellulose-degrading bacteria and degradation activity at the single-cell level

Olaniyi, Oladipo Oladiti; Yang, Kai; Zhu, Yong‐Guan; Li, Cui

doi:10.1007/s00253-018-9459-6

Cited by 27 publications

(22 citation statements)

References 32 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…than the shifts induced by other stable isotopes such as 2 H (D), 13 C and 15 N. It could be that only a small fraction of amide I has been converted and that we see a mixed signal in the amide I region. A possible reason for this could be the different metabolic pathways used by bacteria to assimilate each substrate.…”

mentioning

confidence: 67%

“…The optimized 15 N-RNA method improved the sensitivity to identify soil bacteria involved in N 2 -fixation [29]. Up to now, only the isotopes 13 C, 2 H and 15 N have been employed in Raman stable isotope labeling of microorganisms. To the best of our knowledge studies with stable isotopes and bacteria using deep UV-resonance Raman spectroscopy at 244 nm have never been reported.…”

mentioning

confidence: 99%

See 1 more Smart Citation

Raman ¹⁸O‐labeling of bacteria in visible and deep UV‐ranges

Matanfack

Pistiki

Rösch

et al. 2021

Journal of Biophotonics

View full text Add to dashboard Cite

Raman stable isotope labeling with 2H, 13C or 15N has been reported as an elegant approach to investigate cellular metabolic activity, which is of great importance to reveal the functions of microorganisms in native environments. A new strategy termed Raman 18O‐labeling was developed to probe the metabolic activity of bacteria. Raman 18O‐labeling refers to the combination of Raman microspectroscopy with 18O‐labeling using H218O. At an excitation wavelength of 532 nm, the incorporation of 18O into the amide I group of proteins and DNA/RNA bases was observed in Escherichia coli cells, while for an excitation wavelength electronically resonant with DNA or aromatic amino acid absorption at 244 nm 18O assimilation was detected using chemometric tools rather than visual inspection. Raman 18O‐labeling at 532 nm combined with 2D correlation analysis confirmed the assimilation of 18O in proteins and nucleic acids and revealed the growth strategy of E. coli cells; they underwent protein synthesis followed by nucleic acid synthesis. Independent cultural replicates at different incubation times corroborated the reproducibility of these results. The variations in spectral features of 18O‐labeled cells revealed changes in physiological information of cells. Hence, Raman 18O‐labeling could provide a powerful tool to identify metabolically active bacterial cells.

show abstract

mentioning

confidence: 67%

mentioning

confidence: 99%

Raman ¹⁸O‐labeling of bacteria in visible and deep UV‐ranges

Matanfack

Pistiki

Rösch

et al. 2021

Journal of Biophotonics

View full text Add to dashboard Cite

show abstract

“…Moreover most microorganisms remain unculturable [33,37]. In an effort to associate bacteria to their functions in situ, several recent studies have successfully employed Raman microspectroscopy combined with deuterium labeling on the single cell level [61][62][63][64][65].…”

Section: Monitoring the Metabolic Activity And Pathways Of Bacteriamentioning

confidence: 99%

“…Owing to the nature of heavy water to not alter the native substrate pool of bacteria, Raman‐deuterium labeling can also be used to identify microorganisms responsible for the metabolism of a particular substrate. This feature has been exploited by Olaniyi et al for tracking active cellulose degraders in a soil microbial community [64]. Bacteria can convert cellulose into simple sugars such as glucose, which serves for the production of energy‐rich ATP required for the survey of microbial populations.…”

Section: Bioorthogonal Raman Probes For Cellular Investigationsmentioning

confidence: 99%

See 1 more Smart Citation

Imaging the invisible—Bioorthogonal Raman probes for imaging of cells and tissues

Matanfack

Rüger

Stiebing

et al. 2020

Journal of Biophotonics

View full text Add to dashboard Cite

A revolutionary avenue for vibrational imaging with super‐multiplexing capability can be seen in the recent development of Raman‐active bioortogonal tags or labels. These tags and isotopic labels represent groups of chemically inert and small modifications, which can be introduced to any biomolecule of interest and then supplied to single cells or entire organisms. Recent developments in the field of spontaneous Raman spectroscopy and stimulated Raman spectroscopy in combination with targeted imaging of biomolecules within living systems are the main focus of this review. After having introduced common strategies for bioorthogonal labeling, we present applications thereof for profiling of resistance patterns in bacterial cells, investigations of pharmaceutical drug‐cell interactions in eukaryotic cells and cancer diagnosis in whole tissue samples. Ultimately, this approach proves to be a flexible and robust tool for in vivo imaging on several length scales and provides comparable information as fluorescence‐based imaging without the need of bulky fluorescent tags.

show abstract

Extremely oligotrophic and complex-carbon-degrading microaerobic bacteria from Arabian Sea oxygen minimum zone sediments

Sarkar,

Mondal,

Bhattacharya

et al. 2024

Arch Microbiol

View full text Add to dashboard Cite

Sediments underlying marine hypoxias are huge sinks of unreacted complex organic matter, where despite acute O2-limitation aerobic bacterial communities thrive, and near-complete depletion of organic carbon takes place within a few meters below the seafloor. However, little knowledge exists about how aerobic chemoorganotrophs survive in these sulfidic ecosystems, and what may be their potentials for degrading complex carbon compounds. To elucidate these questions, we isolated and characterized a number of aerobic bacterial chemoorganoheterotrophs from across a ~3-m sediment horizon underlying the perennial hypoxia of the eastern Arabian Sea. High levels of sequence correspondence between the isolates' genomes and the habitat's metagenomes and metatranscriptomes illustrated that the strains were widespread and active across the sediment cores explored. The isolates could catabolize several complex organic compounds of marine and terrestrial origins, via aerobic respiration at high as well as low O2 concentrations. Some of them could also grow anaerobically on yeast extract or acetate by reducing nitrate and/or nitrite. Fermentation did not support growth in any of the strains, but enabled all of them to maintain a fraction of the cell population amidst prolonged anoxia. Under extreme oligotrophy, robust growth followed by

show abstract

Heavy water-labeled Raman spectroscopy reveals carboxymethylcellulose-degrading bacteria and degradation activity at the single-cell level

Cited by 27 publications

References 32 publications

Raman ¹⁸O‐labeling of bacteria in visible and deep UV‐ranges

Raman ¹⁸O‐labeling of bacteria in visible and deep UV‐ranges

Imaging the invisible—Bioorthogonal Raman probes for imaging of cells and tissues

Extremely oligotrophic and complex-carbon-degrading microaerobic bacteria from Arabian Sea oxygen minimum zone sediments

Contact Info

Product

Resources

About

Heavy water-labeled Raman spectroscopy reveals carboxymethylcellulose-degrading bacteria and degradation activity at the single-cell level

Cited by 27 publications

References 32 publications

Raman 18O‐labeling of bacteria in visible and deep UV‐ranges

Raman 18O‐labeling of bacteria in visible and deep UV‐ranges

Imaging the invisible—Bioorthogonal Raman probes for imaging of cells and tissues

Extremely oligotrophic and complex-carbon-degrading microaerobic bacteria from Arabian Sea oxygen minimum zone sediments

Contact Info

Product

Resources

About

Raman ¹⁸O‐labeling of bacteria in visible and deep UV‐ranges

Raman ¹⁸O‐labeling of bacteria in visible and deep UV‐ranges