Single-cell stable isotope probing in microbial ecology

Alcolombri, Uria; Pioli, Roberto; Stocker, Roman; Berry, David

doi:10.1038/s43705-022-00142-3

Title: Single-cell stable isotope probing in microbial ecology

Journal Article · 05 July 2022 · ISME Communications

DOI: https://doi.org/10.1038/s43705-022-00142-3 · OSTI ID:1899817

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Abstract Environmental and host-associated microbiomes are typically diverse assemblages of organisms performing myriad activities and engaging in a network of interactions that play out in spatially structured contexts. As the sum of these activities and interactions give rise to overall microbiome function, with important consequences for environmental processes and human health, elucidating specific microbial activities within complex communities is a pressing challenge. Single-cell stable isotope probing (SC-SIP) encompasses multiple techniques that typically utilize Raman microspectroscopy or nanoscale secondary ion mass spectrometry (NanoSIMS) to enable spatially resolved tracking of isotope tracers in cells, cellular components, and metabolites. SC-SIP techniques are uniquely suited for illuminating single-cell activities in microbial communities and for testing hypotheses about cellular functions generated for example from meta-omics datasets. Here, we illustrate the insights enabled by SC-SIP techniques by reviewing selected applications in microbiology and offer a perspective on their potential for future research.

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Sponsoring Organization:: USDOE

Grant/Contract Number:: SC0019012

OSTI ID:: 1899817

Journal Information:: ISME Communications, Journal Name: ISME Communications Journal Issue: 1 Vol. 2; ISSN 2730-6151

Publisher:: Oxford University PressCopyright Statement

Country of Publication:: United States

Language:: English

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