Composition and metabolism of microbial communities in soil pores

Zheng Li, Alexandra N. Kravchenko (), Alison Cupples, Andrey K. Guber, Yakov Kuzyakov, G. Philip Robertson and Evgenia Blagodatskaya
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Zheng Li: Michigan State University
Alexandra N. Kravchenko: Michigan State University
Alison Cupples: Michigan State University
Andrey K. Guber: Michigan State University
Yakov Kuzyakov: University of Göttingen
G. Philip Robertson: Michigan State University
Evgenia Blagodatskaya: Helmholtz Centre for Environmental Research

Nature Communications, 2024, vol. 15, issue 1, 1-16

Abstract: Abstract Delineation of microbial habitats within the soil matrix and characterization of their environments and metabolic processes are crucial to understand soil functioning, yet their experimental identification remains persistently limited. We combined single- and triple-energy X-ray computed microtomography with pore specific allocation of 13C labeled glucose and subsequent stable isotope probing to demonstrate how long-term disparities in vegetation history modify spatial distribution patterns of soil pore and particulate organic matter drivers of microbial habitats, and to probe bacterial communities populating such habitats. Here we show striking differences between large (30-150 µm Ø) and small (4-10 µm Ø) soil pores in (i) microbial diversity, composition, and life-strategies, (ii) responses to added substrate, (iii) metabolic pathways, and (iv) the processing and fate of labile C. We propose a microbial habitat classification concept based on biogeochemical mechanisms and localization of soil processes and also suggests interventions to mitigate the environmental consequences of agricultural management.

Date: 2024
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DOI: 10.1038/s41467-024-47755-x

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