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Composition and metabolism of microbial communities in soil pores

Author

Listed:
  • Zheng Li

    (Michigan State University)

  • Alexandra N. Kravchenko

    (Michigan State University
    Michigan State University)

  • Alison Cupples

    (Michigan State University)

  • Andrey K. Guber

    (Michigan State University
    Michigan State University)

  • Yakov Kuzyakov

    (University of Göttingen)

  • G. Philip Robertson

    (Michigan State University
    Michigan State University)

  • Evgenia Blagodatskaya

    (Helmholtz Centre for Environmental Research)

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.

Suggested Citation

  • Zheng Li & Alexandra N. Kravchenko & Alison Cupples & Andrey K. Guber & Yakov Kuzyakov & G. Philip Robertson & Evgenia Blagodatskaya, 2024. "Composition and metabolism of microbial communities in soil pores," Nature Communications, Nature, vol. 15(1), pages 1-16, December.
    • Handle: RePEc:nat:natcom:v:15:y:2024:i:1:d:10.1038_s41467-024-47755-x
    DOI: 10.1038/s41467-024-47755-x
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    References listed on IDEAS

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    1. Monga, Olivier & Bousso, Mamadou & Garnier, Patricia & Pot, Valérie, 2008. "3D geometric structures and biological activity: Application to microbial soil organic matter decomposition in pore space," Ecological Modelling, Elsevier, vol. 216(3), pages 291-302.
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    3. Benjamin N. Sulman & Richard P. Phillips & A. Christopher Oishi & Elena Shevliakova & Stephen W. Pacala, 2014. "Microbe-driven turnover offsets mineral-mediated storage of soil carbon under elevated CO2," Nature Climate Change, Nature, vol. 4(12), pages 1099-1102, December.
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