Multisubstrate DNA stable isotope probing reveals guild structure of bacteria that mediate soil carbon cycling

Soil microorganisms determine the fate of soil organic matter (SOM), and their activities compose a major component of the global carbon (C) cycle. We employed a multisubstrate, DNA-stable isotope probing experiment to track bacterial assimilation of C derived from distinct sources that varied in bioavailability. This approach allowed us to measure microbial contributions to SOM processing by measuring the C assimilation dynamics of diverse microorganisms as they interacted within soil. We identified and tracked 1,286 bacterial taxa that assimilated C-13 in an agricultural soil over a period of 48 d. Overall C-13-assimilation dynamics of bacterial taxa, defined by the source and timing of the C-13 they assimilated, exhibited low phylogenetic conservation. We identified bacterial guilds composed of taxa that had similar C-13 assimilation dynamics. We show that C-source bioavailability explained significant variation in both C mineralization dynamics and guild structure, and that the growth dynamics of bacterial guilds differed significantly in response to C addition. We also demonstrate that the guild structure explains significant variation in the biogeographical distribution of bacteria at continental and global scales. These results suggest that an understanding of in situ growth dynamics is essential for understanding microbial contributions to soil C cycling. We interpret these findings in the context of bacterial life history strategies and their relationship to terrestrial C cycling.

Automated summary

Soil microorganisms play a crucial role in the global carbon cycle by determining the fate of soil organic matter. A study tracking bacterial assimilation of carbon from different sources found low phylogenetic conservation in carbon assimilation dynamics. The bioavailability of carbon sources significantly impacts carbon mineralization dynamics, bacterial guild structures, and biogeographical distribution.