Nutrient and moisture limitations reveal keystone metabolites linking rhizosphere metabolomes and microbiomes.

Autor:	Baker NR; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Zhalnina K; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Yuan M; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Herman D; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Ceja-Navarro JA; Center for Ecosystem Science and Society, Northern Arizona University, Flagstaff, AZ 86011.; Biological Systems and Engineering Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Sasse J; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720.; Institute for Plant and Microbial Biology, University of Zurich, CH-8008 Zurich, Switzerland., Jordan JS; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720.; Department of Chemistry, University of California, Berkeley, CA 94720., Bowen BP; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Wu L; Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019., Fossum C; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720., Chew A; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720.; Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550., Fu Y; Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019., Saha M; Noble Research Institute, Ardmore, OK 73401., Zhou J; Institute for Environmental Genomics, University of Oklahoma, Norman, OK 73019., Pett-Ridge J; Physical and Life Sciences Directorate, Lawrence Livermore National Laboratory, Livermore, CA 94550.; Life and Environmental Sciences Department, University of California Merced, Merced, CA 95343., Northen TR; Environmental Genomics and Systems Biology Division, Lawrence Berkeley National Laboratory, Berkeley, CA 94720., Firestone MK; Department of Environmental Science, Policy and Management, University of California, Berkeley, CA 94720.
Jazyk:	angličtina
Zdroj:	Proceedings of the National Academy of Sciences of the United States of America [Proc Natl Acad Sci U S A] 2024 Aug 06; Vol. 121 (32), pp. e2303439121. Date of Electronic Publication: 2024 Aug 02.
DOI:	10.1073/pnas.2303439121
Abstrakt:	Plants release a wealth of metabolites into the rhizosphere that can shape the composition and activity of microbial communities in response to environmental stress. The connection between rhizodeposition and rhizosphere microbiome succession has been suggested, particularly under environmental stress conditions, yet definitive evidence is scarce. In this study, we investigated the relationship between rhizosphere chemistry, microbiome dynamics, and abiotic stress in the bioenergy crop switchgrass grown in a marginal soil under nutrient-limited, moisture-limited, and nitrogen (N)-replete, phosphorus (P)-replete, and NP-replete conditions. We combined 16S rRNA amplicon sequencing and LC-MS/MS-based metabolomics to link rhizosphere microbial communities and metabolites. We identified significant changes in rhizosphere metabolite profiles in response to abiotic stress and linked them to changes in microbial communities using network analysis. N-limitation amplified the abundance of aromatic acids, pentoses, and their derivatives in the rhizosphere, and their enhanced availability was linked to the abundance of bacterial lineages from Acidobacteria, Verrucomicrobia, Planctomycetes, and Alphaproteobacteria. Conversely, N-amended conditions increased the availability of N-rich rhizosphere compounds, which coincided with proliferation of Actinobacteria. Treatments with contrasting N availability differed greatly in the abundance of potential keystone metabolites; serotonin and ectoine were particularly abundant in N-replete soils, while chlorogenic, cinnamic, and glucuronic acids were enriched in N-limited soils. Serotonin, the keystone metabolite we identified with the largest number of links to microbial taxa, significantly affected root architecture and growth of rhizosphere microorganisms, highlighting its potential to shape microbial community and mediate rhizosphere plant-microbe interactions. Competing Interests: Competing interests statement:The authors declare no competing interest.
Databáze:	MEDLINE
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