biostudies-literatureFreire-Zapata VNSF | Directorate for Biological Sciences (BIO)DOE | SC | Biological and Environmental ResearchDOE | SC | Biological and Environmental Research (BER)NSF | Directorate for Biological Sciences2892-2908https://www.ebi.ac.uk/biostudies/studies/S-EPMC11522005biostudies-literatureUnknown9(11)Interactions between microbiomes and metabolites play crucial roles in the environment, yet how these interactions drive greenhouse gas emissions during ecosystem changes remains unclear. Here we analysed microbial and metabolite composition across a permafrost thaw gradient in Stordalen Mire, Sweden, using paired genome-resolved metagenomics and high-resolution Fourier transform ion cyclotron resonance mass spectrometry guided by principles from community assembly theory to test whether microorganisms and metabolites show concordant responses to changing drivers. Our analysis revealed divergence between the inferred microbial versus metabolite assembly processes, suggesting distinct responses to the same selective pressures. This contradicts common assumptions in trait-based microbial modNature microbiologyMicrobiome-metabolite linkages drive greenhouse gas dynamics over a permafrost thaw gradient.PMC115220052022070DE-SC0021349Ibba MSaleska SREMERGE 2012 Field TeamFahnestock MFHolland-Moritz HTfaily MMWilson RMCronin DRHodgkins SBVarner RKAroney SMondav RErnakovich JGEMERGE Biology Integration CoordinatorsSmith DAFerriere RZayed AAWoodcroft BJBagby SCFreire-Zapata VRich VIE Cross JSullivan MBStegen JCfalseMicrobiome-metabolite linkages drive greenhouse gas dynamics over a permafrost thaw gradient.Interactions between microbiomes and metabolites play crucial roles in the environment, yet how these interactions drive greenhouse gas emissions during ecosystem changes remains unclear. Here we analysed microbial and metabolite composition across a permafrost thaw gradient in Stordalen Mire, Sweden, using paired genome-resolved metagenomics and high-resolution Fourier transform ion cyclotron resonance mass spectrometry guided by principles from community assembly theory to test whether microorganisms and metabolites show concordant responses to changing drivers. Our analysis revealed divergence between the inferred microbial versus metabolite assembly processes, suggesting distinct responses to the same selective pressures. This contradicts common assumptions in trait-based microbial mod2024-01-01T00:00:00Z2024 Nov2026-06-02T06:17:28.366Z2025-04-04T09:58:50.02ZS-EPMC115220053935415210.1038/s41564-024-01800-z