Modeling the emergent metabolic potential of soil microbiomes in Atacama landscapes

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dc.article.number142
dc.catalogadorgjm
dc.contributor.authorAndreani-Gerard, Constanza M.
dc.contributor.authorJiménez Tapia, Natalia Eugenia
dc.contributor.authorPalma, Ricardo
dc.contributor.authorMuller, Coralie
dc.contributor.authorHamon-Giraud, Pauline
dc.contributor.authorLe Cunff, Yann
dc.contributor.authorCambiazo, Verónica
dc.contributor.authorGonzález, Mauricio
dc.contributor.authorSiegel, Anne
dc.contributor.authorFrioux, Clémence
dc.contributor.authorMaass, Alejandro
dc.date.accessioned2025-12-09T18:08:10Z
dc.date.available2025-12-09T18:08:10Z
dc.date.issued2025
dc.date.updated2025-11-23T01:03:52Z
dc.description.abstractBackground Soil microbiomes harbor complex communities from which diverse ecological roles unfold, shaped by syntrophic interactions. Unraveling the mechanisms and consequences of such interactions and the underlying biochemical transformations remains challenging due to niche multidimensionality. The Atacama Desert is an extreme environment that includes unique combinations of stressful abiotic factors affecting microbial life. In particular, the Talabre Lejía transect is a natural laboratory for understanding microbiome composition, functioning, and adaptation. Results We propose a computational framework for the simulation of the metabolic potential of microbiomes, as a proxy of how communities are prepared to respond to the environment. Through the coupling of taxonomic and functional profiling, community-wide and genome-resolved metabolic modeling, and regression analyses, we identify key metabolites and species from six contrasting soil samples across the Talabre Lejía transect. We highlight the functional redundancy of whole metagenomes, which act as a gene reservoir, from which site-specific adaptations emerge at the species level. We also link the physicochemistry from the puna and the lagoon samples to metabolic machineries that are likely crucial for sustaining microbial life in these unique environmental conditions. We further provide an abstraction of community composition and structure for each site that allowed us to describe microbiomes as resilient or sensitive to environmental shifts, through putative cooperation events. Conclusion Our results show that the study of multi-scale metabolic potential, together with targeted modeling, contributes to elucidating the role of metabolism in the adaptation of microbial communities. Our framework was designed to handle non-model microorganisms, making it suitable for any (meta)genomic dataset that includes high-quality environmental data for enough samples.
dc.fechaingreso.objetodigital2025-12-09
dc.format.extent19 páginas
dc.fuente.origenAutoarchivo
dc.identifier.citationEnvironmental Microbiome. 2025 Nov 16;20(1):142
dc.identifier.doi10.1186/s40793-025-00749-8
dc.identifier.urihttps://doi.org/10.1186/s40793-025-00749-8
dc.identifier.urihttps://repositorio.uc.cl/handle/11534/107316
dc.information.autorucInstituto de Ingeniería Biológica y Médica; Jiménez Tapia, Natalia Eugenia; S/I; 1359822
dc.language.isoen
dc.nota.accesocontenido completo
dc.revistaEnvironmental Microbiome
dc.rightsacceso abierto
dc.rights.holderThe Author(s)
dc.rights.licenseCC BY 4.0 Attribution 4.0 International
dc.rights.urihttps://creativecommons.org/licenses/by/4.0/
dc.subjectMicrobial communities
dc.subjectMetagenomics
dc.subjectMetabolic potential
dc.subjectMetabolic network
dc.subjectMetabolic modeling
dc.subjectCommunity-wide
dc.subjectGenome-resolved
dc.subjectAtacama Desert
dc.subject.ddc550
dc.titleModeling the emergent metabolic potential of soil microbiomes in Atacama landscapes
dc.typeartículo
dc.volumen20
sipa.codpersvinculados1359822
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