Lineage-dependent partitioning of activities in chemoclines defines Woesearchaeota ecotypes in an extreme aquatic ecosystem.

Autor: Cloarec LA; UMR5240 Microbiologie Adaptation Et Pathogénie, Université, INSA Lyon, CNRS, Claude Bernard Lyon 1, Villeurbanne, 69621, France., Bacchetta T; UMR5240 Microbiologie Adaptation Et Pathogénie, Université, INSA Lyon, CNRS, Claude Bernard Lyon 1, Villeurbanne, 69621, France., Bruto M; Université de Lyon, UMR Mycoplasmoses Animales, VetAgro Sup, AnsesMarcy L'Etoile, 69280, France., Leboulanger C; MARBEC, Univ Montpellier, IRD, CNRS, Sète, Ifremer, France., Grossi V; UMR 5276, Laboratoire de Géologie de Lyon: Terre, Univ Lyon, UCBL, CNRS, Environnement (LGL-TPE), PlanètesVilleurbanne, 69622, France.; Present address: Mediterranean Institute of Oceanography (MIO), Aix Marseille Univ-CNRS, Marseille, France., Brochier-Armanet C; Laboratoire de Biométrie Et Biologie Évolutive, UMR5558, Université Claude Bernard Lyon 1, CNRS, VetAgro Sup, Villeurbanne, France.; Institut Universitaire de France (IUF), Paris, France., Flandrois JP; Laboratoire de Biométrie Et Biologie Évolutive, UMR5558, Université Claude Bernard Lyon 1, CNRS, VetAgro Sup, Villeurbanne, France., Zurmely A; Laboratoire de Biométrie Et Biologie Évolutive, UMR5558, Université Claude Bernard Lyon 1, CNRS, VetAgro Sup, Villeurbanne, France., Bernard C; UMR 7245 Molécules de Communication Et Adaptations Des Microorganismes (MCAM) MNHN-CNRS, Muséum National d'Histoire Naturelle, CP 39, 12 Rue Buffon, Paris, F-75231, France., Troussellier M; MARBEC, Univ Montpellier, IRD, CNRS, Sète, Ifremer, France., Agogué H; UMR 7266, LIENSs, La Rochelle Université-CNRS, 2 Rue Olympe de Gouges, La Rochelle, 17000, France., Ader M; Institut de Physique du Globe de Paris, Université de Paris, Paris, France., Oger-Desfeux C; Université, PRABI-ASMB, Claude Bernard Lyon 1, Villeurbanne, R3728 BIOEENVIS, France., Oger PM; UMR5240 Microbiologie Adaptation Et Pathogénie, Université, INSA Lyon, CNRS, Claude Bernard Lyon 1, Villeurbanne, 69621, France., Vigneron A; UMR5240 Microbiologie Adaptation Et Pathogénie, Université, INSA Lyon, CNRS, Claude Bernard Lyon 1, Villeurbanne, 69621, France., Hugoni M; UMR5240 Microbiologie Adaptation Et Pathogénie, Université, INSA Lyon, CNRS, Claude Bernard Lyon 1, Villeurbanne, 69621, France. mylene.hugoni@univ-lyon1.fr.; Institut Universitaire de France (IUF), Paris, France. mylene.hugoni@univ-lyon1.fr.
Jazyk: angličtina
Zdroj: Microbiome [Microbiome] 2024 Nov 29; Vol. 12 (1), pp. 249. Date of Electronic Publication: 2024 Nov 29.
DOI: 10.1186/s40168-024-01956-0
Abstrakt: Background: DPANN archaea, including Woesearchaeota, encompass a large fraction of the archaeal diversity, yet their genomic diversity, lifestyle, and role in natural microbiomes remain elusive. With an archaeal assemblage naturally enriched in Woesearchaeota and steep vertical geochemical gradients, Lake Dziani Dzaha (Mayotte) provides an ideal model to decipher their in-situ activity and ecology.
Results: Using genome-resolved metagenomics and phylogenomics, we identified highly diversified Woesearchaeota populations and defined novel halophilic clades. Depth distribution of these populations in the water column showed an unusual double peak of abundance, located at two distinct chemoclines that are hotspots of microbial diversity in the water column. Genome-centric metatranscriptomics confirmed this vertical distribution and revealed a fermentative activity, with acetate and lactate as end products, and active cell-to-cell processes, supporting strong interactions with other community members at chemoclines. Our results also revealed distinct Woesearchaeota ecotypes, with different transcriptional patterns, contrasted lifestyles, and ecological strategies, depending on environmental/host conditions.
Conclusions: This work provides novel insights into Woesearchaeota in situ activity and metabolism, revealing invariant, bimodal, and adaptative lifestyles among halophilic Woesearchaeota. This challenges our precepts of an invariable host-dependent metabolism for all the members of this taxa and revises our understanding of their contributions to ecosystem functioning and microbiome assemblage. Video Abstract.
Competing Interests: Declarations. Ethics approval and consent to participate: Not applicable. Consent for publication: Not applicable. Competing interests: The authors declare no competing interests.
(© 2024. The Author(s).)
Databáze: MEDLINE
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