The native microbiome of the nematode Caenorhabditis elegans: gateway to a new host-microbiome model

BMC Biology

Research Article

Sophia Wagner¹  Ines Braker¹  Sebastian Mader¹  Nele Heitland¹  Carola Petersen¹  Hinrich Schulenburg¹  Philipp Dirksen¹  Rania Nakad²  Vienna Kowallik³  Marie-Anne Félix⁴  Sarah Arnaud Marsh⁵  Philip Rosenstiel⁶ 

[1] Department of Evolutionary Ecology and Genetics, Zoological Institute, Christian-Albrechts University, Am Botanischen Garten 3-9, 24118, Kiel, Germany;Department of Evolutionary Ecology and Genetics, Zoological Institute, Christian-Albrechts University, Am Botanischen Garten 3-9, 24118, Kiel, Germany;Cologne Excellence Cluster for Cellular Stress Responses in Aging-Associated Diseases, University of Cologne, Joseph-Stelzmann-Str. 26, 50931, Cologne, Germany;Department of Evolutionary Ecology and Genetics, Zoological Institute, Christian-Albrechts University, Am Botanischen Garten 3-9, 24118, Kiel, Germany;Max Planck Institute for Evolutionary Biology, August-Thienemann-Strasse 2, 24306, Plön, Germany;Institute of Biology of the Ecole Normale Supérieure (IBENS), CNRS, Inserm, 46 rue d’Ulm, 75230, Paris Cedex 05, France;Institute of Biology of the Ecole Normale Supérieure (IBENS), CNRS, Inserm, 46 rue d’Ulm, 75230, Paris Cedex 05, France;Institut Pasteur, 25-28 rue du Docteur Roux, 75724, Paris Cedex 15, France;Institute of Clinical Molecular Biology, Christian-Albrechts University, Am Botanischen Garten 1-3, 24118, Kiel, Germany;

关键词: Caenorhabditis elegans;    Metaorganism;    Microbiome;    Pseudomonas;    Ochrobactrum;    Stenotrophomonas;    Sphingomonas;    Holobiont;    Antifungal defense;   

DOI  :  10.1186/s12915-016-0258-1

 received in 2015-12-11, accepted in 2016-04-19,  发布年份 2016

来源: Springer

【 摘 要 】

BackgroundHost-microbe associations underlie many key processes of host development, immunity, and life history. Yet, none of the current research on the central model species Caenorhabditis elegans considers the worm’s natural microbiome. Instead, almost all laboratories exclusively use the canonical strain N2 and derived mutants, maintained through routine bleach sterilization in monoxenic cultures with an E. coli strain as food. Here, we characterize for the first time the native microbiome of C. elegans and assess its influence on nematode life history characteristics.ResultsNematodes sampled directly from their native habitats carry a species-rich bacterial community, dominated by Proteobacteria such as Enterobacteriaceae and members of the genera Pseudomonas, Stenotrophomonas, Ochrobactrum, and Sphingomonas. The C. elegans microbiome is distinct from that of the worm’s natural environment and the congeneric species C. remanei. Exposure to a derived experimental microbiome revealed that bacterial composition is influenced by host developmental stage and genotype. These experiments also showed that the microbes enhance host fitness under standard and also stressful conditions (e.g., high temperature and either low or high osmolarity). Taking advantage of the nematode’s transparency, we further demonstrate that several Proteobacteria are able to enter the C. elegans gut and that an Ochrobactrum isolate even seems to be able to persist in the intestines under stressful conditions. Moreover, three Pseudomonas isolates produce an anti-fungal effect in vitro which we show can contribute to the worm’s defense against fungal pathogens in vivo.ConclusionThis first systematic analysis of the nematode’s native microbiome reveals a species-rich bacterial community to be associated with C. elegans, which is likely of central importance for our understanding of the worm’s biology. The information acquired and the microbial isolates now available for experimental work establishes C. elegans as a tractable model for the in-depth dissection of host-microbiome interactions.

【 授权许可】

CC BY   
© Dirksen et al. 2016