Lactobacillus supports Clostridiales to restrict gut colonization by multidrug-resistant Enterobacteriaceae

Ana Djukovic, María José Garzón, Cécile Canlet, Vitor Cabral, Rym Lalaoui, Marc García-Garcerá, Julia Rechenberger, Marie Tremblay-Franco, Iván Peñaranda, Leonor Puchades-Carrasco, Antonio Pineda-Lucena, Eva María González-Barberá, Miguel Salavert, José Luis López-Hontangas, Miguel Á. Sanz, Jaime Sanz, Bernhard Kuster, Jean-Marc Rolain, Laurent Debrauwer, Karina B. Xavier, Joao B. Xavier and Carles Ubeda ()
Additional contact information
Ana Djukovic: Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana - FISABIO
María José Garzón: Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana - FISABIO
Cécile Canlet: Toulouse University, INRAE UMR 1331, ENVT, INP-Purpan, Paul Sabatier University
Vitor Cabral: Instituto Gulbenkian de Ciência
Rym Lalaoui: Aix Marseille Univ, IRD, APHM, MEPHI, IHU-Méditerranée Infection
Marc García-Garcerá: University of Lausanne
Julia Rechenberger: Technical University of Munich
Marie Tremblay-Franco: Toulouse University, INRAE UMR 1331, ENVT, INP-Purpan, Paul Sabatier University
Iván Peñaranda: Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana - FISABIO
Leonor Puchades-Carrasco: Instituto de Investigación Sanitaria La Fe
Antonio Pineda-Lucena: Instituto de Investigación Sanitaria La Fe
Eva María González-Barberá: Hospital Universitari i Politècnic La Fe
Miguel Salavert: Hospital Universitari i Politècnic La Fe
José Luis López-Hontangas: Hospital Universitari i Politècnic La Fe
Miguel Á. Sanz: Instituto de Investigación Sanitaria La Fe
Jaime Sanz: Hospital Universitari i Politècnic La Fe
Bernhard Kuster: Technical University of Munich
Jean-Marc Rolain: Aix Marseille Univ, IRD, APHM, MEPHI, IHU-Méditerranée Infection
Laurent Debrauwer: Toulouse University, INRAE UMR 1331, ENVT, INP-Purpan, Paul Sabatier University
Karina B. Xavier: Instituto Gulbenkian de Ciência
Joao B. Xavier: Sloan-Kettering Institute
Carles Ubeda: Fundación para el Fomento de la Investigación Sanitaria y Biomédica de la Comunitat Valenciana - FISABIO

Nature Communications, 2022, vol. 13, issue 1, 1-18

Abstract: Abstract Infections by multidrug-resistant Enterobacteriaceae (MRE) are life-threatening to patients. The intestinal microbiome protects against MRE colonization, but antibiotics cause collateral damage to commensals and open the way to colonization and subsequent infection. Despite the significance of this problem, the specific commensals and mechanisms that restrict MRE colonization remain largely unknown. Here, by performing a multi-omic prospective study of hospitalized patients combined with mice experiments, we find that Lactobacillus is key, though not sufficient, to restrict MRE gut colonization. Lactobacillus rhamnosus and murinus increase the levels of Clostridiales bacteria, which induces a hostile environment for MRE growth through increased butyrate levels and reduced nutrient sources. This mechanism of colonization resistance, an interaction between Lactobacillus spp. and Clostridiales involving cooperation between microbiota members, is conserved in mice and patients. These results stress the importance of exploiting microbiome interactions for developing effective probiotics that prevent infections in hospitalized patients.

Date: 2022
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DOI: 10.1038/s41467-022-33313-w

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