Uncovering how the microbiome shapes human health to drive therapeutic innovation.

The Microbiome Mechanisms in Health & Disease group investigates how gut microbial communities influence host physiology, aiming to uncover the mechanisms that link the microbiome to health and disease. We are particularly interested in how microbiota-driven processes affect metabolism, immune regulation, and disease progression.

Our current research focuses on the interplay between the gut microbiota and host tryptophan metabolism. Tryptophan is a key amino acid involved in immune homeostasis, and its metabolic pathways are frequently altered in conditions such as cancer and inflammatory bowel disease. Although gut microbes are known to modulate tryptophan metabolism, the specific microbial contributors and molecular mechanisms remain largely undefined.

We apply a multidisciplinary approach that integrates animal models, microbial and host functional assays, patient-derived data, and computational analysis. Our goal is to elucidate the microbial and mechanistic drivers of altered tryptophan metabolism, advancing our understanding of host–microbiome interactions and identifying new targets for therapeutic intervention.

PRESENTATION

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RESEARCH STAFF

THE PEOPLE WHO MAKE IT ALL POSSIBLE

Ana Djukovic 
adjukovic@cipf.es

María Dolores Martínez Rubio
mdmartinez@cipf.es

PUBLICATIONS

OUR SCIENTIFIC CONTRIBUTIONS

Oral bacteria relative abundance in faeces increases due to gut microbiota depletion and is linked with patient outcomes.

Liao C, Rolling T, Djukovic A, Fei T, Mishra V, Liu H, Lindberg C, Dai L, Zhai B, Peled JU, van den Brink MRM, Hohl TM and Xavier JB

Nature Microbiology 2024 Jun,  DOI:  10.1038/s41564-024-01680-3,  Vol. 9,  pag. 1555-1565

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The TaxUMAP atlas: Efficient display of large clinical microbiome data reveals ecological competition in protection against bacteremia.

Schluter J, Djukovic A, Taylor BP, Yan J, Duan C, Hussey GA, Liao C, Sharma S, Fontana E, Amoretti LA, Wright RJ, Dai A, Peled JU, Taur Y, Perales MA, Siranosian BA, Bhatt AS, van den Brink MRM, Pamer EG and Xavier JB

Cell Host & Microbe 2023 Jul,  DOI:  10.1016/j.chom.2023.05.027,  Vol. 31,  pag. 

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

Djukovic A, Garzón MJ, Canlet C, Cabral V, Lalaoui R, García-Garcerá M, Rechenberger J, Tremblay-Franco M, Peñaranda I, Puchades-Carrasco L, Pineda-Lucena A, González-Barberá EM, Salavert M, López-Hontangas JL, Sanz MÁ, Sanz J, Kuster B, Rolain JM, Debrauwer L, Xavier KB, Xavier JB and Ubeda C

Nature Communications 2022 Sep,  DOI:  10.1038/s41467-022-33313-w,  Vol. 13,  pag. 5617-5617

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High Heterogeneity of Multidrug-Resistant Enterobacteriaceae Fecal Levels in Hospitalized Patients Is Partially Driven by Intravenous ß-Lactams.

Djukovic A, González-Barberá EM, Sanz J, Artacho A, Peñaranda I, Herrera B, Garzón MJ, Salavert M, López-Hontangas JL, Xavier KB, Kuster B, Debrauwer L, Rolain JM, Sanz MA, Xavier JB and Ubeda C

ANTIMICROBIAL AGENTS AND CHEMOTHERAPY 2020 Jan,  DOI:  10.1128/AAC.01415-19,  Vol. 64,  pag. 

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Gut colonization by a novel Clostridium species is associated with the onset of epizootic rabbit enteropathy.

Djukovic A, Garcia-Garcera M, Martínez-Paredes E, Isaac S, Artacho A, Martínez J and Ubeda C

VETERINARY RESEARCH 2018 Dec,  DOI:  10.1186/s13567-018-0617-8,  Vol. 49,  pag. 123-123

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