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Fyhrquist N, Muirhead G, Prast-Nielsen S, Jeanmougin M, Olah P, Skoog T, Jules-Clement G, Feld M, Barrientos-Somarribas M, Sinkko H, van den Bogaard EH, Zeeuwen PLJM, Rikken G, Schalkwijk J, Niehues H, Däubener W, Eller SK, Alexander H, Pennino D, Suomela S, Tessas I, Lybeck E, Baran AM, Darban H, Gangwar RS, Gerstel U, Jahn K, Karisola P, Yan L, Hansmann B, Katayama S, Meller S, Bylesjö M, Hupé P, Levi-Schaffer F, Greco D, Ranki A, Schröder JM, Barker J, Kere J, Tsoka S, Lauerma A, Soumelis V, Nestle FO, Homey B, Andersson B, Alenius H. Microbe-host interplay in atopic dermatitis and psoriasis. Nat Commun 2019; 10:4703. [PMID: 31619666 PMCID: PMC6795799 DOI: 10.1038/s41467-019-12253-y] [Citation(s) in RCA: 182] [Impact Index Per Article: 36.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Affiliation(s)] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/17/2018] [Accepted: 08/27/2019] [Indexed: 02/08/2023] Open
Abstract
Despite recent advances in understanding microbial diversity in skin homeostasis, the relevance of microbial dysbiosis in inflammatory disease is poorly understood. Here we perform a comparative analysis of skin microbial communities coupled to global patterns of cutaneous gene expression in patients with atopic dermatitis or psoriasis. The skin microbiota is analysed by 16S amplicon or whole genome sequencing and the skin transcriptome by microarrays, followed by integration of the data layers. We find that atopic dermatitis and psoriasis can be classified by distinct microbes, which differ from healthy volunteers microbiome composition. Atopic dermatitis is dominated by a single microbe (Staphylococcus aureus), and associated with a disease relevant host transcriptomic signature enriched for skin barrier function, tryptophan metabolism and immune activation. In contrast, psoriasis is characterized by co-occurring communities of microbes with weak associations with disease related gene expression. Our work provides a basis for biomarker discovery and targeted therapies in skin dysbiosis. Atopic dermatitis (AD) and psoriasis (PSO) are associated with dysbiosis. Here, by analyses of skin microbiome and host transcriptome of AD and PSO patients, the authors find distinct microbial and disease-related gene transcriptomic signatures that differentiate both diseases.
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Affiliation(s)
- Nanna Fyhrquist
- Institute of Environmental Medicine, Karolinska Institutet, Stockholm, 17177, Sweden.,Department of Bacteriology and Immunology, Medicum, University of Helsinki, Helsinki, 00014, Finland
| | - Gareth Muirhead
- Department of Informatics, Faculty of Natural and Mathematical Sciences, King's College London, London, WC2R 2LS, UK.,Cutaneous Medicine Unit, St. John's Institute of Dermatology and Biomedical Research Centre, Faculty of Life Sciences and Medicine, King's College London, London, SE1 9RT, UK
| | - Stefanie Prast-Nielsen
- Centre for Translational Microbiome Research (CTMR), Department of Microbiology, Tumor and Cell Biology, Karolinska Institutet, Stockholm, 17177, Sweden
| | - Marine Jeanmougin
- Institut Curie, 26 rue d'Ulm, 75248, Paris, France.,INSERM, U900, 75248, Paris, France.,Mines ParisTech, 77300, Fontainebleau, France.,INSERM, U932, 75248, Paris, France
| | - Peter Olah
- Department of Dermatology, University Hospital Duesseldorf, Duesseldorf, 40225, Germany.,Department of Dermatology, Venereology and Oncodermatology, University of Pécs, Pécs, 7632, Hungary
| | - Tiina Skoog
- Department of Biosciences and Nutrition, Karolinska Institutet, Stockholm, 17177, Sweden
| | - Gerome Jules-Clement
- Institut Curie, 26 rue d'Ulm, 75248, Paris, France.,INSERM, U900, 75248, Paris, France.,Mines ParisTech, 77300, Fontainebleau, France.,INSERM, U932, 75248, Paris, France
| | - Micha Feld
- Department of Dermatology, University Hospital Duesseldorf, Duesseldorf, 40225, Germany
| | | | - Hanna Sinkko
- Institute of Environmental Medicine, Karolinska Institutet, Stockholm, 17177, Sweden.,Department of Bacteriology and Immunology, Medicum, University of Helsinki, Helsinki, 00014, Finland
| | - Ellen H van den Bogaard
- Department of Dermatology, Radboud University Medical Center, Radboud Institute for Molecular Life Sciences, Nijmegen, 6525, The Netherlands
| | - Patrick L J M Zeeuwen
- Department of Dermatology, Radboud University Medical Center, Radboud Institute for Molecular Life Sciences, Nijmegen, 6525, The Netherlands
| | - Gijs Rikken
- Department of Dermatology, Radboud University Medical Center, Radboud Institute for Molecular Life Sciences, Nijmegen, 6525, The Netherlands
| | - Joost Schalkwijk
- Department of Dermatology, Radboud University Medical Center, Radboud Institute for Molecular Life Sciences, Nijmegen, 6525, The Netherlands
| | - Hanna Niehues
- Department of Dermatology, Radboud University Medical Center, Radboud Institute for Molecular Life Sciences, Nijmegen, 6525, The Netherlands
| | - Walter Däubener
- Institute for Medical Microbiology and Hospital Hygiene, Heinrich Heine University Duesseldorf, Duesseldorf, 40225, Germany
| | - Silvia Kathrin Eller
- Institute for Medical Microbiology and Hospital Hygiene, Heinrich Heine University Duesseldorf, Duesseldorf, 40225, Germany
| | - Helen Alexander
- St John's Institute of Dermatology, Division of Genetics and Molecular Medicine, Faculty of Life Sciences and Medicine, Kings College London, London, SE1 9RT, UK
| | - Davide Pennino
- Cutaneous Medicine Unit, St. John's Institute of Dermatology and Biomedical Research Centre, Faculty of Life Sciences and Medicine, King's College London, London, SE1 9RT, UK
| | - Sari Suomela
- Department of Dermatology, Allergology and Venereology, University of Helsinki and Helsinki University Hospital, Inflammation Centre, Helsinki, 00250, Finland
| | - Ioannis Tessas
- Department of Dermatology, Allergology and Venereology, University of Helsinki and Helsinki University Hospital, Inflammation Centre, Helsinki, 00250, Finland
| | - Emilia Lybeck
- Department of Dermatology, Allergology and Venereology, University of Helsinki and Helsinki University Hospital, Inflammation Centre, Helsinki, 00250, Finland
| | - Anna M Baran
- Department of Dermatology, University Hospital Duesseldorf, Duesseldorf, 40225, Germany
| | - Hamid Darban
- Department of Cell and Molecular Biology, Science for Life Laboratory, Karolinska Institutet, Stockholm, 17177, Sweden
| | - Roopesh Singh Gangwar
- Pharmacology Unit, School of Pharmacy, The Institute for Drug Research, Faculty of Medicine, The Hebrew University of Jerusalem, Jerusalem, 91120, Israel
| | - Ulrich Gerstel
- Department of Dermatology, University Hospital Schleswig-Holstein, Kiel, 24105, Germany
| | - Katharina Jahn
- Department of Dermatology, University Hospital Duesseldorf, Duesseldorf, 40225, Germany
| | - Piia Karisola
- Department of Bacteriology and Immunology, Medicum, University of Helsinki, Helsinki, 00014, Finland
| | - Lee Yan
- Department of Informatics, Faculty of Natural and Mathematical Sciences, King's College London, London, WC2R 2LS, UK
| | - Britta Hansmann
- Department of Dermatology, University Hospital Schleswig-Holstein, Kiel, 24105, Germany
| | - Shintaro Katayama
- Department of Biosciences and Nutrition, Karolinska Institutet, Stockholm, 17177, Sweden
| | - Stephan Meller
- Department of Dermatology, University Hospital Duesseldorf, Duesseldorf, 40225, Germany
| | | | - Philippe Hupé
- Institut Curie, 26 rue d'Ulm, 75248, Paris, France.,INSERM, U900, 75248, Paris, France.,Mines ParisTech, 77300, Fontainebleau, France.,CNRS, UMR144, 75248, Paris, France
| | - Francesca Levi-Schaffer
- Pharmacology Unit, School of Pharmacy, The Institute for Drug Research, Faculty of Medicine, The Hebrew University of Jerusalem, Jerusalem, 91120, Israel
| | - Dario Greco
- Faculty of Medicine and Life Sciences, University of Tampere, Tampere, 33520, Finland.,Institute of Biomedical Technology, University of Tampere, Tampere, 33520, Finland.,Institute of Biotechnology, University of Helsinki, Helsinki, 00014, Finland
| | - Annamari Ranki
- Department of Dermatology, Allergology and Venereology, University of Helsinki and Helsinki University Hospital, Inflammation Centre, Helsinki, 00250, Finland
| | - Jens M Schröder
- Department of Dermatology, University Hospital Schleswig-Holstein, Kiel, 24105, Germany
| | - Jonathan Barker
- St John's Institute of Dermatology, Division of Genetics and Molecular Medicine, Faculty of Life Sciences and Medicine, Kings College London, London, SE1 9RT, UK
| | - Juha Kere
- Department of Biosciences and Nutrition, Karolinska Institutet, Stockholm, 17177, Sweden.,School of Basic and Medical Biosciences, King's College London, London, SE1 9RT, UK
| | - Sophia Tsoka
- Department of Informatics, Faculty of Natural and Mathematical Sciences, King's College London, London, WC2R 2LS, UK
| | - Antti Lauerma
- Department of Dermatology, Allergology and Venereology, University of Helsinki and Helsinki University Hospital, Inflammation Centre, Helsinki, 00250, Finland
| | - Vassili Soumelis
- Institut Curie, 26 rue d'Ulm, 75248, Paris, France.,INSERM, U932, 75248, Paris, France
| | - Frank O Nestle
- Cutaneous Medicine Unit, St. John's Institute of Dermatology and Biomedical Research Centre, Faculty of Life Sciences and Medicine, King's College London, London, SE1 9RT, UK
| | - Bernhard Homey
- Department of Dermatology, University Hospital Duesseldorf, Duesseldorf, 40225, Germany
| | - Björn Andersson
- Department of Cell and Molecular Biology, Science for Life Laboratory, Karolinska Institutet, Stockholm, 17177, Sweden
| | - Harri Alenius
- Institute of Environmental Medicine, Karolinska Institutet, Stockholm, 17177, Sweden. .,Department of Bacteriology and Immunology, Medicum, University of Helsinki, Helsinki, 00014, Finland.
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