Commensal consortia decolonize Enterobacteriaceae via ecological control.

Autor: Furuichi M; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan., Kawaguchi T; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan., Pust MM; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA.; Center for Computational and Integrative Biology, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA., Yasuma-Mitobe K; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan., Plichta DR; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Hasegawa N; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan., Ohya T; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan., Bhattarai SK; Department of Microbiology and Physiological Systems, Program in Microbiome Dynamics, UMass Chan Medical School, Worcester, MA, USA., Sasajima S; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan., Aoto Y; JSR-Keio University Medical and Chemical Innovation Center, Keio University School of Medicine, Tokyo, Japan., Tuganbaev T; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan.; Human Biology Microbiome Quantum Research Center (Bio2Q), Keio University, Tokyo, Japan., Yaginuma M; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan., Ueda M; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; JSR-Keio University Medical and Chemical Innovation Center, Keio University School of Medicine, Tokyo, Japan., Okahashi N; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; Department of Bioinformatic Engineering, Graduate School of Information Science and Technology, Osaka University, Osaka, Japan.; Division of Physiological Chemistry and Metabolism, Graduate School of Pharmaceutical Sciences, Keio University, Tokyo, Japan., Amafuji K; JSR-Keio University Medical and Chemical Innovation Center, Keio University School of Medicine, Tokyo, Japan., Kiridoshi Y; JSR-Keio University Medical and Chemical Innovation Center, Keio University School of Medicine, Tokyo, Japan., Sugita K; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan., Stražar M; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Avila-Pacheco J; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Pierce K; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Clish CB; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA., Skelly AN; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan., Hattori M; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; Cooperative Major in Advanced Health Science, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan., Nakamoto N; Division of Gastroenterology and Hepatology, Department of Internal Medicine, Keio University School of Medicine, Tokyo, Japan., Caballero S; Vedanta Biosciences, Cambridge, MA, USA., Norman JM; Vedanta Biosciences, Cambridge, MA, USA., Olle B; Vedanta Biosciences, Cambridge, MA, USA., Tanoue T; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan., Suda W; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; Cooperative Major in Advanced Health Science, Graduate School of Advanced Science and Engineering, Waseda University, Tokyo, Japan., Arita M; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; Human Biology Microbiome Quantum Research Center (Bio2Q), Keio University, Tokyo, Japan.; Division of Physiological Chemistry and Metabolism, Graduate School of Pharmaceutical Sciences, Keio University, Tokyo, Japan., Bucci V; Department of Microbiology and Physiological Systems, Program in Microbiome Dynamics, UMass Chan Medical School, Worcester, MA, USA., Atarashi K; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan.; Human Biology Microbiome Quantum Research Center (Bio2Q), Keio University, Tokyo, Japan., Xavier RJ; Infectious Disease and Microbiome Program, Broad Institute of MIT and Harvard, Cambridge, MA, USA. xavier@molbio.mgh.harvard.edu.; Center for Computational and Integrative Biology, Massachusetts General Hospital and Harvard Medical School, Boston, MA, USA. xavier@molbio.mgh.harvard.edu.; Department of Molecular Biology, Massachusetts General Hospital, Boston, MA, USA. xavier@molbio.mgh.harvard.edu., Honda K; Department of Microbiology and Immunology, Keio University School of Medicine, Tokyo, Japan. kenya@keio.jp.; RIKEN Center for Integrative Medical Sciences, Yokohama, Japan. kenya@keio.jp.; Human Biology Microbiome Quantum Research Center (Bio2Q), Keio University, Tokyo, Japan. kenya@keio.jp.

Publikováno v: Nature [Nature] 2024 Sep; Vol. 633 (8031), pp. 878-886. Date of Electronic Publication: 2024 Sep 18.

Linking microbial genes to plasma and stool metabolites uncovers host-microbial interactions underlying ulcerative colitis disease course.

Autor: Schirmer M; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Translational Microbiome Data Integration, School of Life Sciences, Technical University of Munich, 85354 Freising, Germany; ZIEL - Institute for Food & Health, Technical University of Munich, 85354 Freising, Germany. Electronic address: melanie.schirmer@tum.de., Stražar M; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Avila-Pacheco J; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Rojas-Tapias DF; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Brown EM; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Center for Computational and Integrative Biology and Department of Molecular Biology, Massachusetts General Hospital and Harvard Medical School, Boston, MA 02114, USA., Temple E; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Deik A; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Bullock K; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Jeanfavre S; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Pierce K; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Jin S; Translational Microbiome Data Integration, School of Life Sciences, Technical University of Munich, 85354 Freising, Germany., Invernizzi R; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Pust MM; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Center for Computational and Integrative Biology and Department of Molecular Biology, Massachusetts General Hospital and Harvard Medical School, Boston, MA 02114, USA., Costliow Z; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Mack DR; Division of Gastroenterology, Hepatology & Nutrition, Children's Hospital of Eastern Ontario and University of Ottawa, Ottawa, ON K1H 8L1, Canada., Griffiths AM; Division of Gastroenterology, The Hospital for Sick Children, Toronto, ON M5G 1X8, Canada., Walters T; Division of Gastroenterology, Division of Gastroenterology, Hepatology and Nutrition, The Hospital for Sick Children, Toronto, ON M5G 1X8, Canada., Boyle BM; Division of Pediatric Gastroenterology, Hepatology, and Nutrition, Nationwide Children's Hospital, Columbus, OH 43205, USA., Kugathasan S; Department of Pediatrics, Emory University, Atlanta, GA 30322, USA., Vlamakis H; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Hyams J; Connecticut Children's Medical Center, Division of Digestive Diseases, Hartford, CT 06106, USA., Denson L; Cincinnati Children's Hospital Medical Center and the University of Cincinnati College of Medicine, Cincinnati, OH 45229, USA., Clish CB; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA., Xavier RJ; The Broad Institute of MIT and Harvard, Cambridge, MA 02142, USA; Center for Computational and Integrative Biology and Department of Molecular Biology, Massachusetts General Hospital and Harvard Medical School, Boston, MA 02114, USA; Center for Microbiome Informatics and Therapeutics, Massachusetts Institute of Technology, Cambridge, MA 02139, USA. Electronic address: rxavier@broadinstitute.org.

Publikováno v: Cell host & microbe [Cell Host Microbe] 2024 Feb 14; Vol. 32 (2), pp. 209-226.e7. Date of Electronic Publication: 2024 Jan 11.

Longitudinal development of the airway metagenome of preterm very low birth weight infants during the first two years of life.

Autor: Rosenboom I; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Pust MM; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Pirr S; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Bakker A; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Willers M; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Davenport CF; Research Core Unit Genomics, Hannover Medical School, Hannover, Germany., Wiehlmann L; Research Core Unit Genomics, Hannover Medical School, Hannover, Germany., Viemann D; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany.; Translational Pediatrics, Department of Pediatrics, University Hospital Würzburg, Würzburg, Germany.; Cluster of Excellence RESIST (EXC 2155), Hannover Medical School, Hannover, Germany.; Center for Infection Research, University Würzburg, Würzburg, Germany., Tümmler B; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany. tuemmler.burkhard@mh-hannover.de.

Publikováno v: ISME communications [ISME Commun] 2023 Jul 20; Vol. 3 (1), pp. 75. Date of Electronic Publication: 2023 Jul 20.

The Cystic Fibrosis Upper and Lower Airway Metagenome.

Autor: Pienkowska K; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Pust MM; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany.; Biomedical Research in Endstage and Obstructive Lung Disease, German Center for Lung Research, Hannover, Germany., Gessner M; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Gaedcke S; Biomedical Research in Endstage and Obstructive Lung Disease, German Center for Lung Research, Hannover, Germany., Thavarasa A; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Rosenboom I; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Morán Losada P; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Minso R; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Arnold C; Cystic Fibrosis Center for Children and Adults, Jena University Hospital, Jena, Germany., Hedtfeld S; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Dorda M; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany.; Research Core Unit Genomics, Hannover Medical School, Hannover, Germany., Wiehlmann L; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany.; Biomedical Research in Endstage and Obstructive Lung Disease, German Center for Lung Research, Hannover, Germany.; Research Core Unit Genomics, Hannover Medical School, Hannover, Germany., Mainz JG; Cystic Fibrosis Center for Children and Adults, Jena University Hospital, Jena, Germany.; Klinik für Kinder- und Jugendmedizin, Medizinische Hochschule Brandenburg, Brandenburg, Germany., Klockgether J; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany., Tümmler B; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical School, Hannover, Germany.; Biomedical Research in Endstage and Obstructive Lung Disease, German Center for Lung Research, Hannover, Germany.

Publikováno v: Microbiology spectrum [Microbiol Spectr] 2023 Mar 09, pp. e0363322. Date of Electronic Publication: 2023 Mar 09.

Impact of Elexacaftor/Tezacaftor/Ivacaftor Therapy on the Cystic Fibrosis Airway Microbial Metagenome.

Autor: Pallenberg ST; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical Schoolgrid.10423.34, Hannover, Germany.; German Center for Lung Research, Biomedical Research in Endstage and Obstructive Lung Disease (BREATH), Hannover Medical Schoolgrid.10423.34, Hannover, Germany., Pust MM; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical Schoolgrid.10423.34, Hannover, Germany.; German Center for Lung Research, Biomedical Research in Endstage and Obstructive Lung Disease (BREATH), Hannover Medical Schoolgrid.10423.34, Hannover, Germany., Rosenboom I; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical Schoolgrid.10423.34, Hannover, Germany., Hansen G; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical Schoolgrid.10423.34, Hannover, Germany.; German Center for Lung Research, Biomedical Research in Endstage and Obstructive Lung Disease (BREATH), Hannover Medical Schoolgrid.10423.34, Hannover, Germany., Wiehlmann L; Research Core Unit Genomics, Hannover Medical Schoolgrid.10423.34, Hannover, Germany., Dittrich AM; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical Schoolgrid.10423.34, Hannover, Germany.; German Center for Lung Research, Biomedical Research in Endstage and Obstructive Lung Disease (BREATH), Hannover Medical Schoolgrid.10423.34, Hannover, Germany., Tümmler B; Department for Pediatric Pneumology, Allergology and Neonatology, Hannover Medical Schoolgrid.10423.34, Hannover, Germany.; German Center for Lung Research, Biomedical Research in Endstage and Obstructive Lung Disease (BREATH), Hannover Medical Schoolgrid.10423.34, Hannover, Germany.

Publikováno v: Microbiology spectrum [Microbiol Spectr] 2022 Oct 26; Vol. 10 (5), pp. e0145422. Date of Electronic Publication: 2022 Sep 26.