Forecasting the dynamics of a complex microbial community using integrated meta-omics.

Autor: Delogu F; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg. fra.delogu92@gmail.com., Kunath BJ; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Queirós PM; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Halder R; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Lebrun LA; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Pope PB; Faculty of Biosciences, Norwegian University of Life Sciences, Ås, Norway.; Faculty of Chemistry, Biotechnology and Food Science, Norwegian University of Life Sciences, Ås, Norway., May P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Widder S; Department of Medicine 1, Research Division Infection Biology, Medical University of Vienna, Vienna, Austria., Muller EEL; Génétique Moléculaire, Génomique, Microbiologie, UMR 7156 CNRS, Université de Strasbourg, Strasbourg, France., Wilmes P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg. paul.wilmes@uni.lu.; Department of Life Sciences and Medicine, Faculty of Science, Technology and Medicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg. paul.wilmes@uni.lu.

Publikováno v: Nature ecology & evolution [Nat Ecol Evol] 2024 Jan; Vol. 8 (1), pp. 32-44. Date of Electronic Publication: 2023 Nov 13.

Water table fluctuations affect dichloromethane biodegradation in lab-scale aquifers contaminated with organohalides.

Autor: Prieto-Espinoza M; Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France., Weill S; Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France., Belfort B; Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France., Muller EEL; Université de Strasbourg, CNRS, GMGM UMR 7156, Génétique Moléculaire, Génomique, Microbiologie, Strasbourg, France., Masbou J; Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France., Lehmann F; Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France., Vuilleumier S; Université de Strasbourg, CNRS, GMGM UMR 7156, Génétique Moléculaire, Génomique, Microbiologie, Strasbourg, France., Imfeld G; Université de Strasbourg, CNRS/EOST, ITES UMR 7063, Institut Terre et Environnement de Strasbourg, Strasbourg, France. Electronic address: imfeld@unistra.fr.

Publikováno v: Water research [Water Res] 2021 Sep 15; Vol. 203, pp. 117530. Date of Electronic Publication: 2021 Aug 06.

Roles of bacteriophages, plasmids and CRISPR immunity in microbial community dynamics revealed using time-series integrated meta-omics.

Autor: Martínez Arbas S; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Narayanasamy S; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.; Megeno S.A., Esch-sur-Alzette, Luxembourg., Herold M; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Lebrun LA; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Hoopmann MR; Institute for Systems Biology, Seattle, WA, USA., Li S; School of Informatics, Computing and Engineering, Indiana University, Bloomington, IN, USA., Lam TJ; School of Informatics, Computing and Engineering, Indiana University, Bloomington, IN, USA., Kunath BJ; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Hicks ND; TGen North, Flagstaff, AZ, USA.; Harvard T.H. Chan School of Public Health, Harvard University, Boston, MA, USA., Liu CM; TGen North, Flagstaff, AZ, USA.; Department of Environmental and Occupational Health, Miken Institute School of Public Health, George Washington University, Washington, DC, USA., Price LB; TGen North, Flagstaff, AZ, USA.; Department of Environmental and Occupational Health, Miken Institute School of Public Health, George Washington University, Washington, DC, USA., Laczny CC; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Gillece JD; TGen North, Flagstaff, AZ, USA., Schupp JM; TGen North, Flagstaff, AZ, USA., Keim PS; TGen North, Flagstaff, AZ, USA.; The Pathogen and Microbiome Institute, Northern Arizona University, Flagstaff, AZ, USA., Moritz RL; Institute for Systems Biology, Seattle, WA, USA., Faust K; Laboratory of Molecular Bacteriology, KU Leuven, Leuven, Belgium., Tang H; School of Informatics, Computing and Engineering, Indiana University, Bloomington, IN, USA., Ye Y; School of Informatics, Computing and Engineering, Indiana University, Bloomington, IN, USA., Skupin A; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.; Department of Neuroscience, University of California, La Jolla, CA, USA., May P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Muller EEL; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.; Department of Microbiology, Genomics and the Environment, UMR 7156 UNISTRA-CNRS, Université de Strasbourg, Strasbourg, France., Wilmes P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg. paul.wilmes@uni.lu.; Department of Life Sciences and Medicine, Faculty of Science, Technology and Medicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg. paul.wilmes@uni.lu.

Publikováno v: Nature microbiology [Nat Microbiol] 2021 Jan; Vol. 6 (1), pp. 123-135. Date of Electronic Publication: 2020 Nov 02.

Integration of time-series meta-omics data reveals how microbial ecosystems respond to disturbance.

Autor: Herold M; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg.; Epidemiology and Microbial Genomics, Laboratoire National de Santé, 1 rue Louis Rech, 3555, Dudelange, Luxembourg., Martínez Arbas S; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Narayanasamy S; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg.; Megeno S.A., 6A Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg., Sheik AR; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Kleine-Borgmann LAK; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Lebrun LA; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Kunath BJ; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Roume H; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg.; MetaGenoPolis, Institut National de Recherche pour l'Agriculture, l'Alimentation et l'Environnement, Université Paris-Saclay, Domaine de Vilvert, Bâtiment 325, 78350, Jouy-en-Josas, France., Bessarab I; Singapore Centre for Environmental Life Sciences Engineering, 60 Nanyang Dr, Singapore, 637551, Singapore., Williams RBH; Singapore Centre for Environmental Life Sciences Engineering, 60 Nanyang Dr, Singapore, 637551, Singapore., Gillece JD; The Translational Genomics Research Institute, 3051 West Shamrell Boulevard, Flagstaff, AZ, 86001, USA., Schupp JM; The Translational Genomics Research Institute, 3051 West Shamrell Boulevard, Flagstaff, AZ, 86001, USA., Keim PS; The Translational Genomics Research Institute, 3051 West Shamrell Boulevard, Flagstaff, AZ, 86001, USA., Jäger C; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Hoopmann MR; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA, 98109, USA., Moritz RL; Institute for Systems Biology, 401 Terry Avenue North, Seattle, WA, 98109, USA., Ye Y; School of Informatics, Computing and Engineering, Indiana University, 700 N. Woodlawn Avenue, Bloomington, IN, 47405, USA., Li S; School of Informatics, Computing and Engineering, Indiana University, 700 N. Woodlawn Avenue, Bloomington, IN, 47405, USA., Tang H; School of Informatics, Computing and Engineering, Indiana University, 700 N. Woodlawn Avenue, Bloomington, IN, 47405, USA., Heintz-Buschart A; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg.; German Centre for Integrative Biodiversity Research (iDiv) Halle-Jena-Leipzig, Puschstr. 4, 04103, Leipzig, Germany.; Helmholtz Centre for Environmental Research GmbH - UFZ, Theodor-Lieser-Str. 4, 06120, Halle, Germany., May P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Muller EEL; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg.; Equipe Adaptations et Interactions Microbiennes, UMR 7156 UNISTRA-CNRS, Université de Strasbourg, Strasbourg, France., Laczny CC; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg., Wilmes P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, 4362, Esch-sur-Alzette, Luxembourg, Luxembourg. paul.wilmes@uni.lu.; Department of Life Sciences and Medicine, Faculty of Science, Technology and Medicine, University of Luxembourg, 7 Avenue des Hauts-Fourneaux, L-4362, Esch-sur-Alzette, Luxembourg. paul.wilmes@uni.lu.

Publikováno v: Nature communications [Nat Commun] 2020 Oct 19; Vol. 11 (1), pp. 5281. Date of Electronic Publication: 2020 Oct 19.

Expressed protein profile of a Tectomicrobium and other microbial symbionts in the marine sponge Aplysina aerophoba as evidenced by metaproteomics.

Autor: Chaib De Mares M; Microbial Ecology Cluster, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands. m.chaib.de.mares@rug.nl., Jiménez DJ; Microbial Ecology Cluster, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands.; Department of Biological Sciences, Universidad de los Andes, Bogotá, Colombia., Palladino G; Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands., Gutleben J; Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands., Lebrun LA; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Muller EEL; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg.; Department of Microbiology, Genomics and the Environment, UMR 7156 UNISTRA - CNRS, Université de Strasbourg, Strasbourg, France., Wilmes P; Luxembourg Centre for Systems Biomedicine, University of Luxembourg, Esch-sur-Alzette, Luxembourg., Sipkema D; Laboratory of Microbiology, Wageningen University, Wageningen, The Netherlands., van Elsas JD; Microbial Ecology Cluster, Groningen Institute for Evolutionary Life Sciences (GELIFES), University of Groningen, Nijenborgh 7, 9747 AG, Groningen, The Netherlands.

Publikováno v: Scientific reports [Sci Rep] 2018 Aug 07; Vol. 8 (1), pp. 11795. Date of Electronic Publication: 2018 Aug 07.