Challenges in microbial ecology: Building predictive understanding of community function and dynamics

Autor: Widder, S, Allen, RJ, Pfeiffer, T, Curtis, TP, Wiuf, C, Sloan, WT, Cordero, OX, Brown, SP, Momeni, B, Shou, W, Kettle, H, Flint, HJ, Hass, AF, Laroche, B, Kreft, JU, Rainey, PB, Freilich, S, Shuster, S, Milferstedt, K, Van der Meer, JR, Grosskopf, T, Huisman, J, Free, A, Picioreanu, C, Quince, C, Klapper, I, Labarthe, S, Smets, B, Wang, H, Allison, SD, Chong, J, Lagomarsion, MC, Croze, OA, Hamelin, J, Harmand, J, Hoyle, R, Hwa, TT, Jin, Q, Johson, DR, Lorenzo, VD, Mobilia, M, Murphy, B, Peaudecerf, F, Prosser, JI, Quinn, RA, Ralser, M, Smith, AG, Steyer, JP, Swainston, N, Tarnita, CE, Trably, E, Warren, PB, Wilmes, P, Soyer, O
Přispěvatelé: CUBE, Department of Microbiology and Ecosystem Science, Medizinische Universität Wien = Medical University of Vienna, SUPA, School of Physics and Astronomy, University of Edinburgh, New Zealand Institute for Advanced Study, School of Civil Engineering and Geosciences, University of Newcastle upon Tyne, Department of Mathematical Sciences [Copenhagen], Faculty of Science [Copenhagen], University of Copenhagen = Københavns Universitet (KU)-University of Copenhagen = Københavns Universitet (KU), Infrastructure and Environment Research Division, School of Engineering, University of Glasgow, Department of Civil and Environmental Engineering [Cambridge, USA] (CEE), Massachusetts Institute of Technology (MIT), Centre for Immunity, Infection and Evolution, School of Biological Sciences, Department of Biology, Boston College (BC), Fred Hutchinson Cancer Research Center [Seattle] (FHCRC), Division of Basic Sciences, Biomathematics and Statistics Scotland, Rowett Institute of Nutrition and Health, University of Aberdeen, Biology Department [San Diego], San Diego State University (SDSU), Mathématiques et Informatique Appliquées du Génome à l'Environnement [Jouy-En-Josas] (MaIAGE), Institut National de la Recherche Agronomique (INRA), School of Biosciences, University of Birmingham, Newe Ya’ar Research Center, Agricultural Research Organization, Department of Bioinformatics, Friedrich-Schiller-Universität Jena, Laboratoire de Biotechnologie de l'Environnement [Narbonne] (LBE), Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro)-Institut National de la Recherche Agronomique (INRA), Department of Fundamental Microbiology [Lausanne], Université de Lausanne (UNIL), School of Life Sciences, University of Warwick, Department of Aquatic Microbiology, University of Amsterdam, Institute of Quantitative Biology, Biochemistry and Biotechnology, School of Biological Science, Department of Biotechnology, Delft University of Technology (TU Delft), Warwick Medical School, University of Warwick [Coventry], Department of Mathematics, Temple University [Philadelphia], Pennsylvania Commonwealth System of Higher Education (PCSHE)-Pennsylvania Commonwealth System of Higher Education (PCSHE), Department of Environmental Engineering, Technical University of Denmark [Lyngby] (DTU), Department of Systems Biology, Columbia University [New York], Genomic Physics [LCQB] (LCQB-Gphi), Biologie Computationnelle et Quantitative = Laboratory of Computational and Quantitative Biology (LCQB), Institut de Biologie Paris Seine (IBPS), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Institut de Biologie Paris Seine (IBPS), Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Isaac Newton Institute of Mathematical Sciences, University of Copenhagen = Københavns Universitet (UCPH)-University of Copenhagen = Københavns Universitet (UCPH), Department of Civil and Environmental Engineering [Cambridge] (CEE), Friedrich-Schiller-Universität = Friedrich Schiller University Jena [Jena, Germany], Institut National de la Recherche Agronomique (INRA)-Institut national d’études supérieures agronomiques de Montpellier (Montpellier SupAgro), Université de Lausanne = University of Lausanne (UNIL), University of Amsterdam [Amsterdam] (UvA), Danmarks Tekniske Universitet = Technical University of Denmark (DTU), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS)-Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut de Biologie Paris Seine (IBPS), Université Pierre et Marie Curie - Paris 6 (UPMC)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Institut National de la Santé et de la Recherche Médicale (INSERM)-Centre National de la Recherche Scientifique (CNRS)-Centre National de la Recherche Scientifique (CNRS), Widder, Stefanie [0000-0003-0733-5666], Brown, Sam P [0000-0003-1892-9275], Momeni, Babak [0000-0003-1271-5196], Kreft, Jan-Ulrich [0000-0002-2351-224X], Smets, Barth F [0000-0003-4119-6292], Soyer, Orkun S [0000-0002-9504-3796], Apollo - University of Cambridge Repository, Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro)-Institut national d'enseignement supérieur pour l'agriculture, l'alimentation et l'environnement (Institut Agro), Aquatic Microbiology (IBED, FNWI), Massachusetts Institute of Technology. Department of Civil and Environmental Engineering, Cordero Sanchez, Otto X.
Jazyk: angličtina
Rok vydání: 2016
Předmět:
0301 basic medicine
microbial
Mini Review
Ecology (disciplines)
media_common.quotation_subject
Air Microbiology
Biology
Microbiology
03 medical and health sciences
Microbial ecology
challenge in microbial
predictive
ecology
challenge
Animals
Humans
Seawater
SDG 14 - Life Below Water
QA
Function (engineering)
Ecosystem
Soil Microbiology
Ecology
Evolution
Behavior and Systematics
media_common
Structure (mathematical logic)
Ecology
Microbiology and Parasitology
Models
Theoretical
15. Life on land
Modélisation et simulation
Data science
Method development
[INFO.INFO-MO]Computer Science [cs]/Modeling and Simulation
Microbiologie et Parasitologie
QR
030104 developmental biology
[SDV.MP]Life Sciences [q-bio]/Microbiology and Parasitology
13. Climate action
Modeling and Simulation
Key (cryptography)
Research questions
Model building
Zdroj: Widder, S, Allen, R J, Pfeiffer, T, Curtis, T P, Wiuf, C, Sloan, W T, Cordero, O X, Brown, S P, Momeni, B, Shou, W, Kettle, H, Flint, H J, Haas, A F, Laroche, B, Kreft, J U, Rainey, P B, Freilich, S, Schuster, S, Milferstedt, K, Van Der Meer, J R, Grobkopf, T, Huisman, J, Free, A, Picioreanu, C, Quince, C, Klapper, I, Labarthe, S, Smets, B F, Wang, H & Soyer, O S 2016, ' Challenges in microbial ecology: Building predictive understanding of community function and dynamics ', I S M E Journal, vol. 10, no. 11, pp. 2557-2568 . https://doi.org/10.1038/ismej.2016.45
ISME Journal (10), 1-12. (2016)
ISME Journal
ISME Journal, Nature Publishing Group, 2016, 10, pp.1-12. ⟨10.1038/ismej.2016.45⟩
ISME Journal, 2016, 10, pp.1-12. ⟨10.1038/ismej.2016.45⟩
The ISME Journal
2016, ' Challenges in microbial ecology : Building predictive understanding of community function and dynamics ', The ISME Journal, vol. 10, pp. 2557-2568 . https://doi.org/10.1038/ismej.2016.45
The ISME Journal, 10, 2557-2568. Nature Publishing Group
Widder, S; Allen, RJ; Pfeiffer, T; Curtis, TP; Wiuf, C; Sloan, WT; et al.(2016). Challenges in microbial ecology: Building predictive understanding of community function and dynamics. ISME Journal, 10(11), 2557-2568. doi: 10.1038/ismej.2016.45. UC Irvine: Retrieved from: http://www.escholarship.org/uc/item/7ng0843g
Nature
ISSN: 1751-7362
1751-7370
DOI: 10.1038/ismej.2016.45
Popis: The importance of microbial communities (MCs) cannot be overstated. MCs underpin the biogeochemical cycles of the earth’s soil, oceans and the atmosphere, and perform ecosystem functions that impact plants, animals and humans. Yet our ability to predict and manage the function of these highly complex, dynamically changing communities is limited. Building predictive models that link MC composition to function is a key emerging challenge in microbial ecology. Here, we argue that addressing this challenge requires close coordination of experimental data collection and method development with mathematical model building. We discuss specific examples where model–experiment integration has already resulted in important insights into MC function and structure. We also highlight key research questions that still demand better integration of experiments and models. We argue that such integration is needed to achieve significant progress in our understanding of MC dynamics and function, and we make specific practical suggestions as to how this could be achieved.
United States. Army Research Office (W911NF-14-1-0445)
Databáze: OpenAIRE
Externí odkaz: