Toward quantitative understanding on microbial community structure and functioning: a modeling-centered approach using degradation of marine oil spills as example
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Title
Toward quantitative understanding on microbial community structure and functioning: a modeling-centered approach using degradation of marine oil spills as example
Authors
Keywords
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Journal
Frontiers in Microbiology
Volume 5, Issue -, Pages -
Publisher
Frontiers Media SA
Online
2014-03-26
DOI
10.3389/fmicb.2014.00125
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Note: Only part of the references are listed.- Predictive functional profiling of microbial communities using 16S rRNA marker gene sequences
- (2013) Morgan G I Langille et al. NATURE BIOTECHNOLOGY
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- (2013) Ruchir A. Khandelwal et al. PLoS One
- FAME, the Flux Analysis and Modeling Environment
- (2012) Joost Boele et al. BMC Systems Biology
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- (2012) Daniel C. Laughlin et al. ECOLOGY LETTERS
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- (2012) Olivia U Mason et al. ISME Journal
- A road map for the development of community systems (CoSy) biology
- (2012) Karsten Zengler et al. NATURE REVIEWS MICROBIOLOGY
- Microbial interactions: from networks to models
- (2012) Karoline Faust et al. NATURE REVIEWS MICROBIOLOGY
- BRENDA in 2013: integrated reactions, kinetic data, enzyme function data, improved disease classification: new options and contents in BRENDA
- (2012) Ida Schomburg et al. NUCLEIC ACIDS RESEARCH
- Multidimensional Optimality of Microbial Metabolism
- (2012) R. Schuetz et al. SCIENCE
- Optimal flux spaces of genome-scale stoichiometric models are determined by a few subnetworks
- (2012) Steven M. Kelk et al. Scientific Reports
- OptCom: A Multi-Level Optimization Framework for the Metabolic Modeling and Analysis of Microbial Communities
- (2012) Ali R. Zomorrodi et al. PLoS Computational Biology
- Thermodynamics of Microbial Growth Coupled to Metabolism of Glucose, Ethanol, Short-Chain Organic Acids, and Hydrogen
- (2011) Eric E. Roden et al. APPLIED AND ENVIRONMENTAL MICROBIOLOGY
- DNA-, rRNA- and mRNA-based stable isotope probing of aerobic methanotrophs in lake sediment
- (2011) Marc G. Dumont et al. ENVIRONMENTAL MICROBIOLOGY
- Electron acceptor-dependent identification of key anaerobic toluene degraders at a tar-oil-contaminated aquifer by Pyro-SIP
- (2011) Giovanni Pilloni et al. FEMS MICROBIOLOGY ECOLOGY
- Microbial gene functions enriched in the Deepwater Horizon deep-sea oil plume
- (2011) Zhenmei Lu et al. ISME Journal
- Polycyclic Aromatic Hydrocarbon Metabolic Network in Mycobacterium vanbaaleniiPYR-1
- (2011) O. Kweon et al. JOURNAL OF BACTERIOLOGY
- Is analysing the nitrogen use at the plant canopy level a matter of choosing the right optimization criterion?
- (2011) Niels P. R. Anten et al. OECOLOGIA
- Systems-level analysis of microbial community organization through combinatorial labeling and spectral imaging
- (2011) A. M. Valm et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Single-Cell Genomics Reveals Organismal Interactions in Uncultivated Marine Protists
- (2011) H. S. Yoon et al. SCIENCE
- Systems approaches to microbial communities and their functioning
- (2010) Wilfred FM Röling et al. CURRENT OPINION IN BIOTECHNOLOGY
- A global network of coexisting microbes from environmental and whole-genome sequence data
- (2010) S. Chaffron et al. GENOME RESEARCH
- Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments
- (2010) Kai Zhuang et al. ISME Journal
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- (2010) Daniel S. Falster et al. JOURNAL OF ECOLOGY
- Assessing nutrient limitation of Prochlorococcus in the North Pacific subtropical gyre by using an RNA capture method
- (2010) Benjamin A. S. Van Mooy et al. LIMNOLOGY AND OCEANOGRAPHY
- High-throughput generation, optimization and analysis of genome-scale metabolic models
- (2010) Christopher S Henry et al. NATURE BIOTECHNOLOGY
- The large-scale organization of the bacterial network of ecological co-occurrence interactions
- (2010) Shiri Freilich et al. NUCLEIC ACIDS RESEARCH
- Maximum entropy production in environmental and ecological systems
- (2010) A. Kleidon et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Forces that influence the evolution of codon bias
- (2010) P. M. Sharp et al. PHILOSOPHICAL TRANSACTIONS OF THE ROYAL SOCIETY B-BIOLOGICAL SCIENCES
- Probabilistic integrative modeling of genome-scale metabolic and regulatory networks inEscherichia coliandMycobacterium tuberculosis
- (2010) Sriram Chandrasekaran et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Tracking Hydrocarbon Plume Transport and Biodegradation at Deepwater Horizon
- (2010) Richard Camilli et al. SCIENCE
- Deep-Sea Oil Plume Enriches Indigenous Oil-Degrading Bacteria
- (2010) Terry C. Hazen et al. SCIENCE
- Stoichiogenomics: the evolutionary ecology of macromolecular elemental composition
- (2010) James J. Elser et al. TRENDS IN ECOLOGY & EVOLUTION
- The Systemic Imprint of Growth and Its Uses in Ecological (Meta)Genomics
- (2010) Sara Vieira-Silva et al. PLoS Genetics
- In silico approaches to study mass and energy flows in microbial consortia: a syntrophic case study
- (2009) Reed Taffs et al. BMC Systems Biology
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- (2009) Elhanan Borenstein et al. JOURNAL OF COMPUTATIONAL BIOLOGY
- Trade-Offs Between Efficiency and Robustness in Bacterial Metabolic Networks Are Associated with Niche Breadth
- (2009) Melissa J. Morine et al. JOURNAL OF MOLECULAR EVOLUTION
- Strategies for cellular decision-making
- (2009) Theodore J Perkins et al. Molecular Systems Biology
- Microbial community structure and its functional implications
- (2009) Jed A. Fuhrman NATURE
- Profiling human gut bacterial metabolism and its kinetics using [U-13C]glucose and NMR
- (2009) Albert A. de Graaf et al. NMR IN BIOMEDICINE
- Fixation and fate of C and N in the cyanobacterium Trichodesmium using nanometer-scale secondary ion mass spectrometry
- (2009) J. A. Finzi-Hart et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Comparison of methods for simultaneous identification of bacterial species and determination of metabolic activity by protein-based stable isotope probing (Protein-SIP) experiments
- (2009) Nico Jehmlich et al. RAPID COMMUNICATIONS IN MASS SPECTROMETRY
- Hydrocarbon-degrading bacteria: the oil-spill clean-up crew
- (2009) Rob J. W. Brooijmans et al. Microbial Biotechnology
- Coupling a genome-scale metabolic model with a reactive transport model to describein situuranium bioremediation
- (2009) Timothy D. Scheibe et al. Microbial Biotechnology
- Metabolic-network-driven analysis of bacterial ecological strategies
- (2009) Shiri Freilich et al. GENOME BIOLOGY
- Metabolic flux analysis ofShewanellaspp. reveals evolutionary robustness in central carbon metabolism
- (2008) Yinjie J. Tang et al. BIOTECHNOLOGY AND BIOENGINEERING
- Linking phylogenetic identities of bacteria to starch fermentation in anin vitromodel of the large intestine by RNA-based stable isotope probing
- (2008) Petia Kovatcheva-Datchary et al. ENVIRONMENTAL MICROBIOLOGY
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- Network-based prediction of human tissue-specific metabolism
- (2008) Tomer Shlomi et al. NATURE BIOTECHNOLOGY
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- (2008) Jeroen Raes et al. NATURE REVIEWS MICROBIOLOGY
- Reconstruction of biochemical networks in microorganisms
- (2008) Adam M. Feist et al. NATURE REVIEWS MICROBIOLOGY
- A single-cell view on the ecophysiology of anaerobic phototrophic bacteria
- (2008) N. Musat et al. PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA
- Large-scale reconstruction and phylogenetic analysis of metabolic environments
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- Context-Specific Metabolic Networks Are Consistent with Experiments
- (2008) Scott A. Becker et al. PLoS Computational Biology
- Is maximization of molar yield in metabolic networks favoured by evolution?
- (2007) Stefan Schuster et al. JOURNAL OF THEORETICAL BIOLOGY
- An environmental perspective on metabolism
- (2007) Thomas Handorf et al. JOURNAL OF THEORETICAL BIOLOGY
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