| scholarly article | Q13442814 |
| review article | Q7318358 |
| P50 | author | Gavin Lear | Q43205673 |
| Octavio Perez-Garcia | Q63939170 | ||
| P2093 | author name string | Naresh Singhal | |
| P2860 | cites work | A comparative genomic analysis of energy metabolism in sulfate reducing bacteria and archaea | Q21131154 |
| Environments that induce synthetic microbial ecosystems | Q21563487 | ||
| Bacterial versus fungal laccase: potential for micropollutant degradation | Q22001031 | ||
| Molecular biology and biochemistry of ammonia oxidation by Nitrosomonas europaea | Q22061961 | ||
| A protocol for generating a high-quality genome-scale metabolic reconstruction | Q24603373 | ||
| Bacterial community structures are unique and resilient in full-scale bioenergy systems | Q24603709 | ||
| Complete genome sequence of the ammonia-oxidizing bacterium and obligate chemolithoautotroph Nitrosomonas europaea | Q24676726 | ||
| Systems biology approaches to bioremediation | Q37322826 | ||
| Organophosphorus-degrading bacteria: ecology and industrial applications. | Q37355722 | ||
| Designing and encoding models for synthetic biology | Q37443420 | ||
| Metabolic systems biology | Q37601038 | ||
| Immobilized microalgae for removing pollutants: review of practical aspects | Q37636786 | ||
| The biomass objective function | Q37739662 | ||
| Metabolic networks, microbial ecology and 'omics' technologies: towards understanding in situ biodegradation processes. | Q37791221 | ||
| Heterotrophic cultures of microalgae: metabolism and potential products. | Q37802520 | ||
| Waste to bioproduct conversion with undefined mixed cultures: the carboxylate platform. | Q37824515 | ||
| Microbial nitrate respiration--genes, enzymes and environmental distribution. | Q37827211 | ||
| Metagenome Analysis of a Complex Community Reveals the Metabolic Blueprint of Anammox Bacterium "Candidatus Jettenia asiatica". | Q37847740 | ||
| Pathways for degradation of lignin in bacteria and fungi | Q37932419 | ||
| Recent advances in reconstruction and applications of genome-scale metabolic models | Q37952940 | ||
| Nitrous oxide production by lithotrophic ammonia-oxidizing bacteria and implications for engineered nitrogen-removal systems. | Q37958991 | ||
| Computational tools for the synthetic design of biochemical pathways | Q37977830 | ||
| Environmental conditions that influence toxin biosynthesis in cyanobacteria | Q37994875 | ||
| The languages spoken in the water body (or the biological role of cyanobacterial toxins) | Q38005122 | ||
| Cyanobacterial toxins: biosynthetic routes and evolutionary roots | Q38050848 | ||
| Mixotrophic cyanobacteria and microalgae as distinctive biological agents for organic pollutant degradation | Q38064237 | ||
| Applications of biofilms in bioremediation and biotransformation of persistent organic pollutants, pharmaceuticals/personal care products, and heavy metals | Q38154829 | ||
| Biotechnological domestication of pseudomonads using synthetic biology. | Q38204897 | ||
| Linking microbial community structure, interactions and function in anaerobic digesters using new molecular techniques | Q38215152 | ||
| Molecular analysis of arsenate-reducing bacteria within Cambodian sediments following amendment with acetate | Q24678581 | ||
| Synthetic Ecology of Microbes: Mathematical Models and Applications | Q26777567 | ||
| Using Genome-scale Models to Predict Biological Capabilities | Q28085366 | ||
| Sulfite:Cytochrome c oxidoreductase from Thiobacillus novellus. Purification, characterization, and molecular biology of a heterodimeric member of the sulfite oxidase family | Q28143228 | ||
| The microbiology of biological phosphorus removal in activated sludge systems | Q28191254 | ||
| Analysis of optimality in natural and perturbed metabolic networks | Q28213254 | ||
| What is flux balance analysis? | Q28275348 | ||
| OptFlux: an open-source software platform for in silico metabolic engineering | Q28280084 | ||
| Towards prediction of metabolic products of polyketide synthases: an in silico analysis | Q28475181 | ||
| Genome-scale modeling of light-driven reductant partitioning and carbon fluxes in diazotrophic unicellular cyanobacterium Cyanothece sp. ATCC 51142 | Q28482400 | ||
| Community flux balance analysis for microbial consortia at balanced growth | Q28533513 | ||
| Flux imbalance analysis and the sensitivity of cellular growth to changes in metabolite pools | Q28536139 | ||
| Systematic evaluation of methods for integration of transcriptomic data into constraint-based models of metabolism | Q28538197 | ||
| Metabolic network reconstruction of Chlamydomonas offers insight into light-driven algal metabolism. | Q28743439 | ||
| Putative regulatory sites unraveled by network-embedded thermodynamic analysis of metabolome data | Q28766251 | ||
| Reconstruction of biochemical networks in microorganisms | Q29616018 | ||
| Computational systems biology | Q29616655 | ||
| In silico predictions of Escherichia coli metabolic capabilities are consistent with experimental data | Q29618471 | ||
| Flux balance analysis: interrogating genome-scale metabolic networks | Q30448285 | ||
| Systematic evaluation of objective functions for predicting intracellular fluxes in Escherichia coli | Q30479887 | ||
| Segregated flux balance analysis constrained by population structure/function data: the case of PHA production by mixed microbial cultures. | Q30597277 | ||
| A data integration and visualization resource for the metabolic network of Synechocystis sp. PCC 6803. | Q30728848 | ||
| Nitrous oxide emissions from high rate algal ponds treating domestic wastewater. | Q30875212 | ||
| Integration of metabolome data with metabolic networks reveals reporter reactions | Q31064013 | ||
| Nitric oxide and nitrous oxide turnover in natural and engineered microbial communities: biological pathways, chemical reactions, and novel technologies. | Q31105894 | ||
| Diversity of anaerobic microorganisms involved in long-chain fatty acid degradation in methanogenic sludges as revealed by RNA-based stable isotope probing | Q33283843 | ||
| Metabolic modelling of polyhydroxyalkanoate copolymers production by mixed microbial cultures. | Q33350071 | ||
| Metabolic reconstruction of aromatic compounds degradation from the genome of the amazing pollutant-degrading bacterium Cupriavidus necator JMP134. | Q33358902 | ||
| Genome-scale models of bacterial metabolism: reconstruction and applications | Q33391538 | ||
| Extension of ASM3 for two-step nitrification and denitrification and its calibration and validation with batch tests and pilot scale data | Q33403691 | ||
| GrowMatch: an automated method for reconciling in silico/in vivo growth predictions | Q33417622 | ||
| In silico approaches to study mass and energy flows in microbial consortia: a syntrophic case study. | Q33517877 | ||
| Establishment and metabolic analysis of a model microbial community for understanding trophic and electron accepting interactions of subsurface anaerobic environments | Q33585784 | ||
| Omic data from evolved E. coli are consistent with computed optimal growth from genome-scale models | Q33642720 | ||
| Heavy metals bioremediation of soil | Q33793372 | ||
| Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics | Q33900751 | ||
| A computational exploration of bacterial metabolic diversity identifying metabolic interactions and growth-efficient strain communities | Q34050854 | ||
| A Nitrospira metagenome illuminates the physiology and evolution of globally important nitrite-oxidizing bacteria | Q34067963 | ||
| Metals, minerals and microbes: geomicrobiology and bioremediation. | Q34088795 | ||
| Energy model and metabolic flux analysis for autotrophic nitrifiers | Q34141602 | ||
| OptCom: a multi-level optimization framework for the metabolic modeling and analysis of microbial communities | Q34154442 | ||
| Enhanced algae growth in both phototrophic and mixotrophic culture under blue light | Q34156455 | ||
| Untapped potential: exploiting fungi in bioremediation of hazardous chemicals. | Q34162935 | ||
| Dynamic flux balance analysis of diauxic growth in Escherichia coli | Q34178626 | ||
| Ecosystems biology of microbial metabolism | Q34185936 | ||
| Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods | Q34257056 | ||
| Cleaning up with genomics: applying molecular biology to bioremediation | Q34308270 | ||
| Microbial interactions: from networks to models | Q34337828 | ||
| The interplay of microbially mediated and abiotic reactions in the biogeochemical Fe cycle | Q34444154 | ||
| Fungal secondary metabolism - from biochemistry to genomics | Q34472162 | ||
| Marine microorganisms make a meal of oil. | Q34496095 | ||
| Anaerobic ammonium oxidation by anammox bacteria in the Black Sea. | Q34532714 | ||
| Metagenomic analysis of two enhanced biological phosphorus removal (EBPR) sludge communities | Q34568547 | ||
| Production of fuels and chemicals from waste by microbiomes | Q34669711 | ||
| The growing scope of applications of genome-scale metabolic reconstructions using Escherichia coli | Q34785166 | ||
| Bacterial community composition and function in sewage treatment systems | Q34785590 | ||
| Flux balance analysis of cyanobacterial metabolism: the metabolic network of Synechocystis sp. PCC 6803. | Q34811786 | ||
| The genotypic view of social interactions in microbial communities. | Q34982102 | ||
| Social interaction in synthetic and natural microbial communities | Q35006971 | ||
| Microbial community composition and function in wastewater treatment plants | Q35007825 | ||
| Genome-scale microbial in silico models: the constraints-based approach. | Q35101082 | ||
| Synthetic microbial communities | Q35121452 | ||
| d-OptCom: Dynamic multi-level and multi-objective metabolic modeling of microbial communities | Q35151234 | ||
| Accomplishments in genome-scale in silico modeling for industrial and medical biotechnology | Q35178614 | ||
| Emergent biosynthetic capacity in simple microbial communities | Q35200847 | ||
| Cropping systems modulate the rate and magnitude of soil microbial autotrophic CO2 fixation in soil | Q35585368 | ||
| Metal bioremediation through growing cells | Q35641598 | ||
| Metabolic modeling of a mutualistic microbial community. | Q35742362 | ||
| SYNTHETIC BIOLOGY. Synthetic communities, the sum of parts | Q35758041 | ||
| Detailing the optimality of photosynthesis in cyanobacteria through systems biology analysis | Q35786863 | ||
| Calibration and analysis of genome-based models for microbial ecology | Q35810400 | ||
| Toward large-scale modeling of the microbial cell for computer simulation. | Q35893742 | ||
| Recent advances in removing phosphorus from wastewater and its future use as fertilizer (1997-2003). | Q35921562 | ||
| Bacterial degradation of aromatic pollutants: a paradigm of metabolic versatility | Q35922212 | ||
| Perspectives in the modeling and optimization of PHB production by pure and mixed cultures | Q36315740 | ||
| Networks of energetic and metabolic interactions define dynamics in microbial communities | Q36394231 | ||
| Microbial ecology to manage processes in environmental biotechnology | Q36464755 | ||
| Cyanobacterial peptides - nature's own combinatorial biosynthesis | Q36506854 | ||
| Wastewater treatment: a model system for microbial ecology | Q36592867 | ||
| Systems biology, metabolic modelling and metabolomics in drug discovery and development | Q36665669 | ||
| Mixed culture biotechnology for bioenergy production | Q36825426 | ||
| Colloquium paper: resistance, resilience, and redundancy in microbial communities | Q36915414 | ||
| The potential of metabolomics tools in bioremediation studies | Q36947090 | ||
| Application of systems biology for bioprocess development | Q37201074 | ||
| Engineering microbial consortia: a new frontier in synthetic biology | Q37233536 | ||
| Coupling a genome-scale metabolic model with a reactive transport model to describe in situ uranium bioremediation. | Q37274785 | ||
| Use of randomized sampling for analysis of metabolic networks | Q37305068 | ||
| In silico method for modelling metabolism and gene product expression at genome scale | Q37307600 | ||
| A review of biological sulfate conversions in wastewater treatment. | Q38236272 | ||
| Sulfur-oxidizing bacteria in environmental technology | Q38363357 | ||
| Incorporating microbial ecology into the metabolic modelling of polyphosphate accumulating organisms and glycogen accumulating organisms. | Q39854587 | ||
| Stoichiometric flux balance models quantitatively predict growth and metabolic by-product secretion in wild-type Escherichia coli W3110. | Q39916365 | ||
| Modeling product formation in anaerobic mixed culture fermentations. | Q40374587 | ||
| Mathematical modelling of a mixed culture cultivation process for the production of polyhydroxybutyrate. | Q40409136 | ||
| Bacterial reduction of hexavalent chromium | Q40536076 | ||
| Flux balance analysis reveals acetate metabolism modulates cyclic electron flow and alternative glycolytic pathways in Chlamydomonas reinhardtii | Q40735617 | ||
| Physiology of organic nitrogen acquisition by ectomycorrhizal fungi and ectomycorrhizas | Q40853937 | ||
| Bioremediation of metal contamination | Q41517742 | ||
| Genome-scale dynamic modeling of the competition between Rhodoferax and Geobacter in anoxic subsurface environments | Q42743118 | ||
| Kinetics of thermophilic, anaerobic oxidation of straight and branched chain butyrate and valerate | Q43034246 | ||
| Probing the biogeochemical behavior of technetium using a novel nuclear imaging approach | Q43205630 | ||
| Increased pigment and lipid content, lipid variety, and cell and population size of the microalgae Chlorella spp. when co-immobilized in alginate beads with the microalgae-growth-promoting bacterium Azospirillum brasilense | Q43355157 | ||
| Community proteogenomics highlights microbial strain-variant protein expression within activated sludge performing enhanced biological phosphorus removal | Q43988973 | ||
| Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association | Q44156854 | ||
| Stoichiometric model of Escherichia coli metabolism: incorporation of growth-rate dependent biomass composition and mechanistic energy requirements | Q45108799 | ||
| The metabolic network of Synechocystis sp. PCC 6803: systemic properties of autotrophic growth | Q46403337 | ||
| A road map for the development of community systems (CoSy) biology | Q46534952 | ||
| Assessment of nitric oxide (NO) redox reactions contribution to nitrous oxide (N2 O) formation during nitrification using a multispecies metabolic network model | Q46641822 | ||
| Cultivation factors and population size control the uptake of nitrogen by the microalgae Chlorella vulgaris when interacting with the microalgae growth-promoting bacterium Azospirillum brasilense | Q47358598 | ||
| Pre-genomic, genomic and post-genomic study of microbial communities involved in bioenergy | Q47591978 | ||
| Clarifying the regulation of NO/N2O production in Nitrosomonas europaea during anoxic-oxic transition via flux balance analysis of a metabolic network model | Q47865848 | ||
| Mechanisms and specific directionality of autotrophic nitrous oxide and nitric oxide generation during transient anoxia | Q48382637 | ||
| Nitrosospira spp. can produce nitrous oxide via a nitrifier denitrification pathway | Q48731491 | ||
| Combinatorial complexity of pathway analysis in metabolic networks. | Q52032425 | ||
| Optimal selection of metabolic fluxes for in vivo measurement. I. Development of mathematical methods | Q52423674 | ||
| Enhanced activity of ADP glucose pyrophosphorylase and formation of starch induced by Azospirillum brasilense in Chlorella vulgaris. | Q53611285 | ||
| Parametric sensitivity of stoichiometric flux balance models applied to wild-type Escherichia coli metabolism. | Q54619019 | ||
| Energy conservation inNitrobacter | Q55898347 | ||
| Anammox bacteria: from discovery to application | Q56456792 | ||
| Physiology of organic nitrogen acquisition by ectomycorrhizal fungi and ectomycorrhizas | Q56619025 | ||
| Metabolic Flux Balancing: Basic Concepts, Scientific and Practical Use | Q56773460 | ||
| Enhanced accumulation of starch and total carbohydrates in alginate-immobilized Chlorella spp. induced by Azospirillum brasilense: I. Autotrophic conditions | Q60961195 | ||
| Biological conversion of carbon monoxide: rich syngas or waste gases to bioethanol | Q62089608 | ||
| Spectroscopic and rapid kinetic studies of reduction of cytochrome c554 by hydroxylamine oxidoreductase from Nitrosomonas europaea | Q68265210 | ||
| Dynamic flux balance analysis for pharmaceutical protein production by Pichia pastoris: human growth hormone | Q82658845 | ||
| Enhanced growth and lipid production of microalgae under mixotrophic culture condition: effect of light intensity, glucose concentration and fed-batch cultivation | Q83503987 | ||
| The versatility of the fungal cytochrome P450 monooxygenase system is instrumental in xenobiotic detoxification | Q84650791 | ||
| Enhanced accumulation of starch and total carbohydrates in alginate-immobilized Chlorella spp. induced by Azospirillum brasilense: II. Heterotrophic conditions | Q84969773 | ||
| Involvement of indole-3-acetic acid produced by Azospirillum brasilense in accumulating intracellular ammonium in Chlorella vulgaris | Q86442550 | ||
| Accumulation of intra-cellular polyphosphate in Chlorella vulgaris cells is related to indole-3-acetic acid produced by Azospirillum brasilense | Q86971489 | ||
| Flux balance analysis of mixed microbial cultures: application to the production of polyhydroxyalkanoates from complex mixtures of volatile fatty acids | Q87410666 | ||
| CELL-CELL INTERACTION IN THE EUKARYOTE-PROKARYOTE MODEL OF THE MICROALGAE CHLORELLA VULGARIS AND THE BACTERIUM AZOSPIRILLUM BRASILENSE IMMOBILIZED IN POLYMER BEADS(1) | Q89073148 | ||
| P4510 | describes a project that uses | Cytoscape | Q3699942 |
| P407 | language of work or name | English | Q1860 |
| P921 | main subject | metabolic network | Q2263094 |
| microbial interaction | Q71158524 | ||
| P304 | page(s) | 673 | |
| P577 | publication date | 2016-01-01 | |
| P1433 | published in | Frontiers in Microbiology | Q27723481 |
| P1476 | title | Metabolic Network Modeling of Microbial Interactions in Natural and Engineered Environmental Systems | |
| P478 | volume | 7 |
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| Q40071076 | A systematic model identification method for chemical transformation pathways - the case of heroin biomarkers in wastewater |
| Q41526232 | Analysis of Microbial Functions in the Rhizosphere Using a Metabolic-Network Based Framework for Metagenomics Interpretation |
| Q36257812 | Dynamic substrate preferences predict metabolic properties of a simple microbial consortium. |
| Q41011349 | Ecological Energetic Perspectives on Responses of Nitrogen-Transforming Chemolithoautotrophic Microbiota to Changes in the Marine Environment. |
| Q45017953 | Elucidation of complexity and prediction of interactions in microbial communities |
| Q58757809 | FLYCOP: metabolic modeling-based analysis and engineering microbial communities |
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| Q59798768 | Metabolic and Proteomic Responses to Salinity in Synthetic Nitrifying Communities of Nitrosomonas spp. and Nitrobacter spp |
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| Q89621409 | Modulation of the Root Microbiome by Plant Molecules: The Basis for Targeted Disease Suppression and Plant Growth Promotion |
| Q37193989 | Monitoring and managing microbes in aquaculture - Towards a sustainable industry |
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| Q52355517 | Review and perspective on mathematical modeling of microbial ecosystems. |
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| Q47798093 | Systems Biology Approach to Bioremediation of Nitroaromatics: Constraint-Based Analysis of 2,4,6-Trinitrotoluene Biotransformation by Escherichia coli. |
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