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EcoFABs: advancing microbiome science through standardized fabricated ecosystems

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Microbial mat ecosystems: Structure types, functional diversity, and biotechnological application

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The social network of microorganisms — how auxotrophies shape complex communities

(2018) Karsten Zengler et al.   NATURE REVIEWS MICROBIOLOGY

Need for Laboratory Ecosystems To Unravel the Structures and Functions of Soil Microbial Communities Mediated by Chemistry

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Thermodynamic favorability and pathway yield as evolutionary tradeoffs in biosynthetic pathway choice

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Indirect effects drive coevolution in mutualistic networks

(2017) Paulo R. Guimarães et al.   NATURE

The dynamics of molecular evolution over 60,000 generations

(2017) Benjamin H. Good et al.   NATURE

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Predicting Dynamic Metabolic Demands in the Photosynthetic EukaryoteChlorella vulgaris

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Symbiosis constraints: Strong mycobiont control limits nutrient response in lichens

(2017) Kristin Palmqvist et al.   Ecology and Evolution

Elucidation of complexity and prediction of interactions in microbial communities

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The evolution of cooperation within the gut microbiota

(2016) Seth Rakoff-Nahoum et al.   NATURE

Genome-Scale Metabolic Model for the Green Alga Chlorella vulgaris UTEX 395 Accurately Predicts Phenotypes under Autotrophic, Heterotrophic, and Mixotrophic Growth Conditions

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Overflow metabolism in Escherichia coli results from efficient proteome allocation

(2015) Markus Basan et al.   NATURE

A functional perspective on phenotypic heterogeneity in microorganisms

(2015) Martin Ackermann   NATURE REVIEWS MICROBIOLOGY

Leucine incorporation by aerobic anoxygenic phototrophic bacteria in the Delaware estuary

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Evolutionary limits to cooperation in microbial communities

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Niche engineering demonstrates a latent capacity for fungal-algal mutualism

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featureCounts: an efficient general purpose program for assigning sequence reads to genomic features

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Characterization and modelling of interspecies electron transfer mechanisms and microbial community dynamics of a syntrophic association

(2013) Harish Nagarajan et al.   Nature Communications

Flux Imbalance Analysis and the Sensitivity of Cellular Growth to Changes in Metabolite Pools

(2013) Ed Reznik et al.   PLoS Computational Biology

Eutrophic lichens respond to multiple forms of N: implications for critical levels and critical loads research

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Interactions between Diatoms and Bacteria

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A road map for the development of community systems (CoSy) biology

(2012) Karsten Zengler et al.   NATURE REVIEWS MICROBIOLOGY

The Black Queen Hypothesis: Evolution of Dependencies through Adaptive Gene Loss

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Quantitative prediction of cellular metabolism with constraint-based models: the COBRA Toolbox v2.0

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Survival Potential and Photosynthetic Activity of Lichens Under Mars-Like Conditions: A Laboratory Study

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Environments that Induce Synthetic Microbial Ecosystems

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Species-specific structural and functional diversity of bacterial communities in lichen symbioses

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A comprehensive strategy enabling high-resolution functional analysis of the yeast genome

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