High-order interactions distort the functional landscape of microbial consortia

Available energy fluxes drive a transition in the diversity, stability, and functional structure of microbial communities

(2019) Robert Marsland et al.   PLoS Computational Biology

Deciphering microbial interactions in synthetic human gut microbiome communities

(2018) Ophelia S Venturelli et al.   Molecular Systems Biology

Emergent simplicity in microbial community assembly

(2018) Joshua E. Goldford et al.   SCIENCE

Analysis of Epistasis in Natural Traits Using Model Organisms

(2018) Richard F. Campbell et al.   TRENDS IN GENETICS

On the deformability of an empirical fitness landscape by microbial evolution

(2018) Djordje Bajić et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Microbiome interactions shape host fitness

(2018) Alison L. Gould et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Detecting High-Order Epistasis in Nonlinear Genotype-Phenotype Maps

(2017) Zachary R. Sailer et al.   GENETICS

Cooperators trade off ecological resilience and evolutionary stability in public goods games

(2017) Joseph Rauch et al.   Journal of the Royal Society Interface

Higher-order interactions stabilize dynamics in competitive network models

(2017) Jacopo Grilli et al.   NATURE

Beyond pairwise mechanisms of species coexistence in complex communities

(2017) Jonathan M. Levine et al.   NATURE

A communal catalogue reveals Earth’s multiscale microbial diversity

(2017) Luke R. Thompson et al.   NATURE

Commensal bacteria and essential amino acids control food choice behavior and reproduction

(2017) Ricardo Leitão-Gonçalves et al.   PLOS BIOLOGY

Lotka-Volterra pairwise modeling fails to capture diverse pairwise microbial interactions

(2017) Babak Momeni et al.   eLife

Detecting High-Order Epistasis in Nonlinear Genotype-Phenotype Maps

(2017) Zachary R. Sailer et al.   GENETICS

Combinatorial Gene Regulation through Kinetic Control of the Transcription Cycle

(2017) Clarissa Scholes et al.   Cell Systems

Community structure follows simple assembly rules in microbial microcosms

(2017) Jonathan Friedman et al.   Nature Ecology & Evolution

Higher-order interactions capture unexplained complexity in diverse communities

(2017) Margaret M. Mayfield et al.   Nature Ecology & Evolution

Engineering microbial consortia for controllable outputs

(2016) Stephen R Lindemann et al.   ISME Journal

Enhanced identification of synergistic and antagonistic emergent interactions among three or more drugs

(2016) Elif Tekin et al.   Journal of the Royal Society Interface

Uncovering emergent interactions in three-way combinations of stressors

(2016) Casey Beppler et al.   Journal of the Royal Society Interface

Rules of the game for microbiota

(2016) Karoline Faust et al.   NATURE

Local fitness landscape of the green fluorescent protein

(2016) Karen S. Sarkisyan et al.   NATURE

High-order species interactions shape ecosystem diversity

(2016) Eyal Bairey et al.   Nature Communications

On the Origins and Control of Community Types in the Human Microbiome

(2016) Travis E. Gibson et al.   PLoS Computational Biology

The Contribution of High-Order Metabolic Interactions to the Global Activity of a Four-Species Microbial Community

(2016) Xiaokan Guo et al.   PLoS Computational Biology

Community-level cohesion without cooperation

(2016) Mikhail Tikhonov   eLife

Microbial Community Coalescence for Microbiome Engineering

(2016) Matthias C. Rillig et al.   Frontiers in Microbiology

High functional diversity stimulates diversification in experimental microbial communities

(2016) A. Jousset et al.   Science Advances

Levels and limits in artificial selection of communities

(2015) Manuel Blouin et al.   ECOLOGY LETTERS

Solving linear unbranched pathways with Michaelis–Menten kinetics using the Lambert W-function

(2015) L. Bayón et al.   JOURNAL OF MATHEMATICAL CHEMISTRY

Higher-order genetic interactions and their contribution to complex traits

(2015) Matthew B. Taylor et al.   TRENDS IN GENETICS

Engineering Microbiomes to Improve Plant and Animal Health

(2015) U.G. Mueller et al.   TRENDS IN MICROBIOLOGY

Phenotypic states become increasingly sensitive to perturbations near a bifurcation in a synthetic gene network

(2015) Kevin Axelrod et al.   eLife

Natural soil microbes alter flowering phenology and the intensity of selection on flowering time in a wild Arabidopsis relative

(2014) Maggie R. Wagner et al.   ECOLOGY LETTERS

Selection on soil microbiomes reveals reproducible impacts on plant function

(2014) Kevin Panke-Buisse et al.   ISME Journal

Uncovering Scaling Laws to Infer Multidrug Response of Resistant Microbes and Cancer Cells

(2014) Kevin B. Wood et al.   Cell Reports

Plasticity facilitates sustainable growth in the commons

(2013) M. Cavaliere et al.   Journal of the Royal Society Interface

A latent capacity for evolutionary innovation through exaptation in metabolic systems

(2013) Aditya Barve et al.   NATURE

Epistasis and quantitative traits: using model organisms to study gene–gene interactions

(2013) Trudy F. C. Mackay   NATURE REVIEWS GENETICS

Design and characterization of synthetic fungal-bacterial consortia for direct production of isobutanol from cellulosic biomass

(2013) Jeremy J. Minty et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Feedback between Population and Evolutionary Dynamics Determines the Fate of Social Microbial Populations

(2013) Alvaro Sanchez et al.   PLOS BIOLOGY

The strength of genetic interactions scales weakly with mutational effects

(2013) Andrea Velenich et al.   GENOME BIOLOGY

A statistical procedure to map high-order epistasis for complex traits

(2012) X. Pang et al.   BRIEFINGS IN BIOINFORMATICS

Towards synthetic microbial consortia for bioprocessing

(2012) Jasmine Shong et al.   CURRENT OPINION IN BIOTECHNOLOGY

Mechanism-independent method for predicting response to multidrug combinations in bacteria

(2012) Kevin Wood et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Purification and Characterization of Novel α-Amylase from Bacillus subtilis KIBGE HAS

(2011) Saeeda Bano et al.   AAPS PHARMSCITECH

Scandium Stimulates the Production of Amylase and Bacilysin in Bacillus subtilis

(2011) Takashi Inaoka et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Exact and approximate solutions for the decades-old Michaelis-Menten equation: Progress-curve analysis through integrated rate equations

(2011) Marko Goličnik   BIOCHEMISTRY AND MOLECULAR BIOLOGY EDUCATION

Mutational robustness can facilitate adaptation

(2010) Jeremy A. Draghi et al.   NATURE

Transcription by the numbers redux: experiments and calculations that surprise

(2010) Hernan G. Garcia et al.   TRENDS IN CELL BIOLOGY

Snowdrift game dynamics and facultative cheating in yeast

(2009) Jeff Gore et al.   NATURE

Amylase action pattern on starch polymers

(2008) Annabel Bijttebier et al.   BIOLOGIA

Neutralism and selectionism: a network-based reconciliation

(2008) Andreas Wagner   NATURE REVIEWS GENETICS

The Microbial Engines That Drive Earth's Biogeochemical Cycles

(2008) P. G. Falkowski et al.   SCIENCE

Engineering microbial consortia: a new frontier in synthetic biology

(2008) Katie Brenner et al.   TRENDS IN BIOTECHNOLOGY

Response to Goldman and Brown: Making sense of microbial consortia using ecology and evolution

(2008) Katie Brenner et al.   TRENDS IN BIOTECHNOLOGY

Making sense of microbial consortia using ecology and evolution

(2008) Robert P. Goldman et al.   TRENDS IN BIOTECHNOLOGY