Papers that have taught and/or inspired me

Soil Microbiome

• Soil microbiomes and climate change
• Soil Microbiomes Under Climate Change and Implications for Carbon Cycling
• The Microbial Efficiency-Matrix Stabilization (MEMS) framework integrates plant litter decomposition with soil organic matter stabilization: do labile plant inputs form stable soil organic matter?
• Direct evidence for microbial-derived soil organic matter formation and its ecophysiological controls
• Defining trait-based microbial strategies with consequences for soil carbon cycling under climate change

Microbial Ecology

• Diversity begets stability: Sublinear growth and competitive coexistence across ecosystems [General ecology]
• The community-function landscape of microbial consortia
• Emergent simplicity in microbial community assembly
• Resource–diversity relationships in bacterial communities reflect the network structure of microbial metabolism
• Interactions between strains govern the eco-evolutionary dynamics of microbial communities
• Context-dependent dynamics lead to the assembly of functionally distinct microbial communities
• Trophic Interactions and the Drivers of Microbial Community Assembly
• Transient invaders can induce shifts between alternative stable states of microbial communities
• Resistance, resilience, and redundancy in microbial communities

Microbiome Engineering

• Directed Evolution of Microbial Communities
• Engineering complex communities by directed evolution
• Common principles and best practices for engineering microbiomes
• Solutions in microbiome engineering: prioritizing barriers to organism establishment
• The Inherent Conflicts in Developing Soil Microbial Inoculants

Bioinformatics and Computational Biology

• Statistically learning the functional landscape of microbial communities
• Complexity–stability trade-off in empirical microbial ecosystems
• Waste Not, Want Not: Why Rarefying Microbiome Data Is Inadmissible
• Microbiome Datasets Are Compositional: And This Is Not Optional
• Short-range interactions govern the dynamics and functions of microbial communities
• A minimal model for microbial biodiversity can reproduce experimentally observed ecological patterns
• Macroecological laws describe variation and diversity in microbial communities

Biogeochemistry

• The fate of carbon in a mature forest under carbon dioxide enrichment
• Reviews and syntheses: Carbon use efficiency from organisms to ecosystems - definitions, theories, and empirical evidence