Adam M. Deutschbauer

The paper engineers a gut bacterium to enhance osmotic resistance, enabling it to survive malabsorption in industrialized microbiomes.

This study identifies host determinants for phage infection in Mycobacterium smegmatis using CRISPR interference, revealing receptor proteins and lipid components involved in phage entry.

The paper tracks gene flow in the gut microbiome, showing diet and community ecology influence phage activation and horizontal gene transfer.

This study identifies host factors critical for ssRNA and ssDNA phage infection in E. coli, revealing conserved dependencies and lineage-specific requirements.

The study identifies surface glycan layers as primary or optional recognition substrates for phage infection in E. coli O157:H7, revealing their role in receptor access and infection outcomes.

This study identifies genes critical for anaerobic maintenance in Pseudomonas aeruginosa using RB-TnSeq, revealing flagellar rotation as an energy drain.

This paper constructs a phage-bacteria interaction atlas for Klebsiella pneumoniae and develops a genome-guided machine learning model to predict phage-host interactions, outperforming traditional methods.

This paper identifies the WalRK two-component system's role in maintaining cell envelope integrity by compensating for reduced capsule and wall teichoic acid attachment in Streptococcus pneumoniae.

This study identifies hypophosphite as a natural inhibitor of syntrophic methanogenesis, offering a potential strategy for methane control in ecosystems.

The paper identifies target genes for 31 transcription factors in two Rhodanobacter strains using DAP-seq and comparative genomics, revealing conserved regulatory networks and a key global regulator Clp.

The paper develops a genome-based framework to predict bacteriophage infectivity against diverse Pseudomonas aeruginosa strains using machine learning and experimental data.

The paper investigates how organic carbon oxidation state affects microbiome composition and greenhouse gas fluxes in anaerobic rice paddy sediments.

This study uses metagenome-guided substrate selection to enrich Terriglobus, identify co-occurring taxa, and isolate a novel species from soil.

This study uses phage-based manipulation to reveal ecological interactions in gut microbiomes by targeting Escherichia fergusonii and analyzing its role in community dynamics.

The paper predicts phage receptor specificity from genome data using large-scale genetic screens and machine learning, achieving high accuracy for E. coli phages.

This study identifies distinct TNT bioremediation strategies in Pantoea sp. MT58 and P. putida KT2440 using proteomics and RB-TnSeq, revealing nitrogen assimilation versus stress tolerance mechanisms.

The paper uses genetic screens to identify fitness factors in Ralstonia pathogens during plant infection, revealing both conserved and lineage-specific adaptations.

The paper investigates how methanotrophic bacteria in rice paddies influence broader microbial communities by enriching and analyzing their metabolic capabilities.

This study identifies glutamate and branched-chain amino acid metabolism as key factors in acid tolerance of a denitrifying bacterium from acidic groundwater.

This study identifies tolerance mechanisms in Paraburkholderia graminis OAS925 to alcohol and salt stress using RB-TnSeq, revealing key genes involved in membrane transport, efflux systems, signaling, and oxidative stress response.

This study uses RB-TnSeq to analyze gene fitness in Mucilaginibacter yixingensis, identifying key pathways for plant niche adaptation.

This study identifies host factors that influence VchCAST activity and demonstrates that the λ-Red recombineering system significantly enhances its editing efficiency in E. coli and other bacteria.

The paper constructs a barcoded insertional mutant library in Trichoderma atroviride to enable high-throughput functional genomics in filamentous fungi.

This paper develops a machine learning framework to predict strain-level phage-host interactions from genomes, achieving high accuracy without phylogenetic constraints.

This study uses random barcode transposon-site sequencing in Mycobacterium tuberculosis to identify gene functions, revealing novel phenotypes and metabolic pathways.

The paper identifies substrate-dependent genes for bacterial plant colonization in Paraburkholderia graminis and shows substrate influences on colonization fitness across multiple bacterial strains.

The paper introduces Dual Tn-seq to assess genome-wide genetic interactions in Streptococcus pneumoniae by analyzing double mutants, revealing new biochemical pathway components.

This study uses RB-TnSeq to identify genetic basis of dicarboxylic acid metabolism in β-proteobacteria, revealing distinct metabolic pathways and enabling plastic waste upcycling.

The paper establishes reproducible methods for plant-microbiome research using fabricated ecosystems across multiple laboratories.