Valentine V. Trotter

Engineering a gut bacterium depleted in industrialized microbiomes to survive malabsorption

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

Cobamide-based interactions between soil bacteria can be predicted based on monoculture growth

The paper shows that cobamide concentrations predict microbial dominance in co-cultures, suggesting niche differentiation despite functional redundancy.

Mapping Genome-wide Transcription Factor Binding Sites in two Rhodanobacter strains Isolated from Extreme Environments

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.

Phage-based microbiome manipulation reveals ecological interactions within gut communities

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

Contrasting effects of glutamate and branched-chain amino acid metabolism on acid tolerance in a Castellaniella isolate from acidic groundwater

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

RB-TnSeq analysis reveals alcohol and salt tolerance systems in a plant root colonizer Paraburkholderia graminis OAS925

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.

Novel enzymes for amino acid biosynthesis in diverse bacteria and archaea: GapMind 2026

The paper updates GapMind to include novel enzymes for amino acid biosynthesis, reducing pathway gaps in prokaryotes from 1.4 to 0.7 per genome.

High-throughput protein characterization by complementation using DNA barcoded fragment libraries

The paper introduces Coaux-Seq, a method using DNA barcoded fragment libraries and auxotroph complementation to characterize protein function in bacteria, identifying 53 previously unvalidated proteins.

The usual and unusual functions of thioredoxins in the metabolism and stress-response of sulfate-reducing bacteria

This study investigates the roles of thioredoxins in sulfate-reducing bacteria, revealing new functions in stress response and sulfur metabolism.