Mark Mimee

An engineered Clostridial mini consortium modulates intestinal inflammation

The paper engineers a Clostridial consortium to study isoDCA's role in modulating intestinal inflammation and regulatory T cell induction.

A comprehensive phage-bacteria interaction atlas links phage lineage and capsule serotype to genome-guided machine learning prediction in Klebsiella pneumoniae

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.

Programmable genetic control of tumor-colonizing Bifidobacterium longum for intratumoral therapeutic delivery and biocontainment

This paper develops a genetic control system for Bifidobacterium longum to regulate its activity in tumors, enabling therapeutic delivery and biocontainment.

Mining Microbial Transcriptomes to Engineer Cell-Based Bacterial Biosensors in Gut-Resident Bacteroidaceae

The paper develops a pipeline to identify environment-responsive promoters in gut-resident Bacteroidaceae by mining transcriptomes and screening biosensors in vivo.

Microbiome histidine competition mediates dietary control of systemic imidazole propionate

This study shows dietary glutamate influences ImP production via microbial competition, affecting glucose tolerance and systemic ImP levels.

Engineered gut symbionts mediate cross-phylum antagonism to suppress uropathogenic Escherichia coli colonization

This paper engineers gut symbionts to secrete colicins that suppress uropathogenic E. coli colonization in mice.

Engineering butyrate-producing Lachnospiraceae to treat metabolic disease

This paper engineers Lachnospiraceae bacteria to secrete IL-22, improving glucose homeostasis and reducing liver fat in a mouse model of metabolic disease.

Ingestible capsule for detecting labile inflammatory biomarkers in situ

This paper develops an ingestible capsule that detects short-lived inflammatory biomarkers in the GI tract using genetically engineered probiotic biosensors and wireless readout technology.

Cas9-Assisted Biological Containment of a Genetically Engineered Human Commensal Bacterium and Genetic Elements

The paper develops a Cas9-assisted biocontainment system for engineered bacteria to prevent gene dissemination and ensure controlled expression in the gut.

Engineering Phage Host-Range and Suppressing Bacterial Resistance Through Phage Tail Fiber Mutagenesis

This paper develops a method to engineer phage tail fibers to alter host range and suppress bacterial resistance, showing effectiveness in vitro and in vivo.