M. A. Fischbach

Discovery and engineering of the antibody response against a prominent skin commensal

The paper identifies an antibody response against Staphylococcus epidermidis and shows how it can be engineered for therapeutic vaccination.

Identification of human skin microbiome odorants that manipulate mosquito landing behavior

This study identifies human skin microbiome odorants that influence mosquito landing behavior, finding specific volatiles reduce mosquito attraction.

Strain dropouts reveal interactions that govern the metabolic output of the gut microbiome

The paper investigates how strain dropouts in the gut microbiome affect community metabolism and host physiology, finding that functionally redundant strains can have significant impacts outside their niche.

Mapping the T cell repertoire to a complex gut bacterial community

The paper maps T cell responses to a complex gut bacterial community and identifies a conserved antigen recognized by multiple TCRs.

Impact of a 7-day homogeneous diet on interpersonal variation in human gut microbiomes and metabolomes

A 7-day homogeneous diet did not reduce interindividual variation in uremic microbiome-derived metabolites, indicating limited dietary impact and suggesting the need for microbial interventions.

In vivo augmentation of a complex gut bacterial community

The paper improves a synthetic gut microbiota community by adding strains that persist after fecal challenge and removing those that do not, resulting in a more stable model of the human gut microbiome.

Systematic dissection of a complex gut bacterial community

This study constructs a defined gut bacterial community of 104 strains and investigates strain-strain and strain-nutrient interactions through amino acid dropout experiments.

A metabolomics pipeline enables mechanistic interrogation of the gut microbiome

The paper develops a metabolomics pipeline to identify microbiota-dependent metabolites and explores their links to host phenotypes using machine learning and comparative genomics.

Eliciting a potent antitumor immune response by expressing tumor antigens in a skin commensal

This paper shows that expressing tumor antigens in skin commensal bacteria can elicit a potent antitumor immune response without causing autoimmunity.

Integration of machine learning and pan-genomics expands the biosynthetic landscape of RiPP natural products

The paper introduces decRiPPter, a machine learning and pan-genomic approach to discover novel RiPP classes, identifying 42 new candidate families from Streptomyces genomes.

A metabolic pathway for bile acid dehydroxylation by the gut microbiome

This paper completes the metabolic pathway for bile acid dehydroxylation by the gut microbiome and demonstrates its heterologous expression in a non-producing commensal.

Recovery of the gut microbiota after antibiotics depends on host diet and environmental reservoirs

The paper investigates how gut microbiota recovers after antibiotics, showing diet and environmental factors influence resilience and recovery patterns.

Decoding commensal-host communication through genetic engineering of Staphylococcus epidermidis

This study identifies bacterial molecules in S. epidermidis that induce specific immune responses through combinatorial signaling with host receptors, revealing distinct immune signaling pathways for commensal and pathogenic behaviors.

Cutibacterium acnes antibiotic production shapes niche competition in the human skin microbiome

The paper identifies cutimycin, an antibiotic produced by Cutibacterium acnes, which reduces Staphylococcus colonization in human skin follicles.