B. C. DeFelice

High-resolution lineage tracking of within-host evolution and strain transmission in a human gut symbiont across ecological scales

The paper tracks lineage evolution and transmission of Bacteroides thetaiotaomicron across hosts and ecological scales using genomic barcoding and whole-genome sequencing.

Rapid QC-MS - Interactive Dashboard for Synchronous Mass Spectrometry Data Acquisition Quality Control

Rapid QC-MS provides an automated dashboard for real-time quality control of LC-MS/MS data, improving efficiency and accuracy in untargeted workflows.

Global organelle profiling reveals subcellular localization and remodeling at proteome scale

The paper maps subcellular localization of human proteins and shows proteome remodeling during viral infection by combining organelle immuno-capture with mass spectrometry.

Retroviral infection and commensal bacteria dependently alter the metabolomic profile in a sterile organ

Resource competition predicts assembly of in vitro gut bacterial communities

This study develops a framework to distinguish resource competition from other interactions in gut bacterial communities, showing it explains most pairwise interactions and predicts community assembly.

Intermittent fasting induces rapid hepatocyte proliferation to restore the hepatostat in the mouse liver.

This study shows intermittent fasting induces rapid hepatocyte proliferation in mice to maintain liver-to-body-mass ratio, challenging the view that liver tissue is quiescent unless injured.

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.