R. Parthasarathy

A mucin-regulated adhesin determines the intestinal biogeography and inflammatory character of a bacterial symbiont.

This study identifies a mucin-binding adhesin that regulates bacterial colonization and inflammation in the gut by sensing mucin-associated glycans.

Disaggregation as an interaction mechanism among intestinal bacteria

This study shows that bacterial species in the zebrafish gut compete by dissolving aggregates, and multi-species communities can stabilize this interaction.

Assessing the use of ellipsoidal microparticles for determining lipid membrane viscosity

The paper develops a method to measure lipid membrane viscosity using ellipsoidal microparticles and validates it on phase-separated membranes, showing good agreement with another method and revealing weak viscosity dependence on lipid chain length.

Gut bacterial aggregates as living gels

The paper studies the formation of three-dimensional bacterial clusters in the zebrafish gut and finds power-law size distributions emerging from a Yule-Simons-type process.

Quantifying multi-species microbial interactions in the larval zebrafish gut

This study investigates microbial interactions in larval zebrafish guts, showing that higher-order interactions, not pairwise ones, determine community composition.

Swimming motility and chemotaxis control the spatial organization, persistence, and inflammatory activity of a model intestinal pathobiont

This study shows that swimming motility and chemotaxis in Vibrio bacteria control their spatial organization, persistence, and inflammatory activity in the zebrafish gut.

Sublethal antibiotics collapse gut bacterial populations by enhancing aggregation and expulsion

The paper shows sublethal antibiotics reduce gut bacterial abundance by promoting aggregation and expulsion in zebrafish larvae.

Automated High-Throughput Light-Sheet Fluorescence Microscopy of Larval Zebrafish

This paper describes an automated high-throughput light sheet fluorescence microscope for imaging larval zebrafish, demonstrating its ability to rapidly examine live specimens with minimal manual intervention.

Bacterial cohesion predicts spatial distribution in the larval zebrafish intestine

The paper shows that bacterial cohesion in zebrafish intestines correlates with their spatial distribution, suggesting general biophysical rules govern microbiome organization.

Performance of convolutional neural networks for identification of bacteria in 3D microscopy datasets

This study evaluates 3D convolutional neural networks for identifying bacteria in zebrafish intestinal microscopy images, finding they match human accuracy and outperform traditional methods.

The Vibrio cholerae Type VI Secretion System Can Modulate Host Intestinal Mechanics to Displace Commensal Gut Bacteria

This study shows Vibrio cholerae uses its Type VI Secretion System to enhance zebrafish intestinal motility, displacing commensal bacteria without killing them.