We're excited to share our lab's first lead paper!

We developed OriGen, a language model trained to generate plasmid origins of replication. 🔄🦠

The model generates sequences that are significantly different from wild type origins and, remarkably, they allow for replication in vivo.

Read it here ⬇️

RNA language models predict mutations that improve RNA function Structured RNA lies at the heart of many central biological processes, from gene expression to catalysis. While advances in deep learning enable the prediction of accurate protein structural models, R...

RNA language models and ribosome engineering. Built from a hackathon sponsored by @innovativegenomics.bsky.social with @cgemcci.bsky.social. What a great experience!

doi.org/10.1101/2024...

Engineered probiotic restores GLP-1 signaling to ameliorate fiber-deficiency exacerbated colitis Engineered probiotic delivers bacterial peptide that enhances GLP-1 and restores barrier integrity in diet-modulated colitis.

🚨 A probiotic that secretes a GLP-1–triggering peptide.

By engineering E. coli Nissle to secrete a microbial peptide that stimulates host GLP-1 release, we uncovered a new connection between the microbiome, metabolism, and gut inflammation.
👉 science.org/doi/10.1126/...

Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases Although metagenomic sequencing has revealed a rich microbial biodiversity in the mammalian gut, methods to genetically alter specific species in the microbiome are highly limited. Here, we introduce ...

Thrilled to finally share the latest chapter of our in situ microbiome editing work: “Metagenomic editing of commensal bacteria in vivo using CRISPR-associated transposases”, now out in @science.org 👉 www.science.org/doi/10.1126/...

I am so honored to receive this award, it was truly a team effort!

Graphic compares antibiotics, probiotics, and precision genome editing

ICYMI: IGI's Carlotta Ronda @rondalab.bsky.social is part of a team that developed a novel way to precisely edit the genomes of microbes in the #microbiome to defeat harmful infections. Learn more: ow.ly/taTJ50WTA7b

Precise virulence inactivation using a CRISPR-associated transposase for combating Enterobacteriaceae gut pathogens - Nature Biomedical Engineering A self-transmissible CRISPR-associated transposase system encodes a nanobody payload to treat Shiga toxin infections.

Cool work by Carlotta Ronda, Harris Wang et al. in Nature Biomedical Engineering, Nature Portfolio
@carlottaronda.bsky.social
@harriswang.bsky.social
@natureportfolio.nature.com
www.nature.com/articles/s41...