Ran Duan

Ph.D. candidate in the Hutchins lab @USC_MEB cyanobacteria/omics/evolution/climate change/trace metal

[antisense. @razoralign]

OmicOS: A Comprehensive Omics Ecosystem Infrastructure and Agent System for the AI Era https://t.co/T9p2TOJTQN

[antisense. @razoralign]

CellOS: Learning a World Model of Cellular State through Joint Embedding Prediction https://t.co/2ZwFMDVrEx

[antisense. @razoralign]

BiOmics: A Foundational Agent for Grounded and Autonomous Multi-omics Interpretation https://t.co/x5lKkvJ6jN

[Žiga Avsec @Avsecz]

AlphaGenome is out in @nature today along with model weights! 🧬

📄 Paper: https://t.co/1fHzSPiY1x
💻 Weights: https://t.co/z6JWLT4Mpv

Getting here wasn’t a straight path. We sat down @googledeepmind to discuss the story behind the model, paper & API: https://t.co/cT8CiXfnxQ

[Cameron Thrash @jcamthrash]

Phosphorus limitation heightens vulnerability of Crocosphaera watsonii to ocean warming compared with iron limitation https://t.co/0DBCI0IefZ

[Nature Reviews Genetics @NatureRevGenet]

New online! Microbial ecology and evolution in the genomics era https://t.co/JdqfsIur6H

[Ran Duan @drduanran]

iron metalloproteome of Pseudomonas aeruginosa under oxic and anoxic conditions https://t.co/2w4GzEkTjg

[Science Magazine @ScienceMagazine]

Some archaea—an ancient group of microorganisms—have an entirely novel genetic code, according to a new study in Science. Their genetic code reassigns a DNA “stop” signal to incorporate the rare amino acid pyrrolysine into their proteins.

The findings expand our understanding of how alternative genetic codes evolve and hint at new molecular tools for biotechnology applications. https://t.co/SNz70GImAi

[Tominaga K. (tomiken) @pacyc1841]

Nitrogen-fixing microbes gain genes in diverse types of living environments | PNAS https://t.co/Z33FDIgf6v

[Evolutionary Genomics @evol_genomics]

Applying evolutionary theory to understand host–microbiome evolution https://t.co/vQR6uOMJ7x @NatureEcoEvo

[Nature Reviews Genetics @NatureRevGenet]

New online! A genomic view of Earth’s biomes https://t.co/XAdIdBPGTf

[Cameron Thrash @jcamthrash]

Horizontal Gene Transfer and Recombination in Cyanobacteriota https://t.co/TXd7Zb6jsO

[Katrine Whiteson @KatrineWhiteson]

We have an epic line-up for the SoCal Microbiome Symposium at CalTech on Sept 19th, Sarah Allard, Ariane Briegel, Nandita Garud, Sarakis Mazmanian, Joel Sachs, Julia Schartzman, Emily Stein and David Underhill. Thanks to hosts Margaret McFall Ngai and Ned Ruby!

[Cameron Thrash @jcamthrash]

Investigating bacterial evolution in nature with metagenomics https://t.co/jYyKvJt6pP

[Cameron Thrash @jcamthrash]

Do you like coastal/estuarine microbiology, time-series data, and/or metagenomics? Have we got a dataset for you #NSFfunded

Metagenomes and 1,313 metagenome-assembled genomes from a northern Gulf of Mexico coastal time series https://t.co/rofnYYpevF

[Cameron Thrash @jcamthrash]

Coupling of excitation energy to photochemistry in natural marine phytoplankton communities under iron stress https://t.co/ufYwzWUwNu

[Science Magazine @ScienceMagazine]

The global marine heatwaves of 2023 were unprecedented in their intensity, persistence, and scale, according to a new Science study.

The findings provide insights into the region-specific drivers of these events, linking them to broader changes in the planet’s climate system. https://t.co/1CaT8zTme1

[Nature Reviews Microbiology @NatureRevMicro]

New online! Microbial metal physiology: ions to ecosystems https://t.co/X8Mx42Q6j4

[Cameron Thrash @jcamthrash]

Experimental evolution in an era of molecular manipulation https://t.co/bC3vzH0znd

[Ran Duan @drduanran]

In last week’s GRS/GRC AEM, I presented Chapters 2 & 3, where I use proteomics/experimental evolution to probe how marine diazotrophic cyanobacteria cope with warming ＋ nutrient limitation. Incredible opportunities to share and connect!