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In a collaboration between the Patel, Aravind, and my group, we asked how far cyclic nucleotide signalling in bacterial antiviral immunity can diversify. Pycsar systems use cyclic pyrimidines. Can related systems also use cyclic purines?
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A RecBCD-like enzyme regulates expression of bacterial defense operons in response to DNA damage | bioRxiv biorxiv.org/content/10.648…
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The Institute for Protein Design is hiring postdocs! 🧬
We design new proteins to tackle big challenges in medicine, sustainability & technology.
Interested in joining our interdisciplinary environment?
Learn more here: ipd.uw.edu/join-us/
We design new proteins to tackle big challenges in medicine, sustainability & technology.
Interested in joining our interdisciplinary environment?
Learn more here: ipd.uw.edu/join-us/
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Self-organized division of labor and selection for long-term antiviral defense in CRISPR arrays. | bioRxiv biorxiv.org/content/10.648…
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Some of the smallest 😎 viruses on Earth are all around us. Three or four genes 😍 each, in nearly every environment. We keep finding thousands by sequencing, yet don't know who they infect, can't easily isolate them....Our new preprint takes this on 🧵👇
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VIPR is now out in @ScienceMagazine!
What started with a mysterious RNA led us to an unexpected way of recognizing DNA, as well as some clues to CRISPR’s origins.
So happy to share these two papers with an incredible team. Links below; original discovery thread here ↓
What started with a mysterious RNA led us to an unexpected way of recognizing DNA, as well as some clues to CRISPR’s origins.
So happy to share these two papers with an incredible team. Links below; original discovery thread here ↓
Excited to share our discovery of a new programmable RNA-guided DNA-targeting system hiding inside bacteriophages that predates CRISPR.
We call it VIPR (Viral Interference Programmable Repeat), and it uses an entirely new logic to find its targets.
Thread + link below.
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Also a highly experimental port of these models into WebGPU, allowing direct prediction on your 💻: localfold.org
WARNING: will drain battery🪫, overheat 🔥💻 & eat your data plan 📱
Started by Martin Steinegger as AF2 port to WebGPU martin-steinegger.github.io/alphafold2-web…
(3/3)
WARNING: will drain battery🪫, overheat 🔥💻 & eat your data plan 📱
Started by Martin Steinegger as AF2 port to WebGPU martin-steinegger.github.io/alphafold2-web…
(3/3)
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High-throughput recovery of integron cassettes for gene discovery screens | Nature Microbiology nature.com/articles/s4156…
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Large eukaryotic DNA viruses encode ESCRT machinery for membrane remodelling | Nature Microbiology nature.com/articles/s4156…
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biorxiv.org/content/10.648…
Mo' evidence 'differential RNA decay' (term coined 2011 in doi:10.1128/AEM.05068-11 for MqsR), here, by toxin MazF, showing no cell death but instead a nice stationary-phase stress response.
Mo' evidence 'differential RNA decay' (term coined 2011 in doi:10.1128/AEM.05068-11 for MqsR), here, by toxin MazF, showing no cell death but instead a nice stationary-phase stress response.
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Plasmid biology is compressed in host chromosomal architecture | bioRxiv biorxiv.org/content/10.648…
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In our preprint, we identify Pucsar, a Pycsar-related family that generates 3’,5’-cGMP to activate different antiviral effectors.
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In PucsarTIR, cGMP progressively converts a self-sequestered inactive effector into a filament, where TIR assembly creates the NADase-active conformation.
Great work by shared first authors Arpita, Yi, and Maxwell Burroughs!
biorxiv.org/content/10.648…
Great work by shared first authors Arpita, Yi, and Maxwell Burroughs!
biorxiv.org/content/10.648…
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Genomic catalogue of giant viruses reveals expanded diversity and functional potential | Nature Microbiology nature.com/articles/s4156…
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Structural mechanism governing the directionality of bridge recombination | Nature nature.com/articles/s4158…
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Today in @Nature we are excited to share the final version of Dyna-1 and *all* of the datasets we curated! New to the manuscript is prospective experimental validation. Congrats to @HWaymentSteele @DorotheeKern @sokrypton and team!!!
🔗nature.com/articles/s4158…
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🔗nature.com/articles/s4158…
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If you missed it before, check out Xu’s great work here science.org/doi/10.1126/sc…
It answers an important question in the anti-phage field, namely how defence genes not encoded by MGEs are mobilised between bacteria 🧫
It answers an important question in the anti-phage field, namely how defence genes not encoded by MGEs are mobilised between bacteria 🧫
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Check out our exciting new work on TasA and TasH structures! Great work by @KGuan7 and Nathan Appleby. Another fun collaboration with @PiyushGoyal!
biorxiv.org/content/10.648…
biorxiv.org/content/10.648…
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1/6 🧬 Big news in genomics & synthetic biology!
We @huijin6418 @BenLehner present the complete mutagenesis of both the genome and proteome of the bacteriophage ΦX174!
📖 Read the full preprint on @bioRxiv here: doi.org/10.64898/2026.…
We @huijin6418 @BenLehner present the complete mutagenesis of both the genome and proteome of the bacteriophage ΦX174!
📖 Read the full preprint on @bioRxiv here: doi.org/10.64898/2026.…
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Methyltransferases in Candidate Phyla Radiation: A Weapon or a Simple Shield? | bioRxiv biorxiv.org/content/10.648…
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