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Posts by Jonathan Pruneda

Addgene: Phage ORFeome Library Use the Phage ORFeome Library to uncover the triggers responsible for immune activation.

Bacteriophages are in a constant arms race with bacteria 🦠 The Phage ORFeome pooled library from the Aaron Whiteley lab contains phage proteins that activate antiphage defense systems — a tool to dissect the mechanisms of bacterial immunity. Aaron Whiteley

1 day ago 26 10 0 1
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Innate immune responses to Rickettsia: emerging themes and contrasts between species Over 10 species of Rickettsia cause serious human disease across the globe, including deadly spotted fever and typhus. These arthropod-borne microbes …

I'm happy to share a review that our lab put together on innate immune responses to Rickettsia. One interesting tidbit - different Rickettsia species have distinct interactions with xenophagy, where some species co-opt ubiquitylation, while others avoid it!

www.sciencedirect.com/science/arti...

5 days ago 21 6 0 0

Congrats!!

1 week ago 1 0 0 0

Out now! The latest paper from the lab, spearheaded by Philipp Schenk, describing a new USP9X inhibitor with a unique DUB binding site.

1 week ago 11 3 0 0
Specificity and recognition of the ADP-ribosyl-ubiquitin modification in the DNA damage response Recent studies have shown that ADP-ribose modifications can be further modified by ubiquitin (ADPr-Ub), but there are still major gaps in our knowledge around this modification and its role in the DNA damage response. This study biochemically characterises the amino acid specificity for ADPr-Ub production and its recognition by E3 ubiquitin ligases.

We show that the E3 ubiquitin ligase DTX2 creates a dual hybrid ADP-ribosyl-ubiquitin mark (ADPr-Ub) at DNA damage sites, driving the recruitment of RNF114, RNF138, and RNF166 proteins independently of HPF1.
journals.plos.org/plosbiology/...

1 week ago 8 4 0 1

Abstract deadline extended to April 20 for the FASEB #UbiqSRC, colocated with the #ProtFoldSRC, June 1-4 in Louisville! Register for one of the ~20 talk slots throughout the main meeting and pre-meeting career forum!

events.faseb.org/event/Ubiqui...

2 weeks ago 4 3 0 0

The next chapter in ADP-ribosylation biology: modification of uracil and guanine bases by PARP10 and PARP15

www.biorxiv.org/content/10.6...

3 weeks ago 4 3 1 0
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Reversible RNA ADP-ribosylation on uracil bases Abstract. ADP-ribosylation is a conserved modification that uses NAD+ as a co-substrate to regulate essential cellular processes, such as genome stability

In this paper, we present the first evidence suggesting that reversible RNA ADP-ribosylation on bases occurs in higher organisms (through the combined action of PARP10 and TARG1):
academic.oup.com/nar/article/...

3 weeks ago 3 2 0 1
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New #preprint 😍‼️ led by 2 incredible postdocs @ninizhani.bsky.social & Ranj Papareddy: transforming #UFMylation from a local ribosome rescue pathway to systems level regulator of mRNA splicing www.biorxiv.org/content/10.6... A short 🧵

3 weeks ago 103 42 2 3
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Registration now open! 2026 #EMBO #Ubiquitin Workshop set in stunning Monopoli, Puglia 🇮🇹
Cutting edge science, great speakers, short talk opportunities, travel awards
Limited spaces. Dont miss out - register early!
Registration & more info: meetings.embo.org/event/26-ubi...

3 weeks ago 22 12 1 0

Proud to share the yeast telomerase structure, led by the talented @hongmiaohu.bsky.social in collaboration with the Wellinger and Chartrand labs. Discovered 37 years ago and took us nearly 7 years but totally worth the wait 😍.
www.science.org/doi/10.1126/...
www.youtube.com/watch?v=gFE4...

3 weeks ago 203 74 9 2

Congratulations Jake @mediocre-jake.bsky.social, Bekky Feltham and team on their phenomenal effort in putting together the E3-ome, published in Cell www.cell.com/cell/fulltex....

An extremely valuable resource for ubiquitin researchers.

4 weeks ago 21 8 0 0

Our work on the role of Ufmylation on ribosome quality control on the ER is out! Great work of two terrific first authors Milica and @alessandrick.bsky.social together with our wonderful collaborators, the one and only Dagdas lab @plantophagy.bsky.social!

4 weeks ago 44 11 2 0
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The coordinated action of UFMylation and the RQC pathways clears arrested polypeptides at the ER - The EMBO Journal Clearance of arrested nascent polypeptides resulting from ribosomal stalling is essential for proteostasis. Stalled endoplasmic reticulum (ER)-bound ribosomes are marked by ubiquitin-fold modifier 1 (...

Congrats Milica @alessandrick.bsky.social & everyone @gekaragoz.bsky.social lab. Glad we could contribute to this awesome story on #UFMylation & #RQC crosstalk @embojournal.org link.springer.com/article/10.1...

4 weeks ago 53 17 1 0
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ZNFX1 uses two-component ubiquitin circuitry to quarantine viral RNA Squair et al. show that ZNFX1 restricts ssRNA virus replication by integrating SF1 helicase activity with dual E3 ligase mechanisms. ATP-dependent RNA binding activates E3 function, driving self-propa...

Receptor clustering is a common theme in viral detection, but whether detection directly hinders genome replication is less clear.

Excited to share the Z in RZ-type E3s: ZNFX1 is an RNA helicase that builds ubiquitin chains leading to aggregates that ensnare viral RNA.

www.cell.com/molecular-ce...

4 weeks ago 17 10 2 1
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Excited to decode the intricate language of ubiquitin chains and unravel their role in protein degradation? 🧬🔬
👉 APPLY NOW to join the lab of Dr. Leo Kiss @leokiss.bsky.social @imprs-lm.bsky.social.
#CellularBiochemistry #Ubiquitin #Proteostasis #ProteinDegradation

4 weeks ago 20 15 0 1
Mission Theater - Chiasm Cabaret: A Sexy Science Cabaret Variety Show - McMenamins Pubs, Breweries and Historic Hotels

Aspiring science communicators:
SCIENCE TALK '26 • Association of Science Communicators is happening in Portland next week!
If you don’t have time to attend the conference, but need a Friday evening activity, there will be a fun science cabaret show:
www.mcmenamins.com/events/27505...

4 weeks ago 5 3 0 0
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It’s a bit late - but our work on Enhancement Targeting Chimeras (ENTACs) is out now! Check out our work describing how induced proximity of a DUB can stabilise short-lived receptor like CTLA4.
@livuni-ismib.bsky.social

1 month ago 1 2 0 0
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The E3 ubiquitin ligase mechanism specifying target-directed microRNA degradation (TDMD) is now published! 🎉🍾 We, @bartellab.bsky.social and Schulman lab, describe how 2-RNA factors control protein degradation by recruiting an E3 ligase. @mpibiochem.bsky.social
www.nature.com/articles/s41...

1 month ago 83 38 1 3

Very happy to share our recent preprint describing #Golgi protein quality control #PQC in mammalian cells. #proteasome #ubiquitin #ChemBio Fantastic work by @joaodiamantino.bsky.social and team! #proudPI @unidue-zmb.bsky.social @imprs-lm.bsky.social

2 months ago 31 15 1 1
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The longest-running UB/UBL conference, join @labjoazeiro.bsky.social and @sshaolab.bsky.social, for #UbiqSRC. Featuring keynotes by @idikic.bsky.social of @goetheuni.bsky.social with Jeff Kelly from @scripps.edu.bsky.social. Submit your abstract and register to join us in Louisville: buff.ly/uAY0w0M

1 month ago 2 3 0 1

When Salmonella typhimurium invades cells that line the intestine, it uses a syringe-like type III secretion system to inject dozens of proteins (effectors) into the host cell cytoplasm. This beautiful descriptive study provides the first chronology of the order in which the effectors are injected.

1 month ago 15 5 2 0

Check out this exciting joint Career Forum organized by and for scientists-in-training that will take place before the co-located FASEB Meetings on Ubiquitin and Protein Folding in the Cell, June 1-4, in Louisville, KY!

Register for either meeting to opt in. Abstract deadline April 6.

1 month ago 3 2 0 0
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Excited to announce that FASEB Ignite Career Forum 2026 (preceding FASEB Ubiquitin Mechanisms, Functions, and Therapeutics & Protein Folding in the Cell) is open for registration! Abstract deadline - April 6, 2026
For more details -
events.faseb.org/event/Protei...
events.faseb.org/event/Ubiqui...

1 month ago 10 8 0 1
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Acidic pH Restricts Non‐Tuberculous Mycobacteria Replication Different nontuberculous mycobacteria (NTM) species display unique replication profiles in acidic pH in vitro which correlates to their replication within human macrophages. Inhibition of the acidic ...

Very happy to see this out! Great work by @lockwop.bsky.social @crick.ac.uk and first paper on NTMs from the lab! Parise made a set of 12 fluorescently labelled NTMs covering environmental and opportunistic mycobacteria...
onlinelibrary.wiley.com/doi/10.1111/...

1 month ago 45 15 2 2
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New Review in Trends in Cell Biology with @lumirare.com.
First integrative catalogue of 267 cullin-RING substrate receptors (93 linked to germline disorders) + programmatic-friendly Excel resource for the community.

www.cell.com/trends/cell-...

1 month ago 8 5 0 0
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The accessory adapters FAF1, FAF2, and UBXN7 accelerate proteasomal degradation by increasing prior p97-mediated substrate unfolding A group of accessory adapters positions the p97 adapter Ufd1 to boost substrate unfolding and subsequent proteasomal degradation.

VCP/p97’s accessory adapters (FAF1, FAF2, UBXN7) boost unfolding and subsequent proteasomal degradation. #ubiquitin. Our paper is out now:
Science Advances www.science.org/doi/10.1126/...

1 month ago 23 10 0 1

CBASS is a cyclic nucleotide-based antiviral system in bacteria that is related to cGAS-STING signaling in animals. One of the big questions is how CBASS is activated during phage infection? We made some progress on this during my final year in the Kranzusch lab.
www.biorxiv.org/content/10.6...

1 month ago 49 27 3 2
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I am incredibly excited to share that I will start my independent lab at the @unidue-zmb.bsky.social at the @unidue.bsky.social as Junior Professor of Cellular Biochemistry. Research in my lab has the goal to decipher the ubiquitin code!
There are multiple open positions!
(1/3)

1 month ago 85 22 11 4
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The unique architecture of umbrella toxins permits a two-tiered molecular bet-hedging strategy for interbacterial antagonism Umbrella toxin particles produced by Actinobacteria contain five spokes tipped with variable lectin domains. Here, Zhao et al. show that these lectins mediate species-specific binding to a previously unrecognized cell surface carbohydrate polymer and propose that the modular nature of umbrella particles enables bet hedging against unpredictable competitor encounters.

Now online! The unique architecture of umbrella toxins permits a two-tiered molecular bet-hedging strategy for interbacterial antagonism

4 months ago 17 7 0 0