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dzyla.bsky.social
Dawid Zyla
@dzyla.bsky.social
1.8K followers 2.8K following 67 posts
Instructor in the Saphire lab at La Jolla Institute for Immunology, working on the structural biology of viral glycoproteins. ETH Zürich alumnus. In my free time, a photographer and programmer. #cryoem #python http://dzyla.com
dzyla.com
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Jun 28
I am excited to share our study in Science on #measles fusion glycoprotein in complex with the first neutralizing antibody described for this virus! doi.org/10.1126/scie...
A neutralizing antibody prevents postfusion transition of measles virus fusion protein
Measles virus (MeV) presents a public health threat that is escalating as vaccine coverage in the general population declines and as populations of immunocompromised individuals, who cannot be vaccina...
doi.org
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Reposted by Dawid Zyla
schurlab.bsky.social
Florian Schur @schurlab.bsky.social · 13d
Huntingtin binds and bundles F-actin!
Thrilled to team up with the Humbert (Sorbonne Université) and Song (KAIST) labs on this discovery.
We had a blast doing cryo-ET on this unexpected complex — and now so many new questions lie ahead!
#TeamTomo #CryoET #HTT #actin

doi.org/10.1126/scia...
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Reposted by Dawid Zyla
spyroslytras.bsky.social
Spyros Lytras @spyroslytras.bsky.social · 11d
New exciting resource published!! The Viro3D paper is out, describing our comprehensive database of predicted virus protein structures! 💻🧬

Work with @ulad-litvin.bsky.social , @grovearmada.bsky.social , Alex Jack, @bljog.bsky.social , @davidlrobertson.bsky.social

www.embopress.org/doi/full/10....
Viro3D: a comprehensive database of virus protein structure predictions | Molecular Systems Biology
imageimageViro3D provides proteome-level, high confidence AI-protein structure predictions for >4,400 viruses, allowing mapping of form and function across the human and animal virosphere. Viro3D i...
www.embopress.org
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · 22d
Our second paper explores the mechanism by which fusion-targeting antibodies neutralize the measles virus. It was exciting to integrate structural biology, virology, and biophysics to demonstrate that these F-targeting antibodies can provide complete protection against measles infection.
biorxiv-immuno.bsky.social
bioRxiv Immunology @biorxiv-immuno.bsky.social · 22d
Structural and Mechanistic Basis for Antibody Neutralization of the Measles Fusion Protein https://www.biorxiv.org/content/10.1101/2025.09.11.675466v1
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · 23d
One of our new manuscripts is now available on bioRxiv! Stay tuned!
biorxiv-immuno.bsky.social
bioRxiv Immunology @biorxiv-immuno.bsky.social · 23d
Uncovering the features of Measles-targeting human antibodies elicited by the MMR vaccine https://www.biorxiv.org/content/10.1101/2025.09.09.675230v1
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · 27d
I have been using CoreDraw for over 15 years. I have never used Illustrator, and all my graphics and figures are made with @coreldraw.bsky.social.
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Reposted by Dawid Zyla
danielhurdiss.bsky.social
Daniel Hurdiss @danielhurdiss.bsky.social · Jun 15
"Unveiling the structural spectrum of SARS-CoV-2 fusion by in situ cryo-ET"

www.nature.com/articles/s41...
Unveiling the structural spectrum of SARS-CoV-2 fusion by in situ cryo-ET - Nature Communications
This study delineates the full sequence of SARS-CoV-2 spike-mediated membrane fusion and shows how S2-targeting antibodies inhibit this process, using a near-native functional fusion system and cryo-e...
www.nature.com
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Reposted by Dawid Zyla
rcastellsg.bsky.social
Roger Castells @rcastellsg.bsky.social · May 7
Hi everyone! I’m a #NewPI just starting my lab and would love to hear your advice on lab management and building the lab culture. Any tips, lessons learned, or resources you’ve found helpful are very welcome! Feel free to reply, message me, or email me at rcastellsg(at)cnio.es
thanks a lot!! 🤗
a cat is sitting in front of a laptop computer asking for advice
ALT: a cat is sitting in front of a laptop computer asking for advice
media.tenor.com
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · May 7
Great resource! Thanks Ricardo!
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Reposted by Dawid Zyla
lifeonthewedge.bsky.social
Ricardo D. Righetto @lifeonthewedge.bsky.social · May 7
My colleagues @phaips.vd.st and @florentwaltz.bsky.social have put together this wonderful website with step-by-step tutorials for in situ subtomogram averaging using different software packages 🤩

Check it out, especially if you are a newcomer to the field!

#CryoET #TeamTomo #ChlamyDataset
phaips.vd.st
Philippe Van der Stappen @phaips.vd.st · May 6
Hey #TeamTomo,
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!

tomoguide.github.io

Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Welcome to TomoGuide
A step-by-step Cryo-ET guide
tomoguide.github.io
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Reposted by Dawid Zyla
cellarchlab.com
Ben Engel @cellarchlab.com · May 7
“The Website” is here! It can be intimidating getting into analysis of #CryoET data, and software is evolving all the time👩‍💻🚀. @phaips.vd.st & @florentwaltz.bsky.social put our lab’s workflows into an online guide. We hope this helps lower the bar to joining #TeamTomo. Feedback much appreciated! 🧪🧶🧬🔬
phaips.vd.st
Philippe Van der Stappen @phaips.vd.st · May 6
Hey #TeamTomo,
Ever been in need of a tutorial about the fundamentals of cryo-electron tomography? From preprocessing raw frames to high-res subtomogram averaging?
That's why @florentwaltz.bsky.social and I made this website!

tomoguide.github.io

Follow the thread 1 /🧵
#CryoET #CryoEM 🔬🧪
Welcome to TomoGuide
A step-by-step Cryo-ET guide
tomoguide.github.io
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Reposted by Dawid Zyla
atinygreencell.bsky.social
Sebastian S. Cocioba @atinygreencell.bsky.social · May 2
I got hit by some rather sudden and extreme financial hardship so if anyone is in need of remote wetlab contract research, strictly BSL1, do let me know. Currently scrambling for gigs.

Plant, Bacterial, Archaeal Non-model Bioeng
Custom Lab Hardware
Turn Key Genetic Design

Please repost for reach 💚
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Apr 27
5/5: I always welcome suggestions and help. Please reach out if you are interested or have some good ideas for improvements. Happy structure determination! #cryoEM #Relion #teamtomo
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Apr 27
4/5: As this is developed primarily as a side project, it's possible that not everything will work as intended initially. In those cases, please help improve the app by reporting issues on GitHub: github.com/dzyla/Follow...
GitHub - dzyla/Follow_Relion_gracefully: New script to follow Relion projects in a browser!
New script to follow Relion projects in a browser! - dzyla/Follow_Relion_gracefully
github.com
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Apr 27
3/5: The plotting quality has also been normalized, ensuring the UI is uniform between different job types. The dashboard now includes data selection functionality where STAR files can be plotted and subsets selected. Overall, many quality-of-life adjustments were implemented.
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Apr 27
2/5: It now provides previews and statistics plotting for most job types supported by the software. I've optimized the code to be more modular and increased its speed, plus added support for all #teamtomo jobs.
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Apr 27
1/5: Over the last few months, I have been working on an update for the #FollowRelionGracefully dashboard, which offers improved real-time job previews for #cryoEM #Relion jobs.
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Reposted by Dawid Zyla
ewb-lab.bsky.social
Eilika Weber-Ban Lab @ewb-lab.bsky.social · Mar 28
Check out our new study revealing how ATP-independent activator Bpa binds asymmetrically to the Mtb #proteasome — and pinpointing key Bpa residues involved in substrate interaction.
👏 Tatjana v. Rosen, Rafal Zdanowicz & @yasser-elhadeg.bsky.social
🔗 www.nature.com/articles/s41...
Substrates bind to residues lining the ring of asymmetrically engaged bacterial proteasome activator Bpa - Nature Communications
Mycobacterium tuberculosis has a proteasome similar to eukaryotes. This study reveals how the activator Bpa recruits its substrate HspR, providing structural and mechanistic insights. The authors iden...
www.nature.com
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Reposted by Dawid Zyla
jpkreysing.bsky.social
Jan Philipp Kreysing @jpkreysing.bsky.social · Apr 11
New preprint on 3D heterochromatin architecture in human cells! Great collab with @sergiocruzleon.bsky.social & @johannesbetz.bsky.social from @hummerlab.bsky.social, @marinalusic.bsky.social & the Turoňová lab. Many thanks to my supervisor @becklab.bsky.social. bioRxiv: tinyurl.com/3a74uanv 🧵👇
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Reposted by Dawid Zyla
aaronwhiteley.bsky.social
Aaron Whiteley @aaronwhiteley.bsky.social · Apr 8
Check out our new story led by @aesully98.bsky.social describing how bacteria turn immune evasion against phage! In collaboration with @benmorehouse.bsky.social lab, we discover that bacteria guard their nucleotide second messenger pool using a nucleotidyltransferase related to Cas10/CRISPR enzymes
aesully98.bsky.social
Ashley Sullivan @aesully98.bsky.social · Mar 31
Excited to share that my work from the @aaronwhiteley.bsky.social lab is now on bioRxiv! With @benmorehouse.bsky.social, we discovered that the Panoptes defense system—named after the all-seeing watchman of Hera—uses decoy nucleotides to detect phage anti-defense proteins.
A minimal CRISPR polymerase produces decoy cyclic nucleotides to detect phage anti-defense proteins
Bacteria use antiphage systems to combat phages, their ubiquitous competitors, and evolve new defenses through repeated reshuffling of basic functional units into novel reformulations. A common theme ...
www.biorxiv.org
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Reposted by Dawid Zyla
rommieamaro.bsky.social
Rommie Amaro @rommieamaro.bsky.social · Mar 28
✨✨ It's #glycotime for #HIV Env ✨✨

N-linked glycans modulate flexibility & MPER epitope exposure #glycotime

Huge effort by @shehata92.bsky.social @lcasalino88.bsky.social with cryoET of Env in VLPs by @thevillalab.bsky.social & team 💪

Would love feedback!

www.biorxiv.org/content/10.1...
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Apr 1
Happy to share that our manuscript on the anti-measles antibody is mentioned in this article:
Measles can ravage the immune system and brain, causing long-term damage – a virologist explains theconversation.com/measles-can-...
Measles can ravage the immune system and brain, causing long-term damage – a virologist explains
Complications from measles infection are surprisingly common.
theconversation.com
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Reposted by Dawid Zyla
elife.bsky.social
eLife @elife.bsky.social · Mar 29
Herpes viruses are among the most widespread human viruses. Scientists have shown how HSV-1, known for oral and genital sores, assembles in cells thanks to advanced imaging techniques.
Viruses: How herpes is assembled
A combination of imaging techniques reveals how herpes simplex virus type 1 assembles within infected cells, highlighting the roles of essential viral proteins in viral assembly and exit.
buff.ly
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Mar 26
Oh, that’s amazing! I'm glad you found it helpful! I had some ideas to implement for #teamtomo, but time was the limiting factor. I hope to find time to work on it again soon! :)
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Reposted by Dawid Zyla
cellarchlab.com
Ben Engel @cellarchlab.com · Mar 21
Press release from @unibas.ch and @biozentrum.unibas.ch about our new #cryoET study on mitochondrial respirasomes. Led by the unstoppable @florentwaltz.bsky.social 🙌

🧪🧶🧬 #TeamTomo
unibas.ch
University of Basel @unibas.ch · Mar 21
#Mitochondria power our cells, but how? Using cryo-electron tomography, @cellarchlab.com and <a href="https://bsky.app/profile/did:plc:mhpz7gfc4j2xb525uro3udnj" class="hover:underline text-blue-600 dark:text-sky-400" target="_blank" rel="noopener">@florentwaltz.bsky.social report in <a href="https://bsky.app/profile/did:plc:vqgovau5gkirnk3ss5qwjdmz" class="hover:underline text-blue-600 dark:text-sky-400" target="_blank" rel="noopener">@science.org that energy-producing proteins form supercomplexes, optimizing ATP production.
The cell’s powerhouses: Molecular machines enable efficient energy production
Mitochondria are the powerhouses in our cells, producing the energy for all vital processes. Using cryo-electron tomography, researchers at th...
www.unibas.ch
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dzyla.bsky.social
Dawid Zyla @dzyla.bsky.social · Mar 23
Fantastic work! Congrats Florent! I hope I can move to cryo-ET one day as well 😀
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