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Shyamal @shyamalm.bsky.social · 14d

Great discussion here!

Oli Clarke @olibclarke.bsky.social · 14d

If you can't see sidechains, can you really call the resolution 3.3 Å..? 👀

And if you can't see sidechains, how do you know the helical symmetry is right..?

cryoEM papers @cryoempapers.bsky.social · 14d

Structural basis of Pseudomonas biofilm-forming functional amyloid FapC formation pubmed.ncbi.nlm.nih.gov/40991694/ #cryoem

Reposted by Shyamal

Anthony Vecchiarelli @cellforganized.bsky.social · 16d

New PrePrint from the Vecchiarelli and Mosalaganti (@shyamalm.bsky.social) labs! 🧵

Collaboration with the Giessen and Pi labs

Congratulations to co-first authors Y Hoang (@hoanghamyy.bsky.social) and Pankaj Jadhav!

www.biorxiv.org/content/10.1...

Engineering Spatial Control of Bacterial Organelles

Bacteria were once thought to lack organelles, but it is now clear they confine cellular reactions using an array of membrane- and protein-based compartments. A central question, however, is how bacte...

www.biorxiv.org

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Shyamal @shyamalm.bsky.social · 17d

Ever wondered how to position organelles in bacteria? Wonder no more!
Happy to have contributed to this fantastic story from @cellforganized.bsky.social' lab.

The avenues this opens in the synthetic biology space are enormous!

Movie: Carboxysomes positioned in E. coli!

Preprint: shorturl.at/D6xVg

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Reposted by Shyamal

Sven Klumpe @svenklumpe.bsky.social · Aug 23

If you are thinking about the future of structural biology, we are too! Our two cents (Jürgen Plitzko and I) just got published online here: authors.elsevier.com/sd/article/S...

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Shyamal @shyamalm.bsky.social · Sep 7

This work was singlehandedly spearheaded by a graduate student in the lab, Renaldo Sutanto.
Link to the paper: www.biorxiv.org/content/10.1...

Comments and thoughts, welcome!

In situ cryo-ET redefines HPV disassembly and transport paradigms

Human papillomavirus (HPV) causes 4.5% of all human cancers, although a complete cellular basis of infection remains unclear. The mechanisms of virus disassembly and transport are particularly enigmat...

www.biorxiv.org

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Shyamal @shyamalm.bsky.social · Sep 7

HPV is the most common STI. Revisiting the infection pathways, we discover that, contrary to the accepted model of trafficking, HPV stays intact and infectious in host cell lysosomes 🤯. Among other discoveries, we show that the intact virus is a cargo of COPI-coated pits!

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Shyamal @shyamalm.bsky.social · Jul 20

Happy to have contributed to this amazing story by Hari!

Harihar Mohan @harimohan.bsky.social · Jul 19

Our paper discovering novel roles for the retrovirus-like proteins RTL8 and PEG10 in shaping stress granule biology is now online on Science Advances! #llps #stressgranules

www.science.org/doi/full/10....

Endogenous retrovirus-like proteins recruit UBQLN2 to stress granules and shape their functional biology

Virus-like proteins help our cells respond to environmental stress.

www.science.org

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Reposted by Shyamal

Alexey Amunts @amunts.bsky.social · Jul 7

Our new preprint: how photoprotection is spatially coordinated with energy metabolism. Photosystem I is major source of radicals. We report EM structure of PSI in complex with superoxide dismutase SOD: direct link between energy conversion & oxidative stress defence
www.biorxiv.org/content/10.1...

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Reposted by Shyamal

Arjen Jakobi @cryotud.bsky.social · May 22

We are happy to release LocScale2.0: a tool for context-aware, confidence-weighted cryoEM map optimisation.

Taking two half maps as input, LcoScale-2.0 produces feature-enhanced maps along with a robust confidence score that guides objective map interpretation.

cryotud.github.io/locscale/

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Reposted by Shyamal

Svetlana Dodonova @dodonova-sveta.bsky.social · May 26

We’ve uncovered Asgard chromatin structures formed by a Hodarchaeal histone : closed hypernucleosome conserved in archaea and an open form resembling the H3-H4 eukaryotic octasome. Fantastic work by @harshranawat.bsky.social!
www.biorxiv.org/content/10.1...
#Chromatin #Asgard #Archaea #cryoEM

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Reposted by Shyamal

bioRxivpreprint @biorxivpreprint.bsky.social · May 26

Toggle-Untoggle: A cell segmentation tool with an interactive user verification interface. https://www.biorxiv.org/content/10.1101/2025.05.21.655178v1

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Shyamal @shyamalm.bsky.social · May 22

Happy to have contributed to this amazing story from @caroleparentlab.bsky.social at the @umlifesciences.bsky.social

www.nature.com/articles/s41...

Congrats to all involved.

Neutrophils secrete exosome-associated DNA to resolve sterile acute inflammation - Nature Cell Biology

Arya et al. report that migrating neutrophils resolve acute inflammation by releasing exosomes associated with nuclear DNA. This process is distinct from the release of neutrophil extracellular traps,...

www.nature.com

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Reposted by Shyamal

Jim Hurley @jimhurley.bsky.social · May 20

Problem cryo-ET structure alert. A recent paper by Lange et al. in @natcellbio.nature.com (tinyurl.com/38s6a4dn) reported an unusual-looking model of the prohibitin complex in situ. We asked: how was this structure generated? Our reanalysis offers an explanation: tinyurl.com/mszdtwxx 🧵

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Shyamal @shyamalm.bsky.social · May 8

Together with Herman Fung, we are looking for a #machinelearning #AI expert to join our groups.

Details below.

U-M Life Sciences Institute @umlifesciences.bsky.social · May 8

The LSI is hiring!
We are seeking a research specialist in #AI and #MachineLearning to support the labs of @shyamalm.bsky.social and Herman Fung.
This individual will help develop advanced computer vision workflows for #cryoET and automated adaptive microscopy.

careers.umich.edu/job_detail/2...

LSI scientist working with the Aquilos focused ion beam/scanning electron microscope

Reposted by Shyamal

U-M Life Sciences Institute @umlifesciences.bsky.social · Mar 24

*Deadline extended*
Applications for this year's #CryoEM Data Processing Workshop are due March 27!
Don't miss this chance to learn about various approaches to deal with conformational/compositional heterogeneity.
myumi.ch/lsi-cryo-2025
@jbquerido.bsky.social
@shyamalm.bsky.social

Text overlaying a grid of cryo-EM images of heterogeneous samples. Text: Cryo-EM Summer Workshop, June 1-5, 2025.

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Reposted by Shyamal

Sylvie Callegari @sylviecallegari.bsky.social · Mar 13

Thrilled to share the structure of dimerised human PINK1 docked to an endogenous translocase array on the mitochondrial surface, composed of two TOM complexes, bridged by a VDAC2 dimer! Published today in Science www.science.org/doi/10.1126/...

@wehi-research.bsky.social @komanderlab.bsky.social

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Reposted by Shyamal

Alister Burt @alisterburt.bsky.social · Mar 7

“Thermo Fisher Scientific is hosting a webinar on securing capital equipment funding for new EM technology” - sophisticated public money extraction machine go brr

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Shyamal @shyamalm.bsky.social · Feb 25

Happy to share this work from my group on the endolysosomal/PM resident 2 pore potassium channel with roles in #inflammation

We determine the structure and show that it is pH independent, voltage-gated using high-throughout whole cell electrophysiology assay.

www.biorxiv.org/content/10.1...

www.biorxiv.org

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