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Reposted by Ricardo D. Righetto

ilastik-team.bsky.social @ilastik-team.bsky.social · 21h

Segment large images without tiling artifacts: sharing our work that should have been presented at ICCV in 2 weeks - the brilliant first author Elena can’t go because of visa issues.
The paper: arxiv.org/abs/2503.19545 1/🧵

Large images have to be broken into tiles both for training and inference with neural networks. The tile predictions then need to be merged to produce the final volume prediction.

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Reposted by Ricardo D. Righetto

Ben Engel @cellarchlab.com · 12d

An interesting parallel: Rod outer-segment disk membranes are highly packed with a membrane protein (rhodopsin) 👁️, similar to the stacked domains of thylakoids (PSII-LHCII) 🌱. And isolation of disk membranes may cause rhodopsin to crystallize into 2D arrays 💠

www.nature.com/articles/421... 🧪 🧶🧬🌾🔬

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Reposted by Ricardo D. Righetto

Kenneth Ehses @denkenny.bsky.social · 1d

✨Excited that the main project of my PhD is now available as a pre-print on #bioRxiv

Here, we used #CryoET to visualise mitochondrial proteostatic stress and together with SPA #CryoEM shed light into the functional cycle of the Hsp60:10 chaperone system. #TeamTomo

🔗 www.biorxiv.org/content/10.1...

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Reposted by Ricardo D. Righetto

Pilhofer Lab 🦠❄️🔬 @pilhoferlab.bsky.social · 1d

🧐Checkout our preprint revealing the stepwise firing💥 mechanism of a Contractile Injection System @xujwet.bsky.social [email protected] trapped the complex by structure-guided engineering🧪 in multiple intermediate states and imaged them by multimodal #cryoEM❄️🔬
www.biorxiv.org/content/10.1...

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Reposted by Ricardo D. Righetto

Jonas S. Marques @jonassmarques.com · 1d

Microsoft anuncia integração do Copilot com o Copilot, colocando assim o Copilot dentro do Copilot. Segundo empresa, a ideia é que usuários do Copilot possam usar o Copilot com o Copilot dentro do Copilot.

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Reposted by Ricardo D. Righetto

The Daum Lab @daumlab.bsky.social · 3d

Out in Science Advances: Our #cryoEM structure of HFTV1, a virus infecting the halophile #archaea. *First full atomic structure (containing all structural proteins) of any tailed virus!* Congrats and thanks to all co-authors and our fantastic collaborators! www.science.org/doi/10.1126/...

Cryo-EM resolves the structure of the archaeal dsDNA virus HFTV1 from head to tail

This structure of an archaeal tailed virus (arTV) provides detailed insights into arTV assembly and infection mechanisms.

www.science.org

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Reposted by Ricardo D. Righetto

Merissa Huei-Hsuan Tsai @hueihsuantsai.bsky.social · 7d

Very excited to see our @nikogeldner.bsky.social lab x Feng Zhou lab work featured on the cover of Science!
(1/5) We reveal how root architecture and nutrient leakage shape spatial patterns of microbial colonization, moving beyond traditional models of uniform exudation.

Science Magazine @science.org · 7d

Using precise spatial and temporal analysis, researchers in Science provide insight into how bacteria around the root interact both with the plant and with each other.

Learn more in this week's issue: https://scim.ag/3WgNajk

A confocal microscopy image shows root-colonizing bacteria clustering around an emerging lateral root, where localized glutamine leakage induces spatially confined reporter activity.

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 12d

The case for studying proteins inside the cell 😉

#CryoET #TeamTomo

Ben Engel @cellarchlab.com · 14d

But there’s a curious loose end to this story. Scientists have been looking at PSII organization in thylakoids for over 50 years (including some really stunning freeze fracture 🔬😍). Sometimes PSII looks randomly oriented, and other times it forms extended 2D crystalline arrays in the membrane 💠

9/🧵

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Reposted by Ricardo D. Righetto

Ben Engel @cellarchlab.com · 14d

Time for a thread!🧵 How different is the molecular organization of thylakoids in “higher” plants🌱? To find out, we teamed up with @profmattjohnson.bsky.social to dive into spinach chloroplasts with #CryoET ❄️🔬. Curious? ..Read on!

#TeamTomo #PlantScience 🧪 🧶🧬 🌾
elifesciences.org/articles/105...
1/🧵

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 15d

Yes, cyano 🦠
Could be!?!?

Reposted by Ricardo D. Righetto

Ricardo D. Righetto @lifeonthewedge.bsky.social · 15d

real carboxysome with ribos, thylakoids and a mysterious triangle to scale 😉

(from @sofie-dot-rec.bsky.social)

Slice of a cryo-ET volume showing a carboxysome, thylakoid membranes, ribosomes and a mysterious triangular structure.

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 15d

real carboxysome with ribos, thylakoids and a mysterious triangle to scale 😉

(from @sofie-dot-rec.bsky.social)

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 15d

The CAGE is out of the... cage?

Caitie McCafferty @computingcaitie.bsky.social · 16d

I am excited to share our new preprint on the CAGE complex, a mysterious hollow protein complex that I first saw years ago while surveying Tetrahymena ciliary lysate www.biorxiv.org/content/10.1... #cilia #protistsonsky 🧬🧪

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 17d

I find it... compelling 😉

eLife @elife.bsky.social · 19d

🌱 Using ‘compelling’ methods, including #CryoET, researchers mapped spinach thylakoid membranes at single-molecule precision, revealing how photosynthetic complexes are organised and settling long-standing debates on chloroplast architecture.
buff.ly/j3TSIkn

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 21d

Life saver!

Ricardo D. Righetto @lifeonthewedge.bsky.social · 21d

and yes I had to look up the alphabet on wikipedia 🫣

Ricardo D. Righetto @lifeonthewedge.bsky.social · 21d

I never expected to write this line of code

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 21d

especially not at this hour

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 21d

I never expected to write this line of code

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 23d

Amazing work, Oli & team!

1. Have you tried perturbing the orientations (by different amounts) and seeing if the local refinement still converges?

2. Do you impose a hard resolution cutoff in refinement, and if not, wouldn't it make your FSC more reliable?

Congrats!

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Ricardo D. Righetto @lifeonthewedge.bsky.social · 23d

A protocol to solve ~30 kDA proteins by #cryoEM 🤩 - I love it!

Oli Clarke @olibclarke.bsky.social · 27d

This one is a bit of a departure from the usual and definitely a work in progress!

We found that by using ab initio reconstruction at very high res, in very small steps, we could crack some small structures that had eluded us - e.g. 39kDa iPKAc (EMPIAR-10252), below.

Read on for details... 1/x

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Reposted by Ricardo D. Righetto

Arjen Jakobi @cryotud.bsky.social · 25d

We finally wrote up the paper for LocScale-2.0.

edu.nl/pvhxv

Please try it out. LocScale is evolving & we are actively building in new features and improvements. Your feedback will help us shape the next steps.

Code: cryotud.github.io/locscale/

Work by @alok-bharadwaj.bsky.social and Reinier.

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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Ricardo D. Righetto @lifeonthewedge.bsky.social · 26d

A masterpiece

Filipe Campante @filipecampante.bsky.social · 28d

My opinion about the historic verdict coming out of Brazil, with @stevelevitsky.bsky.social, is in the @nytimes.com today.

www.nytimes.com/2025/09/12/o...

Opinion | Brazil Just Succeeded Where the U.S. Failed

www.nytimes.com

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Reposted by Ricardo D. Righetto

Derek Lowe @dereklowe.bsky.social · 28d

Life on Mars? The latest results and what to do about them:

Life, Maybe, On Mars, Unless We Change Our Minds

www.science.org

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Reposted by Ricardo D. Righetto

Thiago Carvalho @cyrilpedia.bsky.social · 27d

“The higher you go, the smaller the proportion of women relative to men,” she said in a 1970 Royal Institution discourse for which the recording has just been released. “This applies to all subjects, but especially to science.”

www.ft.com/content/96d5...

The crystallographer who solved a molecular mystery

A lecture by the pioneering scientist Kathleen Lonsdale has been chosen to celebrate the 200th anniversary of the Royal Institution’s discourses

www.ft.com

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Reposted by Ricardo D. Righetto

Fernando @punkbiology.bsky.social · 28d

Militares sendo condenados por tentativa de golpe num país da América Latina.

Não é pouca coisa.

E no dia em que lembramos do golpe militar patrocinado pelos EUA no Chile. Simbólico.

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