Danielle Grotjahn

Ending the week on a high note in SLC with a visit to @uofubiochem.bsky.social after an inspiring M&M 2025 meeting!

It was officially released just today, so you’re only a few hours behind 🙂

Thanks to @baradlab.com for the many conversations about segmentation/morphometrics that helped shape this article and @attychang.bsky.social for help with figures.

Segmenting cryo-electron tomography data: Extracting models from cellular landscapes Cryo-electron tomography provides an unprecedented view of cellular architecture, yet extracting meaningful biological insights remains challenging. S…

I have lots of opinions—but for your sake, I’ve limited them to segmentation in cryo-ET for this article 😉
www.sciencedirect.com/science/arti...

#teamtomo

A practical look at cryo-electron tomography image processing: Key considerations for new biological discoveries Cryo-electron tomography (cryo-ET) enables 3D visualization of complex biological environments without the need for purification, thereby preserving t…

Happy to say that my Current Opinion in Structural Biology article came out today. I hope it helps to guide to you in using cryo-ET to make new biological discoveries!

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

Segmenting cryo-electron tomography data: Extracting models from cellular landscapes Cryo-electron tomography provides an unprecedented view of cellular architecture, yet extracting meaningful biological insights remains challenging. S…

At the risk of shameless self-promotion, I recently wrote a Current Opinion article on segmentation, where I briefly highlight denoising methods in the section “‘Perfecting’ imperfect data is the first step toward automated segmentation.” www.sciencedirect.com/science/arti...

Drug Repurposing Screen Identifies an HRI Activating Compound that Promotes Adaptive Mitochondrial Remodeling in MFN2-deficient Cells Pathogenic variants in the mitochondrial outer membrane GTPase MFN2 cause the peripheral neuropathy Charcot-Marie-Tooth Type 2A (CMT2A). These mutations disrupt MFN2-dependent regulation of diverse as...

New work from the lab (w/ @preronabora.bsky.social @mashiatzaman.bsky.social @mitomorph.bsky.social @nanigrotjahn.bsky.social) identifying a compound that activates OMA1-DELE1-HRI signaling to induce mitochondrial remodeling in MFN2-deficient cells. Check it out 👇
www.biorxiv.org/content/10.1...

Nobel laureate on how Trump's cuts are hurting science Neuroscientist, biologist and 2021 Nobel Prize winner Ardem Patapoutian joined Midday Edition to talk about how the Trump administration's effort to cut back on science spending is impacting researche...

I spoke with Jade Hindmon, host of @kpbssandiego.bsky.social Midday Edition, about the consequences of the current administration’s cuts to science funding. Please share to help spread the word and raise awareness.
www.kpbs.org/podcasts/kpb...

As we approach the week leading up to Juneteenth, it’s important to recognize the flag and symbols around the day, as well as taking the opportunity to renew the call for lineage-based reparations for not only chattel slavery, but the harms inflicted upon Black Americans post-emancipation.

higher res group pic 🤩

Lots of fans and supporters of @mmedina300kv.bsky.social! Grateful for the community that’s cheered her on every step of the way! @hamid13r.bsky.social @callmemich.bsky.social @attychang.bsky.social @daddea.bsky.social @nitishdua.bsky.social @reikawatanabe.bsky.social

It’s been a big week for the Grotjahn Lab—our very first graduate student, @mmedina300kv.bsky.social, successfully defended her PhD thesis! 🎉 So proud of everything she’s accomplished and grateful for the light she’s brought to our lab from day one ☀️⚡

Tying self-worth to academic success, only to ask years later, "who am I, really?"

Grateful @frezzalab.bsky.social took the time to capture this tension so beautifully in this article.

I also learned a lot from @landerlab.bsky.social about the figures-to-narrative process. I'm loving the rock and roll mechanism 🤘🎸🎶

So excited for this work to be out!! Thanks to @attychang.bsky.social, @hamid13r.bsky.social, blue sky less Daniel Fuentes, @nanigrotjahn.bsky.social and @tomo.science!!!

Thanks so much! We ❤️ #MemBrain! It is an awesome tool and a key part of our segmentation workflow. The membranes shown here are quantification-mapped surfaces from Surface Morphometrics, downstream of the MemBrain segmentations. I'm grateful for tools that integrate so well across pipelines!

thank you! Please reach out if you need help applying Surface morphometrics to your data--we're happy to help!

Grateful to keep collaborating with @tomo.science's new lab as we push the boundaries of what we can measure from cellular ultrastructure. A blue-torial breaking down how we quantify membrane thickness with Surface Morphometrics is coming soon—stay tuned! 👀

@mmedina300kv.bsky.social has been cooking up 👩‍🍳 several other cool #teamtomo stories. More preprints from her PhD dissertation dropping soon! 🎤

🚨New preprint!🚨 #teamtomo
We expanded Surface Morphometrics to quantify membrane thickness from cryo-ET—revealing local variation across organelles.

Led by the lab’s first grad student, @mmedina300kv.bsky.social (defending Monday! 🍾) w/ @attychang.bsky.social @hamid13r.bsky.social & @tomo.science

Feeling so honored and thrilled to see our work make it to the cover—what a milestone in my career! I can’t wait to receive the poster from JCB🤩

@jcb.org's April issue is here! rupress.org/jcb/issue/22...
The cover shows a segmented model of cytoplasmic #ribosomes associated with mitochondrial membrane in a Saccharomyces cerevisiae cell. From Ya-Ting Chang, @nanigrotjahn.bsky.social and colleagues (doi.org/10.1083/jcb....)

I know print journals aren't exactly on everyone's radar these days, but we’re still geeking out that our latest study—led by the brilliant @attychang.bsky.social—landed the cover of the April issue of JCB! 🤩

@zidlab.bsky.social @tomo.science @hamid13r.bsky.social

Cytoplasmic #ribosomes on #mitochondria alter the local membrane environment for protein import, say Ya-Ting Chang, Danielle Grotjahn (@nanigrotjahn.bsky.social) @scripps.edu and colleagues: rupress.org/jcb/article/...

#ProteinHomeostasis #Organelles #StructuralBiology #CryoET

Do you LOVE organelles??
Well I am THRILLED to announce that Nellie has been published in @naturemethods.bsky.social!

Nellie a fully automated pipeline for organelle segmentation, tracking, and hierarchical feature extraction in 2D, 3D, timelapse, multichannel live-cell microscopy

🧵1/N

Ya-Ting Chang, @nanigrotjahn.bsky.social et al. @scripps.edu present a membrane-guided approach for identifying a subset of cytoplasmic #ribosomes oriented for protein import on the surface of #mitochondria in budding yeast using #cryoET: rupress.org/jcb/article/...

Subtomogram Averaging of a mitochondrially co-translating ribosome

Happy to share that the final version of record for our (
@nanigrotjahn.bsky.social) #teamtomo mitochondrial cotranslation story is online at @jcb.org! We combined STA with surface morphometrics to learn how ribosomes bind to and alter mitochondrial membranes in yeast.

rupress.org/jcb/article/...

For #teamtomo, context is everything.

We highlight the power of #surfacemorphometrics in guiding STA and quantitatively assessing the impact of these structures on the local environment.

1st collab paper w/ @zidlab.bsky.social (hopefully many more to come!)

@tomo.science @hamid13r.bsky.social

Submit abstracts or 2-page papers to
www.abstractscorecard.com/cfp/submit/l...

🚨Members of #teamtomo!🚨

We invite you to submit abstracts to our ❄️🔬Cryo-electron Tomography: Progress and Potential session at Microscopy & Microanalysis (M&M) 2025!

sample prep, data processing, structural biology, cell biology —we want to hear from you!

DEADLINE: February 18

@tomo.science