sofie.rec

𝗖𝘆𝗮𝗻𝗼𝘀 𝗶𝗻 𝘁𝗵𝗲 𝗙𝗮𝗿-𝗥𝗲𝗱 𝗟𝗶𝗴𝗵𝘁 𝗗𝗶𝘀𝘁𝗿𝗶𝗰𝘁 please read Sofie van Dorst's 10-part 🧵here on bluesky – or on Nov 02 in our blog: smallthingsconsidered.blog #MicroSky #ProtistsOnSky #teamtomo #CryoEM #CryoET

Congratulations to PhD superstar ⭐✨ @sofie-dot-rec.bsky.social for this monumental paper! Check out how she combined #cryoET and hyperspectral CLEM ❤️🧡💛💚🩵💙💜 to characterize how cyanobacteria adapt to Far-red light regime. I love the absolute chonkus complexes, and the phycobilisomes are def. bonkers!

Absolutely stunning work from @sofie-dot-rec.bsky.social, make sure to check the thread and the preprint! 🤩🦠🔬 #TeamTomo #CryoET #Photosynthesis #Cyanobacteria

Somewhere, over the rainbow 🌈 (at the @biozentrum.unibas.ch), Sofie & Wojciech discovered how special cyanobacteria adapt to far-red light 🚨 by completely remodeling their photosynthetic proteins and membranes 🌱. An exquisite #TeamTomo study that spans scales and introduces hyperspectral CLEM. 🌎🌊🌾🔬🧪

Very accessible thread describing incredible work revealing how evolution can shape the photosynthesis machinery to work where our assumptions said it couldn't 🧪 and the imaging here is WOW!!!!

As someone who spent many years purifying Phycocyanin, photosystem I & II for crystallography it’s SOO cool to see this system in its natural habitat! This is great work!

Great effort by @sofie-dot-rec.bsky.social to answer standing, and ask new questions about flexibility of photosynthesis. With a proper artistic touch! Happy to be part of it. Also thanks to Vera and Dennis for introducing us to those funky bugs.

Omg!!! I’m not a photosynthesis girl, but this has piqued 🏔️ my interest. Amazing use of CLEM and cryo-ET to link mol bio w environmental limitations 🔬🦠☀️

In their Cell Science at a Glance article and associated poster, @phaips.vd.st, Benjamin Engel @cellarchlab.com & @manondemulder.bsky.social highlight the current insights and future directions of pyrenoid and CO2-concentrating mechanism research. journals.biologists.com/jcs/article/...

Do you want to label the nuclear envelope? Do you work on a non-model species? Try Concanavalin A! We tested ConA on various species across the eukaryotic tree and find it is a very useful ExM-compatible marker for the NE and ER. Read all about it in our preprint: www.biorxiv.org/content/10.6...

📢 We’re hiring! Join Caitlyn McCafferty’s (@computingcaitie.bsky.social) new group as Lab Manager and help shape lab operations, develop protocols and support research on the structure and dynamics of motile cilia. Apply by October 9: www.fmi.ch/education-ca...

I am looking for a lab manager for my group that I will be starting at the @fmiscience.bsky.social in February! We will use in situ structural biology to investigate dynamic ciliary processes. More info here —> bsky.app/profile/comp... #cilia #teamtomo #proteomics #protistsky

The beauty of posting in @biorxivpreprint.bsky.social. This amazing tool was available for the community long before it showed up on a journal. I even forgot this publication was not "peer-reviewed", but it was definitively "community-reviewed". Kudos to @lorenzlamm.bsky.social and all the authors!

Some exciting news: I'm joining the University of Lausanne @unil.bsky.social @dbc-unil.bsky.social as an Assistant Professor next month 🎉 My group will work on context-aware deep learning for protein structure, interaction & design. Postdoc and PhD openings coming soon - keep an eye out!

Molecular architecture of colossal surface layers from hyperthermophilic archaea Led by @idocaspy.bsky.social (Ido) In collaboration with @mkrupovic.bsky.social and @vikramalva.bsky.social labs doi.org/10.64898/202...

Riboseek is a fast RNA/DNA search. More sensitive than nhmmer at 250x speed. Structure-aware realignment produces MSAs approaching rMSA quality. Plus 1.7M precomputed RNA MSAs, and an API to search your own 📄 www.biorxiv.org/content/10.6... 💾 github.com/steineggerla... 🌐 search.foldseek.com/riboseek

And 2 complementary 📜: 1️⃣ Cyanobacterial & vascular plant chlororibos🌿 (by @michaelwebster.bsky.social, with contrib from @sofie-dot-rec.bsky.social, @cellarchlab.com & I): biorxiv.org/content/10.64898/2026.07.03.736309v1 2️⃣ Marchantia chlororibos 🥬: biorxiv.org/content/10.64898/2026.07.14.738477v2

The artist formerly known as #thatmitoriboguy has now become #thatchlororiboguy Check out some cool tomo from @florentwaltz.bsky.social @phaips.vd.st

We’re delighted to welcome @computingcaitie.bsky.social to the FMI next year! Her work will bring an interdisciplinary perspective spanning structural biology, quantitative imaging and computational analysis to our institute, opening exciting new ways to study ciliary structure and dynamics.

New Assistant (tenure-track) or Associate Professor position in Climate #Biophysics! Join our international research community to explore fundamental molecular mechanisms underlying climate-relevant biological processes. Apply by 7 Sept 2026! www.biozentrum.unibas.ch/de/open-posi...

Super excited to launch this search for a new endowed professor at the @biozentrum.unibas.ch! Join us to build a research cluster in Climate Biophysics! 🌍🌊🌾🔬🧪 This is a unique opportunity to create a community in Basel🇨🇭working together on this timely topic! ⏳🌡️ Questions? Please reach out! 👩‍🔬👨‍🔬

Caitie’s a lion 💪♌️🦁🐥. Go work with her to do and learn cool stuff. I’d consider myself… but photosynthesis > cilia 😉@sofie-dot-rec.bsky.social . Congrats Caitie!

I will be hiring at all levels so if you are interested and want to learn more, please get in touch! 📻 ❄️ 🔬 🦠 🧬 #cilia #cryoet #proteomics #exm #protistsonsky

Soooo proud! I can't recommend Caitie enough as a scientist, mentor and overall amazing and creative person - go send in your applications if you love silly-ats (she also made all these awesome animations #ciliagirl )

“the best way to work with cryoET data is to engage with it directly, […] build familiarity with what is actually there. As tempting as it sometimes is to lean in to automation entirely, we cannot do visual proteomics by relying blindly on automation.” mgflast.github.io/easymode/use...

Postdoc opportunity at FMI + Novartis Biomedical Research 🧬 The Dahmane lab (FMI) & Farady lab (Novartis) are seeking a postdoctoral researcher to study how extracellular inflammasome particles propagate inflammation during neurotropic RNA virus infection. Apply by May 31: www.fmi.ch/education-ca...

The 14th International Conference for Plant Mitochondrial Biology😍🍜🍀 My first trip to Japan and my first presentation award! Many thanks to the organizers, my supervisor, @florentwaltz.bsky.social, and our wonderful collaborators! I was happy to present my work in beautiful Kagoshima🌋

Oxygen gradients reshape cross-feeding through emergent spatial organization of gut commensal bacteria www.biorxiv.org/content/10.6... Use of isotope labels and cryo-CLEM-FIB-SIMS to study microbial communities by Hannah Ochner. Collaboration with @kiranrpatil.bsky.social @jmghigolab.bsky.social

MissAlignment is out!!! Our new software that improves reference-free tilt series alignment by mimicking human intuition. Check out Dimitry's beautiful thread for a quick summary! And the preprint for more details: www.biorxiv.org/content/10.6... The program: github.com/warpem/miss-...

We're super excited to share MissAlignment: a new ML-based approach to reference-free tilt series alignment, spearheaded by @martenchaillet.bsky.social. We think it's going to make your cryo-ET life a lot better. Preprint: www.biorxiv.org/content/10.6... Code: github.com/warpem/miss-... 🧶 Thread:

1/ Excited to share our preprint! 🥳 Degradation of aromatic compounds, including BTEX pollutants, requires highly endergonic aromatic ring reduction. Using #cryoEM and in situ #cryoET, we show how BCRII couples electron bifurcation modules in one giant redox machine www.biorxiv.org/content/10.6...

It’s done!! Molecular architecture of the ciliary base in mammalian multiciliated cells! A study 13 years in the making 👴, thanks to collab with @stearnslab.bsky.social + @centriolelab.bsky.social & visionary work by @computingcaitie.bsky.social, who integrated native #cryoET with #XLMS & #UExM 🧪🧶🧬🔬

Crazy things have been happening in cilia world, catch up on them in Caitie's new paper! 🪱

To supplement our cryo-ET and generate candidates for proteins that localize to different ciliary regions, we took a trip to the local butcher to pick up some cow trachea to build a mammalian multiciliated cell interactome using XL/MS (enjoy this vid of @cellarchlab.com shaking cilia off trachea)

Not a nudi, but a sacoglossan sap-sucking sea slug, Elysia coodgeensis. 10/10 for alliteration, 12/10 for being tiny & stylish. The R package is just in need of some testing, and in the meantime, more palette-cards coming soon! 🎨 #MarineLife #invertebrates 🦑🐙🧪

New protein complex stoichiometry prediction tool from talent PhD student @daniil-litvinov.bsky.social, check out the thread below!

I'm excited to share *Stoic*, a method for fast and accurate protein complex stoichiometry prediction directly from sequence. Preprint: www.biorxiv.org/content/10.6... 🧵👇(1/10)

Exciting opportunity to work in a lab that’s pushing the boundaries of environmental sampling and work with an amazing scientist!!! 👩‍🔬🔬