sofie.rec
@sofie-dot-rec.bsky.social
Sofie van Dorst | PhD student @Biozentrum
looking at green bugs under the microscope #TeamTomo
looking at green bugs under the microscope #TeamTomo
Reposted by sofie.rec
Starting at 7pm Central I will be streaming from the bottom of the ocean off the coast of Uruguay!
Feel free to join and ask questions.
www.youtube.com/@SchmidtOcean
Feel free to join and ask questions.
www.youtube.com/@SchmidtOcean
Schmidt Ocean
Our Purpose: to excite interest and inform the wise stewardship of our planet.
Our Mission: Catalyze the discoveries needed to understand our ocean, sustain life, and ensure the health of our planet ...
www.youtube.com
November 14, 2025 at 7:39 PM
Starting at 7pm Central I will be streaming from the bottom of the ocean off the coast of Uruguay!
Feel free to join and ask questions.
www.youtube.com/@SchmidtOcean
Feel free to join and ask questions.
www.youtube.com/@SchmidtOcean
Reposted by sofie.rec
An Asgard archaeon with internal membrane compartments
Brilliant study led by @fmacleod.bsky.social and Andriko von Kügelgen. Tight collaboration with @buzzbaum.bsky.social and lab. Congrats to all authors!
www.biorxiv.org/content/10.1...
Brilliant study led by @fmacleod.bsky.social and Andriko von Kügelgen. Tight collaboration with @buzzbaum.bsky.social and lab. Congrats to all authors!
www.biorxiv.org/content/10.1...
November 7, 2025 at 10:44 AM
An Asgard archaeon with internal membrane compartments
Brilliant study led by @fmacleod.bsky.social and Andriko von Kügelgen. Tight collaboration with @buzzbaum.bsky.social and lab. Congrats to all authors!
www.biorxiv.org/content/10.1...
Brilliant study led by @fmacleod.bsky.social and Andriko von Kügelgen. Tight collaboration with @buzzbaum.bsky.social and lab. Congrats to all authors!
www.biorxiv.org/content/10.1...
Reposted by sofie.rec
Very happy that NWO supports this major upgrade of our national EM infrastructure. It is great that this initiative got broad support all over NL, and it will EMPower fantastic science - looking forward to that!
www.uu.nl/en/news/33-m...
www.uu.nl/en/news/33-m...
33 million euro investment for national electron microscope facility EMPower
A major new national facility for electron microscopy, called EMPower, has been awarded to a consortium of Dutch universities and medical centers. EMPower aims to pave the way for major discoveries im...
www.uu.nl
November 4, 2025 at 7:14 AM
Very happy that NWO supports this major upgrade of our national EM infrastructure. It is great that this initiative got broad support all over NL, and it will EMPower fantastic science - looking forward to that!
www.uu.nl/en/news/33-m...
www.uu.nl/en/news/33-m...
Reposted by sofie.rec
Thrilled, and admittedly relieved, to see this major investment in Dutch #cryoEM become reality! 🇳🇱🔬
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
33 million euro investment for national electron microscope facility EMPower
A major new national facility for electron microscopy, called EMPower, has been awarded to a consortium of Dutch universities and medical centers. EMPower aims to pave the way for major discoveries im...
www.uu.nl
November 3, 2025 at 4:47 PM
Thrilled, and admittedly relieved, to see this major investment in Dutch #cryoEM become reality! 🇳🇱🔬
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
Honoured to be a co-applicant on this national initiative and very excited for the opportunity to advance our work in cellular structural virology! 🦠
www.uu.nl/en/news/33-m...
Reposted by sofie.rec
We’re back with the next DinoSphere Online Seminar!
Join us on Nov 4th, we're hosting:
Edmée Royen (ULiège) - Symbiodinium
Nicolas dos Santos Pacheco (Cambridge) - Perkinsids
📅 Tue, Nov 4 - 4 PM CET/3 PM GMT
💻 Zoom link: sites.google.com/view/dinosphere
Please spread the word!
#protistonsky
Join us on Nov 4th, we're hosting:
Edmée Royen (ULiège) - Symbiodinium
Nicolas dos Santos Pacheco (Cambridge) - Perkinsids
📅 Tue, Nov 4 - 4 PM CET/3 PM GMT
💻 Zoom link: sites.google.com/view/dinosphere
Please spread the word!
#protistonsky
October 28, 2025 at 3:29 PM
We’re back with the next DinoSphere Online Seminar!
Join us on Nov 4th, we're hosting:
Edmée Royen (ULiège) - Symbiodinium
Nicolas dos Santos Pacheco (Cambridge) - Perkinsids
📅 Tue, Nov 4 - 4 PM CET/3 PM GMT
💻 Zoom link: sites.google.com/view/dinosphere
Please spread the word!
#protistonsky
Join us on Nov 4th, we're hosting:
Edmée Royen (ULiège) - Symbiodinium
Nicolas dos Santos Pacheco (Cambridge) - Perkinsids
📅 Tue, Nov 4 - 4 PM CET/3 PM GMT
💻 Zoom link: sites.google.com/view/dinosphere
Please spread the word!
#protistonsky
Reposted by sofie.rec
💡🔬 TECHNICAL INNOVATION 💡🔬
Neubauer et al. developed a Nostoc reporter strain enabling high-throughput quantitative monitoring of hormogonia differentiation in cyanobacteria as a response to biotic and abiotic factors.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪 @peterszovenyi.bsky.social
Neubauer et al. developed a Nostoc reporter strain enabling high-throughput quantitative monitoring of hormogonia differentiation in cyanobacteria as a response to biotic and abiotic factors.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪 @peterszovenyi.bsky.social
September 24, 2025 at 12:23 PM
💡🔬 TECHNICAL INNOVATION 💡🔬
Neubauer et al. developed a Nostoc reporter strain enabling high-throughput quantitative monitoring of hormogonia differentiation in cyanobacteria as a response to biotic and abiotic factors.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪 @peterszovenyi.bsky.social
Neubauer et al. developed a Nostoc reporter strain enabling high-throughput quantitative monitoring of hormogonia differentiation in cyanobacteria as a response to biotic and abiotic factors.
🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪 @peterszovenyi.bsky.social
🥨🔬!
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 🧬🧪
September 23, 2025 at 5:31 PM
🥨🔬!
Reposted by sofie.rec
🌱 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
buff.ly/j3TSIkn
September 20, 2025 at 1:59 PM
🌱 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
buff.ly/j3TSIkn
Reposted by sofie.rec
New short paper from our lab @currentbiology.bsky.social, in which we discover of a new mode of cell motility for choanoflagellates: flagellar gliding. www.cell.com/current-biol... - A 🧵
Flagellar gliding in choanoflagellates
Freire-Delgado and Brunet discover a new mode of cell motility in choanoflagellates,
the closest relatives of animals. Under mild confinement, choanoflagellate move over
surfaces without cell deformat...
www.cell.com
September 9, 2025 at 6:12 PM
New short paper from our lab @currentbiology.bsky.social, in which we discover of a new mode of cell motility for choanoflagellates: flagellar gliding. www.cell.com/current-biol... - A 🧵
Reposted by sofie.rec
A new #UExM probe for #Actin!
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Trouble imaging actin in ExM? Meet HAK-Actin, a probe for U-ExM, cryo-ExM & iU-ExM. Enables post-expansion labeling for max signal. www.biorxiv.org/content/10.1...
Soon at @spirochrome.com
Led by O.Mercey and @lreymond.bsky.social, in collab with @dudinlab.bsky.social and @marinelap.bsky.social
Soon at @spirochrome.com
Led by O.Mercey and @lreymond.bsky.social, in collab with @dudinlab.bsky.social and @marinelap.bsky.social
August 28, 2025 at 7:16 AM
A new #UExM probe for #Actin!
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Fun times thinking/developing/testing with @centriolelab.bsky.social & @lreymond.bsky.social !
Congrats to all !
If interested in #UExM, or #HAK-Actin, feel free to reach out !
Soon available at @spirochrome.com
#Expansion #Microscopy #ProtistsOnSky
Reposted by sofie.rec
Our new preprint with a new #Asgard from stromatolites (and its Desulfobacterota companion). Complete circularised genomes of both, cool #cryoem images, protein modelling, etc
Big group effort with a lot of people involved
#archaeasky #archaea
www.biorxiv.org/content/10.1...
Big group effort with a lot of people involved
#archaeasky #archaea
www.biorxiv.org/content/10.1...
An Asgard archaeon from a modern analog of ancient microbial mats
It has been proposed that eukaryotic cells evolved via symbiosis between sulfate-reducing bacteria and hydrogen-producing archaea. Here we describe a highly enriched culture of a novel Asgard archaeon...
www.biorxiv.org
July 23, 2025 at 8:48 AM
Our new preprint with a new #Asgard from stromatolites (and its Desulfobacterota companion). Complete circularised genomes of both, cool #cryoem images, protein modelling, etc
Big group effort with a lot of people involved
#archaeasky #archaea
www.biorxiv.org/content/10.1...
Big group effort with a lot of people involved
#archaeasky #archaea
www.biorxiv.org/content/10.1...
Reposted by sofie.rec
Please Re-Post. Our global GRUMP microbial ocean database is out in Scientific Data! Unfractionated, single universal PCR, with Archaea, Bacteria, and Eukaryotes all on the same scale with the same denominator. Pole to pole, depths to 6000m. Lots of metadata. www.nature.com/articles/s41...
Characterizing organisms from three domains of life with universal primers from throughout the global ocean - Scientific Data
Scientific Data - Characterizing organisms from three domains of life with universal primers from throughout the global ocean
www.nature.com
July 2, 2025 at 4:19 PM
Please Re-Post. Our global GRUMP microbial ocean database is out in Scientific Data! Unfractionated, single universal PCR, with Archaea, Bacteria, and Eukaryotes all on the same scale with the same denominator. Pole to pole, depths to 6000m. Lots of metadata. www.nature.com/articles/s41...
Reposted by sofie.rec
After 5 amazing years @pilhoferlab.bsky.social I'm starting my lab @embl.org Grenoble this November embl.org/wollweber
We'll image Asgard archaea and many other strange microbes ( #archaeasky, #protistsonsky..) to understand eukaryogenesis
First job ad: #teamtomo scientist!🔬❄️ tinyurl.com/2rdu2ze6
We'll image Asgard archaea and many other strange microbes ( #archaeasky, #protistsonsky..) to understand eukaryogenesis
First job ad: #teamtomo scientist!🔬❄️ tinyurl.com/2rdu2ze6
June 27, 2025 at 10:58 AM
After 5 amazing years @pilhoferlab.bsky.social I'm starting my lab @embl.org Grenoble this November embl.org/wollweber
We'll image Asgard archaea and many other strange microbes ( #archaeasky, #protistsonsky..) to understand eukaryogenesis
First job ad: #teamtomo scientist!🔬❄️ tinyurl.com/2rdu2ze6
We'll image Asgard archaea and many other strange microbes ( #archaeasky, #protistsonsky..) to understand eukaryogenesis
First job ad: #teamtomo scientist!🔬❄️ tinyurl.com/2rdu2ze6
Reposted by sofie.rec
Excited to share the lab's 1rst preprint! Rapid high-res immunofluorescence is now possible in cultured & environmental diatoms thanks to 4-fold expansion microscopy. A step-change for comparative cell biology in one of the most important phytoplankton groups on the planet 🥳
tinyurl.com/m9s5su7s 1/2
tinyurl.com/m9s5su7s 1/2
June 17, 2025 at 7:33 AM
Excited to share the lab's 1rst preprint! Rapid high-res immunofluorescence is now possible in cultured & environmental diatoms thanks to 4-fold expansion microscopy. A step-change for comparative cell biology in one of the most important phytoplankton groups on the planet 🥳
tinyurl.com/m9s5su7s 1/2
tinyurl.com/m9s5su7s 1/2
Reposted by sofie.rec
Final PhD paper now reviewed and published in JSB:X. I was happy with some great reviews that improved the paper! Thanks to Sander Roet for his help with the code base, and Remco Veltkamp and @fridof.bsky.social
pytom-match-pick: A tophat-transform constraint for automated classification in template matching pubmed.ncbi.nlm.nih.gov/40475324/ #cryoem
June 9, 2025 at 6:56 AM
Final PhD paper now reviewed and published in JSB:X. I was happy with some great reviews that improved the paper! Thanks to Sander Roet for his help with the code base, and Remco Veltkamp and @fridof.bsky.social
Are you a recent dinoflagellate convert, or already long dedicated to the craft? Don't you wish you could talk about them more?
Join Manon's DinoSphere seminar series! All things phylogeny, imaging, ultrastructure and more :)
#protistsonsky
Join Manon's DinoSphere seminar series! All things phylogeny, imaging, ultrastructure and more :)
#protistsonsky
We’re kicking off the DinoSphere Online Seminar Series! Join us for our first session with Karel Mockaer (Heidelberg) & Yong Heng Phua (OIST)
📅 1 July 9AM CEST
🔗 tinyurl.com/4mjaverj
Spread the word!
@protistwtmostest.bsky.social @ehehenberger.bsky.social @chandnibhickta.bsky.social&Norico Yamada
📅 1 July 9AM CEST
🔗 tinyurl.com/4mjaverj
Spread the word!
@protistwtmostest.bsky.social @ehehenberger.bsky.social @chandnibhickta.bsky.social&Norico Yamada
June 4, 2025 at 5:52 AM
Are you a recent dinoflagellate convert, or already long dedicated to the craft? Don't you wish you could talk about them more?
Join Manon's DinoSphere seminar series! All things phylogeny, imaging, ultrastructure and more :)
#protistsonsky
Join Manon's DinoSphere seminar series! All things phylogeny, imaging, ultrastructure and more :)
#protistsonsky
Reposted by sofie.rec
Unicore identifies single-copy protein structures across genomes using Foldseek, bypassing slow structure predictions by utilizing 3Di predictions from ProstT5, enabling rapid phylogenetic inference at the tree-of-life scale. 1/n
📄 www.biorxiv.org/content/10.1...
💾 github.com/steineggerla...
📄 www.biorxiv.org/content/10.1...
💾 github.com/steineggerla...
December 23, 2024 at 4:39 PM
Unicore identifies single-copy protein structures across genomes using Foldseek, bypassing slow structure predictions by utilizing 3Di predictions from ProstT5, enabling rapid phylogenetic inference at the tree-of-life scale. 1/n
📄 www.biorxiv.org/content/10.1...
💾 github.com/steineggerla...
📄 www.biorxiv.org/content/10.1...
💾 github.com/steineggerla...
Check out 'the website' by Phil&Flo - a tomo processing pipeline/tutorial from frame to structure. For easy implementation of the Aretomo3 to RELION5 pipeline, or your students first dataset, get processing!
May 6, 2025 at 10:10 PM
Check out 'the website' by Phil&Flo - a tomo processing pipeline/tutorial from frame to structure. For easy implementation of the Aretomo3 to RELION5 pipeline, or your students first dataset, get processing!
Reposted by sofie.rec
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 🔬🧪
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
May 6, 2025 at 4:27 PM
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 🔬🧪
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 🔬🧪
Reposted by sofie.rec
🦠🧠 MemBrain update! 🧠🦠
We’ve updated our preprint! It now covers the full MemBrain v2 pipeline for end-to-end membrane analysis in #CryoET: segmentation, particle picking, and spatial statistics.
🔗 Preprint: doi.org/10.1101/2024...
🔗 Code: github.com/CellArchLab/...
🧵(1/6) #TeamTomo
We’ve updated our preprint! It now covers the full MemBrain v2 pipeline for end-to-end membrane analysis in #CryoET: segmentation, particle picking, and spatial statistics.
🔗 Preprint: doi.org/10.1101/2024...
🔗 Code: github.com/CellArchLab/...
🧵(1/6) #TeamTomo
April 25, 2025 at 7:28 AM
🦠🧠 MemBrain update! 🧠🦠
We’ve updated our preprint! It now covers the full MemBrain v2 pipeline for end-to-end membrane analysis in #CryoET: segmentation, particle picking, and spatial statistics.
🔗 Preprint: doi.org/10.1101/2024...
🔗 Code: github.com/CellArchLab/...
🧵(1/6) #TeamTomo
We’ve updated our preprint! It now covers the full MemBrain v2 pipeline for end-to-end membrane analysis in #CryoET: segmentation, particle picking, and spatial statistics.
🔗 Preprint: doi.org/10.1101/2024...
🔗 Code: github.com/CellArchLab/...
🧵(1/6) #TeamTomo
Reposted by sofie.rec
Join us in Hamburg!
May 6: Advancing Correlative Light & cryo-EM: Bridging Molecular Precision & Tissue Architecture
Register: indico.desy.de/event/48246/
May 9: Beyond the Barrier: Advanced Microscopy of Pathogens in High-Biosafety-Containment Labs
Register: indico.desy.de/event/48139/...
May 6: Advancing Correlative Light & cryo-EM: Bridging Molecular Precision & Tissue Architecture
Register: indico.desy.de/event/48246/
May 9: Beyond the Barrier: Advanced Microscopy of Pathogens in High-Biosafety-Containment Labs
Register: indico.desy.de/event/48139/...
April 23, 2025 at 11:35 AM
Join us in Hamburg!
May 6: Advancing Correlative Light & cryo-EM: Bridging Molecular Precision & Tissue Architecture
Register: indico.desy.de/event/48246/
May 9: Beyond the Barrier: Advanced Microscopy of Pathogens in High-Biosafety-Containment Labs
Register: indico.desy.de/event/48139/...
May 6: Advancing Correlative Light & cryo-EM: Bridging Molecular Precision & Tissue Architecture
Register: indico.desy.de/event/48246/
May 9: Beyond the Barrier: Advanced Microscopy of Pathogens in High-Biosafety-Containment Labs
Register: indico.desy.de/event/48139/...
Reposted by sofie.rec
#weekendreading🔬📑
Tissue-like multicellular development triggered by mechanical compression in archaea
@science.org #microsky
www.science.org/doi/10.1126/...
Tissue-like multicellular development triggered by mechanical compression in archaea
@science.org #microsky
www.science.org/doi/10.1126/...
Tissue-like multicellular development triggered by mechanical compression in archaea
The advent of clonal multicellularity is a critical evolutionary milestone, seen often in eukaryotes, rarely in bacteria, and only once in archaea. We show that uniaxial compression induces clonal mul...
www.science.org
April 4, 2025 at 3:46 PM
#weekendreading🔬📑
Tissue-like multicellular development triggered by mechanical compression in archaea
@science.org #microsky
www.science.org/doi/10.1126/...
Tissue-like multicellular development triggered by mechanical compression in archaea
@science.org #microsky
www.science.org/doi/10.1126/...
Reposted by sofie.rec
Very Happy to finally see this story out.
I remember the first time @archaeon-alex.bsky.social showed me the videos maybe 3-4y ago on a Zoom call !
Mind blown then and still mind blown today.
A must read for all.
I remember the first time @archaeon-alex.bsky.social showed me the videos maybe 3-4y ago on a Zoom call !
Mind blown then and still mind blown today.
A must read for all.
Striking new study from @archaeon-alex.bsky.social's lab just out in @science.org on multicellular development induced by compression in Archaea: www.science.org/doi/10.1126/...
Tissue-like multicellular development triggered by mechanical compression in archaea
The advent of clonal multicellularity is a critical evolutionary milestone, seen often in eukaryotes, rarely in bacteria, and only once in archaea. We show that uniaxial compression induces clonal mul...
www.science.org
April 4, 2025 at 1:15 PM
Very Happy to finally see this story out.
I remember the first time @archaeon-alex.bsky.social showed me the videos maybe 3-4y ago on a Zoom call !
Mind blown then and still mind blown today.
A must read for all.
I remember the first time @archaeon-alex.bsky.social showed me the videos maybe 3-4y ago on a Zoom call !
Mind blown then and still mind blown today.
A must read for all.
Reposted by sofie.rec
#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 no-card-link" target="_blank" rel="noopener" data-link="bsky-mention">@florentwaltz.bsky.social report in <a href="https://bsky.app/profile/did:plc:vqgovau5gkirnk3ss5qwjdmz" class="hover:underline text-blue-600 dark:text-sky-400 no-card-link" target="_blank" rel="noopener" data-link="bsky-mention">@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
March 21, 2025 at 8:18 AM
#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 no-card-link" target="_blank" rel="noopener" data-link="bsky-mention">@florentwaltz.bsky.social report in <a href="https://bsky.app/profile/did:plc:vqgovau5gkirnk3ss5qwjdmz" class="hover:underline text-blue-600 dark:text-sky-400 no-card-link" target="_blank" rel="noopener" data-link="bsky-mention">@science.org that energy-producing proteins form supercomplexes, optimizing ATP production.