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Johannes Pilic

@johannes-pilic.bsky.social
793 followers 1.5K following 22 posts

Postdoc at ETH Zurich in the Kleele lab. I'm interested in mitochondria, microscopy and systems biology.

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Reposted by Johannes Pilic
Harmit Singh Malik @harmitmalik.bsky.social · 09/07/2026
Coming late to this story: Suspecting AI cheating, Ivy League prof ordered an in-person final; scores fell 50% arstechnica.com/ai/2026/07/w...
arstechnica.com
Suspecting AI cheating, Ivy League prof ordered an in-person final; scores fell 50%
AI cheating leads to "a failed society," professor says.
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Reposted by Johannes Pilic
Daniel Gorelick @danielgorelick.bsky.social · 25/06/2026
Can I see the top 5%? 20%? Or just the top 1%?
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Oded Rechavi @odedrechavi.bsky.social · 24/06/2026
Gloves are off! TODAY WE RELEASE THE 1% A list of the year’s very best papers 👇 (see thread)
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Stu Cantrill @stuartcantrill.com · 17/06/2026
That's at least 2 journals I've now seen on social media celebrating their impact factor of 0.something... A good day to drag up this post: stuartcantrill.com/2016/01/23/i...
stuartcantrill.com
Imperfect impact
The problems with impact factors are well known – I could give you a long list of things to read that explain why, but just start with this blog post from Stephen Curry and go from there. I have a …
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Leonid Schneider @forbetterscience.bsky.social · 16/06/2026
The Misadventures of Luca and Bart forbetterscience.com/2026/06/16/t...
forbetterscience.com
The Misadventures of Luca and Bart
“this is all very time consuming and damaging. It starts to look like a witch hunt.”” – Bart De Strooper
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Journal of Cell Science @jcellsci.bsky.social · 15/05/2026
That’s a wrap for #JCSimaging, organised by @franbottanelli.bsky.social, @guijacquemet.bsky.social, @drmichaelway.bsky.social & Giulia Zanetti. Thanks to everyone who joined us and made the conference such a wonderful community event. journals.biologists.com/jcs
A large group of people standing on grass looking up to the photographer. At the top of the picture: Imaging Cell Dynamics 11-14 May 2026, Montanyà Hotel, Catalonia, Spain and the logo from Journal of Cell Science.
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Joachim Goedhart @joachimgoedhart.bsky.social · 24/04/2026
📣 New blog-post: box plots for low n is a bad idea. Here's why and a nice fix in R/ggplot2 when you have mixed numbers of observations: thenode.biologists.com/unboxing-dat...
A plot with four conditions, and only two box plots
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Reposted by Johannes Pilic
Juan C. Landoni @jclandoni.bsky.social · 03/04/2026
Our paper is now out in Science! Super excited to share our discovery that #mitochondria #pearling is the elusive mechanism driving the regular distribution and inheritance of #mtDNA nucleoids 🧬 [1/6]
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Reposted by Johannes Pilic
Joachim Goedhart @joachimgoedhart.bsky.social · 10/04/2026
serapH: a photostable pH biosensor based on mStayGold by Kelvin K. Tsao and team: www.biorxiv.org/content/10.6...
Spectral characterization of serapH1.0.
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Reposted by Johannes Pilic
Life Sciences Switzerland (LS2) @lifesciswitzerland.bsky.social · 19/02/2026
Young Scientists’ Satellite 2026 brought early-career researchers together for inspiring keynotes, cutting-edge talks, and lively discussions: annual-meeting.ls2.ch/2026/special... Grateful to our community and excited to reconvene next year in Lausanne! #LifeSciences #YSS2026 @scnat.ch
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Juan C. Landoni @jclandoni.bsky.social · 25/11/2025
It's not #FluorescenceFriday but unexpectedly beautiful data should always be celebrated 💚 #PKMO -stained #mitochondria cristae in #STED
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Joachim Goedhart @joachimgoedhart.bsky.social · 01/12/2025
FLASH-AWAY: Intrabody-Directed Targeting of Optogenetic Tools for Protein Degradation: pubs.acs.org/doi/10.1021/...
Cartoon with principle of Flash-away and images of cells
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Johannes Pilic @johannes-pilic.bsky.social · 29/10/2025
Systems biology view on mitochondrial dynamics, I like it 🤩
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Reposted by Johannes Pilic
Joachim Goedhart @joachimgoedhart.bsky.social · 14/07/2025
Beyond Static Screens: A High-Throughput Pooled Imaging CRISPR Platform for Dynamic Phenotype Discovery by Kees Jalink and team: www.biorxiv.org/content/10.1...
Fig. 4. Time-lapse FLIM analysis and hit detection Fiji macro. (A) Stitched multi-tile intensity image
overlay with the fluorescence lifetime image. The lifetime image can be either average photon arrival times
(‘Fast FLIM’) or calculated average lifetimes from two lifetime components. Ratiometric images can also
be used. Scale bar: 1000 μm. Inset: Left – Zoom-in of lifetime image of cells after stimulation with
isoproterenol; Right – Zoom-in showing cell segmentation as outlines. Scale bar: 100 μm. (B) Lifetime time
traces of all 298 segmented cells in a single tile of Cos7 cells (a mix of ADRB2 KO and WT cells). Cells are
stimulated with 40 nM isoproterenol (IsoP), followed by a calibration with forskolin (Forsk). Stimulation
and calibration time points may be automatically calculated from the average of all traces (thick black
line) or entered manually. (C) The script generates several informative visualizations. Shown are a
‘kymograph’ representation of fluorescence lifetime vs time in all cells, sorted on response magnitude (top-
left); a normalized data density graph (2D histogram of lifetime vs time, with cell counts in false color),
convenient when analysing thousands of cells (bottom); and (optionally animated) histograms of the
fluorescence lifetimes over time (middle) and scatterplots of lifetime vs secondary parameters like cell
intensity, cell area or intensity of an additional fluorescence channel of choice (top-right). (D) Hit selection
dialog showing various optional criteria. These can be used separately or combined, allowing to screen for
a large variety of dynamic phenotypes. (E) Based on the criteria, hit cells are determined and visualized
through a ‘hits only’ lifetime traces plot (left). Blue vertical lines indicate the chosen hit detection time
window. The hit cells are outlined with white lines on the lifetime-intensity overlay image (right). (F)
Additional visualizations of hit cells (left) and non-hit cells (right), in density graphs, resp…
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Reposted by Johannes Pilic
Neftaly Cruz Mireles @neftalycm.bsky.social · 01/06/2025
Hi everyone! I’m new to Bluesky. At the beginning of the year, I moved to Zurich @UZH_en to start a postdoc with #CyrilZipfel and @pedrobeltrao.bsky.social, investigating protein phosphorylation in plants 🌱 If you’re nearby or working on something similar, let’s connect 😀
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Reposted by Johannes Pilic
Euromit-2026 @euromit-2026.bsky.social · 03/02/2025
🌍Euromit 2026 is coming to Angers!🌍 ✨The international congress dedicated to mitochondrial research, will take place in France, at the Centre des Congrès of Angers. from May 31 to June 4, 2026! ✨ 📢 Stay informed by following this page and get ready for an exceptional scientific experience! 🚀🔬
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Johannes Pilic @johannes-pilic.bsky.social · 14/05/2025
Impairing mitochondrial fusion triggers a vicious cycle of unequal mitochondrial inheritance and failed mtDNA synthesis that rapidly depletes mtDNA: www.biorxiv.org/content/10.1...
biorxiv.org
When mitochondria fall apart: Unbalanced mitochondrial segregation triggers loss of mtDNA in the absence of mitochondrial fusion
Mitochondrial biogenesis and inheritance must be carefully regulated alongside cell division to ensure proper mitochondrial function and cell survival. The dynamics of the mitochondrial network, inclu...
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Johannes Pilic @johannes-pilic.bsky.social · 29/04/2025
Origin and evolution of mitochondrial inner membrane composition journals.biologists.com/jcs/article/...
journals.biologists.com
Origin and evolution of mitochondrial inner membrane composition
Summary: An examination of the morphological similarities between prokaryotic intracytoplasmic membranes and mitochondrial inner membranes, and whether cristae evolution has driven specialization of t...
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Reposted by Johannes Pilic
Christian Frezza @frezzalab.bsky.social · 29/04/2025
Intracellular metabolic gradients dictate dependence on exogenous pyruvate www.nature.com/articles/s42... Congrats to @lydiafinley.bsky.social Lab!
nature.com
Intracellular metabolic gradients dictate dependence on exogenous pyruvate - Nature Metabolism
Jackson et al. provide insight into how metabolic adaptations that accompany cell state transitions drive reliance on exogenous nutrient availability, focusing on pyruvate as a key metabolite in centr...
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Christian Frezza @frezzalab.bsky.social · 29/04/2025
Very cool work from the @katajistolab.bsky.social ! Congratulations to the team!
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Times Higher Education (THE) @timeshighered.bsky.social · 09/04/2025
Bluesky has overtaken its flailing rival X in hosting posts related to new academic research, indicating the platform is fast becoming the go-to place for scholars to share their work #AcademicSky #EduSky
timeshighereducation.com
X’s dominance ‘over’ as Bluesky becomes new hub for research
Data indicates more scholars turning to alternative social media site to post about their work after Elon Musk’s Twitter takeover
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Johannes Pilic @johannes-pilic.bsky.social · 24/03/2025
Preventing Multimer Formation in Commonly Used Synthetic Biology Plasmids | ACS Synthetic Biology pubs.acs.org/doi/full/10....
pubs.acs.org
Preventing Multimer Formation in Commonly Used Synthetic Biology Plasmids
Plasmids are an essential tool for basic research and biotechnology applications. To optimize plasmid-based circuits, it is crucial to control plasmid integrity, including the formation of plasmid mul...
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Reposted by Johannes Pilic
Kai Johnsson @kjohnsson.bsky.social · 07/02/2025
Check out our new fluorescent probe for imaging f-actin dynamics: 𝗦𝗶𝗥-𝗫𝗔𝗰𝘁𝗶𝗻: 𝗔 𝗳𝗹𝘂𝗼𝗿𝗲𝘀𝗰𝗲𝗻𝘁 𝗽𝗿𝗼𝗯𝗲 𝗳𝗼𝗿 𝗶𝗺𝗮𝗴𝗶𝗻𝗴 𝗮𝗰𝘁𝗶𝗻 𝗱𝘆𝗻𝗮𝗺𝗶𝗰𝘀 𝗶𝗻 𝗹𝗶𝘃𝗲 𝗰𝗲𝗹𝗹𝘀 www.biorxiv.org/content/10.1... Thank you @veselin-nasufovic.bsky.social
biorxiv.org
SiR-XActin: A fluorescent probe for imaging actin dynamics in live cells
Imaging actin-dependent processes in live cells is important for understanding numerous biological processes. However, currently used natural-product based fluorescent probes for actin filaments affec...
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Christian Frezza @frezzalab.bsky.social · 21/03/2025
In-cell architecture of the mitochondrial respiratory chain | Science www.science.org/doi/10.1126/...
science.org
In-cell architecture of the mitochondrial respiratory chain
Mitochondria regenerate adenosine triphosphate (ATP) through oxidative phosphorylation. This process is carried out by five membrane-bound complexes collectively known as the respiratory chain, workin...
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Reposted by Johannes Pilic
Uri Alon @urialonlab.bsky.social · 24/02/2025
Join us at the ICSB in Dublin this October - I will chair the session on aging systems biology icsb2025.com
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Johannes Pilic @johannes-pilic.bsky.social · 21/02/2025
Interesting preprint about ATP gradients within cells: www.biorxiv.org/content/10.1...
biorxiv.org
Estimating physical conditions supporting gradients of ATP concentration in the eukaryotic cell
The ATP molecule serves as an energy currency in eukaryotes (and all life), providing the energy needed for many essential cellular processes. But the extent to which substantial spatial differences e...
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Uri Alon @urialonlab.bsky.social · 04/02/2025
Why do cortisol-lowering drugs work for Cushing’s but fail in mood disorders & chronic stress? We propose that the ability of the pituitary and adrenal glands to adjust their functional masses—normally beneficial—counteracts the drug’s effect. Using a math. model, we screened HPA interventions (1/2)
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Joachim Goedhart @joachimgoedhart.bsky.social · 30/01/2025
Great to see the mTurquoise2 plasmids that we've generated used as markers of subcellular structures rupress.org/jcb/article/...
Subcellular localization of non-translating (free) RNAs and translation sites. (A) Schematic maps of the mTurquoise markers used to label different subcellular sites. (B) Representative images of the NIH3T3 GFP/RFP cells co-transfected with NV-MS2 and one of each mTurquoise plasmid labeling ER, Golgi, LE, Lyso, and PM. Images were acquired on an LSM980 confocal microscope. RNA is in red and subcellular locations in hot cyan. Single z-planes are presented, and scale bars are 10 and 2 µm for zoom insets. White arrows indicate NV RNA associated with the turquoise surfaces. (C) Representative images of cells co-expressing ΔNC and one of each mTurquoise plasmid. Translating and non-translating FL RNAs associated with the subcellular surfaces (hot cyan) are indicated by yellow and white arrows, respectively. Single z-planes are presented, and scale bars are 10 and 2 µm for zoom insets. In zoom insets, the letters T, R, G, and M denote turquoise, red, green, and merge, respectively.
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Pratik Kumar @dyechemist.bsky.social · 28/01/2025
🧵Prepint alert! Optimizing Multifunctional Fluorescent Ligands for Intracellular Labeling | tinyurl.com/3n55hvsc. With Jason Vevea, Ed Chapman, and @so-lets-kilab70.bsky.social, we combined dye chemistry, HaloTag, microscopy and cell biology to make protein purification and manipulation tools.
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Flo Camus @fcamus.bsky.social · 28/01/2025
Mito-friends: What conferences are we attending this year? I ask because there are no mito/cyto symposia at my usual conferences, and it would be great to catch up! 🔬🧪
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Viktoria Cologna @colognaviktoria.bsky.social · 20/01/2025
Our global study on the state of trust in scientists is now out in Nature Human Behaviour! 🥳 With a team of 241 researchers, we surveyed 71,922 people in 68 countries, providing the largest dataset on trust in scientists post-pandemic 👇🧵https://www.nature.com/articles/s41562-024-02090-5
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PLOS Biology @plosbiology.org · 16/01/2025
Pericentromeric #heterochromatin clusters into chromocenters. @skrutlnize.bsky.social &co use quantitative mass spec to characterize the chromocenter proteome in multiple tissues, identifying a link between satellite DNA-binding proteins & #transposon repression🧪 @plosbiology.org plos.io/4akuNAi
Loss of D1 during embryogenesis triggers transposon expression in adult ovaries. Top: Ovaries from the indicated genotypes (D1 and aubergine mutants and heterozygotes, F1 and F2) were stained with Vasa (green) and DAPI (magenta). Bottom: RNA in situ hybridization against Copia (green) and total polyadenylated mRNA (blue) was performed in ovaries of the indicated genotypes that were also stained for DAPI (magenta). Yellow and black arrowheads indicate undifferentiated germ cells in the aubergine mutant germarium.
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Johannes Pilic @johannes-pilic.bsky.social · 09/01/2025
FLIM imaging reveals IMM lipid heterogeneity in live cells. Find out more about this exciting tool: onlinelibrary.wiley.com/doi/10.1002/...
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Juan C. Landoni @jclandoni.bsky.social · 23/12/2024
Stoked to share TWO preprints on mitochondrial pearling! 🎉 We uncover how spontaneous #mitochondria pearling drives #mtDNA nucleoid distribution (doi.org/10.1101/2024...), and @gavsturm.bsky.social et al. dissect the biophysics behind it (doi.org/10.1101/2024...). Details below! 🔬🧵🧪
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Joachim Goedhart @joachimgoedhart.bsky.social · 25/11/2024
The dark side of fluorescent protein tagging: the impact of protein tags on biomolecular condensation www.biorxiv.org/content/10.1...
Figure 4. Position and type of fluorescent tag affect protein expression and P-body numbers in vivo.
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Joachim Goedhart @joachimgoedhart.bsky.social · 06/01/2025
A highly photostable monomeric red fluorescent protein www.researchsquare.com/article/rs-5...
Fig. 1 Photostable and fluorescence properties of mScarlet3-S2. a, b, Photostability of red emitting mScarlet variants expressed in live U-2 OS cells under continuous WF illumination at 1.9 W/cm2
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Johannes Pilic @johannes-pilic.bsky.social · 03/01/2025
Interesting article: rupress.org/jcb/article/...
rupress.org
Functionally conserved inner mitochondrial membrane proteins CCDC51 and Mdm33 demarcate a subset of fission events | Journal of Cell Biology | Rockefeller University Press
Edington et al. determine that Mdm33 and CCDC51 are functionally conserved mitochondrial inner membrane proteins that are required for normal mitochondrial
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Andy Moore @aaandmoore.bsky.social · 17/12/2024
Vimentin-mSG FRAP
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Lewis MacKenzie @lemackz.bsky.social · 17/12/2024
Struggling with proof-reading? A reminder that MS Word can read your document back to you via the 'read aloud' funciton found in the 'review' tab. An absolute game changer!
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Tina Perica @glukozica.bsky.social · 16/12/2024
Oh, Switzerland, you pretty.
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Johannes Pilic @johannes-pilic.bsky.social · 09/12/2024
Looks interesting: www.sciencedirect.com/science/arti...
sciencedirect.com
Reactive oxygen species control protein degradation at the mitochondrial import gate
While reactive oxygen species (ROS) have long been known to drive aging and neurodegeneration, their persistent depletion below basal levels also disr…
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Robert Arkowitz @robertarkowitz.bsky.social · 04/12/2024
prelights.biologists.com/prelists/nov...
prelights.biologists.com
November in preprints - the CellBio edition - preLights
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Christian Frezza @frezzalab.bsky.social · 03/12/2024
Tissue-specific adaptations to cytochrome c oxidase deficiency shape physiological outcomes 🧪 www.sciencedirect.com/science/arti... Congratulations to Milica Popovic and Lea Isermann from the Trifunovic lab for this nice work!
sciencedirect.com
Tissue-specific adaptations to cytochrome c oxidase deficiency shape physiological outcomes
It becomes increasingly clear that the tissue specificity of mitochondrial diseases might in part rely on their ability to compensate for mitochondria…
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Johannes Pilic @johannes-pilic.bsky.social · 02/12/2024
Very interesting approach to visualize proteins. www.nature.com/articles/s41...
nature.com
Designing artificial fluorescent proteins and biosensors by genetically encoding molecular rotor-based amino acids - Nature Chemistry
The toolbox of artificial fluorescent proteins can be expanded by engineering mimics of the molecular rotor-based fluorophore found in the green fluorescent protein (GFP) into diverse protein scaffold...
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Dylan Burnette @mag2art.bsky.social · 02/12/2024
Two cells photographed through a microscope. DNA in the nucleus and mitochondria in each cell are shown. #Science #Biology #CellBiology #microscopy
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Juan C. Landoni @jclandoni.bsky.social · 02/12/2024
#Pearling in physiological neuronal axons!! 🤩📿
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Alexandre Dumoulin @axonsalex.bsky.social · 20/11/2024
My turn to create a starter pack for scientists using live imaging in their research! Of course, I’ve likely missed many—please let me know who else I should include. Thanks! go.bsky.app/KYYr7xc #liveimaging #livevellimaging #microscopy
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Joanna Chustecki @chusteckisci.bsky.social · 15/11/2024
Hey blue skies- We have updated our latest #BioRxiv paper- We found that #mitochondria in #plants without mtDNA move and connect differently to those with mtDNA! Now featuring two different methods of measuring mtDNA and mitochondrial motility. Check it out: www.biorxiv.org/content/10.1...
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