achilleskap.bsky.social
Achilles Kapanidis
@achilleskap.bsky.social
150 followers 83 following 10 posts
Professor of Biological Physics at Oxford.
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · 22d
What controls how/when growing RNA unblocks the "door" to exit RNA polymerase? Brilliant duo Anna Wang and Abhishek Majumder led a study in my lab - now out in NAR - on this. *Sequence* matters a lot! Read on... Super smFRET/dynamics work as well. Excited! academic.oup.com/nar/article/...
The displacement of the σ70 finger in initial transcription is highly heterogeneous and promoter-dependent
Abstract. Most bacterial sigma factors (σ) contain a highly conserved structural module, the ‘σ-finger’, which forms a loop that protrudes towards the RNA
academic.oup.com
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Jul 14
DNA (once more) lights the way! Very excited re the fluorogenic saga manuscript - big congrats to @mirjamku.bsky.social (tremendous effort!) for leading this and to all the team of contributors.
mirjamku.bsky.social
Mirjam Kümmerlin @mirjamku.bsky.social · Jul 9
💡 Final PhD paper in NAR: A toolbox for fluorogenic DNA probes aka molecular lightbulbs!
🧬 Flexible in sequence, length, dye
🔬 Single-molecule imaging at μM conc.
🏃‍♀️‍➡️ Speeds up DNA-PAINT superres
🌟 No special optics
📄 academic.oup.com/nar/article/...
@kavlioxford.bsky.social @achilleskap.bsky.social
Tunable fluorogenic DNA probes drive fast and high-resolution single-molecule fluorescence imaging
Abstract. A main limitation of single-molecule fluorescence (SMF) measurements is the ‘high concentration barrier’, describing the maximum concentration of
academic.oup.com
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Mar 6
A fantastic meeting, and this one looks even more special! Well done to Picoquant!
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Mar 6
The RNA helicase HrpA rescues collided ribosomes in E. coli: Molecular Cell www.cell.com/molecular-ce...
The RNA helicase HrpA rescues collided ribosomes in E. coli
Antibiotics that inhibit ribosomes lead to collisions on mRNAs when upstream ribosomes catch up with stalled ones. Campbell et al. show that the HrpA protein in E. coli senses ribosome collisions and ...
www.cell.com
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Mar 4
A wonderful meeting to share the latest developments on single-molecule research, network, and generate new ideas! Great invited speakers @sulianamanley.bsky.social @jungmannlab.bsky.social, David Rueda, Sebastian Diendl! Send us your Abstracts by *March 7th*!
lumicks.bsky.social
LUMICKS @lumicks.bsky.social · Feb 24
Following the great success of the 2024 event, @ox.ac.uk and LUMICKS proudly present the second UK-Ireland symposium focusing on single-molecule research!

The abstract deadline, 7 March, is approaching fast. Secure a talk or poster by registering now > bit.ly/4gYPPpQ
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Reposted by Achilles Kapanidis
lumicks.bsky.social
LUMICKS @lumicks.bsky.social · Feb 24
Following the great success of the 2024 event, @ox.ac.uk and LUMICKS proudly present the second UK-Ireland symposium focusing on single-molecule research!

The abstract deadline, 7 March, is approaching fast. Secure a talk or poster by registering now > bit.ly/4gYPPpQ
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Feb 28
So happy to see this AMR-related story from our 3-way collaboration!! Huge congrats to Alison + team, and thanks to @oxmartinschool.bsky.social for making it possible. Basic idea: deep "learning" ribosome distributions after antibiotic treatment rapidly classifies cells as resistant or not.
alisonefarrar.bsky.social
Alison Farrar @alisonefarrar.bsky.social · Feb 27
Our work on rapid detection of antibiotic resistant and susceptible cells using ribosome phenotypes is out today! We used fluorescent imaging and changes in bacterial structure to classify single cells with high accuracy.
@achilleskap.bsky.social @oxmartinschool.bsky.social doi.org/10.1038/s420...
Ribosome phenotypes for rapid classification of antibiotic-susceptible and resistant strains of Escherichia coli - Communications Biology
Ribosome-targeting FISH probes reveal intracellular changes in response to antibiotics that can be used to train neural networks to rapidly classify Escherichia coli from clinical isolates as antibiot...
doi.org
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Feb 28
Wonderful achievement for Nic - what an amazing journey during the past few years for him! Dr Shiaelis, congratulations! Looking fwd to lots of success and discoveries in the years to come... Congrats to @nicolerobb.bsky.social as well, and big thanks to the examiners.
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Feb 21
Fascinating...so much still to learn about bacterial mechanisms! Base-modified nucleotides mediate immune signaling in bacteria | Science www.science.org/doi/10.1126/...
Base-modified nucleotides mediate immune signaling in bacteria
Signaling from pathogen sensing to effector activation is a fundamental principle of cellular immunity. While cyclic (oligo)nucleotides have emerged as key signaling molecules, the existence of other ...
www.science.org
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Feb 18
Waiting for your abstracts by March 7! Join us with your recent stories for a "single-molecule festival" in mid-May... a lovely time to visit Oxford as well!
nynkedekkerlab.bsky.social
Nynke Dekker Lab @nynkedekkerlab.bsky.social · Feb 17
The UK&Ireland single-molecule meeting 2025 will be held in Oxford on May 14 and 15 - deadline for abstract submission March 7 - submit one and join us! Here is the link:
lumicks.com/uk-single-mo...
UK Single-molecule Meeting 2025 – LUMICKS
lumicks.com
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achilleskap.bsky.social
Achilles Kapanidis @achilleskap.bsky.social · Feb 17
First BlueSky post + a breath of fresh air! Excited about our preprint on the packaging + structure of viral RNA segments in influenza virions: doi.org/10.1101/2025.... A saga from amazing Christof and Qing, and a great collaboration with @nicolerobb.bsky.social and @efodor.bsky.social.
A DNA-PAINT protocol for the segment-specific detection of viral vRNPs. Virus particles are surface-immobilized, fixed, permeabilized and incubated with non-fluorescent barcoded probes, that bind to 20-50 different sequences on a viral RNA segment. All probes carry the same segment-specific oligonucleotide extension that is transiently bound by fluorescent imager strands. Several combinations of barcode extensions and imager strands can be used to sequentially to detect various gene segments in a single virus particle.
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