DNA Topology Lab
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dnatopologylab.bsky.social
DNA Topology Lab
@dnatopologylab.bsky.social
DNA Topology Lab @ Department of Biochemistry
University of Oxford
"We adore chaos because we love to produce order." -M. C. Escher
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Put together by Simona Giunta, @tatsuofukagawa.bsky.social, @roneilllab.bsky.social and myself. Big thanks to all the authors who contributed to this collection!
link.springer.com/article/10.1...
40 years of CENP-A: the foundation of a new era of centromere biology - Chromosome Research
Chromosome Research -
link.springer.com
December 22, 2025 at 10:12 AM
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Very nice Preview by @bramkamplab.bsky.social on the SMC DNA loading paper by our @roisnehamelinf.bsky.social

"Weaving the loops of life: DNA loading by loop-extrusion machines in plasmid defense and genome organization"

Molecular Cell www.cell.com/molecular-ce...
November 6, 2025 at 6:41 PM
As always, bacteria light the path of discovery.
For the specialists: the motor units adopt a DNA-holding conformation, a proposed key state of the segment capture model
October 10, 2025 at 8:12 AM
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For the specialists: the motor units adopt a DNA-holding conformation, a proposed key state of the segment capture model
October 9, 2025 at 2:49 PM
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Great news for the Advanced Proteomics Facility based here in Biochemistry @ox.ac.uk ! The Wolfson Foundation is supporting the acquisition of a state-of-the-art mass spectrometer – the first of its kind in the UK – opening up possibilities for breakthroughs in human health ⬇️ bit.ly/202507-apf
£840,000 award from the Wolfson Foundation to enhance Oxford’s proteomics research
State-of-the-art mass spectrometer to be installed at the University’s Advanced Proteomics Facility (APF)
bit.ly
July 23, 2025 at 2:48 PM
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Very happy to share our protocols paper for CELLO-seq. This will make single cell long read RNA-seq more accessible and provides analysis guidelines. We hope this helps the #transposon #TEsky community and folks working on #singleCell isoform and allelic #gene expression. doi.org/10.1038/s415...
Long-read RNA sequencing of transposable elements from single cells using CELLO-seq - Nature Protocols
Single-cell long-read RNA sequencing enables the high-fidelity mapping of single-cell expression data from highly sequence-similar transposable elements to unique genomic loci by correcting errors fro...
doi.org
July 16, 2025 at 4:55 PM
The fact that we believe it is true inside us is an extrapolation that may or may not be true. We are trying to find ways to test if chromosomal DNAs do get trapped inside Cohesin rings
July 16, 2025 at 12:50 PM
Very spicy question indeed! All we can say are the following: we can detect sisterDNAs of 2.3 kb plasmids trapped inside Cohesin rings (we call them catenated diners CDs). Every mutation that we know affects cohesion of chromosomes also affects CDs. That is the limit of concrete evidence.
July 16, 2025 at 12:50 PM
Many congratulations Matt!
July 1, 2025 at 7:15 PM
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Honoured to be elected an EMBO member. Looking forward to being part of this wonderful organisation that does so much for European science. Also thanks to Kavli Oxford for always using a picture which makes me look 20 years young. I own you guys!
July 1, 2025 at 5:57 PM
Is that sarcasm?
May 7, 2025 at 9:04 PM
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Happy birthday, Dad. Time to come back now, it’s all gone a bit rubbish without you. ❤️❤️❤️
April 28, 2025 at 10:27 AM
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3rd edition of the fantastic UK DNA replication meeting is happening next September in Edinburgh. Don't miss out 🧬🏴󠁧󠁢󠁳󠁣󠁴󠁿

www.biochemistry.org/events-and-t...
UK DNA Replication Meeting 2026
Research in the DNA replication field is progressing at a remarkable rate. Technological innovations in biochemical reconstitution, structural biology, proteomics and DNA sequencing are helping to rap...
www.biochemistry.org
April 15, 2025 at 10:30 AM
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Fresh of the press! rdcu.be/egmY0 We discovered key chromatin modifications that are heritably maintained through mitotic cell divisions in the absence of continued transcription. These hold a memory of past exposure to interferon-gamma, priming cells for future activation of gene expression.
April 4, 2025 at 10:22 AM
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A few days left to apply for exciting PhD and Postdoc opportunities in wonderful Copenhagen and join our efforts in understanding Epigenetic Cell Memory.
🚨𝐌𝐚𝐣𝐨𝐫 𝐉𝐨𝐛 𝐀𝐥𝐞𝐫𝐭!🚨The Groth @groth-anja.bsky.social, Mailand, Nilsson @nilssonlab.bsky.social & Krietenstein @nilskrietenstein.bsky.social labs are hiring 𝟔 𝐏𝐡𝐃&𝐩𝐨𝐬𝐭𝐝𝐨𝐜𝐬 to join the new Center for Epigenetic Cell Memory (EpiC) in Copenhagen, Denmark. Apply here: tinyurl.com/yvd93na2 & please share!
6 Postdoctoral and PhD positions in Center for Epigenetic Cell Memory (EpiC)
The Center for Epigenetic Cell Memory (EpiC) is a new Center of Excellence that will be established based on funding by the Danish National Research Foundation.
tinyurl.com
March 28, 2025 at 3:51 PM
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March 18, 2025 at 8:15 AM
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Very pleased to share our new story on SMC complexes, a great team effort from @roisnehamelinf.bsky.social, @taschner.bsky.social in the GruberLab and James of @dnatopologylab.bsky.social We find that SMC hinge domains are ssDNA gates to facilitate obstacle bypass during DNA loop extrusion!
March 18, 2025 at 8:03 AM
The lab is on 🔥 Tour de force by Hon, Florian and Taschi! Bravo! Privileged to have played a tiny part in this amazing story!
Yet another preprint from the lab—this one is personal. During my PhD, I ended up working on the cohesin SMC hinge, showing its role in sister chromatid cohesion and proposing it as a DNA entry gate in the SMC ring. But the details have remained mysterious and controversial.
March 18, 2025 at 10:37 AM
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Glad to share the work of @yli18smc.bsky.social and co on Lamassu, a bacterial defense system related to Rad50/Mre11 (RM). While RM carefully trims DNA ends for repair, Lamassu chops up the host chromosome. Our study reveals how it is regulated to minimize damage, activating only during infection.
March 16, 2025 at 9:15 AM
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We are following up on one of these features in our next paper. Stay tuned! www.biorxiv.org/content/10.1...
Structure of a Type II SMC Wadjet Complex from Neobacillus vireti
Structural Maintenance of Chromosomes proteins are essential DNA-folding motors that facilitate critical cellular functions, including chromosome segregation and DNA repair. Wadjet systems are prokaryotic SMC complexes specialized in cellular immunity against plasmids. Type I Wadjet systems restrict plasmids via a DNA extrusion-cleavage reaction. Two other Wadjet types (II and III) have also been identified, however, their molecular characteristics are unclear. Here, we reconstituted a representative type II Wadjet system from Neobacillus vireti. We show that this system shares substrate selection and cleavage properties with type I but exhibits distinctive structural features, including a long elbow-distal coiled coil, a channel-less hinge, and a tandem KITE subunit. These features help identify the common and distinguishing architectural elements in the family of Wadjet systems and raise intriguing questions about the evolution of prokaryotic SMC complexes. ### Competing Interest Statement The authors have declared no competing interest.
www.biorxiv.org
March 11, 2025 at 9:22 AM
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Happy to share the beautiful structure of a Wadjet SMC complex by @roisnehamelinf.bsky.social, with support from the DCI and @drhonsworth.bsky.social ! This is a type II Wadjet with unique characteristics including a tandem KITE subunit, distinct coiled coil architecture and a deviant hinge.
March 11, 2025 at 9:22 AM
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A new PhD position is available in my lab to explore DNA replication mechanisms using single-molecule approaches. Apply by 19th of March:

www.crick.ac.uk/careers-stud...
Yardimci Lab | Single-molecule visualisation of the eukaryotic replication machinery
www.crick.ac.uk
March 4, 2025 at 11:39 AM
Fantastic opportunity to work with an amazing team in a world class setting. Apply!!
March 4, 2025 at 6:33 PM
Amazing opportunity. Peter is super cool. Apply!
Postdoc or PhD working on C. elegans? Interested in applying C. elegans techniques to understand the astonishing world of epigenetics in parasitic nematodes? Apply to our Wellcome Trust funded postdoc position, joint between my lab in Oxford and Mark Viney's in Liverpool:
tinyurl.com/5y6cpvcv
Job Specification
tinyurl.com
February 27, 2025 at 8:29 PM
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A brilliant, kind, funny colleague gone too soon. We will miss you Bela.
www.merton.ox.ac.uk/news/remembe...
Remembering Professor Béla Novák 1956 - 2025
With great sadness, we announce the loss of Professor Béla Novák.
www.merton.ox.ac.uk
February 25, 2025 at 4:41 PM