Jon Baxter
@drjonbaxter.bsky.social
Still thinking that DNA topology is the most interesting aspect of DNA metabolism.
ORCiD ID: https://orcid.org/0000-0002-4455-9717
ORCiD ID: https://orcid.org/0000-0002-4455-9717
Reposted by Jon Baxter
Single-molecule landscape of DNA replication pausing https://www.biorxiv.org/content/10.1101/2025.08.14.670160v1
August 15, 2025 at 3:34 AM
Single-molecule landscape of DNA replication pausing https://www.biorxiv.org/content/10.1101/2025.08.14.670160v1
Reposted by Jon Baxter
New topology Pre-print from: @alengronne.bsky.social
Condensin and topoisomerases cooperate to relieve topological stress at stalled replication forks:
biorxiv.org/content/earl...
Condensin and topoisomerases cooperate to relieve topological stress at stalled replication forks:
biorxiv.org/content/earl...
Condensin and topoisomerases cooperate to relieve topological stress at stalled replication forks
Resolving complex topological structures at replication forks is vital for successful DNA replication, but the mechanisms are little understood. Evidence from diverse eukaryotes suggests that condensi...
biorxiv.org
August 10, 2025 at 4:21 PM
New topology Pre-print from: @alengronne.bsky.social
Condensin and topoisomerases cooperate to relieve topological stress at stalled replication forks:
biorxiv.org/content/earl...
Condensin and topoisomerases cooperate to relieve topological stress at stalled replication forks:
biorxiv.org/content/earl...
Reposted by Jon Baxter
🧬 Check out our latest paper in the PRL: doi.org/10.1103/7fh5...
We use computer simulations and analytically solvable theory to study supercoiled DNA plasmids functionalized by pH-responsive groups. We show how charge annealing can reversibly switch the topological twist to writhe and vice versa.
We use computer simulations and analytically solvable theory to study supercoiled DNA plasmids functionalized by pH-responsive groups. We show how charge annealing can reversibly switch the topological twist to writhe and vice versa.
August 6, 2025 at 6:52 PM
🧬 Check out our latest paper in the PRL: doi.org/10.1103/7fh5...
We use computer simulations and analytically solvable theory to study supercoiled DNA plasmids functionalized by pH-responsive groups. We show how charge annealing can reversibly switch the topological twist to writhe and vice versa.
We use computer simulations and analytically solvable theory to study supercoiled DNA plasmids functionalized by pH-responsive groups. We show how charge annealing can reversibly switch the topological twist to writhe and vice versa.
Reposted by Jon Baxter
So utterly honoured to have been recruited, mentored and supported by this incredibly influential individual. Long may he happily retire. @gdsc-sussex.bsky.social
July 31, 2025 at 9:34 PM
So utterly honoured to have been recruited, mentored and supported by this incredibly influential individual. Long may he happily retire. @gdsc-sussex.bsky.social
Reposted by Jon Baxter
📢 New Postdoc opportunity
🧬🧪🩸 Excited to share an MRC funded Research Fellow position is available in my lab @gdsc-sussex.bsky.social to investigate novel approaches to disrupt the function of fusion kinases and their regulation by the HSP90 molecular chaperone system in leukaemia.
🧬🧪🩸 Excited to share an MRC funded Research Fellow position is available in my lab @gdsc-sussex.bsky.social to investigate novel approaches to disrupt the function of fusion kinases and their regulation by the HSP90 molecular chaperone system in leukaemia.
Research Fellow in Cancer Research at University of Sussex
An academic position as a Research Fellow in Cancer Research is being advertised on jobs.ac.uk. Click now to find more details and explore additional academic job opportunities.
www.jobs.ac.uk
July 17, 2025 at 5:11 PM
📢 New Postdoc opportunity
🧬🧪🩸 Excited to share an MRC funded Research Fellow position is available in my lab @gdsc-sussex.bsky.social to investigate novel approaches to disrupt the function of fusion kinases and their regulation by the HSP90 molecular chaperone system in leukaemia.
🧬🧪🩸 Excited to share an MRC funded Research Fellow position is available in my lab @gdsc-sussex.bsky.social to investigate novel approaches to disrupt the function of fusion kinases and their regulation by the HSP90 molecular chaperone system in leukaemia.
Reposted by Jon Baxter
Very exciting new technology manuscript from @alicepyne.bsky.social lab!
High-res AFM + AI pipeline quantifies complex DNA topology. t.co/qxD7o7ASl6
Very happy to contribute with @singlemoleculenev.bsky.social plasmids replicating past barriers in Xenopus egg extract.
Congratulation everyone!
High-res AFM + AI pipeline quantifies complex DNA topology. t.co/qxD7o7ASl6
Very happy to contribute with @singlemoleculenev.bsky.social plasmids replicating past barriers in Xenopus egg extract.
Congratulation everyone!
https://doi.org/10.1038/s41467-025-60559-x
t.co
July 11, 2025 at 12:18 PM
Very exciting new technology manuscript from @alicepyne.bsky.social lab!
High-res AFM + AI pipeline quantifies complex DNA topology. t.co/qxD7o7ASl6
Very happy to contribute with @singlemoleculenev.bsky.social plasmids replicating past barriers in Xenopus egg extract.
Congratulation everyone!
High-res AFM + AI pipeline quantifies complex DNA topology. t.co/qxD7o7ASl6
Very happy to contribute with @singlemoleculenev.bsky.social plasmids replicating past barriers in Xenopus egg extract.
Congratulation everyone!
Reposted by Jon Baxter
TrAEL-seq captures DNA replication dynamics in mammalian cells https://www.biorxiv.org/content/10.1101/2025.06.09.658559v1
June 11, 2025 at 2:19 PM
TrAEL-seq captures DNA replication dynamics in mammalian cells https://www.biorxiv.org/content/10.1101/2025.06.09.658559v1
Reposted by Jon Baxter
Our newest paper on mitochondrial Topoisomerase 1 shows that Top1mt has only weak endoribonuclease activity and it therefore does not often generate deletions at incorporated ribonucleotides. This helps explain why ribonucleotides are tolerated in mtDNA. Read more:
academic.oup.com/nar/article-...
academic.oup.com/nar/article-...
The low endoribonuclease activity and lack of rNMP preference of human mitochondrial topoisomerase 1 protect against ribonucleotide-dependent deletions
Abstract. The incorporation of ribonucleotides (rNMPs) into the nuclear genome leads to severe genomic instability, including strand breaks and short 2–5 b
academic.oup.com
June 8, 2025 at 11:31 AM
Our newest paper on mitochondrial Topoisomerase 1 shows that Top1mt has only weak endoribonuclease activity and it therefore does not often generate deletions at incorporated ribonucleotides. This helps explain why ribonucleotides are tolerated in mtDNA. Read more:
academic.oup.com/nar/article-...
academic.oup.com/nar/article-...
Reposted by Jon Baxter
New paper! Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones
genomebiology.biomedcentral.com/articles/10....
Identifying human DNA replication initiation sites on single molecules by @nanoporetech.com 1/7
genomebiology.biomedcentral.com/articles/10....
Identifying human DNA replication initiation sites on single molecules by @nanoporetech.com 1/7
Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones - Genome Biology
Background The identification of sites of DNA replication initiation in mammalian cells has been challenging. Here, we present unbiased detection of replication initiation events in human cells using ...
genomebiology.biomedcentral.com
May 12, 2025 at 10:35 AM
New paper! Most human DNA replication initiation is dispersed throughout the genome with only a minority within previously identified initiation zones
genomebiology.biomedcentral.com/articles/10....
Identifying human DNA replication initiation sites on single molecules by @nanoporetech.com 1/7
genomebiology.biomedcentral.com/articles/10....
Identifying human DNA replication initiation sites on single molecules by @nanoporetech.com 1/7
Reposted by Jon Baxter
Earnshaw, Goloborodko, Dekker & Mirny labs are excited to present our latest work, "Rules of engagement for condensins and cohesins guide mitotic chromosome formation" - now accepted!!
www.science.org/doi/10.1126/...
A short clip describing the key results:
www.youtube.com/watch?v=pmvO...
www.science.org/doi/10.1126/...
A short clip describing the key results:
www.youtube.com/watch?v=pmvO...
Rules of Engagement
YouTube video by Johan Gibcus
www.youtube.com
April 11, 2025 at 7:45 AM
Earnshaw, Goloborodko, Dekker & Mirny labs are excited to present our latest work, "Rules of engagement for condensins and cohesins guide mitotic chromosome formation" - now accepted!!
www.science.org/doi/10.1126/...
A short clip describing the key results:
www.youtube.com/watch?v=pmvO...
www.science.org/doi/10.1126/...
A short clip describing the key results:
www.youtube.com/watch?v=pmvO...
Reposted by Jon Baxter
🚀 Happy to see our new paper in #NAR @narjournal.bsky.social ! 📜🔬 During my postdoc at @irbbarcelona.org , we systematically studied hybrid triplex topology and stability, suggesting a general triplex-mediated regulatory mechanism. 🧬✨ #TriplexDNA #GeneRegulation academic.oup.com/nar/article/...
Systematic study of hybrid triplex topology and stability suggests a general triplex-mediated regulatory mechanism
Abstract. By combining in silico, biophysical, and in vitro experiments, we decipher the topology, physical, and potential biological properties of hybrid-
academic.oup.com
March 13, 2025 at 9:20 AM
🚀 Happy to see our new paper in #NAR @narjournal.bsky.social ! 📜🔬 During my postdoc at @irbbarcelona.org , we systematically studied hybrid triplex topology and stability, suggesting a general triplex-mediated regulatory mechanism. 🧬✨ #TriplexDNA #GeneRegulation academic.oup.com/nar/article/...
Reposted by Jon Baxter
How do replisomes walk on DNA? And what happens when they run into a G-quadruplex? @sahilbatra.bsky.social and @benallwein.bsky.social provide unexpected insight in our latest paper with Richard Hite @mskcancercenter.bsky.social @science.org www.science.org/doi/10.1126/.... Congrats to all authors!
G-quadruplex–stalled eukaryotic replisome structure reveals helical inchworm DNA translocation
DNA G-quadruplexes (G4s) are non–B-form DNA secondary structures that threaten genome stability by impeding DNA replication. To elucidate how G4s induce replication fork arrest, we characterized fork ...
www.science.org
March 6, 2025 at 9:30 PM
How do replisomes walk on DNA? And what happens when they run into a G-quadruplex? @sahilbatra.bsky.social and @benallwein.bsky.social provide unexpected insight in our latest paper with Richard Hite @mskcancercenter.bsky.social @science.org www.science.org/doi/10.1126/.... Congrats to all authors!
Reposted by Jon Baxter
Dear all,
Postdoc positions are available to work on (1) the role of DNA strand break repair proteins during DNA replication and (2) the molecular/structural biology of XRCC1 protein complexes, as part of our work on genetic diseases & cancer. Contact me if interested: k.w.caldecott@sussex.ac.uk
Postdoc positions are available to work on (1) the role of DNA strand break repair proteins during DNA replication and (2) the molecular/structural biology of XRCC1 protein complexes, as part of our work on genetic diseases & cancer. Contact me if interested: k.w.caldecott@sussex.ac.uk
February 10, 2025 at 2:45 PM
Dear all,
Postdoc positions are available to work on (1) the role of DNA strand break repair proteins during DNA replication and (2) the molecular/structural biology of XRCC1 protein complexes, as part of our work on genetic diseases & cancer. Contact me if interested: k.w.caldecott@sussex.ac.uk
Postdoc positions are available to work on (1) the role of DNA strand break repair proteins during DNA replication and (2) the molecular/structural biology of XRCC1 protein complexes, as part of our work on genetic diseases & cancer. Contact me if interested: k.w.caldecott@sussex.ac.uk
Reposted by Jon Baxter
I have a funded PhD position in my lab in @gdsc-sussex.bsky.social (UK fees only).
This is an exciting new project using structural biology to investigate proteins involved in ovarian cancer, with opportunities for drug discovery and collaborations with clinicians. Application link below.
This is an exciting new project using structural biology to investigate proteins involved in ovarian cancer, with opportunities for drug discovery and collaborations with clinicians. Application link below.
Life Sciences PhD Genome Stability - Molecular basis for DNA damage checkpoint termination : University of Sussex
www.sussex.ac.uk
February 11, 2025 at 9:57 AM
I have a funded PhD position in my lab in @gdsc-sussex.bsky.social (UK fees only).
This is an exciting new project using structural biology to investigate proteins involved in ovarian cancer, with opportunities for drug discovery and collaborations with clinicians. Application link below.
This is an exciting new project using structural biology to investigate proteins involved in ovarian cancer, with opportunities for drug discovery and collaborations with clinicians. Application link below.
Reposted by Jon Baxter
New Review: DNA topoisomerase in Archaea; from Paul Villain and Tamara Basta...featured in a forthcoming special issue on Prokaryotic Chromosome Organization!
#MicroSky
onlinelibrary.wiley.com/doi/10.1111/...
#MicroSky
onlinelibrary.wiley.com/doi/10.1111/...
Regulation of DNA Topology in Archaea: State of the Art and Perspectives
DNA topoisomerases are ubiquitous enzymes that play a crucial role in regulating DNA supercoiling which affects fundamental biological processes involving DNA. In this review, we summarize the curren...
onlinelibrary.wiley.com
February 4, 2025 at 1:27 PM
New Review: DNA topoisomerase in Archaea; from Paul Villain and Tamara Basta...featured in a forthcoming special issue on Prokaryotic Chromosome Organization!
#MicroSky
onlinelibrary.wiley.com/doi/10.1111/...
#MicroSky
onlinelibrary.wiley.com/doi/10.1111/...
EMBO Workshop –
DNA topology and topoisomerases in genome dynamics.
15-19 September 2025 Szklarska Poręba, Poland
REGISTRATION NOW OPEN
Interested in attending? Visit the website:
meetings.embo.org/event/25-dna...
Register by: 15 March 2025
DNA topology and topoisomerases in genome dynamics.
15-19 September 2025 Szklarska Poręba, Poland
REGISTRATION NOW OPEN
Interested in attending? Visit the website:
meetings.embo.org/event/25-dna...
Register by: 15 March 2025
DNA topology and topoisomerases in genome dynamics
Topoisomerases are crucial enzymes that ensure genome stability and cell survival. Although topoisomerases were discovered 50 years ago and their impact on DNA supercoiling has been studied since the…
meetings.embo.org
January 31, 2025 at 7:47 PM
EMBO Workshop –
DNA topology and topoisomerases in genome dynamics.
15-19 September 2025 Szklarska Poręba, Poland
REGISTRATION NOW OPEN
Interested in attending? Visit the website:
meetings.embo.org/event/25-dna...
Register by: 15 March 2025
DNA topology and topoisomerases in genome dynamics.
15-19 September 2025 Szklarska Poręba, Poland
REGISTRATION NOW OPEN
Interested in attending? Visit the website:
meetings.embo.org/event/25-dna...
Register by: 15 March 2025
Reposted by Jon Baxter
If you're interested in chromosome biology (DNA folding, gene regulation, replication, polymer modelling and more) we're organising the below this autumn. It'd be great to see you there. Please share if you can. :-)
January 21, 2025 at 7:49 PM
If you're interested in chromosome biology (DNA folding, gene regulation, replication, polymer modelling and more) we're organising the below this autumn. It'd be great to see you there. Please share if you can. :-)
Reposted by Jon Baxter
DNA supercoiling modulates eukaryotic transcription in a gene-orientation dependent manner https://www.biorxiv.org/content/10.1101/2025.01.03.631213v1
January 3, 2025 at 8:19 PM
DNA supercoiling modulates eukaryotic transcription in a gene-orientation dependent manner https://www.biorxiv.org/content/10.1101/2025.01.03.631213v1
Reposted by Jon Baxter
I guess I told you about the fact that SMC proteins like cohesin and condensin are a novel class of molecular motors that make loops into DNA (something we visualized first in 2018). These DNA loops are the fundamental motif that organize our chromosomes.
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December 13, 2024 at 7:12 PM
I guess I told you about the fact that SMC proteins like cohesin and condensin are a novel class of molecular motors that make loops into DNA (something we visualized first in 2018). These DNA loops are the fundamental motif that organize our chromosomes.
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Reposted by Jon Baxter
The one time @theguardian.com could rightly use a left-handed DNA image... and they choose right-handed 🤦🏻♂️🤦🏻♂️🤦🏻♂️
@iansample.bsky.social
@iansample.bsky.social
December 13, 2024 at 8:18 AM
The one time @theguardian.com could rightly use a left-handed DNA image... and they choose right-handed 🤦🏻♂️🤦🏻♂️🤦🏻♂️
@iansample.bsky.social
@iansample.bsky.social
Reposted by Jon Baxter
Latest #CDlab paper in Nucleic Acid Research:
academic.oup.com/nar/article/...
Great work by Alejandro Martin-Gonzalez,
@tismaa.bsky.social ea collaboring with @gruberlab.bsky.social, showing the interplay of DNA supercoiling & ParB condensation, 2 processes that set bacterial genome organization.
academic.oup.com/nar/article/...
Great work by Alejandro Martin-Gonzalez,
@tismaa.bsky.social ea collaboring with @gruberlab.bsky.social, showing the interplay of DNA supercoiling & ParB condensation, 2 processes that set bacterial genome organization.
November 27, 2024 at 6:50 PM
Latest #CDlab paper in Nucleic Acid Research:
academic.oup.com/nar/article/...
Great work by Alejandro Martin-Gonzalez,
@tismaa.bsky.social ea collaboring with @gruberlab.bsky.social, showing the interplay of DNA supercoiling & ParB condensation, 2 processes that set bacterial genome organization.
academic.oup.com/nar/article/...
Great work by Alejandro Martin-Gonzalez,
@tismaa.bsky.social ea collaboring with @gruberlab.bsky.social, showing the interplay of DNA supercoiling & ParB condensation, 2 processes that set bacterial genome organization.
Reposted by Jon Baxter
We’ve been using phase lock tubes to streamline phenol-chloroform extractions. Unfortunately they’ve been discontinued everywhere we’ve looked. We recently tried Molykote (vacuum grease with intermediate density compared to aqueous and organic phases) with great results. Also much cheaper.
November 23, 2024 at 10:47 PM
We’ve been using phase lock tubes to streamline phenol-chloroform extractions. Unfortunately they’ve been discontinued everywhere we’ve looked. We recently tried Molykote (vacuum grease with intermediate density compared to aqueous and organic phases) with great results. Also much cheaper.
Reposted by Jon Baxter
#Chromothripsis leads to the acquisition of multiple genomic aberrations.
Now out in Nat Rev Cancer:
1) A #Review from Simovic-Lorenz & Aurelie Ernst, @dkfz.bsky.social, covering mechanistic models of chromothripsis & its role in cancer and progression.
👉 bit.ly/4fy8pFo
Now out in Nat Rev Cancer:
1) A #Review from Simovic-Lorenz & Aurelie Ernst, @dkfz.bsky.social, covering mechanistic models of chromothripsis & its role in cancer and progression.
👉 bit.ly/4fy8pFo
November 21, 2024 at 11:14 AM
#Chromothripsis leads to the acquisition of multiple genomic aberrations.
Now out in Nat Rev Cancer:
1) A #Review from Simovic-Lorenz & Aurelie Ernst, @dkfz.bsky.social, covering mechanistic models of chromothripsis & its role in cancer and progression.
👉 bit.ly/4fy8pFo
Now out in Nat Rev Cancer:
1) A #Review from Simovic-Lorenz & Aurelie Ernst, @dkfz.bsky.social, covering mechanistic models of chromothripsis & its role in cancer and progression.
👉 bit.ly/4fy8pFo
Reposted by Jon Baxter
