Miguel Ramirez-Otero
@mckrzo.bsky.social
Postdoc in M. Pagano Lab at NYU | PhD with V. Costanzo at IFOM/SEMM/UniMi | DNA replication stress & DNA repair aficionado
Pinned
Miguel Ramirez-Otero
@mckrzo.bsky.social
· Nov 18
RAD51 protects abasic sites to prevent replication fork breakage
Hanthi et al. found that RAD51 recognizes and binds to abasic sites. Together with
BRCA2, RAD51 prevents the accumulation of abasic site-induced replicative DNA gaps
(caused by DNA methylation, oxidat...
www.cell.com
Reposted by Miguel Ramirez-Otero
New York millionaires: threatening to flee the city since 2009
November 7, 2025 at 9:36 PM
New York millionaires: threatening to flee the city since 2009
Reposted by Miguel Ramirez-Otero
Joe Rogan spent a whole podcast episode spouting climate misinformation. @dananuccitelli.bsky.social broke down the tactics Rogan and other climate deniers use so you can call them out when you hear them.
Five ways Joe Rogan misleads listeners about climate change » Yale Climate Connections
Rogan exposes millions to climate denial. Let’s break down his tactics.
yaleclimateconnections.org
November 7, 2025 at 3:51 PM
Joe Rogan spent a whole podcast episode spouting climate misinformation. @dananuccitelli.bsky.social broke down the tactics Rogan and other climate deniers use so you can call them out when you hear them.
Reposted by Miguel Ramirez-Otero
Reposted by Miguel Ramirez-Otero
Want to know how homologous recombination defects are caused upon loss of BRCA2? Check out our recent efforts in uncovering this phenomenon just out in Science!
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
FIGNL1 inhibits homologous recombination in BRCA2 deficient cells by dissociating RAD51 filaments
Homologous recombination (HR) deficiency upon Breast Cancer Gene 2 (BRCA2) loss arises from defects in the formation of RAD51 nucleoprotein filaments. We demonstrate that loss of the anti-recombinase ...
www.science.org
October 30, 2025 at 9:52 PM
Want to know how homologous recombination defects are caused upon loss of BRCA2? Check out our recent efforts in uncovering this phenomenon just out in Science!
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Reposted by Miguel Ramirez-Otero
See our paper “Mechanism of trinucleotide repeat expansion by MutSβ-MutLγ and contraction by FAN1”. Using biochemistry, we show how DNA incisions by the MutLγ nuclease can lead to expansions, and how expansion is prevented by FAN1. Well done Issam and Valentina!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
October 27, 2025 at 1:12 PM
See our paper “Mechanism of trinucleotide repeat expansion by MutSβ-MutLγ and contraction by FAN1”. Using biochemistry, we show how DNA incisions by the MutLγ nuclease can lead to expansions, and how expansion is prevented by FAN1. Well done Issam and Valentina!
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Reposted by Miguel Ramirez-Otero
Spotify is running ICE ads. I went to cancel on mobile and saw that this isn’t allowed on mobile. They make you cancel on desktop. You think that’s gonna stop me, Spotify? I will erase you and forget you ever existed.
THOU SHALT CANCEL SPOTIFY!!!
THOU SHALT CANCEL SPOTIFY!!!
October 19, 2025 at 5:03 PM
Spotify is running ICE ads. I went to cancel on mobile and saw that this isn’t allowed on mobile. They make you cancel on desktop. You think that’s gonna stop me, Spotify? I will erase you and forget you ever existed.
THOU SHALT CANCEL SPOTIFY!!!
THOU SHALT CANCEL SPOTIFY!!!
Reposted by Miguel Ramirez-Otero
What if the DNA methylation enzyme DNMT1 isn’t just about DNA?
Our new preprint reveals a cytosolic role for DNMT1 as a scaffold controlling neuronal morphology via DOCK7–Rac1/STMN1 signaling & mitochondrial trafficking.
A paradigm shift in DNMT1 biology! www.biorxiv.org/content/10.1...
Our new preprint reveals a cytosolic role for DNMT1 as a scaffold controlling neuronal morphology via DOCK7–Rac1/STMN1 signaling & mitochondrial trafficking.
A paradigm shift in DNMT1 biology! www.biorxiv.org/content/10.1...
A cytosolic function of DNMT1 controls neuronal morphogenesis via microtubule regulation
Proteins traditionally confined to a single cellular compartment are increasingly recognized to exert non-canonical functions in alternative domains. The DNA methyltransferase 1 (DNMT1), classically d...
www.biorxiv.org
October 20, 2025 at 9:09 AM
What if the DNA methylation enzyme DNMT1 isn’t just about DNA?
Our new preprint reveals a cytosolic role for DNMT1 as a scaffold controlling neuronal morphology via DOCK7–Rac1/STMN1 signaling & mitochondrial trafficking.
A paradigm shift in DNMT1 biology! www.biorxiv.org/content/10.1...
Our new preprint reveals a cytosolic role for DNMT1 as a scaffold controlling neuronal morphology via DOCK7–Rac1/STMN1 signaling & mitochondrial trafficking.
A paradigm shift in DNMT1 biology! www.biorxiv.org/content/10.1...
Reposted by Miguel Ramirez-Otero
🧬 Preprint alert!
"Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity."
Read the manuscript here 👉 www.biorxiv.org/content/10.1...
"Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity."
Read the manuscript here 👉 www.biorxiv.org/content/10.1...
Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity
Mutations in the ATRX chromatin remodeller predispose to a developmental genetic disorder and cancer, but how it safeguards genome and telomere stability remains unresolved. Here, we uncover critical ...
www.biorxiv.org
October 7, 2025 at 9:49 PM
🧬 Preprint alert!
"Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity."
Read the manuscript here 👉 www.biorxiv.org/content/10.1...
"Distinct ATRX functions cooperate with 9-1-1 and CST complexes to safeguard replication and telomere integrity."
Read the manuscript here 👉 www.biorxiv.org/content/10.1...
Reposted by Miguel Ramirez-Otero
@ewanbirney.bsky.social on the new version of Alphafold at the @emblebi.bsky.social
www.ebi.ac.uk/about/news/t...
AlphaFold has been a transformation not just in structural biology but also - due to its ability to be applied to all proteins - to molecular biology as a whole.
www.ebi.ac.uk/about/news/t...
AlphaFold has been a transformation not just in structural biology but also - due to its ability to be applied to all proteins - to molecular biology as a whole.
EMBL-EBI and Google DeepMind renew partnership and release update to AlphaFold Database
Deeper collaboration between EMBL-EBI and Google DeepMind brings updates to the AlphaFold Database.
www.ebi.ac.uk
October 8, 2025 at 10:38 AM
@ewanbirney.bsky.social on the new version of Alphafold at the @emblebi.bsky.social
www.ebi.ac.uk/about/news/t...
AlphaFold has been a transformation not just in structural biology but also - due to its ability to be applied to all proteins - to molecular biology as a whole.
www.ebi.ac.uk/about/news/t...
AlphaFold has been a transformation not just in structural biology but also - due to its ability to be applied to all proteins - to molecular biology as a whole.
Reposted by Miguel Ramirez-Otero
REVIEW: Modeling and targeting general and chromosome-specific aneuploidy in cancer.
By Aleah Goldberg, Maria Trifas and Teresa Davoli
Learn more here:
➡️ https://genesdev.cshlp.org/content/39/19-20/1132.abstract
By Aleah Goldberg, Maria Trifas and Teresa Davoli
Learn more here:
➡️ https://genesdev.cshlp.org/content/39/19-20/1132.abstract
October 6, 2025 at 3:00 PM
REVIEW: Modeling and targeting general and chromosome-specific aneuploidy in cancer.
By Aleah Goldberg, Maria Trifas and Teresa Davoli
Learn more here:
➡️ https://genesdev.cshlp.org/content/39/19-20/1132.abstract
By Aleah Goldberg, Maria Trifas and Teresa Davoli
Learn more here:
➡️ https://genesdev.cshlp.org/content/39/19-20/1132.abstract
Reposted by Miguel Ramirez-Otero
RNF114 and RNF166 exemplify a new E3 ligases family that recognizes #MARUbylation –hybrid ADP-ribose/ubiquitin modifications– and extends them with K11-linked polyubiquitin
@jnpruneda.bsky.social @michaelnadbio.bsky.social and colleagues
www.embopress.org/doi/full/10....
@jnpruneda.bsky.social @michaelnadbio.bsky.social and colleagues
www.embopress.org/doi/full/10....
October 6, 2025 at 3:07 PM
RNF114 and RNF166 exemplify a new E3 ligases family that recognizes #MARUbylation –hybrid ADP-ribose/ubiquitin modifications– and extends them with K11-linked polyubiquitin
@jnpruneda.bsky.social @michaelnadbio.bsky.social and colleagues
www.embopress.org/doi/full/10....
@jnpruneda.bsky.social @michaelnadbio.bsky.social and colleagues
www.embopress.org/doi/full/10....
Reposted by Miguel Ramirez-Otero
Histone acetylation - not always about transcriptional activation: H4K16ac safeguards the genome replication program by repressing premature replication of heterochromatin. Well done Marta Milan! tinyurl.com/yuy9m8t3
September 30, 2025 at 12:14 PM
Histone acetylation - not always about transcriptional activation: H4K16ac safeguards the genome replication program by repressing premature replication of heterochromatin. Well done Marta Milan! tinyurl.com/yuy9m8t3
Reposted by Miguel Ramirez-Otero
New week, new tool: Find our Protein Domain Designer tool to generate publication-ready protein domain diagrams here: domaindesigner.farnunglab.com
September 29, 2025 at 3:01 PM
New week, new tool: Find our Protein Domain Designer tool to generate publication-ready protein domain diagrams here: domaindesigner.farnunglab.com
Reposted by Miguel Ramirez-Otero
This MRC course (and the references therein) is a great place to start. But it is a very broad topic - if you are looking to target e.g. membrane proteins, enzymes, RNA binding proteins you might get more specific sets of recommendations.
youtube.com/playlist?lis...
youtube.com/playlist?lis...
2023 Cryo-EM Course - YouTube
Held at the MRC Laboratory of Molecular Biology, the 2023 Cryo-EM Course offers insights into several aspects of electron cryo-microscopy. This includes disc...
youtube.com
September 28, 2025 at 1:50 AM
This MRC course (and the references therein) is a great place to start. But it is a very broad topic - if you are looking to target e.g. membrane proteins, enzymes, RNA binding proteins you might get more specific sets of recommendations.
youtube.com/playlist?lis...
youtube.com/playlist?lis...
Reposted by Miguel Ramirez-Otero
This preprint title for the win! "The First of Us: Ophiocordyceps use a novel scramblase-binding peptide to manipulate zombie ants" doi.org/10.1101/2025...
Science is cool too! Authors use #celegans to identify the targets... #cilia and scramblases
Science is cool too! Authors use #celegans to identify the targets... #cilia and scramblases
a painting of a girl with her eyes closed and the watermark tlouhq
ALT: a painting of a girl with her eyes closed and the watermark tlouhq
media.tenor.com
September 19, 2025 at 5:22 PM
This preprint title for the win! "The First of Us: Ophiocordyceps use a novel scramblase-binding peptide to manipulate zombie ants" doi.org/10.1101/2025...
Science is cool too! Authors use #celegans to identify the targets... #cilia and scramblases
Science is cool too! Authors use #celegans to identify the targets... #cilia and scramblases
Reposted by Miguel Ramirez-Otero
Some (+)ve news to lighten another heavy weekend: our latest preprint (c/o Mattiroli + Ramani labs) is up!
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
The eukaryotic replisome intrinsically generates asymmetric daughter chromatin fibers
DNA replication is molecularly asymmetric, due to distinct mechanisms for lagging and leading strand DNA synthesis. Whether chromatin assembly on newly replicated strands is also asymmetric remains un...
www.biorxiv.org
September 20, 2025 at 4:10 PM
Some (+)ve news to lighten another heavy weekend: our latest preprint (c/o Mattiroli + Ramani labs) is up!
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
www.biorxiv.org/content/10.1...
A tour-de-force by 1st authors Bruna Eckhardt & @palindromephd.bsky.social, focusing on chromatin replication. RTs welcome; tweetorial in 3,2...(1/n)
Reposted by Miguel Ramirez-Otero
I'm more worried about the impact on my farmer neighbors but science is also affected by Trump's tariff insane policies
September 17, 2025 at 11:14 PM
I'm more worried about the impact on my farmer neighbors but science is also affected by Trump's tariff insane policies
Reposted by Miguel Ramirez-Otero
Online Now: Biochemical reconstitution of sister chromatid cohesion establishment during DNA replication Online now:
Biochemical reconstitution of sister chromatid cohesion establishment during DNA replication
Genome inheritance during cell divisions relies on replicated sister DNAs being connected by cohesin rings. Minamino et al. reconstitute sister chromatid cohesion establishment during DNA replication using purified budding yeast proteins. The experiments yield molecular insight into more than one way in which sister chromatid cohesion can be built.
dlvr.it
September 16, 2025 at 3:20 PM
Online Now: Biochemical reconstitution of sister chromatid cohesion establishment during DNA replication Online now:
Reposted by Miguel Ramirez-Otero
Is there anyone here at one of the universities in Wellington, NZ, who would want to host me to give a talk around November 10th?
September 15, 2025 at 11:34 PM
Is there anyone here at one of the universities in Wellington, NZ, who would want to host me to give a talk around November 10th?
Reposted by Miguel Ramirez-Otero
🚀 New preprint alert!
We uncover SLFN11 as a molecular gatekeeper that restricts alternative lengthening of telomeres (ALT) by sensing telomere-associated replication stress and triggering apoptosis.
📄 Read the manuscript here: www.biorxiv.org/content/10.1...
We uncover SLFN11 as a molecular gatekeeper that restricts alternative lengthening of telomeres (ALT) by sensing telomere-associated replication stress and triggering apoptosis.
📄 Read the manuscript here: www.biorxiv.org/content/10.1...
SLFN11 restricts escape from telomere crisis to prevent alternative lengthening of telomeres
The tRNA nuclease SLFN11 is epigenetically silenced in ~50% of treatment-naive tumours and is the strongest predictor of chemoresistance but why it is frequently inactivated in cancer is unknown. To a...
www.biorxiv.org
September 11, 2025 at 7:23 AM
🚀 New preprint alert!
We uncover SLFN11 as a molecular gatekeeper that restricts alternative lengthening of telomeres (ALT) by sensing telomere-associated replication stress and triggering apoptosis.
📄 Read the manuscript here: www.biorxiv.org/content/10.1...
We uncover SLFN11 as a molecular gatekeeper that restricts alternative lengthening of telomeres (ALT) by sensing telomere-associated replication stress and triggering apoptosis.
📄 Read the manuscript here: www.biorxiv.org/content/10.1...
Reposted by Miguel Ramirez-Otero
#New-Paper Rass laboratory reveal DNA2 to be a gatekeeper to homologous recombination at stalled DNA replication forks, rrequired to stave off cellular senescence. Their findings provide a molecular explanation for the association of DNA2 with primordial dwarfism and cancer.
doi.org/10.1038/s415...
doi.org/10.1038/s415...
DNA2 enables growth by restricting recombination-restarted replication - Nature
DNA2 suppresses recombination-restarted replication and checkpoint activation at stalled forks, and its loss triggers recombination-dependent synthesis, checkpoint signalling and cell-cycle exit, high...
doi.org
September 3, 2025 at 3:13 PM
#New-Paper Rass laboratory reveal DNA2 to be a gatekeeper to homologous recombination at stalled DNA replication forks, rrequired to stave off cellular senescence. Their findings provide a molecular explanation for the association of DNA2 with primordial dwarfism and cancer.
doi.org/10.1038/s415...
doi.org/10.1038/s415...
Reposted by Miguel Ramirez-Otero
My first post on bsky to share our latest research in @nature.com: “DNA2 enables growth by restricting recombination-restarted replication” - defines DNA2’s essential function & elucidates links with primordial dwarfism and cancer. Thanks to the lab, collaborators & @ukri.org @acmedsci.bsky.social
DNA2 enables growth by restricting recombination-restarted replication - Nature
DNA2 suppresses recombination-restarted replication and checkpoint activation at stalled forks, and its loss triggers recombination-dependent synthesis, checkpoint signalling and cell-cycle exit, high...
www.nature.com
September 3, 2025 at 3:59 PM
My first post on bsky to share our latest research in @nature.com: “DNA2 enables growth by restricting recombination-restarted replication” - defines DNA2’s essential function & elucidates links with primordial dwarfism and cancer. Thanks to the lab, collaborators & @ukri.org @acmedsci.bsky.social
Reposted by Miguel Ramirez-Otero
Happy to share our work on the structure and function of the unusual E3 ligase ZNFX1 @cp-cell.bsky.social. It uses a nucleic acid-activated transthiolation mechanism, ubiquitinating and clustering RNA to protect cells in an immune response. @clausenlab.bsky.social
www.cell.com/cell/fulltex...
www.cell.com/cell/fulltex...
A split-site E3 ligase mechanism enables ZNFX1 to ubiquitinate and cluster single-stranded RNA into ubiquitin-coated nucleoprotein particles
Grabarczyk et al. show the structure and mechanism of a non-canonical ubiquitin ligase,
which is activated through nucleic-acid-induced oligomerization and is critical for
cell survival during immune ...
www.cell.com
August 27, 2025 at 7:04 PM
Happy to share our work on the structure and function of the unusual E3 ligase ZNFX1 @cp-cell.bsky.social. It uses a nucleic acid-activated transthiolation mechanism, ubiquitinating and clustering RNA to protect cells in an immune response. @clausenlab.bsky.social
www.cell.com/cell/fulltex...
www.cell.com/cell/fulltex...
Reposted by Miguel Ramirez-Otero
Of course I signed this! Please join us.
Launched today! Join 6 Nobel Laureates, 27 Members of the US National Academies & the Scientific Advisory Board of @accountabilityji.bsky.social in signing this petition demanding RFK Jr.'s resignation.
www.change.org/p/demand-rfk...
www.change.org/p/demand-rfk...
Sign the Petition
Demand RFK Jr. Resign: Petition for a Healthy America
www.change.org
August 27, 2025 at 2:09 PM
Of course I signed this! Please join us.
Reposted by Miguel Ramirez-Otero
I am so disturbed by this image of ICE agents at Stanford hospital. They do not belong here--actually, they don't belong anywhere.
August 27, 2025 at 2:46 PM
I am so disturbed by this image of ICE agents at Stanford hospital. They do not belong here--actually, they don't belong anywhere.