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biologsp.bsky.social
Sergei Pirogov
@biologsp.bsky.social
350 followers 330 following 16 posts
PhD student | Mannervik lab | Stockholm University | developmental epigenetics and chromatin of Drosophila| histone acetylation and methylation
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Jun 18
The amazing projects wait for curious minds! From fly genetics to transcriptional kinetics, from whole-embryo single-cell atlases to the charming chromatin microscopy!
Welcoming at @stockholm-uni.bsky.social
#epigenetics #chromatin #DevBio
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Reposted by Sergei Pirogov
adc34.bsky.social
Artem Ilin @adc34.bsky.social · 17d
Kicked off a series on #Drosophila TE discovery and naming. The first post covers elements that predate the term "mobile element", and more. artemilin.dev/posts/te_nam...
Drosophila TE name origins, Part 1 – Postdoc Postpunk
artemilin.dev
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Sep 2
Having your paper for our JC ;-)
biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Sep 2
a man in a suit and tie says " it 's not bragging if it 's true "
ALT: a man in a suit and tie says " it 's not bragging if it 's true "
media.tenor.com
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Sep 2
Phew! Oxygen is for above 5000, bru. But pics are pretty pretty
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Reposted by Sergei Pirogov
jervdberg.bsky.social
Jeroen van den Berg @jervdberg.bsky.social · May 16
🧬Postdoc position alert! 🚨 We're hiring a postoc in Computational Modeling of Epigenetic Inheritance at the Hubrecht Institute (Alexander van Oudenaarden, Utrecht 🇳🇱) & Danish Cancer Institute (Anja Groth, Copenhagen 🇩🇰).

Come work in our collaberative team of top scientists

shorturl.at/avBBy
Postdoctoral Researcher - Computational modeling of Epigenetic Inheritance - 38 hours p/w - Hubrecht Institute
About the Project Faithful inheritance of the epigenome in proliferating cells critically underpins human development and health. While DNA replication fidelity and DNA mutation rates are well underst...
shorturl.at
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Reposted by Sergei Pirogov
arnausebe.bsky.social
Arnau Sebé-Pedrós @arnausebe.bsky.social · Jul 15
We are looking for a student to continue our work on chromatin evolution:
www.nature.com/articles/s41...
www.biorxiv.org/content/10.1...

The project with @seanamontgomery.bsky.social will focus on chromatin state readers across eukaryotes.

More info: recruitment.crg.eu/content/jobs...
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Reposted by Sergei Pirogov
hansonmark.bsky.social
Mark A. Hanson @hansonmark.bsky.social · Jul 10
The "reproducibility crisis" in science constantly makes headlines. Repro efforts are often limited. What if you could assess reproducibility of an entire field?

That's what @brunolemaitre.bsky.social et al. have done. Fly immunity is highly replicable & offers lessons for #metascience

A 🧵 1/n
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Reposted by Sergei Pirogov
adc34.bsky.social
Artem Ilin @adc34.bsky.social · Jul 5
To be or not to be 🤴💀: read how hamlet orchestrates the assembly of adult male reproductive system in #Drosophila in a new paper from our colleagues! Led by Huazhen Wang, a PhD student in Qi Dai group, the study explores how this protein mediates the fusion of testis and supportive gonadal tissue
Drosophila hamlet mediates epithelial tissue assembly of the reproductive system
Hamlet regulates heterotypic epithelial fusion by controlling spatial and temporal expression of known and novel epithelial regulators like Wnt and Tl pathway components, a mechanism potentially conse...
doi.org
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Jul 4
We had a nice experience with www.flyorf-injection.ch
Homepage - FlyORF Injection Service
transgenesis and genome editing in drosophila. Learn more trusted by. what we do. We provide a Drosophila injection service for the fly community. We offer injections into a number of commonly used at...
www.flyorf-injection.ch
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Reposted by Sergei Pirogov
shelbyflies.bsky.social
Shelby Blythe @shelbyflies.bsky.social · Jul 3
Happy to announce a new preprint from my lab looking in to the establishment of polycomb domains in early fly development and contributions from pioneer factors Zelda and GAGA-factor.
biorxiv-devbio.bsky.social
bioRxiv Developmental Biology @biorxiv-devbio.bsky.social · Jul 3
Nucleation-dependent propagation of Polycomb modifications emerges during the Drosophila maternal to zygotic transition https://www.biorxiv.org/content/10.1101/2025.07.02.662854v1
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Jul 3
It seems both mechanisms involved. We see piRNA pathway, and apparently it gets piRNAs directly from ribosomal locus (www.biorxiv.org/content/10.1...). And we also see a mysterious regulation at the promoter (pubmed.ncbi.nlm.nih.gov/35037046/). So interesting how much it’s conserved!
Piwi and piRNAs repress transcription of aberrant rRNA genes containing retrotransposon fragments
The genomes of eukaryotes comprise clusters of repeated rRNA genes, including defective copies that are silenced by poorly understood mechanisms. In Drosophila melanogaster , many 28S rDNA genes conta...
www.biorxiv.org
biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Jul 3
Great idea and amazing to see R2 doing its job very well! I studied before how rRNA gene copies with R2 get inactivated in insects. Is it possible that rDNA can be sensitive to the R2-mediated intrusions as well? And after some generations start switching off them?
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Reposted by Sergei Pirogov
asm.org
ASM @asm.org · Jun 16
How did life begin & why does it matter? A new ASM report, supported by the Gordon and Betty Moore Foundation, explores the origins of microbial life & how understanding it can help tackle some of humanity’s biggest questions around climate, biotech & more. Press release➡️ asm.org/press-releas...
Report cover page
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Reposted by Sergei Pirogov
axelvisel.bsky.social
Axel Visel @axelvisel.bsky.social · Jun 18
Textbooks: “Enhancers are just a bunch of TFBSs”

But how do they REALLY work?

New paper with many contributors here @berkeleylab.lbl.gov, @anshulkundaje.bsky.social, @anusri.bsky.social

A 🧵 (1/n)

Free access link: rdcu.be/erD22
A meme-style comic panel with three parts. Left: A stylized enhancer with a mutation, surrounded by colored blocks representing functional motifs, a neural network diagram, chromatin accessibility signal traces, and a sequence motif. Two cartoon mouse embryos below show different LacZ reporter activity patterns. Top right: A hand hovers anxiously between two red buttons labeled “Experiments” and “AI,” with the caption “HOW DO ENHANCERS REALLY WORK?” Bottom right: A sweating superhero wipes his forehead, looking stressed about the difficult choice.
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · Jun 18
The amazing projects wait for curious minds! From fly genetics to transcriptional kinetics, from whole-embryo single-cell atlases to the charming chromatin microscopy!
Welcoming at @stockholm-uni.bsky.social
#epigenetics #chromatin #DevBio
1 6
Reposted by Sergei Pirogov
flybase.bsky.social
FlyBase @flybase.bsky.social · Jun 3
We currently have a call for support that has gone out to European labs, to support FlyBase-UK. We are asking our colleagues from labs in the US and other countries to wait for a similar call to them that will go out in the near future, to support the US sites. We thank you for your patience.
hansonmark.bsky.social
Mark A. Hanson @hansonmark.bsky.social · Jun 3
URGENT: FlyBase has lost practically all its funding overnight; even user fees are tied up in denied grant funding. 🤬🤯

Any lab using @flybase.bsky.social please donate using the link in post below.

This incredible community, on whose backs our #Drosophila labs depend, can't be left out to dry.
marcsdionne.bsky.social
Marc Dionne @marcsdionne.bsky.social · Jun 3
My lab studies bacterial infections. We spend a lot of time looking at (or for) species-specific genetic and genomic databases for hosts and microbes. FlyBase is the best of all—there is literally no comparison. Its existence is under threat. Please donate.
www.philanthropy.cam.ac.uk/give-to-camb...
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 30
Very interesting! I liked James's comment "We should probably think of decision making as a dynamical process rather than an event. And relate to this to dev bio concepts such as competence, specification and commitment."
I wonder how it would look like if applied to scATAC/scCUT&Tag data. Fuzzier?
jamesbriscoe.bsky.social
James Briscoe @jamesbriscoe.bsky.social · May 29
Surprising Finding: Studying neural tube differentiation, we discovered an unexpected circular topology

Cells that initially diverge into different lineages can converge through multiple routes to the same fate

This challenges the traditional "branching tree" view of development
biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 30
Using PRO-seq and CUT&Tag, we found that CBP activates zygotic genes in two steps:
- It helps recruit RNA Pol II to promoters without requiring catalytic activity.
- Its catalytic acetyltransferase function then triggers pause release.
PRO-seq measures nascent transcription with high precision. Degradation of CBP leads to a decrease in Pol II occupancy on promoters, which means the affected initiation step. Oppositely, catalytically inactive CBP leads to enriched Pol II on promoters of downregulated genes, which implies a defect in the pause-release step into productive elongation.
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 30
We show that transcription factor Zelda is required for CBP recruitment, but CBP is dispensable for Zelda pioneer factor function. Instead, CBP catalytic activity is essential for zygotic genome activation and successful gastrulation.
Loss of catalytic (acetyltransferase) activity of CBP impedes gastrulation, both by optogenetic CBP inactivation (blue-light switches off CBP fused to CRY2) and by point mutation in the HAT domain. CBP can often be found at the Zld-bound sites. When Zld is removed, CBP is also gone there.
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 30
This was a fantastic collaboration with the Melissa Harrison lab @harrisonflylab.bsky.social, where we use powerful Drosophila tools: optogenetic inactivation, full CBP degradation (DeGrad), and classic catalytic-dead mutants, to investigate the mechanism of gene activation during development.
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 30
Excited to share our new paper in @cp-molcell.bsky.social Molecular Cell: "Catalytic-dependent and independent functions of the histone acetyltransferase CBP promote pioneer-factor-mediated zygotic genome activation" — the big part of my PhD! www.cell.com/molecular-ce...
Catalytic-dependent and independent functions of the histone acetyltransferase CBP promote pioneer-factor-mediated zygotic genome activation
Marsh, Pirogov, et al. use the early Drosophila embryo to demonstrate that the conserved histone acetyltransferase CBP is required for pioneer-factor-mediated transcriptional activation of the zygotic...
www.cell.com
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 16
The CBP project will be out in Molecular Cell very soon—don’t miss it if you're into ZGA, transcription regulation, and histone acetyltransferases! The second project is a great collaboration with @mardzix.bsky.social and part of the @scentinel.bsky.social consortium #epigenetics #chromatin #devbio
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biologsp.bsky.social
Sergei Pirogov @biologsp.bsky.social · May 16
The superb conference in EMBL Epigenetics&Chromatin is over. Fantastic talks, a lot of incredible research in the poster section. I was glad to present two of my PhD projects: catalytic and non-catalytic function of CBP/p300 in development, and single-cell epigenetic landscapes of Drosophila embryo.
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Reposted by Sergei Pirogov
scentinel.bsky.social
SCENTINEL Twinning HE @scentinel.bsky.social · May 12
Attending the EMBL conference on Chromatin and epigenetics www.embl.org/about/info/c... ?? Check out posters 184 and 185 by SCENTINEL partners Mattias Mannervik and Sergei Pirogov, cbp/p300 unexpected function! Just accepted! doi.org/10.1101/2024...
Catalytic-dependent and independent functions of the histone acetyltransferase CBP promote pioneer factor-mediated zygotic genome activation
Immediately after fertilization the genome is transcriptionally quiescent. Maternally encoded pioneer transcription factors reprogram the chromatin state and facilitate the transcription of the zygoti...
doi.org
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Reposted by Sergei Pirogov
ianakim.bsky.social
Iana V. Kim @ianakim.bsky.social · May 7
I’m very excited to share our work on the early evolution of animal regulatory genome architecture - the main project of my postdoc, carried out across two wonderful and inspirational labs of @arnausebe.bsky.social and @mamartirenom.bsky.social. www.nature.com/articles/s41...
Chromatin loops are an ancestral hallmark of the animal regulatory genome - Nature
The physical organization of the genome in non-bilaterian animals and their closest unicellular relatives is characterized; comparative analysis shows chromatin looping is a conserved feature of ...
www.nature.com
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