giacomocavalli - Network

Investigation of a fungal pathogen of cereals, Fusarium graminearum, reveals that a protein acting as a reader of the Polycomb-associated...

Investigation of a fungal pathogen of cereals, Fusarium graminearum, reveals that a protein acting as a reader of the Polycomb-associated histone mark H3K27me3 mediates gene repression by undergoing to phase separation.

Genome Biol 25, 67 (2024).
DOI: https://doi.org/10.1186/s13059-024-03209-7

Liquid-liquid phase separation of H3K27me3 reader BP1 regulates transcriptional repression

Multiple enhancer - promoter 3D interactions grouped at chromatin hubs during differentiation of ES cells. Look up the paper here:Mol Cell....

Multiple enhancer - promoter 3D interactions grouped at chromatin hubs during differentiation of ES cells. Look up the paper here:

Mol Cell. 2024 Mar 5:S1097-2765(24)00134-5.
doi: 10.1016/j.molcel.2024.02.015.
Enhancer-promoter interactions are reconfigured through the formation of long-range multiway hubs as mouse ES cells exit pluripotency

In the article below important insight in how a subset of Polycomb proteins silence their target genes via alternative splicing of a...

In the article below important insight in how a subset of Polycomb proteins silence their target genes via alternative splicing of a specific subunit. Great work of the Di Croce lab at CRG Barcelona.

Alternative splicing decouples local from global PRC2 activity
Mol Cell. 2024 Feb 28:S1097-2765(24)00130-8.
doi: 10.1016/j.molcel.2024.02.011

Finally we start to learn how H2AK119 ubiquitylation regulates transcription!H2AK119ub1 differentially fine-tunes gene expression by...

Finally we start to learn how H2AK119 ubiquitylation regulates transcription!

H2AK119ub1 differentially fine-tunes gene expression by modulating canonical PRC1- and H1-dependent chromatin compaction
Molecular Cell (2024), https://doi.org/10.1016/j.molcel.2024.02.017

The new work from the Almouzni lab below:Regulation of replicative histone RNA metabolism by the histone chaperone ASF1@MolecularCell...

The new work from the Almouzni lab below:

Regulation of replicative histone RNA metabolism by the histone chaperone ASF1

@MolecularCell
DOI:https://doi.org/10.1016/j.molcel.2023.12.038

Exciting paper from the Sawarkar lab:HSP70 binds to specific non-coding RNA and regulates human RNA polymerase III@MolecularCell...

Exciting paper from the Sawarkar lab:

HSP70 binds to specific non-coding RNA and regulates human RNA polymerase III

@MolecularCell
DOI:https://doi.org/10.1016/j.molcel.2024.01.001

Here a great work showing that large noncoding genome regions are evolutionarily conserved actually serve as enhancers - From the Frankel...

Here a great work showing that large noncoding genome regions are evolutionarily conserved actually serve as enhancers - From the Frankel lab, Buenos Aires:

Molecular Biology and Evolution, Volume 41, Issue 2, February 2024, msae004, https://doi.org/10.1093/molbev/msae004

The Density of Regulatory Information Is a Major Determinant of Evolutionary Constraint on Noncoding DNA in Drosophila

In this paper, great insight into how regulation of 3D #chromosome organization intersects with spatial patterning of gene expression in...

In this paper, great insight into how regulation of 3D #chromosome organization intersects with spatial patterning of gene expression in #evolution

@eLife - 2024
https://doi.org/10.7554/eLife.90846.3
Cis-regulatory modes of Ultrabithorax inactivation in butterfly forewings

Exciting article from the Pasini Lab @Ieo, Milan, on a novel function of a variant Polycomb complex on #transcription regulation during cell...

Exciting article from the Pasini Lab @Ieo, Milan, on a novel function of a variant Polycomb complex on #transcription regulation during cell differentiation:

Developmental Cell
https://doi.org/10.1016/j.devcel.2023.12.015

PCGF6 controls murine Tuft cell differentiation via H3K9me2 modification independently of Polycomb repression

Beautiful work on how the coactivator histone acetylase p300 reaches its #chromatin targets and elicits its function for #transcription...

Beautiful work on how the coactivator histone acetylase p300 reaches its #chromatin targets and elicits its function for #transcription stimulation - from the Tjian-Darzacq lab:

Molecular Cell
https://www.cell.com/molecular-cell/fulltext/S1097-2765(23)01023-7

p300 is an obligate integrator of combinatorial transcription factor inputs

Here a very interesting paper discussing the role of molecular condensates in #enhancer function in #transcription using Sox2 as a model...

Here a very interesting paper discussing the role of molecular condensates in #enhancer function in #transcription using Sox2 as a model locus - from the Cissé Lab

Cell https://www.cell.com/cell/fulltext/S0092-8674(23)01337-5?dgcid=raven_jbs_etoc_email

Direct observation of a condensate effect on super-enhancer controlled gene bursting

This is a very thought-provoking article discussing how optimizing #transcription factor affinity in an enhancer can be counterproductive -...

This is a very thought-provoking article discussing how optimizing #transcription factor affinity in an enhancer can be counterproductive - and is a vulnerability of our genomes!

Nature (2024) https://doi.org/10.1038/s41586-023-06922-8

Affinity-optimizing enhancer variants disrupt development.

Long-range #chromatin contacts can modulate #gene expression - last paper from the Furlong lab @EMBLMol Cell. 2023 Dec...

Long-range #chromatin contacts can modulate #gene expression - last paper from the Furlong lab @EMBL

Mol Cell. 2023 Dec 21:S1097-2765(23)01042-0.

doi: 10.1016/j.molcel.2023.12.023.

Chromatin gene-gene loops support the cross-regulation of genes with related function

Transcriptional and #epigenetic dysregulation impairs generation of proliferative neural stem and progenitor cells during brain #agingNat...

Transcriptional and #epigenetic dysregulation impairs generation of proliferative neural stem and progenitor cells during brain #aging

Nat Aging. 2024 Jan 4.
doi: 10.1038/s43587-023-00549-0.

Fantastic chain-of-events description of how pioneer transcription factors can open up closed #chromatin for #transcription - by the lab of...

Fantastic chain-of-events description of how pioneer transcription factors can open up closed #chromatin for #transcription - by the lab of Jacques Drouin in Montreal:

Nat Struct Mol Biol. 2024 Jan 4.
doi: 10.1038/s41594-023-01152-y.

Pioneer factor Pax7 initiates two-step cell-cycle-dependent chromatin opening

Synovial sarcoma X breakpoint 1 protein uses a cryptic groove to selectively recognize H2AK119Ub nucleosomesNat Struct Mol Biol. 2024 Jan 4....

Synovial sarcoma X breakpoint 1 protein uses a cryptic groove to selectively recognize H2AK119Ub nucleosomes

Nat Struct Mol Biol. 2024 Jan 4. doi: 10.1038/s41594-023-01141-1.

FLT3 tyrosine kinase inhibition modulates PRC2 and promotes differentiation in acute myeloid leukemiaLeukemia. 2024 Jan 5. doi:...

FLT3 tyrosine kinase inhibition modulates PRC2 and promotes differentiation in acute myeloid leukemia

Leukemia. 2024 Jan 5.
doi: 10.1038/s41375-023-02131-4.

Impressive tour de force to describe DNA replication timing patterning during early mouse embryogenesis. Latest paper from the...

Impressive tour de force to describe DNA replication timing patterning during early mouse embryogenesis. Latest paper from the Torres-Padilla lab!

Emergence of replication timing during early mammalian development.
Nature 625, 401–409 (2024).

https://doi.org/10.1038/s41586-023-06872-1

A nice paper is the best way to start the year: here evidence that the #Polycomb PRC1 complex is required to maintain the undifferentiated...

A nice paper is the best way to start the year: here evidence that the #Polycomb PRC1 complex is required to maintain the undifferentiated state of adult spermatogonia stem cells.

Nucleic Acids Res. 2023 Dec 24
doi: 10.1093/nar/gkad1203.

PRC1 directs PRC2-H3K27me3 deposition to shield adult spermatogonial stem cells from differentiation

Happy New Year: Peace, Joy, Health and Love for everybody !

An analysis of the interplay between #Polycomb proteins and 3D #genome modulation by loop extrusion. Read here:Nat Commun. 2023 doi:...

An analysis of the interplay between #Polycomb proteins and 3D #genome modulation by loop extrusion. Read here:

Nat Commun. 2023
doi: 10.1038/s41467-023-43869-w.

Loss of cohesin regulator PDS5A reveals repressive role of Polycomb loops