Jongmin Kim

Widespread association of Polycomb complex–deposited histone H2A monoubiquitylation with enhancers and neuronal gene regulation Genome-wide profiling reveals histone H2A monoubiquitylation as a signature of both Polycomb-repressed and enhancer chromatin.

- Independent localization of H2AK119Ub and H3K27me3 in worm embryos.
- Removing Ub did not influence K27me3 levels, and vice versa.
- It is interesting that different cells/organisms utilize conserved chromatin-modifying machineries differently.

www.science.org/doi/10.1126/...

I like the stratification, too.
Also, quite striking threshold at AT content ~0.55 (Fig. 2D).

We know how things always take longer than we hope... 😅 I hope you are doing well!

Congrats, Tien-Chi! Quite striking differences in the nuclear organization.

Thanks - I love your inducible, time-resolved experiments in this (and your past) papers!

We did journal club today on this preprint - interesting parallels that CHD4 and its partners block aberrant TF binding in mESCs (this preprint), human cells (PMID:38281186), and fly testis (PMID:28522526).
Fascinated by how CHD4 controls cryptic regulatory elements without a strong presence there.

Exciting work on orphan genes in fertilization and evolution!

Congrats, Anna! 🎉

VEL-dependent polymerization maintains the chromatin association of Polycomb proteins for the switch to epigenetic silencing - PubMed Multivalent protein-chromatin interactions facilitated by higher-order protein assemblies are emerging as a crucial theme in eukaryotic gene regulation. However, understanding the underlying mechanism...

Avidity.

In plants, PRC2 accessory VEL proteins polymerize much like PRC1 subunits in animals, reinforcing silencing. Multimerization - overcoming weak affinity through 'avidity' - seems to be an important conserved principle in chromatin regulation.

pubmed.ncbi.nlm.nih.gov/40858112/

Donated. FlyBase is a truly essential resource!

Congrats, Ellen! This is so exciting 😊

Thanks for the explanation, Li. It is a good reminder to me not to assume all Aly-class genes regulate the same targets. Looking forward to learn what you find about their roles in de novo genes. Congrats again!

Exciting work!

Many Achi/Vis targets seem not expressed in the tMAC (aly) mutant (as you discussed). Curious if Aly motif (AGYWGGC) sits upstream of Achi/Vis motif in de novo genes. If so, it is interesting how selection resulted in a simple, but still reasonably complex regulatory syntax.

A brief mountain break.

Reducing H1 levels (by CRAMP1 KD) derepresses PRC2 target genes without reducing H3K27me3. It was interesting:

1) once again, H3K27me3 mark alone seems not sufficient for gene repression,
2) how is H1 deposited at Polycomb target sites?

Congrats, Iva!

Beautifully written, Susanna! 😊

True: my ESI MIRA, submitted last February, was withdrawn three weeks before the study section because of a support letter. No sub-award, no expected co-authorship, just a letter. So be careful - their definition of 'collaboration' is very broad.

Congrats, Susanna!! 🎉

Congrats on your exciting work!

I find unstructured regions in proteins enigmatic and very interesting.

Congrats on your exciting work!

Great news! Congratulations!! 🎉

" The common genetic marker Stubble influences Fab2L transgene expression" - balancer and marker mutations are not always inert.

Thank you. I emailed his office.

Today’s the day! I’m happy to announce that the Murphy Lab will be moving to Cornell this July! The lab will be in Biotech and I’ll be joining the Department of Molecular Biology and Genetics. There will be lots of recruiting soon, including students and postdocs. Please RT. 🙏 TY.

Great opportunity for postbacs to do exciting research and gain experience before graduate school!

The sun has been rather scarce in Ithaca lately. Nice to see some sunrise this morning.

Irvine is an exciting place to study TFs, enhancers, and gene regulation!

Kim Lab at UC Irvine Visit the post for more.

Hello Bluesky friends! I am a #newPI starting at UC Irvine in April, interested in gene regulation and functional genomics in stem cell models of development (esp neural crest). We are hiring at all levels – please reach out/spread the word! sskimlab.org

Indeed. I love the inducible chromatin contact experiment.