Hello all, our lab is recruiting a PhD candidate to study how 3D genome folding impacts gene regulation in development. We're located at the Center for Integrative Genomics department of the University of Lausanne, Switzerland. Please email me if interested. #PhDPosition, #PhDOpportunity

We are thrilled that our study on the evolution of gene regulation in mammalian cerebellum development – led by @ioansarr.bsky.social, @marisepp.bsky.social and @tyamadat.bsky.social, in collaboration with @steinaerts.bsky.social – is now out in @ScienceMagazine! www.science.org/doi/10.1126/...

The evolution of gene regulation in mammalian cerebellum development

Gene regulatory changes are considered major drivers of evolutionary innovations, including the cerebellum’s expansion during human evolution, yet they remain largely unexplored. In this study, we com...

science.org

Kaessmann Lab@kaessmannlab.bsky.social · last yr.

How does gene regulation shape brain evolution? Our new preprint dives into this question in the context of mammalian cerebellum development! rb.gy/dbcxjz Led by @ioansarr.bsky.social, @marisepp.bsky.social and @tyamadat.bsky.social, in collaboration with @steinaerts.bsky.social

Our internal organs are evolutionary marvels. New technologies are transforming our understanding of the evolution of vertebrate organs. You can find more by reading here: rdcu.be/e5EgU #EvoBio #EvoDevo 🐟🦎🐢🦇🐊🦜

The molecular evolution of vertebrate organs

Nature Ecology & Evolution - This Review discusses recent advances in the molecular evolution of vertebrate organs, including rates of evolution of organs and cell types, molecular mechanisms...

rdcu.be

This beautiful project is finally published! A fascinating study of how temporal use of enhancers sustains gene expression through development and shapes organ development! So proud to have been part of this project

Guillaume Andrey@guandrey.bsky.social · 7mo ago

Our work on #RegulatoryTrajectories is out today in Nat. Comms: www.nature.com/articles/s41... Led by @raquelrouco.bsky.social, this study establishes a new framework to study how enhancer landscapes act sequentially at developmental loci and are silenced to shape gene expression patterns. (1/n)

New paper on bioRxiv by YounJu So in our lab! She shows that while SMARCD paralogs compensate for each other during neurodevelopment, each still drives distinct gene expression programs, explaining selective vulnerability of these SWI/SNF subunits in brain disorders. www.biorxiv.org/content/10.6...

Redundancy masks functional specificity of SMARCD paralogs in neurodevelopment

The SWI/SNF complex is an essential chromatin remodeler that regulates DNA accessibility during brain development. Through combinatorial assembly of subunits encoded by paralogous genes, SWI/SNF compl...

biorxiv.org

Key points on the need for continued animal use in scientific research. www.theguardian.com/science/2025...

Why we have to continue with animal testing for medical research | Letters

Letters: Dr Robin Lovell-Badge and Prof Emma Robinson respond to an editorial on using new technologies to reduce the reliance on animal experiments

theguardian.com

Happy to present the final version of our Cadherin and gastruloid manuscript, online at @cp-cellreports.bsky.social. www.cell.com/cell-reports... Initially in BiorXiv (www.biorxiv.org/content/10.1...) 1/12

Cadherins modulate the self-organizing potential of pseudo-embryos

Gastruloids derived from ES cells mimic embryonic patterning through robust self-organization. Mayran et al. uncover that this competence depends on a cadherin switch regulated by Snai1-driven E-cadhe...

cell.com

📣 Paper alert! I am delighted that our paper exploring the impact of Neanderthal-derived variants on the activity of a disease-associated craniofacial enhancer has been published in Development today! journals.biologists.com/dev/article/...

🪰 folks! I spoke to the Transmitter about FlyBase. As noted at flybase.org, bridge $ ran out and many staff were laid off. Good news is stopgap contributions will keep core FlyBase operations active. But community support remains essential. Please donate @FlyBase and share! 1/2 tinyurl.com/FlyBase

FlyBase secures funding for year, but future still uncertain

The FlyBase team’s fundraising efforts have proven successful in the short term, but restoration of its federal grant remains uncertain.

tinyurl.com

Excited to share that the final version of our work on Connexin 41.8 in HSPC specification is out now in @biologyopen.bsky.social! If you're curious about how a connexin helps turn endothelial cells into blood stem cells, please have a read! journals.biologists.com/bio/article/...

Connexin 41.8 governs timely haematopoietic stem and progenitor cell specification

Summary: Cx41.8 is necessary to launch the haemogenic program and induce HSPC formation at the correct time during zebrafish development via a ROS-Hif-Notch-Gata2b pathway.

journals.biologists.com

A 6-year long study from the Lab is finally out @genomeresearch.bsky.social Mastered by @annanordin.bsky.social in collaboration with Chaitali Chakraborty from @remeseiro-lab.bsky.social Why is our work Important? Discover it in the quick Bluetorial 👇 genome.cshlp.org/content/earl...

No new genes needed to fly - just rewire what you have! 🦇🧬 Great new paper from the labs of @fany-real.bsky.social @stemundi.bsky.social @dariloops.bsky.social doi.org/10.1038/s415... #EvoDevo #SingleCell #BatWings

Comparative single-cell analyses reveal evolutionary repurposing of a conserved gene programme in bat wing development - Nature Ecology & Evolution

Single-cell comparison of developing bat and mouse limbs reveals conservation of cell populations and gene expression patterns, and suggests repurposing of genes involved in proximal limb development ...

doi.org

Max Planck Institute for Molecular Genetics@molgen.mpg.de · last yr.

How did the bat get its wings? New research from a collaboration between the labs of Stefan Mundlos (MPIMG), Dario G. Lupiáñez, and Francisca M. Real (@cabd-upo-csic.bsky.social) show how genetic programs were reused during the evolution of mammalian flight. --> www.molgen.mpg.de/news-2025-fl...

The final chapter of my Pitx1 adventure is out! 1 simple question:”How do SVs that shorten enhancer-promoter distance affect limb development?” We find the impact on transcription, cell populations, epigenetics, and chromatin structure. A labour of joy with @guandrey.bsky.social & all co-authors.

Guillaume Andrey@guandrey.bsky.social · last yr.

Our work bridging enhancer-promoter proximity to phenotypic outcomes in vivo is out! Shout out to @olimpiabompadre.bsky.social, to Marie Kmita's lab, and to all the co-authors. www.nature.com/articles/s41...

🚨 Check out the latest from @trono-lab.bsky.social showing how evolutionarily young transcription factors contribute to human cell cycle regulation! Brilliant work led by Romain Forey and Cyril Pulver, now published in Cell Genomics. Check it out ! www.cell.com/cell-genomic...

Evolutionarily recent transcription factors partake in human cell cycle regulation

Pulver and Forey et al. generated a novel atlas reporting (1) gene expression over the cell cycle and (2) how systematic gene depletion affects cell cycle progression. They thereby identified evolutio...

cell.com

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

How to find Evolutionary Conserved Enhancers in 2025? 🐣-🐭 Check out our paper - fresh off the press!!! We find widespread functional conservation of enhancers in absence of sequence homology Including: a bioinformatic tool to map sequence-diverged enhancers! rdcu.be/enVDN github.com/tobiaszehnde...

Conservation of regulatory elements with highly diverged sequences across large evolutionary distances

Nature Genetics - Combining functional genomic data from mouse and chicken with a synteny-based strategy identifies positionally conserved cis-regulatory elements in the absence of direct sequence...

rdcu.be

New preprint of @trono-lab.bsky.social and my PhD work! By modulating SWI/SNF remodeling at ancient transposable elements - LINE/L2s and SINE/MIRs, a "noncanonical" KZFP called ZNF436 protects cardiomyocytes from losing their identity. 🫀heartbeat on 🔁 repeat www.biorxiv.org/content/10.1... #TEsky