Ozren Bogdanovic

Thanks for the great collaboration!!

💥 Another fruitful collaboration!

Along with @obog.bsky.social & Juan Tena’s teams we provide a multiomics study of zebrafish spermatogenesis
🐟#meiosis

👇
www.embopress.org/doi/full/10....

A single-cell multiomics roadmap of zebrafish spermatogenesis reveals regulatory principles of male germline formation | Molecular Systems Biology imageimageA multiomics study of zebrafish spermatogenesis integrating scRNA-seq, scATAC-seq, and base-resolution DNA methylomes defines the chromatin and transcriptional states of germ cells, revealing the regulatory dynamics of this continuous ...

www.embopress.org/doi/full/10....

Thanks Max!!

A single-cell multiomics roadmap of zebrafish spermatogenesis reveals regulatory principles of male germline formation | Molecular Systems Biology imageimageA multiomics study of zebrafish spermatogenesis integrating scRNA-seq, scATAC-seq, and base-resolution DNA methylomes defines the chromatin and transcriptional states of germ cells, revealin...

Now out in @molsystbiol.org www.embopress.org/doi/full/10....

Bogdanovic Lab

We’re looking for a Research Assistant / Lab Manager to join the 🧬 Developmental Epigenomics lab at the Andalusian Centre for Developmental Biology (CABD, Seville 🇪🇸)!
🐟 Work with zebrafish, CRISPR–Cas9, and genomics technologies
💫 3-year fully funded position
Details 👉 www.bogdanoviclab.org

🐟Meet the DANIO-ReCODE team!🐟
This week: Dario González and Dr Csilla Várnai from @unibirmingham.bsky.social

Dario studies the annotation, characterisation, and conservation of 3D chromatin topology in telencephalon injury

📢Stay tuned!
#DANIO #MSCA @obog.bsky.social @cabd-upo-csic.bsky.social

Embryonic signatures of intergenerational epigenetic inheritance across paternal environments and genetic backgrounds | The EMBO Journal imageimagePaternal environmental exposures have been linked with modulation of phenotype and disease risk in offspring via largely unclear mechanisms. This study employs in vitro fertilization and sin...

❓Can a father’s environmental exposures before conception influence their offspring?

We systematically tackled this - identifying effects of paternal age, environment and genetics on early embryos - as well as confounding influences

www.embopress.org/doi/full/10....

Epigenetic relay: Polycomb-directed DNA methylation in mammalian development In mammals, repression of germline-specific gene expression is essential for preserving somatic cell identity and preventing disease. Germline gene silencing is often dependent on the presence of prom...

Very excited to share an excellent review from @teresa-urli.bsky.social, published one week before her PhD defense! We did a deep dive into the fascinating biology of the variant Polycomb complex, PRC1.6 (1/5) journals.plos.org/plosgenetics...

Non-CG DNA methylation in animal genomes Nature Genetics - This Review discusses noncanonical DNA methylation (mCH) in animal genomes and highlights the remaining need to clarify whether mCH represents a conserved regulatory layer or a...

Very happy to have contributed to this review on "non-CG" #methylation in animals now out in @natgenet.nature.com. Working again with @obog.bsky.social and Tirsa is always a pleasure. We think this not so well studied form of methylation should be more widely considered, please read: rdcu.be/eFAEk

@jenncoughlan.bsky.social @alexdemendoza.bsky.social @obog.bsky.social @planktomancer.bsky.social @zrlewis.bsky.social

Many people were essential, I can only tag a handful here! @caseywdunn.bsky.social @stevehaddock.bsky.social @colinjanthony.bsky.social @rebeccarhelm.bsky.social @catmunro.bsky.social @amandine-oceano.bsky.social @scientifikita.bsky.social @guillermodelia.bsky.social & Yale Peabody Museum

Physalia megalista, a cnidiran with a gas filled float, raised sail, and long blue tentacles hanging below. Image credit: Dalila Destanović

Excited to share our study on sailing siphonophores, AKA bluebottles or man-o'-war! 🌊 we received hundreds of samples from scientists around the world, part of a huge effort to sequence genomes and test for multiple species 🧬 out today in @currentbiology.bsky.social doi.org/10.1016/j.cu... 🦑🧪📌

Cholangiocytes contribute to hepatocyte regeneration after partial liver injury during growth spurt in zebrafish - Nature Communications During partial liver injury in growing zebrafish, cholangiocytes regenerate hepatocytes through transdifferentiation, revealing a stage-specific regeneration mechanism regulated by mTORC1 signaling.

🚨 Just out in Nature Communications:
Cholangiocytes contribute to hepatocyte regeneration after partial #liver #injury during growth in #zebrafish
We challenge old assumptions on liver regeneration!
🔗 nature.com/articles/s41...
🧵(1/8)

EPIGENETIC HULK READY TO SMASH AGAIN! GET IN LOSERS!

Sequence-alignment is not the best way to detect conserved cis-regulatory elements?
Tobi Zehnder from Vingron-Lab developed #IPP a synteny based algorithm with @ferencmueller.bsky.social, @borislenhard.bsky.social& @da-bar.bsky.social
We used it to find conserved enhancers with diverged sequences

Boromir Meme: One does not simply select the longest ORF

I am super excited to announce the first (brief) pre-print purely from my group:

Start right to end right: authentic open reading frame selection matters

www.biorxiv.org/content/10.1...

This marks a return to NMD research for me. NMD detects early stop codons but we need to find the true stop!

The pioneer transcription factor Zelda controls the exit from regeneration and restoration of patterning in Drosophila The pioneer factor Zelda activates a specific set of developmental and structural genes to end tissue regeneration.

So excited that our latest work is out! We have been working to understand how damaged tissue exits regeneration and returns to normal gene expression, and found a major role for the pioneer transcription factor Zelda in flies. Kudos to @anishbose.bsky.social @keatonschuster.bsky.social et al!

If you are interested by epigenetics, early human development in excellent scientific environment in middle of Paris, we are recruiting a postdoc.
app.beetween.com/WeaselWeb/p/...
Don't hesitate to apply or share the post !

Cheers mate

new lab preprint 👇

15 PhD positions in Decoding Transcriptional Regulation in Regeneration by Advanced Genomics and Computational tools (funded by the DANIO-ReCODE MSCA 2023 Doctoral Network) The principal objective of DANIO-ReCODE is to provide world-class doctoral training to a new generation of early-career researchers interested in understanding the complex and multilayered process of ...

We are offering 15 PhD positions in Decoding Transcriptional Regulation in Regeneration by Advanced Genomics and Computational tools (funded by the DANIO-ReCODE MSCA 2023 Doctoral Network) 🇪🇸 🇭🇷 🇸🇮 🇬🇧 🇩🇪 🇦🇹 Apply now: euraxess.ec.europa.eu/jobs/290548

🚀 Great Opportunity! The Danio ReCode EU consortium is offering **15 PhD positions** across diverse biological fields, from development to computer science! 🌱💻 apply here:
🔗 [https://euraxess.ec.europa.eu/jobs/290548](euraxess.ec.europa.eu/jobs/290548) #zebrafish #positions

The emergence of Sox and POU transcription factors predates the origins of animal stem cells Nature Communications - The pluripotency program is maintained by transcription factors from the Sox and POU families. Here they identify SOX and POU factors from unicellular relatives of animals...

SOX and POU are crucial Transcription Factors in animal development, believed to be innovations of this group. Here we find them in unicellular relatives of animals. And hold tight, you can use a choanoflagellate 🦠 SOX gene to make a full chimeric 🐁 ! Read more here 🧵: rdcu.be/d0dPN 1/6

The new program of Evolutionary Medical Genomics, lead by @mirimiam.bsky.social, and shared between our Institute, CRG & UPF will hold its 1st symposium next week. Our work on unicellular relatives of animals and tumorigenesis will be represented by Yosuke.
Link: evomedgenomics.com/events/inaug...

15 PhD positions in Decoding Transcriptional Regulation in Regeneration by Advanced Genomics and Computational tools (funded by the DANIO-ReCODE MSCA 2023 Doctoral Network) The principal objective of DANIO-ReCODE is to provide world-class doctoral training to a new generation of early-career researchers interested in understanding the complex and multilayered process of ...

We have 15 PhD positions available as part of the DANIO-ReCODE MSCA DN 🇪🇸🇩🇪🇸🇮🇭🇷🇦🇹🇬🇧 Great opportunity for anyone interested in developmental biology, regeneration, genomics, and computational sciences. For project descriptions and how to apply, check: euraxess.ec.europa.eu/jobs/290548

🙏

(no title) developmental epigenomics

📢 We have a fully-funded postdoc position (computational genomics) opening at bogdanoviclab.org to work on the contributions of canonical and non-canonical 🧬 methylation to embryonic and neural development 🐠. For more info please check link below (positions). Please RT🙏