Our manuscript on the co-option of TEs as cerebellar CREs is now officially published in @natcomms.nature.com! Huge thanks to @kaessmannlab.bsky.social @marisepp.bsky.social, and @ioansarr.bsky.social for the fantastic collaboration throughout this project! www.nature.com/articles/s41...

Gene regulatory innovations from transposable elements in primate cerebellum development - Nature Communications

The roles of transposable elements in primate brain development remain underexplored. Here, the authors identify transposable elements with ancestral regulatory potential that have been co-opted as ci...

nature.com

Kaessmann Lab@kaessmannlab.bsky.social · 10mo ago

Did transposable elements shape brain evolution — and if so, which ones, and in which cell states and lineages? Led by @tyamadat.bsky.social, we explored this question in cerebellum development using sequence-based deep learning models! www.biorxiv.org/content/10.1...

Why is the X chromosome rich in L1 mobile elements? @science.org X-chromosome inactivation draws L1 mutagenesis to the human X chromosome | Science www.science.org/doi/10.1126/...

X-chromosome inactivation draws L1 mutagenesis to the human X chromosome

X-chromosome inactivation (XCI) enables gene dosage compensation in XX eutherians. Long interspersed element-1 (LINE-1 or L1) retrotransposons are unusually abundant on the human X chromosome and are ...

science.org

Nucleic Acids Research is looking for a new Executive Editor! If you're an established researcher in RNA biology, translation, RNA virology, or related fields, apply! As a current Executive Editor, I highly recommend it. 📅 Deadline: 30 September 2026 academic.oup.com/nar/pages/ex...

NAR seeks a new Executive Editor

Overview of the Journal Nucleic Acids Research (NAR) is a leading open access molecular biology journal published by Oxford University Press. It provides rapid

academic.oup.com

Jim Shorter and his postdoc Miriam wrote a beautiful preview about our most recent paper on mRNAs preventing misfolding of IDR-containing proteins. UTR-ly unexpected: RNA chaperones tame intrinsically disordered proteins: Cell www.cell.com/cell/fulltex...

UTR-ly unexpected: RNA chaperones tame intrinsically disordered proteins

How do cells ensure that complex, multidomain proteins fold correctly? Luo et al. reveal a self-contained solution. The 3′UTR of an mRNA co-translationally chaperones the protein it encodes, preventin...

cell.com

Really happy to share exciting news for the lab: @ukri.org has awarded us a ~£1M BBSRC New Investigator award over 5 years to investigate the neurobiological basis of 'safety in numbers'. 🧵 1/3

MY SITE

MY SITE

ferreira-lab.weebly.com

Free and open-source images, icons, and tools for creating scientific illustrations doi.org/10.59350/5zt... 🧪

Free and open-source images, icons, and tools for creating scientific illustrations

Phylopic, NIH Bioart, Bioicons, Scidraw, Open Science Art, Health Icons, Servier Medical Art, Biodiversity Heritage Library, the Noun Project, Segment Anything, Excalidraw, draw.io, Biographics

doi.org

After about a year from the preprint, our scRNAseq atlas of the developing Drosophila nerve cord has been published in @nature.com www.nature.com/articles/s41...

A global molecular code for birth order and neuronal identity in Drosophila - Nature

A high-resolution developmental transcriptional atlas of the Drosophila melanogaster nerve cord identifies a shared transcriptional code that records neuronal birth order and organizes neuronal d...

nature.com

What happens if you delete large intronic regions? In human tissue culture cells, we found many deletions that decrease growth and some that increase it. In most cases, deletion affected expression or splicing of the gene. www.cell.com/cell-reports... 1/3

A genome-wide functional analysis of conserved intronic regions reveals essential roles for speckle-associated retained introns

Farhangmehr et al. investigate functions of highly conserved intronic sequences in cell fitness using a CRISPR-based deletion screen. Deletions in FNBP4 intron lead to changes in p53 pathway genes. De...

cell.com

Viva Espana! Gauchos sent to the pampa to exercise on their style!

Interesting. Full deletion of all introns in yeast was actually my project in the Staley lab, *20 years ago*. I actually found a bunch of phenotypes. We did this in collaboration with the Guthrie lab. www.cell.com/cell/abstrac...

A spliceosome-independent eukaryote generated by complete intron removal

Elimination of all spliceosomal introns reveals a spliceosome-independent eukaryote.

cell.com

There are very few people on this planet, who have two, not just one, blue plaques. One of them certainly is John Venn, the inventor of the Venn diagram. #Hull #Geek

Introns have a hidden regulatory role! 🧬🎉 Delighted to share our latest paper showing that inefficiently spliced introns and spliceosomal proteins direct RNA methylation, engaging RNAi to silence retrotransposons and regulate gene expression nature.com/articles/s41...

Insulin synthesis is sustained by Tent5 poly(A) polymerases https://www.biorxiv.org/content/10.64898/2026.07.04.736497v1

Cap 2′-O-methyltransferase CMTR2 regulates male meiosis independent of its methyltransferase activity academic.oup.com/nar/article/...

Cap 2′-O-methyltransferase CMTR2 regulates male meiosis independent of its methyltransferase activity

Abstract. Non-obstructive azoospermia represents one of the most intractable forms of male infertility, with its onset frequently associated with meiotic a

academic.oup.com

Validation of the mRNA epitranscriptome: SCARPET reveals that mapped m1A sites are inosine link.springer.com/article/10.1...

Validation of the mRNA epitranscriptome: SCARPET reveals that mapped m1A sites are inosine - EMBO Reports

A major goal in epitranscriptomics is to define the diversity of modified nucleotides in mRNA. Most candidate sites are discovered using transcriptome-wide mapping methods that rely on antibody enrich...

link.springer.com

New paper! How do RNAs "know" where to go inside a cell? We dug into the sequence elements that route RNAs to the right place. It turns out that, in mammals, they're surprisingly massive (>200 nt), multipartite, and wonderfully complicated. 🧵

🚨🚨NEW PREPRINT ALERT!🚨🚨Proud to present our recent study, out now on bioRxiv, in which we reveal an RNA-dependent positive feedback loop that drives malignant ribosome biogenesis and tumour growth (1/15). 🔗 www.biorxiv.org/content/10.6...

Lab's latest: sculpting sex-biased metabolic territories in the intestine by tuning ploidy and lipid metabolism. Myc is to blame; Laura, Pedro and Chris found out www.cell.com/developmenta...

Myc sustains sex-biased organ zonation in the Drosophila intestine

Amourda, Blackie, Gaspar, et al. show that sex-biased activity of Dsx and Myc shapes intestinal zonation and lipid metabolism in Drosophila. Elevated Myc activity in female enterocytes increases ploid...

cell.com

👋 Happy Friday! Here is the first preprint from the lab, starring Sophie Waldron and Yixin (Demi) Liu! We present a single-nucleus atlas of peptidergic neurons from the Drosophila brain, which we use to identify changes in gene expression under protein deprivation. www.biorxiv.org/content/10.6...

Dark matter arising - ewg starts with a CTG, so there is more. www.nature.com/articles/s41...

Alternate RNA decoding results in stable and abundant proteins in mammals - Nature

Alternate RNA decoding, an understudied process, leads to peptide sequence modifications that can have substantial functional effects on protein stability, tissue-specific proteomes and dise...

nature.com

Doing EMSAs? See fantastic protocol thanks to @davidmcquarrie.bsky.social bio-protocol.org/en/bpdetail?...

Bio-protocol@bio-protocol.bsky.social · last mo.

Bio-protocol's new issue is now live! 🎉 bio-protocol.org/cn/archive?v... This issue features the special collection “Technologies for RNA Detection,” highlighting advances in RNA detection and visualization, sequencing, structural analysis, and RNA–protein interaction studies.

Delighted to share that our @bioprotocolbyte Special Issue, “Technologies for RNA Detection,” edited by @marionhogg.bsky.social and me, is now published. bio-protocol.org/en/archive?v... It brings together methods spanning biochemistry to computational biology, plus our mini‑review -Check it out!

Time for some #RNA decay! 😊🇩🇪 www.rnadecay.org

RNA Decay 2026

It is our great pleasure to invite you to the 2026 Mechanisms of RNA Decay meeting. Building on a long and enriching tradition, formerly as a FASEB conference, our goal is to bring together an interdi...

rnadecay.org

Mating makes cholesterol matter for male fruit fly lifespan! @elerosca.bsky.social @ju-morimoto.bsky.social @livuninews.bsky.social @liverpooluni.bsky.social news.liverpool.ac.uk/2026/06/18/m...

Mating makes cholesterol matter for male fruit fly lifespan - University of Liverpool News

Mating makes cholesterol matter for male fruit fly lifespan

news.liverpool.ac.uk

Nitric oxide drives proteomic diversity through alternative splicing

Nitric oxide drives proteomic diversity through alternative splicing

Schindler et al. report that RNA-binding proteins undergo widespread S-nitrosylation at evolutionarily conserved sites. S-nitrosylation of the master splicing regulator PTBP1 alters RNA-binding properties to reprogram the transcriptome and proteome. Nitric oxide thereby coordinates gene and protein regulation in cellular physiology and disease.

dlvr.it

Makes me sad more people don't know about @reviewcommons.org and the incredible system they've built! Get peer reviews independent of a journal, then submit with reviews in hand to a stable of excellent journals from across non-profit and society publishers. Review Commons: good for what ails ya.

How can a splicing factor bind to thousands of exons but regulate only a few of them? In our new preprint, we show that SRSF6 resolves this paradox through two distinct binding modes. @lab-nmr.bsky.social & @julianvonehr.bsky.social. Check it out: www.researchsquare.com/article/rs-9...

Fascinating story about the organiser discovered over 100 years ago by Mangold & Spemann. A key role for TGFbeta signalling.

Ctenophores Rock!@ctenophoresrock.bsky.social · 2mo ago

What is the evolutionary origin of the organizer? New work from @kremnyovs.bsky.social, @tclebedeva.bsky.social & Hejnol Lab @uni-jena.de reports the blastopore lip of the #ctenophore Mnemiopsis leidyi, a member of the evolutionary sister group to all other metazoans, exhibits organizer activity.

Check out our latest research, just published in Nature @nature.com @molbiolau.bsky.social @au.dk Molecular basis of polyadenylated RNA fate determination in the nucleus www.nature.com/articles/s41...

Molecular basis of polyadenylated RNA fate determination in the nucleus - Nature

Biochemical, structural and cell biological analyses reveal that UAP56 (DDX39B) assembles with a TREX-2–like module that redirects non-functional polyadenylated RNAs from export to degradati...

nature.com

I finally had some time to improve my poster about staging Drosophila embryos in collaboration with @stramerlab.bsky.social and we would like to share this with the community! You can find it here or at a higher resolution on my portfolio: www.behance.net/gallery/2458... #DrosophilaEmbryogenesis