Antony Rod. Lab

A protein complex in the extreme distal tip of vertebrate motile cilia controls their organization, length, and function - Nature Communications Here they combine in vivo imaging with proteomics to characterize a protein complex comprised of Ccdc78 and Ccdc33 that acts at the extreme distal tip of 9 + 2 motile cilia to control tip architecture...

Cilia alert! Stoked to have the new paper from Juyeon Hong about a new domain at the extreme distal tip of motile cilia! (The EDT, y'all!) It's out now @natcomms.nature.com.
Check it out!
#cilia

www.nature.com/articles/s41...

Header image with the paper title: "Improved in vivo gene knockout with high specificity using multiplexed Cas12a sgRNAs"

Make your gene knockouts more efficient with multiplexed Cas12a sgRNAs. Our new paper is out now, with tools available from @addgene.bsky.social , www.plasmids.eu and @vdrc-flies.bsky.social.

www.nature.com/articles/s41...

#CRISPR #geneediting #Drosophila 🧪🧬✂️🔬🪰

Summary 🧵 below.

💸 Stem cell culture that’s ~95% cheaper and weekend-free: a win-win for PIs and trainees!
Our revised manuscript is online at ORE: open-research-europe.ec.europa.eu/articles/4-1...

Benchmarked across cell lines & differentiation protocols, including scRNA-seq — with lessons for #cultivatedmeat too!

Sad to hear that David Baltimore died. I am one of hundreds of scientists that David generously mentored, supported, and inspired. His influence on each of us was deep and lasting, and his impact on the world immeasurable. Arguably David Baltimore is one of the greatest scientists of any generation.

Translon: a single term for translated regions - Nature Methods Nature Methods - Translon: a single term for translated regions

CDS? ORF? Here is a new nomenclature for the translated regions of mRNAs: TRANSLON.
www.nature.com/articles/s41...

Many proteins bind RNA, yet we still don’t know what RNAs most bind because methods map one RBP at a time. In @cp-cell.bsky.social, with the Jovanovic lab, we describe SPIDR – a method for mapping the RNA binding sites of dozens of RBPs in a single experiment. www.sciencedirect.com/science/arti...

🚀 New from Cell: SPIDR is a game-changer—map dozens to hundreds of RNA-binding proteins simultaneously with single-nucleotide precision in one CLIP experiment. An exciting advance for RNA–protein interactomics! 🧬🔗https://doi.org/10.1016/j.cell.2025.06.042

I’m really pleased to share that our paper is out in Developmental Cell! NGN3 oscillates in the developing pancreas and controls the timing of cell differentiation via an incoherent feed-forward motif. For more details check out the comments below and DOI: 10.1016/j.devcel.2025.06.004

Our recent article on transposable elements and aging - which made the June cover - is the focus of a new Highlight.

"Highlight: 'Jumping Genes' Caught in an Aging Merry-Go-Round"

🔗 doi.org/10.1093/gbe/evaf094

🖌️ Miriam Merenciano

#genome #TEsky

Applications are now open! We are recruiting 20 Assistant Professors in a wide range of subject areas. We're looking for early-career researchers with strong scientific merits and future potential.
🔗 All positions: ki.se/en/about-ki/...

Silencing mitochondrial gene expression in living cells Mitochondria fulfill central functions in metabolism and energy supply. They express their own genome, which encodes key subunits of the oxidative phosphorylation system. However, central mechanisms u...

Researchers in Science have developed a tool to silence specific mitochondria-encoded mRNAs in living cells, which could help scientists understand the origins of certain mitochondria-related diseases. scim.ag/3F6Wm5d

Our work on lineage tracing with somatic epimutations is finally out in @nature.com!

Check out the thread by @larsplus.bsky.social below.

EPI-clone is a revolutionary technique for lineage tracing and it will immediately impact how we trace clones everywhere.

Detailed protocols coming out soon!

New @nature.com
An ingenious way to track DNA replication patterns at the single-cell level that leads to cell heterogeneity and daughter cells that can potentially give rise to cancer
www.nature.com/articles/s41...

Congrats @micrornax.bsky.social on this study on let7 in lung injury/repair and thanks for including us as collaborators!

(4/n) Probing further with epigenomic experiments we demonstrated that Let-7 controls histone acetylation and methylation of H3K27 to reprogram the formation of profibrotic AT2 stem cells.

(3/n) We showed that Let-7 directly controls the expression of an extensive gene regulatory network comprised of transcription factors associated with fibrosis and cancer such as BACH1, EZH2, and MYC to safeguard the lung from scarring.

(2/n) We found that Let-7 serves as a molecular guardian of AT2 cells and prevents their abnormal growth and “transformation” into fibrotic scar forming KRT8+ transitional cells in pulmonary fibrosis.

Let-7 restrains an epigenetic circuit in AT2 cells to prevent fibrogenic intermediates in pulmonary fibrosis Nature Communications - Loss of let-7, a key microRNA, causes lung alveolar stem cells to grow abnormally and dieprematurely, leading to scarring and lung damage. Here the study links let-7 loss to...

(1/n) Our article is out in @natcomms.bsky.social! We set out to examine the contribution of the ancient Let-7 microRNA over alveolar type 2 (AT2) stem cell plasticity in the genesis of pulmonary injury and interstitial lung disease i work led by Matthew and Shafiq in my lab.
Paper: rdcu.be/elun3

Trump 2.0: an assault on science anywhere is an assault on science everywhere US President Donald Trump is taking a wrecking ball to science and to international institutions. The global research community must take a stand against these attacks.

US President Donald Trump is taking a wrecking ball to science and to international institutions. The global research community must take a stand against these attacks.

https://go.nature.com/4kd1vIu

NIH In Your State - United For Medical Research Select a state on the map to see the impact of NIH funding across America.

Look up the impact of NIH funding in your state: www.unitedformedicalresearch.org/nih-in-your-...

Can’t wait for RNA2025! Chairing a new Education session… more details soon!

An injury-induced mesenchymal-epithelial cell niche coordinates regenerative responses in the lung Severe lung injury causes airway basal stem cells to migrate and outcompete alveolar stem cells, resulting in dysplastic repair. We found that this “stem cell collision” generates an injury-induced ti...

An early holiday present from the @MorriseyLab! A story of stem cell collision/competition driving lung regeneration. A tour de force by Dakota…#WhyWeScience!
www.science.org/doi/10.1126/...

Our annual Dance Your Ph.D. contest is open for submissions until March 28 💃

The entry form is here (plus more details in the article linked below): www.science.org/content/page...

I'm really excited to see Prisca's work highlighted here @yegracechen.bsky.social!

High content of nuclei-free low-quality cells in reference single-cell atlases: a call for more stringent quality control using nuclear fraction - BMC Genomics The advent of droplet-based single-cell RNA-sequencing (scRNA-seq) has dramatically increased data throughput, enabling the release of a diverse array of tissue cell atlases to the public. However, we...

Not checking nuclear markers like MALAT1 or intronic reads in your scRNA-seq data?🚨
We show their power to flag low-quality cells—even in top public datasets. It’s time to prioritize better QC for cleaner, more reliable genomics research!
Read more: bmcgenomics.biomedcentral.com/articles/10....
1/8

A modular platform for bioluminescent RNA tracking - Nature Communications Studying RNA dynamics in vivo often relies on fluorogenic approaches, but these can be hampered by factors such as limited sensitivity and sample autofluorescence. Here, the authors describe an ultras...

Nice paper from Jenn Prescher and colleagues on tags for bioluminescence imaging of RNAs. www.nature.com/articles/s41...

Almost 1 month left to submit your abstract for the #Epigenetics2025 conference, organized by @gensocuk.bsky.social
We’ve put together a fantastic scientific program, and Northern Ireland is a wonderful destination to explore.

ChIP-DIP maps binding of hundreds of proteins to DNA simultaneously and identifies diverse gene regulatory elements - Nature Genetics ChIP-DIP (ChIP done in parallel) is a highly multiplex assay for protein–DNA binding, scalable to hundreds of proteins including modified histones, chromatin regulators and transcription factors, offe...

Gene regulation involves thousands of proteins that bind DNA, yet comprehensively mapping these is challenging. Our paper in Nature Genetics describes ChIP-DIP, a method for genome-wide mapping of hundreds of DNA-protein interactions in a single experiment.
www.nature.com/articles/s41...

🚨 Update for #RNA science fans:
I checked on #Bsky registry, and here is a 'condensate' (😆) of all #RNA #RNAsky starter packs so far:
1. General RNA biology #1
go.bsky.app/RN6HnZp