Cell-type-specific transposon demethylation and TAD remodeling in aging mouse brain A multi-omic single-cell atlas of the aging mouse brain reveals cell-type-specific transposon methylation changes, strengthening of 3D genome boundaries, and regionally heterogeneous aging signatures....

#Cell -type-specific #transposon demethylation and TAD remodeling in #aging #mouse #brain: Cell www.cell.com/cell/fulltex...

The federal grant will fund TPN-101 studies aimed at helping people stay healthier and sharper as they age.

vist.ly/4ubsw

#longevity #biotech #agingresearch #drugdevelopment #transposon #ARPah #healthspan #geroscience

A nice opinion paper (doi.org/10.1016/j.pb... ) from @anneroulin.bsky.social that highlights the need for caution when generalizing about the importance of TEs in local plant adaptation.
#TEsky #transposon

JBrowse

For those passionate about the aphid: Dysaphis plantagina, the #REPET track is now available on BIPAA JBrowse (bipaa.genouest.org/sp/dysaphis_...) with a direct link to #RepetDB for each #transposon copy! Enjoy! #TEsky

Such a #PLEASURE to be involved in this collaboration ! All the #transposon annotated during the project can be visualized in #RepetDB the TE database.
#TEsky

Here you can see a cryoEM structure of TnsC from the cyanobacteria Peltigera membranacea in complex to dsDNA and ADP (PDB code: 9G0F)

Rendering by Francisco J. Enguita made with #ProteinImager

3dproteinimaging.com/protein-imag...

#SciArt #transposon #dna #binding #atp #cyanobacteria #cryoEM

Dual transposon sequencing profiles the genetic interaction landscape in bacteria Gene redundancy complicates systematic characterization of gene function as single-gene deletions may not produce discernible phenotypes. We report dual transposon sequencing (dual Tn-seq), a platform...

This week @science.org Dual #transposon sequencing profiles the #genetic interaction landscape in #bacteria | Science www.science.org/doi/10.1126/... 🦠🔬🧫🧬

TEtrimmer: a tool to automate the manual curation of transposable elements Nature Communications - Transposons are repetitive DNA sequences that are hard to identify and map accurately. TEtrimmer automates key manual steps, enabling faster and more reliable annotation of...

Just published: TEtrimmer by @jiangzhaoqian.bsky.social et al @natcomms.nature.com

TEtrimmer aims to simplify #transposon annotation in any given genome - and improves the accuracy of TE detection!

Check it out: rdcu.be/eH8Sa

Sanctuary: a Starship transposon facilitating the movement of the virulence factor ToxA in fungal wheat pathogens | mBio The work presented here expands our understanding of a novel group of mobile genetic elements called Starships that facilitate the horizontal exchange of numerous genes between fungal pathogens. Our a...

Delighted that our work on the Sanctuary Starship #transposon is now published! A big thanks to all co-authors, especially to the ever-amazing @mcdonaldmeganc.bsky.social for her mentorship!

doi.org/10.1128/mbio...

PIWIL2 downregulation in colon cancer promotes transposon activity and pro-tumorigenic phenotypes Summary: This study investigates the PIWI-piRNA pathway in colon cancer using a nuanced bioinformatic and cell-based approach, linking the downregulation of PIWIL2 to disease progression, transposable...

Excited to share our most recent publication, where we delve into the roles of the #PIWI - #piRNA pathway in #transposon regulation, in #epithelial #homeostasis and #cancer. Fabulous work by the recently graduated student in the lab @sciencealyssa.bsky.social journals.biologists.com/bio/article/...

Long-read RNA sequencing of transposable elements from single cells using CELLO-seq - Nature Protocols Single-cell long-read RNA sequencing enables the high-fidelity mapping of single-cell expression data from highly sequence-similar transposable elements to unique genomic loci by correcting errors fro...

Very happy to share our protocols paper for CELLO-seq. This will make single cell long read RNA-seq more accessible and provides analysis guidelines. We hope this helps the #transposon #TEsky community and folks working on #singleCell isoform and allelic #gene expression. doi.org/10.1038/s415...

Huge thanks to Ben Czech Nicholson, Greg Hannon, and all co-authors @abdouak.bsky.social @susbo.bsky.social for this amazing work!
#transposon #drosophila #piRNA

An RNA Splicing System that Excises Transposons from Animal mRNAs All genomes harbor mobile genetic parasites called transposable elements (TEs). Here we describe a system, which we term SOS splicing, that protects C. elegans and human genes from DNA transposon-medi...

Interesting!
#Splicing #Transposon #RNA

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

Linking to #microsky #transposon

Rose ‘Brush Strokes’ putting on a fine show. The freshly opened buds are dramatic, but they soon fade once open. Every flower is unique #transposon

Antirrhinum ‘Purple Twist’ showing fabulous variegated petal colour #transposon

Geranium ‘Splish Splash’ with variegated flowers due to an unstable #transposon. I assume pale sectors are due to transposon excision from 1 of the 2 anthocyanin biosynthesis gene copies, dark sectors are where excision from both diploid copies has occurred; see the dark sectors within pale sectors.

I had a great visit to Unité Épigénétique et Destin Cellulaire to present our current work on locus-specific #transposon expression in development. Thank you for the invite Dounia Djeghloul and all the great discussions. Also an honour to present at @ijmonod.bsky.social

The first flower on Peony Lillipop has opened, wow 😍 Amazing petal pigment variegation presumably caused by an unstable #transposon mutation in one of the #anthocyanin biosynthesis genes.

Peony Lollipop is about to flower for the first time & I’m excited to see what the open flowers look like. The variegated colour is likely caused by an unstable #transposon mutation in one of the #anthocyanin pigment genes.

Accumulation of a biparentally-inherited Neptune transposable element in natural Killifish hybrids (Fundulus diaphanus X F. heteroclitus) Transposable elements (TEs) are abundant selfish genetic elements that can mobilize in their host genome, causing DNA damage, mutations and chromosome rearrangements. TE silencing is thus critical, an...

New preprint from the lab led by former masters student AJ Roussel in collaboration with Alexander Suh and @fjruizruano.bsky.social. We found a ~4-fold accumulation of a Neptune #transposon in asexually reproducing "F1" fish hybrids. An unexpected and fascinating finding! #TEsky

New paper from our lab just out @pnas.org! 🚀
Using free energy simulations, #AIphaFold and #cryoEM refinement, we uncovered a key conformational change in a paradigm-shifting #CRISPR-associated #transposon capable of precise gene knock-ins. 🔍🧬
www.pnas.org/doi/epub/10....

For those interested in repeat-induced point mutations (RIP) in fungi: Thomas Badet set up an amazing meeting in beautiful Neuchâtel #TEsworldwide #Transposon

Seminar by Gaotian ZHANG at IDEEV

↪️ Friday March 14, 2025 - 12:00

"Transposon-mediated genic rearrangements underlie variation in small RNA pathways"

▶️ tinyurl.com/yc69ynmp

#SemIDEEV #gene #rna #caenorhabditiselegans #transposon #dna #gaotianzhang @ibensens.bsky.social @normalesup.bsky.social

Researchers grew Plasmodium knowlesi in rhesus macaque red blood cells to study which genes are critical for P. knowlesi survival. Image credit: Sheena Dass

A detailed map reveals essential #genes in a #malaria #parasite, offering hope for new malaria treatments and ways to combat #DrugResistance. In PNAS Journal Club: www.pnas.org/post/journal...

#Plasmodium #transposon #MobileGeneticElents #AntimalarialDrugs

DFAM (database of transposable elements) 3.9 is out! A lot of cool new stuff and a special update for Drosophila melanogaster... 1/2 #Transposon #DFAM

Transposon–host arms race: a saga of genome evolution Once considered ‘junk DNA,’ transposons or transposable elements (TEs) are now recognized as key drivers of genome evolution, contributing to genetic diversity, gene regulation, and species diversific...

Transposon–host arms race: a saga of genome evolution | Trends in Genetics

#review #transposon #HUSH #KRAB

www.cell.com/trends/genet...

An endogenous retroviral element co-opts an upstream regulatory sequence to achieve somatic expression and mobility Retrotransposons, multi-copy sequences that propagate via copy-and-paste mechanisms involving an RNA intermediate, occupy large portions of all eukaryotic genomes. A great majority of their manifold c...

Very interesting preprint from @ksiudeja.bsky.social and colleagues using long-read ONT sequencing to find somatic ERV insertions in fly, which do not seem to accumulate with age. I appreciated the detailed and thoughtful text. 1/3

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

#transposon #mobileDNA #TEsky

CSH-Asia "The Repetitive and Mobile Genome" meeting announcement poster

Don't miss the first edition of the CSH-Asia meeting on "The Repetitive and Mobile Genome" taking place in Suzhou, China.
📅 Abstract submission deadline extended: Feb 21, 2025
👉 www.csh-asia.org?content/2544
#transposon #mobileDNA #TEsky

Our work therefore identifies a #KZFP that regulates #enhancer function through targeting domesticated #transposon sequences and operates in a #heterochromatin independent manner.

It also suggests a molecular mechanisms that may underlie the genetic association between ZKSCAN3 and #schizophrenia.