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Dr. Tyler A. Elliott

@transposableman.bsky.social

Transposon obsessed biologist #TEsky. Research Associate in Linquist Lab and Adamowicz Lab @ the U of Guelph Check out the wealth of TE resources on @tehub.bsky.social https://tehub.org https://www.tyleraelliott.com/research

241 Posts871 Follower886 Folgt
Arnau Sebé-Pedrós@arnausebe.bsky.social · 3d ago

Happy to share the final version of our study on the evolution of chromatin states across eukaryotes, out today in @natgenet.nature.com Led by @crisnava.bsky.social and @seanamontgomery.bsky.social www.nature.com/articles/s41... Some highlights below

Diversity and evolution of chromatin regulatory states across eukaryotes - Nature Genetics

This study introduces iChIP2, a low-input chromatin immunoprecipitation followed by sequencing method that profiles histone post-translational modifications (hPTMs) simultaneously across diverse eukar...

nature.com

Dr. Tyler A. Elliott@transposableman.bsky.social · 5d ago

#TEsky Structure-based recasting of a mammalian DNA transpososome as an obligate heterodimer doi.org/10.64898/202...

Structure-based recasting of a mammalian DNA transpososome as an obligate heterodimer

Eukaryotic DNA transpososomes assemble as nucleoprotein complexes containing multiple identical transposase protomers. We determined the structure of the hyperactive Myotis lucifugus piggyBat transpososome and discovered that it uses an unusual crescent-shaped, asymmetric tetramer to synapse divergent inverted terminal repeats. We found that identical amino-acid sequence motifs adopt distinct roles to mediate two modes of DNA binding: one to perform strand transfer and one, devoid of catalytic activity, that promotes synapsis while simultaneously protecting the transposon from auto-destructive internal cleavage by its active sites. Guided by the observed modularity of the assembly, we engineered an obligate heterodimeric system by identifying mutations that suppress homodimer formation and paired this with specific point mutations that prevent non-targeted integration. By adding to the heterodimer two different TALE domains designed to bind a human genomic safe harbor sequence, we achieved >98% targeted integration at the intended sequence in a plasmid-based assay, validating the viability of heterodimeric transposases for genomic applications. ### Competing Interest Statement The authors have declared no competing interest. National Institute of Diabetes and Digestive and Kidney Diseases Intramural Program, DK036153-20

doi.org

Tetsuya Yamada@tyamadat.bsky.social · 7d ago

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...

Jamie Walters@bioboatr.bsky.social · last wk.

Y and W sex chroms are enigmatic. Compared to the rest of the genome, they show distinct structure and diversity, and are notoriously difficult to assemble. Work led by @mdalikova.bsky.social investigates these patterns for the W chromosome of silkworm, Bombyx mori www.biorxiv.org/content/10.6...

Wrong but useful: Bombyx silkworm W chromosome assemblies are flawed but still capture strongly reduced diversity of repetitive DNA

Degenerate sex chromosomes ( e.g., the Y or W) remain among the most difficult regions of eukaryotic genomes to assemble because they are highly repetitive and structurally complex. While many recent ...

biorxiv.org

Science X / Phys.org@sciencex.bsky.social · last wk.

At up to 1,640 feet below ground, water from ancient rock contained about 250 fungal cells per drop, similar to ocean water. Deep carbon stores may be more biologically active than thought. doi.org/hcc3d7

An entire world of fungi nearly a third of a mile underground could affect carbon storage estimates

Hundreds of feet below Earth's surface, rocks and water teem with fungi and support complex ecosystems of tiny organisms, according to a University of Michigan study that finds fungi are far more abundant deep underground than researchers previously thought.

phys.org

Katherine Drotos@spiritofcavalia.bsky.social · last wk.

I haven't been able to keep up with Khalil as much as I should have over the past week ... it turns out he took on a debt in order to pay for his wife Noreen's treatments following her hemorrhage. It is due, and he faces imprisonment if he can't pay it back. chuffed.org/project/1874...

From the Heart of Gaza... Please Help Khalil and Noreen's Family

Please join us in defending Khalil and Noreen's kids from the brutality of war, winter, hunger and illness. Noreen suffers from damaged cartilege. She can't move easily. She also needs a corneal trans...

chuffed.org

MaizeGDB@maizegdb.bsky.social · last wk.

We are deeply saddened to share that Michael Freeling passed away on 7/20/2026 after a year-long battle with cancer. Our deepest condolences go to his family, friends, colleagues, and the many students he inspired. We will share additional memorial information soon.

We are very sorry to share the sad news that Michael Freeling passed away on 7/20/2026 after a year long battle with esophageal cancer. Mike was a long-time faculty member in the Plant and Microbiology Department at University of California-Berkeley, a groundbreaking plant geneticist, and an inspiring teacher and mentor to over two dozen Ph.D. students, four dozen postdocs, and countless undergraduates. He was best known for pioneering work on maize anaerobic metabolism and gene regulation, transposon biology, developmental genetics of the maize ligule, and the discovery of biased gene retention following whole-genome duplications in plants. Mike was hired by UC-Berkeley as an assistant professor straight out of graduate school in 1973, and he was promoted to Associate Professor in 1979 and to full professor in 1984. He was selected as a Guggenheim Fellow in 1980, elected to the National Academy of Sciences in 1994, and won the McClintock Prize for Plant Genetics and Genome Studies in 2017. Mike taught genetics, comparative genomics and scientific reasoning to our graduate students, and he also taught a popular genetics course for non-majors that had various titles over the years but was affectionately known as “Genetics for Poets.” Our deepest condolences go out to his family, friends and many colleagues.
Toby Baril@tobybarilbio.bsky.social · last wk.

EarlGrey ParTEA v0.2.0 is out! Pangenome TE annotation across multiple genomes just got a major upgrade — now fully compatible with RepeatMasker 4.2.4, RepeatModeler 2.0.9, RMBlast 2.17, and Dfam 4.0 / FamDB 3.0.0 🧬 🔗 github.com/TobyBaril/EarlGreyParTEA #TEworldwide #TEsky #genomics #transposons

GitHub - TobyBaril/EarlGreyParTEA: 2+ genomes make a parTEA! This pangenome TE annotation pipeline extends EarlGrey for multi-genome comparative analysis

2+ genomes make a parTEA! This pangenome TE annotation pipeline extends EarlGrey for multi-genome comparative analysis - TobyBaril/EarlGreyParTEA

github.com