We are pleased to share that P4S Research Fellow @jamespblloyd.bsky.social from the University of Western Australia was recently awarded a Grains Research and Development Corporation Mid-Career Research Fellowship 🌟

Read more 👉 www.linkedin.com/feed/update/...

#PlantBio2025
I’ll be speaking in the final plenary—sharing the story behind this paper and some new, unpublished work from my lab at TSL. Hope people stick around till the end (though a few already warned me they’re leaving early 😅)!

Conservation of chromatin states and their association with transcription factors in land plants The complexity of varied modifications of chromatin composition is integrated in archetypal combinations called chromatin states that predict the local potential for transcription. The degree of conse...

New Pre-print! A long-standing question for transcription factor biology is how their chromatin context dependency works in plants. In this collaboration with Fred Berger lab, we present some new ideas not only in Arabidopsis but also in Marchantia. www.biorxiv.org/content/10.1...

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...

Research Fellow (Postdoctoral) at University of Birmingham An opportunity for an academic position as a Research Fellow (Postdoctoral) is available, as advertised on jobs.ac.uk. Apply now and explore other academic job openings.

I have a Postdoctoral Research Fellow position starting in January to study the evolution of seed gene networks using the fern Ceratopteris! Interested? More info here:
www.jobs.ac.uk/job/DNU179/r...

Closing date 31st July. 🙂
#PlantScience
#PlantSciencejobs

Inclusive pride flag, showing the rainbow flag with the trans flag and brown and black stripes to represent racial diversity.

I’m sharing my very personal story to encourage everyone to participate in and celebrate Pride month. All our voices are needed to protect diversity and support the queer community. #PRIDEmonth 🌈.
rootandshoot.org/forever-prid...

The genetic architecture of cell type–specific cis regulation in maize Gene expression and complex phenotypes are determined by the activity of cis-regulatory elements. However, an understanding of how extant genetic variants affect cis regulation remains limited. Here, ...

Grateful to share that our study on "The genetic architecture of cell type–specific cis regulation in maize" is now published in @science.org! Huge thank you to all co-authors and the 4 tough, but fair, reviewers who all helped to improve the study 🌽🧬 www.science.org/doi/10.1126/...

Thanks Max!! 😁😁

A putative 4mC methyltransferase is found in rotifers (N4CMT) that's also thought to have arisen through horizontal gene transfer from bacteria which we talk about briefly in the paper. Wouldn't be surprised if there are others examples out there to be found!

Thanks Jake!! 😄

Thanks Sean!! 😁😁😁

Thanks Li! 😎

Thanks Tatsuya!! :)

#DNA #methylation #4mC #epigenetics #germline #Marchantia #sperm #fertility #chromatin #reproduction #plantbiology #evolution

This work completes a story that started with strange bisulfite-seq anomalies during my PhD and ends with the discovery of a new epigenetic layer in eukaryotic reproduction.
Huge thanks to all co-authors, collaborators, and especially Xiaoqi Feng for guidance throughout.
13/13

In summary, our study establishes:
4mC is a functional DNA modification in eukaryotes
MpDN4MT1a is a eukaryotic 4mC writer
5mC and 4mC mark distinct chromatin domains in sperm
4mC coordinates transcriptional shutdown, chromatin compaction, sperm motility, and fertility
12/13

We also propose that 4mC could act as a paternal imprint—for example, guiding PRC2 targeting after fertilization. This may explain why loss of paternal 4mC reduces embryo viability and disrupts development.
11/13

Why deposit 4mC in Marchantia sperm?
We see no evidence of dual-modified 4,5mC, suggesting that 5mC blocks 4mC. This creates a clear division: 4mC marks genes, 5mC marks repeats.
This allows global methylation for compaction while preserving the TE-specific 5mC signature.
10/13

The motility defect is rescued by reintroducing wild-type MpDN4MT1a.
By contrast, sperm from global 5mC mutants show none of these distinctive phenotypes.
9/13

We now know that 4mC is essential for multiple aspects of sperm function.
Sperm lacking 4mC are motility-defective, outcompeted by wild-type sperm, and produce developmentally compromised embryos.
8/13

By contrast, transcripts for key sperm function genes—like CENTRIN1 and DYNEIN LIGHT CHAIN 7—are reduced, likely due to a dilution effect, helping explain the sperm motility defect in 4mC mutants.

7/13

ATAC-seq shows widespread open chromatin in mutants—especially where 5mC is absent at transcription start sites.
Careful RNA-seq analysis uncovered globally elevated expression. As a result, the mutant transcriptome resembles wild-type spermatids before 4mC is established!
6/13

We previously saw a correlation between 4mC loss and mis-regulated transcription in sperm, but now we uncover the mechanism:
4mC compacts chromatin, silences transcription, and completes the sperm epigenome transition.
5/13

The MpDN4MT1 gene appears to have originated via horizontal gene transfer from prokaryotes and has been retained for at least 200 million years— we detect it even in Lunularia cruciata, a liverwort from a distinct lineage to Marchantia.
4/13

We show that MpDN4MT1a, a eukaryotic homolog of bacterial 4mC methyltransferases, is the enzyme required for this modification.
Loss of MpDN4MT1a abolishes 4mC, and reintroduction of wild-type—but not the catalytic mutant—restores it.
3/13

In our new paper, we use six methods to unambiguously validate the presence of extensive 4mC at CG sites across genic regions in mature sperm:
🧪 immunodot blot
🧪 LC-MS
🧬 Bisulfite-seq
🧬 SMRT-seq
🧬 4mC-TAB-seq
🧬 4mC-AMD-seq
2/13

Extensive N4 Cytosine Methylation is Essential for Marchantia Sperm Function 4-methylcytosine (4mC) is an important DNA modification in prokaryotes, but its relevance, and even presence in eukaryotes have been mysterious. Here we show that spermatogenesis in the liverwort Marc...

In 2021, we described a novel wave of CG methylation in Marchantia polymorpha sperm and showed evidence that this mark was N4-methylcytosine (4mC) which is a very contentious modification in eukaryotes.
biorxiv.org/content/10.1...
1/13

Extensive N4 cytosine methylation is essential for Marchantia sperm function Global N4 cytosine methylation in Marchantia polymorpha sperm regulates gene expression and promotes sperm fertility.

I'm thrilled to share that our study is now published in Cell:
Extensive N4 cytosine methylation is essential for Marchantia sperm function.
www.cell.com/cell/fulltex...
This paper confirms our 4mC discovery in Marchantia sperm and takes it much further.
A thread: 0/13

Wonderful talk from @delfidorussen.bsky.social at #Monogram2025 about DNA methylation mutants in wheat. You can read the full MET1-1 mutant characterisation which was just published this week @jxbotany.bsky.social ⬇️

Partial redundancy buffers deleterious effects of mutating DNA methyltransferase 1-1 (MET1-1) in polyploid wheat Varying gene dosage through mutating DNA methyltransferase 1-1 (MET1-1 ) in polyploid wheat generates quantitative changes to CG methylation without the le

I’m very happy to share the published version of our paper on the role of MET1 in wheat 🌾 🧬

It’s been really exciting to discover more about DNA methylation in wheat and it’s huge polyploid genome

doi.org/10.1093/jxb/...