Eva Dvorak Tomastikova

The histone core domain evolves at single-residue resolution to directly orchestrate transcription Nucleosomes are thought to be structural barriers to transcription, establishing a restrictive ground state that must be destabilized for gene express…

www.sciencedirect.com/science/arti...

Polycomb repressive complex 2 facilitates the transition from heterotrophy to photoautotrophy during seedling emergence (Naseem Samo , María Guadalupe Trejo-Arellano , Lenka Gahurová , et al) doi.org/10.1093/plce... #PlantScience

CK2 kinase–PRC2 signalling regulates genome-wide H3K27 trimethylation and transduces prolonged cold exposure into epigenetic cold memory in plants - Nature Plants This study reports that the CK2 kinase–H3K27 methyltransferase (PRC2) signalling promotes genome-wide H3K27 trimethylation and the formation of epigenetic cold memory at a potent floral repressor in A...

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

Rapid origin and turnover of genomic imprinting by transposable elements Genomic imprinting, the preferential expression of alleles based on their parent-of-origin, is an epigenetic mechanism that plays a key role in endosp…

I am thrilled to share our review with @claudiakohler11.bsky.social in which we discuss on the latest research on the classical and emerging roles of transposable elements in shaping genomic imprinting in plants. www.sciencedirect.com/science/arti...
#imprinting #epigenetics #plantReproduction

Trump freezes $200 million in UCLA science and medical research funding, citing antisemitism The Trump administration has frozen roughly $200 million in National Science Foundation, National Institutes of Health and other federal agency-funded research at UCLA, citing allegations the school d...

This is such bullshit. #NIH grants are not handouts—they are earned with lots of sweat and tears and deemed worthy by the scientific community to advance our future. Fuck this administration.
www.latimes.com/california/s...

Spontaneously directed loop extrusion in SMC complexes emerges from broken detailed balance and anisotropic DNA search Abstract. DNA loop formation by structural maintenance of chromosome (SMC) proteins, including cohesin, condensin, and the SMC5/6 complex, plays a pivotal

⭐NAR Breakthrough!⭐
Bonato et al. propose a model for how the yeast #condensin SMC complex drives persistent #DNAloopextrusion, using #atomicforcemicroscopy and #moleculardynamics.

Read the full article here: doi.org/10.1093/nar/...
#NARBreakthrough #SMC #biophysics #genomefolding #yeast

New Article: "Identification of the cytoplasmic motor–LINC complex involved in rapid chromosome movements during meiotic prophase in Arabidopsis" rdcu.be/ex4lg

... a complex composed of the kinesin PSS1, the KASH protein SINE3 and the C-term SUN-domain proteins.

Repressive cytosine methylation is a marker of viral gene transfer across divergent eukaryotes Abstract. Cytosine DNA methylation patterns vary widely across eukaryotes, with its ancestral roles being understood to have included both transposable ele

Happy to see our latest work out in @molbioevol.bsky.social. We revisit the evolution of 5-methylcytosine across neglected eukaryotic supergroups, establishing an ancestral repressive role silencing genome invaders, both transposons and viral elements👾: academic.oup.com/mbe/advance-... 🧵 1/7

Thanks for the tips. I still think the safest will be to avoid wb at all 😂

Is plant single cell/nuc. & spatial transcriptomics your passion? Do you want to understand plant adaptation using cutting edge molecular & bioinformatics tools? Then come and join us to work together with @ceplas.bsky.social & @wggc-de.bsky.social. #plantjobs
www.fz-juelich.de/de/karriere/...

AlphaFold - A practical guide AlphaFold - A practical guide

Recently I learnt that EMBL-EBI has a free online course about AlphaFold — how it works, strengths and limitations, how to use it — and it's very good!

There are also little quizzes and interactives.
www.ebi.ac.uk/training/onl...

Priceless! 😆
For all you #paleobiology parents.

Are you a #PhD student in #Chile and want to develop your #SoftSkills?

Learn about #ScienceCommunication, #ethics, #creativity, #career #opportunities and more at the EMBO PhD Course in Chile! 🧪

Deadline extended to 27 July!

Apply now:
meetings.embo.org/event/embo-p...

Dynamics and distribution of eccDNA in Arabidopsis. Left: Schematic representation of eccDNA amplification and sequencing via CIDER-Seq pipeline. Top right: EccDNA size distribution in Arabidopsis Col-0 leaf tissues (n = 4,158). The x-axis shows eccDNA size in kb and the y-axis shows the percentage of eccDNAs belonging to each window. Middle right: Size ranges of eccDNAs with marked median and quantiles (n = 4,190). Bottom right: Percentages of eccDNA reads mapping to TAIR CDS, TE, or intergenic databases (values represent the average of three replicates).

Previous studies of extrachromosomal circular DNA #eccDNA in #plants are based on short-read seq. @vanderschuren-lab.bsky.social uses long-read seq to obtain a map of full-length eccDNAs from #Arabidopsis, identifying their genomic origins & epigenetic regulation @plosbiology.org 🧪 plos.io/44Mq3RI

AI will further slow down scientific progress. Particularly breakthrough discoveries will be hindered.

Today - THE ugly. Western blot will never be my most favorite technique 😭😭😭

T-DNAreader: fast and precise identification of T-DNA insertion sites in plant genomes using RNA sequencing data - Genome Biology Agrobacterium-mediated plant transformation, which enables the delivery of DNA using transfer DNA (T-DNA) binary vectors, is an essential technique in plant research. T-DNAs randomly integrate into th...

Very useful tool to map TDNA insertion site using RNAseq data

genomebiology.biomedcentral.com/articles/10....

⏰️ Last days to register!

Don't miss the European Plant Cytoskeleton Club 2025

Lyon 4-5th of September !

🧬🌱🧪🔬

👇register here
Epcc2025.sciencesconf.org

Register now for the 7th German-French DNA Repair Meeting, which will take place at the Campus Pierre et Marie Curie of Sorbonne University in Paris, France, from 5–7 November 2025. premc.org/dnarepair202...

Fig. 1. (short legend see paper for full description): Null met1-1 mutants cannot be produced by crossing TILLING lines with disruptions in the three MET1-1 homoeologues. (A) Evolutionary relationships between MET1 homologues in Arabidopsis (AtMET1), rice (OsMET1a and OsMET1b), and wheat (homoeologue groups TaMET1-1, TaMET1-2, and TaMET1-3). (B) Crossing schematic showing the generation of the hexaploid MET1-1 populations: the C0465×C0884 population (top) and the C0451×C2028×C1292 population (bottom). (C) Structure of the three MET1-1 homoeologues. Filled rectangles represent exons, open rectangles represent untranslated regions, and lines represent introns. Triangles indicate the positions of the premature termination codon mutations in the TILLING lines used to produce the two hexaploid F2 populations (C0465×C0884, orange; C0451×C2028×C1292, purple). The green box signifies the Bromo adjacent homology domain (BAH) and the blue box signifies the C-5 cytosine methyltransferase domain.

🌾🧬 SPECIAL ISSUE RESEARCH 🌾🧬

📝 Varying gene dosage through mutating DNA methyltransferase 1-1 (MET1-1 ) in polyploid wheat generates quantitative changes to CG methylation without the lethal consequences observed in other crops - Burrows et al.

🔗 doi.org/10.1093/jxb/...
#PlantScience 🧪

Box 1 (shortened- see paper for full legend): The schematic figure illustrates recent findings on the intimate interplay between histone variants and DNA methylation in Arabidopsis thaliana. (A) Choi et al. (2021) and Harris et al. (2024) showed that the absence of linker histone H1 leads to a redistribution of Pol IV and Pol V from euchromatin to heterochromatin, enabling RdDM to act on the body of long heterochromatic TEs. (B) Choi et al. (2021) offered evidence that, in the absence of H1, Pol IV is still recruited to heterochromatin even when H3K9me2 is severely reduced (h1cmt2cmt3), supporting a model where RdDM functions in a feedback loop with its own targets. (C) Bourguet et al. (2021) described that the absence of H2A.W leads to the accumulation of H1 in heterochromatin, which reduces RdDM- and CMT2-dependent DNA methylation. This indicates that H2A.W regulates H1 accumulation in heterochromatin.

🧬🌱 SPECIAL ISSUE EXPERT VIEW 🧬🌱

📖 Edera & Quadrana review how the interplay between histone variants and DNA methylation is essential for cellular function in Arabidopsis thaliana, with chromatin remodeling serving as a coordinating factor.

🔗 doi.org/10.1093/jxb/...

#PlantScience 🧪

‼️Can we tune crossover hotspot activity by targeting chromatin modifiers? Absolutely!💥
Our screen shows dCas9-JMJ14 represses crossovers at targeted sites, while VP64 boosts them!
🧬 Check our new preprint:
www.biorxiv.org/content/10.1...

#meiosis4ever #CRISPR #Arabidopsis

Open PhD position in plant regeneration 🌱
www.muni.cz/en/about-us/...

Big thanks to @agagambus.bsky.social and
@chowdhurylab.bsky.social for their fantastic talks and to our amazing community for the rich discussions!

Next up: September 9th with @rubenvanboxtel.bsky.social and @polosophie.bsky.social.

Enjoy summer & stay in the loop: docs.google.com/forms/d/e/1F...

Hi everyone!

The latest method from the Whitehouse lab: PCP


PCP uses a novel proximity barcoding strategy to simultaneously map 3D genome organization at various resolutions at the single molecule level:

Out soon, check the updated BioRxiv – little thread:

1/11
www.biorxiv.org/content/10.1...

A CRISPR/Cas9-induced restoration of bioluminescence reporter system for single-cell gene expression analysis in plants https://www.biorxiv.org/content/10.1101/2025.05.27.656507v1

Just published, expansion in situ genome sequencing, where you can sequence DNA while still inside the cell, mapping its organization relative to proteins and other markers, with the help of expansion microscopy! Led by @jbuenrostro.bksy.social. www.science.org/doi/10.1126/...

IBH Seminar: BARVISTA. Cell-resolved transcriptomics & gene expression imputation uncovers barley gene regulatory networks - Barley Hub IBH 2025 series of seminars: 'BARVISTA. Cell-resolved transcriptomics & gene expression imputation uncovers barley gene regulatory networks'

Here is a link to the seminar series organised by the International Barley Hub, at James Hutton Institute. This is a recording of an online seminar, where I explained the approach we used and some applications to developmental questions.
barleyhub.org/ibh-seminar-...

Join the 5/29 NAASC panel (register by 5/28): with Rachel Shahan (UCLA), Kevin Cox (WUSTL & Danforth Center) & Monika Fischer (Univ. British Columbia).
Early Career Scholar Hosts: Catherine Freed, Mingyuan Zhu, Vincent Cerbantez.
Panel will be recorded for later viewing
@rachelmshahan.bsky.social

Perspective. The art of drying gracefully: The future for desiccation research | Plantae In their perspective article, “Life on the dry side: a roadmap to understanding desiccation tolerance and accelerating translational applications,” Marks et al. outline the current state and future…

Plant Science Research Weekly -- The art of drying gracefully: The future for desiccation research (Nature Communications) @roseamarks.bsky.social @rheelab.bsky.social (Summary by Stephanie Temnyk) buff.ly/D6x3PIA

#PlantaePSRW