Thomas Blein

Enhancing apple disease resistance using magnetic nanoparticles carrying artificial miRNAs that suppress a tRNA-derived small RNA targeting a disease-resistant gene #research #PlantCommunications cell.com/plant-commun...

PlantscRNAdb 4.0: Improved marker identification and annotation under a cell type uniformity for plants #resource #MolecularPlant cell.com/molecular-pl...

Box 1 (shortened, full legend in paper): Key developments in elucidating hierarchical chromatin organizations in plants Chromosome territories Each chromosome occupies a distinct territory within the nucleus, as evidenced by strong intra-chromosomal contacts in a Hi-C contact map. Large A/B compartments Each chromosome is partitioned into large A and B compartments. The heterochromatic B compartment is usually located near the nuclear membrane, whereas the euchromatic A compartment tends to be positioned toward the inner regions of the nucleus. TAD-like domains and compartment domains Large A and B compartments can be further partitioned into TAD-like domains and/or compartment domains. Yin et al. (2023) demonstrated that the Arabidopsis genome is partitioned into compartments, each with different histone modifications, including H3K4me3, H3K27me1, and H3K27me3.

🧬 EXPERT VIEW 🧬

In this review, Lee & Seo highlight the hierarchical organization of plant genomes, emphasizing recent advances in understanding local chromatin structures shaped by cohesins and gene borders as fundamental structural units.

🔗 doi.org/10.1093/jxb/...

#PlantScience 🧪

Box 1 (shortened, full legend in paper): Key developments in elucidating hierarchical chromatin organizations in plants. Chromosome territories Each chromosome occupies a distinct territory within the nucleus, as evidenced by strong intra-chromosomal contacts in a Hi-C contact map. Large A/B compartments Each chromosome is partitioned into large A and B compartments. The heterochromatic B compartment is usually located near the nuclear membrane, whereas the euchromatic A compartment tends to be positioned toward the inner regions of the nucleus. TAD-like domains and compartment domains Large A and B compartments can be further partitioned into TAD-like domains and/or compartment domains.

🧬 SPECIAL ISSUE REVIEW 🧬

In this review, Lee & Seo highlight the hierarchical organization of plant genomes, emphasizing recent advances in understanding local chromatin structures shaped by cohesins and gene borders as fundamental structural units.

🔗 doi.org/10.1093/jxb/...

#PlantScience 🧪

Meet the volunteer researchers behind TAIR12: Emmanuel Boutet, Swiss Institute of Bioinformatics - Phoenix Bioinformatics Over the past two years TAIR has led a community effort to reannotate the Arabidopsis thaliana genome with support from scientists like Emmanuel Boutet, a plant biocurator for the Swiss Institute of B...

Meet the volunteer researchers behind #TAIR12... beginning with Emmanuel Boutet of the Swiss Institute of Bioinformatics. Please join us in expressing gratitude to everyone who contributed to this new annotation.

#plantbiology #plantscience #TAIR #Arabidopsis

bit.ly/4p6FagQ

SWARM: A Single-Molecule Workflow for High-Precision Profiling of RNA Modifications Nanopore direct RNA sequencing promises to decode the epitranscriptome by detecting multiple modifications on individual RNA molecules, but its potential for biological discovery is hampered by high f...

AI based framework for RNA modif detection using nanopore #RNAbiology

SPS Summer School 2026 - "Plant single cell RNAseq workshop: From current technologies to data analyses" (2026) Sun 28 Jun, 2:00 PM - Fri 3 Jul, 6:00 PM [CEST]: This Summer school is organized by the Saclay Plant Sciences (SPS) network, one of the largest European plant sciences communities. scRNAseq…

📅New #PlantSciEvents Event Added: SPS Summer School 2026 - "Plant single cell RNAseq workshop: From current technologies to data analyses"

👉 buff.ly/cCZZ5kq

#PlantScience

📢 Online event: International Society of Root Research - Mini Symposium — Wed 28 Jan 2026, 10:00–17:00 UK (12:00–18:30 UTC). Talks + discussion for anyone into root research & related topics.
@rootscientists.bsky.social @rootarchitecture.bsky.social #roots #RootResearch #PlantScience #Rhizosphere

Get ready: TAIR12 is coming - Phoenix Bioinformatics More than two years ago, TAIR took the lead in a volunteer-driven project to reannotate the Arabidopsis thaliana genome

It's our birthday! Twenty-five years ago, in December 2000, the Arabidopsis thaliana genome was published and #TAIR was born.

Now, we're preparing for the release of #TAIR12 early in the new year. What a long way we've come!

bit.ly/3KDJciT

#plantbiology #plantscience #genomics #Arabidopsis

Leandro Quadrana

🎉 Congratulations to Leandro Quadrana (@leandroquadrana), @CNRS researcher at @IPS2ParisSaclay, for obtaining the prestigious #ERCCoG HosTEome!
#ERC #Genomics #Research #AIinBiology #CNRS #UniversitéParisSaclay #PlantScience
ips2.u-psud.fr/en/articles/...

In vivo RNA structure influences the translation and stability of plant long noncoding RNAs #research #PlantCommunications cell.com/plant-commun...

A telomere-to-telomere reference genome assembly of tomato cultivar Heinz 1706 #correspondence #PlantCommunications cell.com/plant-commun...

Summer School 2026

Registrations are open for the Summer School "Saclay Plant Science" (SPS) 2026 on Plant Single Cell at Versailles ! ips2.u-psud.fr/en/articles/... #PlantScience

Plants establish beneficial interactions with both fungi and bacterial microbes that they attract from the soil rhizosphere by producing signalling molecules under conditions of nutritional deficiency. (A) arbuscular mycorrhizal (AM) symbiosis, (B) nitrogen-fixing rhizobial nodulation symbiosis, (C) other beneficial plant-fungi interactions, such as the ectomycorrhizal symbiosis (ECM) and the association with Trichoderma or Mucoromycotina ‘fine root endophytes’ (MFRE), (D) interactions with Plant Growth-Promoting Rhizobacteria (PGPR) Figure generated using BioRender (https://biorender.com/).

A review from F. Frugier' team aiming at identifying the common molecular mechanisms associated to the different beneficial plant-microbe symbiotic and endophytic interactions
ips2.u-psud.fr/en/articles/... #PlantScience

Dr. Bruno Guillotin

Welcome and congratulations to Bruno Guillotin on joining IPS2 as a permanent researcher!
May the spirit of science always be with you and inspire your future discoveries. #PlantScience
ips2.u-psud.fr/en/articles/...

HeatDDR is funded by the European Union. Views and opinions expressed are however those of the author(s) only and do not necessarily reflect those of the European Union. Neither the European Union nor the granting authority can be held responsible for them

9 international PhD students, 17 partners, 1 goal: coordinated by Université Paris-Saclay, the HeatDDR Doctoral Network is training the next generation of plant scientists to boost crop resilience to heat and climate change 🌱🔥 ips2.u-psud.fr/en/articles/... #PlantScience

plantiSMASH 2.0: improvements to detection, annotation, and prioritization of plant biosynthetic gene clusters https://www.biorxiv.org/content/10.1101/2025.10.28.683968v1

From non-coding to chromatin regulators: VIVIpary and the rise of lncRNAs in plant biology #spotlight #MolecularPlant cell.com/molecular-pl...

Long noncoding RNAs as molecular architects: Shaping plant functions and physiological plasticity #review #MolecularPlant cell.com/molecular-pl...

PostDoc position in bioinformatics and artificial intelligence. PDF available upon request.

Interested in #lncRNA and #ArtificiaIntelligence?
In the frame of our recently founded French-Korean bilateral project DHARP, we are recruiting a post-doc in bioinformatics and artificial intelligence in our team at
@ips2parissaclay.bsky.social
Application limit: 01/12/2025

New academic year and we are lucky to host two new PhD students in our group at @ips2parissaclay.bsky.social. Welcome Laura and Valentin!

funrna.org/post/2025-10...

We were very happy about your stay and the nice exchanges. Next time in Chile!

Model describing the promoting effect on symbiotic nodulation of TDIF signaling peptides through increasing the root stele diameter and adapting the primary metabolism

Have a look to the new study from the Frugier team at IPS2, about the sTDIF signaling peptide that modulates the root stele diameter and primary metabolism to accommodate symbiotic nodulation. ips2.u-psud.fr/en/articles/... #PlantScience

A single-cell, spatial transcriptomic atlas of the Arabidopsis life cycle - Nature Plants This study presents an extensive single-nucleus and spatial transcriptomic atlas of the Arabidopsis life cycle that represents ten distinct developmental time points inclusive of six diverse organs.

Check out the open access paper here: www.nature.com/articles/s41...

Out after peer review, collaborative study from Nordborg & Weigel labs with help from many others. Not the largest collection of new Arabidopsis thaliana genomes, but we hopefully put forward some good ideas for how to think about pangenomes and their analysis!
www.nature.com/articles/s41...

The histone variant H3.14 is an early player in the abiotic stress response of Arabidopsis The combinatorial changes in DNA methylation, post-translational histone modifications, and histone variants underlie the complexity of chromatin stru…

The histone variant H3.14 is an early player in the abiotic stress response of Arabidopsis.

#PlantScience 🌾🧪

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

A histone variant that manages abiotic stress in plants Nature Reviews Molecular Cell Biology, Published online: 06 August 2025; doi:10.1038/s41580-025-00884-7H3.14, a histone variant of unknown role, has a dual transcriptional function in the abiotic stress response in plants: activation of stress response genes and inhibition of growth genes.

ICYMI: New Online! A histone variant that manages abiotic stress in plants

#RNAsky #RNAbiology #PlantScience 🌾🧪

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PhD Position: Root System Architecture and Plant Adaptation to Climate Change at the Institute of Plant Sciences of Montpellier (IPSiM) and the PhenoMEn team at the Amélioration Génétique et Adaptations des Plantes méditerranéennes et tropicales (AGAP)
#PlantSciJobs

A resource of RNA-binding protein motifs across eukaryotes reveals evolutionary dynamics and gene-regulatory function - Nature Biotechnology RNA-binding motifs in eukaryotic proteins are presented in a comprehensive resource.

New in @natbiotech.nature.com: a team led by scientists at MSK and ‪University of Toronto have developed a new platform to facilitate the study of RNA-biding proteins (RBPs) across hundreds of species of plants, insects, and animals.