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@leandroquadrana
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Very happy and proud to share the preprint of our integrative study revealing a unique mechanistic framework for a chromatin switch mediated by a dual trxG/PcG factor. Made possible thanks to the work and dedication of several PhD students & postdocs, and fruitful collaborations.
The dual trxG/PcG protein ULTRAPETALA1 modulates H3K27me3 and directly enhances POLYCOMB REPRESSIVE COMPLEX 2 activity for ... https://t.co/dESO4gf70x
#biorxiv_genetic
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New preprint! An atlas of conserved TF binding sites across flowering plants generated with multiplexed DAP-seq. When integrated with multi-species snRNA- and snATAC-seq reveals how TF activity shapes development and stress responses at the cellular level. https://t.co/fRvt1Jrg9I
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Very proud to share our second pre-print of the year, this time on the positive crosstalk between DNA methylation and Polycomb-group proteins at Arabidopsis transposable elements (TEs): https://t.co/YVtJWeOaPG
biorxiv.org
Transposable elements are primarily silenced by DNA methylation and the associated histone modification H3K9me2 in many multicellular eukaryotes, including plants. However, in the absence of DNA...
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An atlas of conserved transcription factor binding sites reveals the cell type-resolved gene regulatory landscape of flowering plants https://t.co/jnbYw5K0wQ
#biorxiv_genomic
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Very excited to see our paper finally out @NaturePlants ! The manuscript is fully accessible from here: https://t.co/8qHzbjwJfg
https://t.co/xqfxf1EqPN
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Preprint alert #Meiosis4ever Here, we clarify the function of MLH1-MLH3 in meiotic crossover formation in Arabidopsis thaliana MutLγ enforces meiotic crossovers in Arabidopsis thaliana
biorxiv.org
During meiosis, each chromosome pair experiences at least one crossover (CO), which directs their balanced segregation in addition to shuffling genetic information. COs tend to be away from each...
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New Article: "Retrotransposon addiction promotes centromere function via epigenetically activated small RNAs" https://t.co/0EkhiTfYlo With News & Views: "A centromere’s obsession with transposons" https://t.co/olcPzHlsy1
This paper led by Dr. Atsushi Shimada is out @NaturePlants! Centromere function can be dependent on a few TEs, and in RNAi mutants, small RNAs targetting these TEs are enough to reestablish normal chromosome segregation! Crazy!
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Plant Science Research Weekly -- SAM-seq: A novel approach for unraveling plant epigenetic complexity (Nucleic Acids Res.) @leandroquadrana (Summary by Ileana Tossolini @IleanaDrt) https://t.co/q3I81VTaNH
#PlantaePSRW
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IPS2 experienced a cyberattack on August 11th, and currently the IPS2 website and email addresses in @universite-paris-saclay.fr are not functional. Please use @cnrs.fr , @inrae.fr, @u-paris.fr, @univ-evry.fr
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Dear friends of transposons: Genome Biology launched a special collection on 'TEs in genome evolution' with me and Juergen Schmitz as guest editors. We look forward to receiving your exciting new work by Dec 21 :) please RT
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Recently got your PhD & seeking to work on an exciting epigenetic project about chromatin switches in plants? Apply to this post-doc position 👇!
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📢📢New publication out @NatureGenet by the groups of @Raph_Mercier and @LabSchneeberger @mpipz_cologne about the great genome diversity in Arabidopsis thaliana. Congratulations!👏🥳 #plantsci Learn more here 👉 https://t.co/pSQ3cswgkw
nature.com
Nature Genetics - A pan-genome of Arabidopsis thaliana constructed using chromosome-level genome assemblies of 69 diverse accessions reveals a conserved genome structure throughout the global...
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8/ The most important: this work was done by Carles Borreda and Basile Leduque, with the enlightening input from Vincent Colot. Supported by @ERC_Research and performed at @IPS2ParisSaclay. Grateful for everyone involved 🙏 !!.
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7/ Annotations, protein structures, and transcriptional networks are all available at https://t.co/Jd7MqNgLbi. Please check, download, reuse, and give us your feedback!
zenodo.org
README This dataset includes the main outputs from the work titled Transposable element products, functions, and regulatory networks in Arabidopsis thaliana. Summary Transposable elements (TEs) are...
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6/ We further show that the transcriptional networks of TEs and genes are intricately intertwined 🤝, and we identified transcription factors and cis-regulatory elements associated with their coordinated expression during development or in response to the environment.
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5/ We discovered hitherto unknown structural domains involved in DNA binding and dimerization. Furthermore, TE-encoded proteins are highly prone to form homo- and heterodimers, which can further interact to form multiprotein complexes like the EN/SPM transpososome! 🤯
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4/ The fast evolutionary rate of TEs blurs protein sequence similarities, leading to underrepresentation in curated databases. We predicted the structure of all putative Arabidopsis TE-encoded proteins and detected structural similarities between seemingly disparate proteins.
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2/ We characterized a wide range of mechanism employed by TEs to encode for multiple products, including multiple genes, alternative splicing, post-translation processing, or ribosomal frameshifting. Interestingly, related TEs exhibit a rapid turnover between these mechanisms 🎯
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1/ We produced high-quality long-read transcriptomic data from Arabidopsis epigenetic mutants and analyzed hundreds of transcriptomes. We found that despite a high qulaity genome annotation, most TE-derived transcripts were either incorrectly annotated or missed entirely.
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