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Yves Van de Peer

@yvdp.bsky.social

635 followers 407 following 6 posts

Scientific Director of the VIB-UGent Centre for Plant Systems Biology, Professor at Ghent University, the University of Pretoria (SA), and Nanjing Agricultural University (China). Hate migraines and loves Alfie.

Posts Replies Media

Yves Van de Peer @yvdp.bsky.social · 10/08/2026

Polyploidy: A macromutational force pushing bioeconomic developments | PNAS www.pnas.org/doi/abs/10.1...

Polyploidy: A macromutational force pushing bioeconomic developments | PNAS

Polyploidization, the consequence of genome doubling, is a macromutation that reshapes genomes, phenotypes, and ecological interactions. Polyploidi...

Reposted by Yves Van de Peer

Shicheng Guo @shihcheng.bsky.social · 28/07/2026

A study of 470 angiosperms identified 132 ancient WGD events, revealing non-random clustering during environmental upheaval, highlighting polyploidy’s key evolutionary role. PMID:42105759, Cell 2026, @Cell www.cell.com/cell/fulltext/S0092-86… #Medsky #Pharmsky #RNA #ASHG #ESHG 🧪

https://www.cell.com/cell/fulltext/S0092-8674(26)00397-1

No description available

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 03/07/2026

PAPER from @yvdp.bsky.social in @currentbiology.bsky.social #PlantScience www.sciencedirect.com/science/arti...

sciencedirect.com

A three-step model for the establishment of polyploid plants

Polyploidy, the result of whole genome duplication, is widespread in plants. Over long timescales, polyploids seem to go extinct more often than diplo…

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 29/05/2026

PAPER from @yvdp.bsky.social in @newphyt.bsky.social nph.onlinelibrary.wiley.com/doi/10.1111/...

nph.onlinelibrary.wiley.com

Repeatability of phenotypic consequences due to whole‐genome duplication in Spirodela polyrhiza

Heterogeneity in growth rate and morphology in artificial tetraploid Spirodela polyrhiza populations is affected by the deterministic component of the ploidy effect but also a stochastic component of...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 29/05/2026

PAPER from @stevenmaere.bsky.social and @yvdp.bsky.social in @cellpress.bsky.social www.cell.com/cell/abstrac...

The rise of polyploids during environmental upheaval

From the dating of 132 ancient whole-genome duplication events across 470 angiosperms, paleopolyploidization events cluster around pivotal periods of environmental upheaval and extinction, notably the...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 29/05/2026

PAPER from @yvdp.bsky.social in @pnas.org www.pnas.org/doi/10.1073/...

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 29/05/2026

PAPER from @yvdp.bsky.social in @pnas.org www.pnas.org/doi/10.1073/...

Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 12/05/2026

PAPER from @yvdp.bsky.social in @newphyt.bsky.social nph.onlinelibrary.wiley.com/doi/epdf/10....

nph.onlinelibrary.wiley.com

An inter‐specific Amaranthus pangenome captures genetic variation potentially underlying key leafy vegetable traits in this underutilised crop

Amaranthus species (particularly Amaranthus cruentus, Amaranthus hypochondriacus, Amaranthus tricolor and Amaranthus caudatus) are traditional underutilised crops with the potential to contribute to ...

Reposted by Yves Van de Peer

Cell Press @cellpress.bsky.social · 08/05/2026

Could duplicate genomes (polyploidy) have helped saved some flowering plants from the dinosaur-killing asteroid? Read more in Cell: spkl.io/63320AA0h2 @heche.bsky.social, @yvdp.bsky.social & colleagues @cp-cell.bsky.social

graphical abstract

Yves Van de Peer @yvdp.bsky.social · 08/05/2026

The rise of polyploids during environmental upheaval: Cell www.cell.com/cell/fulltex...

The rise of polyploids during environmental upheaval

From the dating of 132 ancient whole-genome duplication events across 470 angiosperms, paleopolyploidization events cluster around pivotal periods of environmental upheaval and extinction, notably the...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 07/01/2026

PAPER from @yvdp.bsky.social in Science Advances @science.org www.science.org/doi/10.1126/...

Revisiting ancient whole-genome duplications in the seed and flowering plants through the lens of dosage-sensitive genes

Dosage-sensitive genes suggest no ancestral angiosperm WGD.

Reposted by Yves Van de Peer

Hugues Renault @huguesrenault.bsky.social · 31/12/2025

Evolution of protein domains and protein domain combinations provides insights into the origin and diversification of land plants www.cell.com/cell-genomic...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 03/11/2025

PAPER from @yvdp.bsky.social @viblifesciences.bsky.social www.sciencedirect.com/science/arti...

sciencedirect.com

Multi-Omics Roadmap to Plant-Derived Medicines

Medicinal plants are invaluable sources of bioactive natural products or metabolites, however the discovery and sustainable utilization of these metab…

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 03/11/2025

PAPER from @yvdp.bsky.social @viblifesciences.bsky.social academic.oup.com/mbe/article/...

academic.oup.com

Resolving the Stasis-Dynamism Paradox: Genome Evolution in Tree Ferns

Abstract. The paradox of evolutionary stasis and dynamism—how morphologically static lineages persist through deep geological periods despite environmental

Reposted by Yves Van de Peer

Cameron Thrash @jcamthrash.bsky.social · 24/10/2025

Polyploidization in diatoms accelerates adaptation to warming www.nature.com/articles/s41... #jcampubs 🌊

Polyploidization in diatoms accelerates adaptation to warming - Nature Climate Change

The authors obtained large-volume individuals of diatom cultures under thermal stress. These polyploids (having more than two sets of chromosomes) are shown to rapidly adapt to high temperatures, high...

Reposted by Yves Van de Peer

ARC Centre of Excellence for Plant Success @coeplantsuccess.bsky.social · 20/10/2025

📢 New publication ' #Bryophytes hold a larger gene family space than vascular plants' by Shanshan Dong et al. in @natgenet.nature.com 🧬🧪 doi.org/10.1038/s415... #evolution #pangenome

Bryophytes hold a larger gene family space than vascular plants - Nature Genetics

A super-pangenome analysis incorporating 123 newly sequenced bryophyte genomes reveals that bryophytes exhibit a larger number of unique and lineage-specific gene families than vascular plants.

Reposted by Yves Van de Peer

Fabricio Almeida-Silva @almeidasilvaf.bsky.social · 16/10/2025

Our paper on the evolution (duplicated) gene expression divergence in spatially resolved plant transcriptomes is now out @theplantcell.bsky.social w/ @yvdp.bsky.social #PlantSci #Evolution academic.oup.com/plcell/advan...

academic.oup.com

Gene expression divergence following gene and genome duplications in spatially resolved plant transcriptomes

After gene and genome duplications, expression divergence across cell types is not random, and it can be explained by a combination of gene age, gene funct

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 27/09/2025

PAPER from @yvdp.bsky.social www.science.org/doi/10.1126/...

Rapid establishment of species barriers in plants compared with that in animals

Speciation, the process by which new reproductively isolated species emerge from ancestral populations, results from the gradual accumulation of barriers to gene flow within genomes. To date, the noti...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 13/07/2025

PAPER from @yvdp.bsky.social advanced.onlinelibrary.wiley.com/doi/10.1002/...

advanced.onlinelibrary.wiley.com

Subgenome Partitioning and Polyploid Genome Evolution in the Loach Family Botiidae (Order Cypriniformes)

This study investigates subgenome evolution and polyploidy in Cypriniformes fish, revealing complex phylogenetic relationships and genomic dynamics. By applying advanced subgenome partitioning method...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 13/07/2025

PAPER from @yvdp.bsky.social in @journalofecology.bsky.social besjournals.onlinelibrary.wiley.com/doi/abs/10.1...

besjournals.onlinelibrary.wiley.com

Polyploid—Diploid coexistence in the greater duckweed Spirodela polyrhiza

Mortier and colleagues demonstrate the crucial role of competition and frequency dependency on neopolyploid establishment. They, therefore, caution against inferring neopolyploid success based solely...

Reposted by Yves Van de Peer

Fabricio Almeida-Silva @almeidasilvaf.bsky.social · 28/05/2025

Happy to share #ourlatest. You may have seen studies investigating how duplicated genes diverge in expression across multiple tissues. Here, we zoomed in in tissues (using #spatial transcriptomic data) to investigate how genes diverge in expression across tissue compartments. w/ @yvdp.bsky.social

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 05/05/2025

PAPER from @yvdp.bsky.social in @natplants.nature.com www.nature.com/articles/s41...

Comparative transcriptomics in ferns reveals key innovations and divergent evolution of the secondary cell walls - Nature Plants

New fern transcriptomes reveal repeated whole-genome duplications, unique gene families and distinct lignocellulosic evolution, providing a comprehensive database that underscores the ancient divergen...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 25/04/2025

PAPER from @yvdp.bsky.social in @narjournal.bsky.social academic.oup.com/nar/article/...

academic.oup.com

SOI: robust identification of orthologous synteny with the Orthology Index and broad applications in evolutionary genomics

Abstract. With the explosive growth of whole-genome datasets, accurate detection of orthologous synteny has become crucial for reconstructing evolutionary

Reposted by Yves Van de Peer

Jonathan Wendel @jonathanfwendel.bsky.social · 24/03/2025

Polyploidy Conference! Registration deadline is May 5th cjm.sb-roscoff.fr/en/conferenc...

cjm.sb-roscoff.fr

Evolutionary and ecological genomics of polyploidy in plants: temporal dynamics across scales of biological organization from molecules to ecosystems | CNRS - Conférences Jacques Monod (CJM)

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 24/03/2025

PAPER from @yvdp.bsky.social in @newphyt.bsky.social nph.onlinelibrary.wiley.com/doi/full/10....

nph.onlinelibrary.wiley.com

Expanding the toolkit for ploidy manipulation in Chlamydomonas reinhardtii

Whole-genome duplications, widely observed in plant lineages, have significant evolutionary and ecological impacts. Yet, our current understanding of the direct implications of ploidy shifts on shor...

Reposted by Yves Van de Peer

Will Ratcliff @wcratcliff.bsky.social · 05/03/2025

6/46 WGD, like multicellularity, evolved many times in history (see www.nature.com/articles/nrg... by @yvdp.bsky.social et al.), driving species radiations and innovations (like at the roots of vertebrates and angiosperms). In fact, most species either are polyploids or bear signs of ancient WGDs.

The evolutionary significance of polyploidy - Nature Reviews Genetics

Polyploidy occurs frequently but is usually detrimental to survival; thus, few polyploids survive in the long term. Here, evidence linking the short-term evolutionary success of polyploids to environm...

Reposted by Yves Van de Peer

pdhsu.bsky.social @pdhsu.bsky.social · 19/02/2025

This was an insane team effort between Arc and Nvidia that convened machine learning and computational biology researchers across Stanford, UC Berkeley, and UCSF. Especially grateful to Jensen Huang for his belief and support of this vision and labor of love, and the entire Evo 2 team below

Reposted by Yves Van de Peer

pdhsu.bsky.social @pdhsu.bsky.social · 19/02/2025

Evo 2 is trained on 9.3T tokens of DNA with single-base resolution at 1M token context length 🥳 We release two models with 7B and 40B parameters along with weights, training and inference code, and pretraining data—making this one of the largest fully open AI models available

Yves Van de Peer @yvdp.bsky.social · 26/01/2025

doubletrouble: an R/Bioconductor package for the identification, classification, and analysis of gene and genome du… pubmed.ncbi.nlm.nih.gov/39862387/

pubmed.ncbi.nlm.nih.gov

doubletrouble: an R/Bioconductor package for the identification, classification, and analysis of gene and genome duplications - PubMed

Supplementary data are available at Bioinformatics online and at https://github.com/almeidasilvaf/doubletrouble_paper.

Reposted by Yves Van de Peer

Moritz K. Nowack @moritznowack.bsky.social · 15/01/2025

In just 5 month’s time we’ll be raising the curtain @debijloke in Ghent www.bijloke.be for Arabidopsis and much much more #ICAR2025 ! Registration is now OPEN, submit abstracts for oral presentations until March 17th, early bird registration runs until April 20th. More info on www.icar2025.com !

Reposted by Yves Van de Peer

fmortier.bsky.social @fmortier.bsky.social · 16/01/2025

Polyploid success isn’t just about growing fast—it’s about outcompeting progenitors! 🌱 We had neopolyploid duckweed and their progenitor invade each other, testing how stress & frequency-dependent growth shape WGD success... or failure. @yvdp.bsky.social #polyploid #duckweed doi.org/10.1101/2025...

Polyploid - diploid coexistence in the greater duckweed Spirodela polyrhiza

Polyploidy, resulting from whole-genome duplication (WGD), is widespread among plants and originates in sympatry with their lower-ploidy progenitors. New polyploids can only succeed when they overcome...

Yves Van de Peer @yvdp.bsky.social · 16/01/2025

www.biorxiv.org/content/10.1...

Polyploid - diploid coexistence in the greater duckweed Spirodela polyrhiza

Polyploidy, resulting from whole-genome duplication (WGD), is widespread among plants and originates in sympatry with their lower-ploidy progenitors. New polyploids can only succeed when they overcome...

Yves Van de Peer @yvdp.bsky.social · 31/12/2024

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 04/12/2024

We are delighted to bring #ICAR2025 to Gent in Belgium! Abstract submission OPEN! icar2025.com @aabiologists.bsky.social @moritznowack.bsky.social @hildenelissen.bsky.social @bertderybel.bsky.social @mehta-lab.com @kuleuvenuniversity.bsky.social @viblifesciences.bsky.social

Yves Van de Peer @yvdp.bsky.social · 24/11/2024

www.biorxiv.org/content/10.1...

The Rise of Polyploids During Environmental Catastrophes

Polyploidy, or whole-genome duplication (WGD), both a strong evolutionary and ecological force and a potential pitfall, occurs extensively across the tree of life, particularly in angiosperms. While p...

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 21/11/2024

PAPER from @bertderybel.bsky.social about SPL13-dependent oriented cell divisions that control the onset of a juvenile to adult phase change in the root apical meristem. www.science.org/doi/10.1126/...

SPL13 controls a root apical meristem phase change by triggering oriented cell divisions

Oriented cell divisions are crucial for determining the overall morphology and size of plants, but what controls the onset and duration of this process remains largely unknown. Here, we identified a s...

Reposted by Yves Van de Peer

Stein Aerts @steinaerts.bsky.social · 16/11/2024

Join the Pereiralab at vib.ai 👇

Reposted by Yves Van de Peer

Joana Pereira @joanampereira.bsky.social · 16/11/2024

🚨The future Pereira lab is hiring! We will start at @vibai.bsky.social in Feb 2025 and are looking for a postdoc to join our team 🤓 If you want to leverage AI and large networks to explore and understand the protein universe 🌌, check below! *deadline: 21 Nov 2024* jobs.vib.be/j/93314/post...

Postdoc in Protein Computational Biology / Structural Bioinformatics - VIB

Job description We are seeking a postdoc to join the Pereira Lab for an interdisciplinary project that integrates structural bioinformatics, protein evolution, complex network analysis, and deep learn...

Reposted by Yves Van de Peer

Alain Goossens @alaingoossenspsb.bsky.social · 18/11/2024

First steps on Bluesky. Let's see how much enthusiasm I can raise to send contributions to our upcoming focus issue on Metabolism in Plant Physiology @plantphys.bsky.social

Reposted by Yves Van de Peer

VIB.AI @vibai.bsky.social · 20/11/2024

Fantastic start of the #VIBAIsymposium this morning with a welcome by our scientific director @steinaerts.bsky.social and talks by Julien Gagneur and @avsecz.bsky.social

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 20/11/2024

Interested in plant research in Zambia? Dora Shimbwambwa is working on practical, affordable ways to fight pests and help Zambian farmers thrive in a changing climate. gatesnot.es/4eAsVnt?WT.m...

She’s up at 3 a.m. to help farmers thrive

Dora Shimbwambwa is working on practical, affordable ways to fight pests and help Zambian farmers thrive in a changing climate.

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 18/11/2024

To create awareness, the VIB-UGent eco teams displayed the weight-equivalent of one day of research in waste (180 kg) in their garden, representing a carbon footprint of approximately 1 ton of CO2 equivalents.

Reposted by Yves Van de Peer

Plant Systems Biology @psb-vib.bsky.social · 19/11/2024

Researchers at VIB try to reduce waste as much as possible. Watch the movie here: vimeo.com/1021761528?s...

Sustainability at VIB - The 5R Principle (cc)

This is "Sustainability at VIB - The 5R Principle (cc)" by VIB on Vimeo, the home for high quality videos and the people who love them.