Yves Van de Peer
@yvdp.bsky.social
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.
Reposted by Yves Van de Peer
Reposted by Yves Van de Peer
Reposted by Yves Van de Peer
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...
www.nature.com
October 24, 2025 at 5:42 AM
Polyploidization in diatoms accelerates adaptation to warming www.nature.com/articles/s41... #jcampubs 🌊
Reposted by Yves Van de Peer
📢 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
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.
doi.org
October 20, 2025 at 12:29 AM
📢 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
doi.org/10.1038/s415...
#evolution #pangenome
Reposted by Yves Van de Peer
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...
w/ @yvdp.bsky.social
#PlantSci #Evolution
academic.oup.com/plcell/advan...
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
academic.oup.com
October 16, 2025 at 11:20 AM
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...
w/ @yvdp.bsky.social
#PlantSci #Evolution
academic.oup.com/plcell/advan...
Reposted by Yves Van de Peer
Reposted by Yves Van de Peer
Reposted by Yves Van de Peer
PAPER from @yvdp.bsky.social in @journalofecology.bsky.social
besjournals.onlinelibrary.wiley.com/doi/abs/10.1...
besjournals.onlinelibrary.wiley.com/doi/abs/10.1...
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...
besjournals.onlinelibrary.wiley.com
July 13, 2025 at 8:09 AM
Reposted by Yves Van de Peer
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
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
Gene expression divergence following gene and genome duplications in spatially resolved plant transcriptomes https://www.biorxiv.org/content/10.1101/2025.05.27.656262v1
May 28, 2025 at 6:57 AM
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
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
Reposted by Yves Van de Peer
Reposted by Yves Van de Peer
Polyploidy Conference! Registration deadline is May 5th
cjm.sb-roscoff.fr/en/conferenc...
cjm.sb-roscoff.fr/en/conferenc...
Evolutionary and ecological genomics of polyploidy in plants: temporal dynamics across scales of biological organization from molecules to ecosystems | CNRS - Conférences Jacques Monod (CJM)
cjm.sb-roscoff.fr
March 24, 2025 at 12:55 PM
Polyploidy Conference! Registration deadline is May 5th
cjm.sb-roscoff.fr/en/conferenc...
cjm.sb-roscoff.fr/en/conferenc...
Reposted by Yves Van de Peer
Reposted by Yves Van de Peer
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...
www.nature.com
March 5, 2025 at 11:00 PM
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.
Reposted by Yves Van de Peer
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
February 19, 2025 at 4:37 PM
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
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
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
February 19, 2025 at 4:35 PM
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
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
doubletrouble: an R/Bioconductor package for the identification, classification, and analysis of gene and genome du… pubmed.ncbi.nlm.nih.gov/39862387/
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.
pubmed.ncbi.nlm.nih.gov
January 26, 2025 at 12:42 PM
doubletrouble: an R/Bioconductor package for the identification, classification, and analysis of gene and genome du… pubmed.ncbi.nlm.nih.gov/39862387/
Reposted by Yves Van de Peer
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 !
www.icar2025.com !
January 15, 2025 at 2:47 PM
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 !
www.icar2025.com !
Reposted by Yves Van de Peer
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...
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...
doi.org
January 16, 2025 at 12:51 PM
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...
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...
Reposted by Yves Van de Peer
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
@aabiologists.bsky.social @moritznowack.bsky.social @hildenelissen.bsky.social @bertderybel.bsky.social @mehta-lab.com @kuleuvenuniversity.bsky.social @viblifesciences.bsky.social
December 4, 2024 at 9:22 AM
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
@aabiologists.bsky.social @moritznowack.bsky.social @hildenelissen.bsky.social @bertderybel.bsky.social @mehta-lab.com @kuleuvenuniversity.bsky.social @viblifesciences.bsky.social
Reposted by Yves Van de Peer
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...
www.science.org
November 21, 2024 at 8:19 AM
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/...
Reposted by Yves Van de Peer
Join the Pereiralab at vib.ai 👇
🚨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...
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...
jobs.vib.be
November 16, 2024 at 9:21 PM
Join the Pereiralab at vib.ai 👇