Oliver Berkowitz
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oliverberkowitz.bsky.social
Oliver Berkowitz
@oliverberkowitz.bsky.social
570 followers 150 following 190 posts
Plant & Computational Biologist | Genomics & Phenotyping | @latrobeuni.bsky.social
🇦🇺🇩🇪🇪🇺 ⚽️🖤💛🏉
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oliverberkowitz.bsky.social
www.nature.com/articles/s41...
Helixer: ab initio prediction of primary eukaryotic gene models combining deep learning and a hidden Markov model - Nature Methods
By leveraging both deep learning and hidden Markov models, Helixer achieves broad taxonomic coverage for ab initio gene annotation of eukaryotic genomes from fungi, plants, vertebrates and invertebrat...
www.nature.com
November 26, 2025 at 8:49 AM
oliverberkowitz.bsky.social
Stolle done
November 22, 2025 at 3:03 AM
oliverberkowitz.bsky.social
www.science.org/doi/10.1126/...
CRISPR-Cas–mediated heritable chromosome fusions in Arabidopsis
The genome of Arabidopsis thaliana consists of 10 chromosomes. By inducing CRISPR-Cas–mediated breaks at subcentromeric and subtelomeric sequences, we fused entire chromosome arms, obtaining two eight...
www.science.org
November 21, 2025 at 1:07 PM
oliverberkowitz.bsky.social
www.biorxiv.org/content/10.1...
PlantCV v4: Image analysis software for high-throughput plant phenotyping
PlantCV is an open-source Python project aimed at developing tools to address a range of image-based, plant phenotyping questions. PlantCV has been used for more than 10 years to automate trait collec...
www.biorxiv.org
November 20, 2025 at 9:57 PM
oliverberkowitz.bsky.social
acsess.onlinelibrary.wiley.com/doi/10.1002/...
The future role of regional research infrastructures and networks toward the global plant phenotyping community
Regional plant phenotyping research infrastructures and networks hold unique positions. Stronger collaboration between them can provide added benefits to a global community. A concept for a “global .....
acsess.onlinelibrary.wiley.com
November 15, 2025 at 1:09 AM
oliverberkowitz.bsky.social
academic.oup.com/jxb/article/...
SlMIPS2, a myo-inositol phosphate synthase, regulates phosphate homeostasis by influencing SlPHL1 and SlSPX2 levels in tomato seedlings
In tomato the myo -inositol phosphate synthase gene SlMIPS2 is sharply induced early in phosphate starvation, and SlMIPS2 regulates cellular InsP6 levels a
academic.oup.com
November 8, 2025 at 8:55 AM
oliverberkowitz.bsky.social
www.science.org/doi/10.1126/...
Postdomestication selection of MKK3 shaped seed dormancy and end-use traits in barley
Anthropogenic selection of grain traits such as dormancy has shaped the developmental trajectories of crops. In cereals, shortening dormancy provides rapid and even post-harvest germination, but incre...
www.science.org
November 7, 2025 at 1:12 PM
oliverberkowitz.bsky.social
www.science.org/doi/10.1126/...
Unlocking the potential of brassinosteroids: A path to precision plant engineering
Brassinosteroids are essential plant hormones that play a central role in regulating growth, development, and stress responses. Their impact on plant architecture and productivity makes them attractiv...
www.science.org
November 6, 2025 at 10:21 PM
oliverberkowitz.bsky.social
www.cell.com/developmenta...
Phosphorus availability controls flowering time through subcellular reprogramming of bGLU25 and GRP7 in Arabidopsis
Cho et al. reveal that low phosphorus triggers bGLU25 to move from the ER to the cytosol, where it interacts with GRP7 via AtJAC1. This interaction increases FLC expression, delaying flowering and hig...
www.cell.com
November 5, 2025 at 11:43 AM
oliverberkowitz.bsky.social
www.cell.com/molecular-pl...
An incoherent feed-forward loop coordinates nitrate uptake and tillering in wheat
This study identifies that TaNLP3 acts as a master regulator of nitrate signaling and interacts with the SWI/SNF chromatin remodeling complex to enhance chromatin accessibility and trigger the primary...
www.cell.com
November 5, 2025 at 5:03 AM
Reposted by Oliver Berkowitz
jxbotany.bsky.social
🚨 SPECIAL ISSUE - CLOSING SOON 🚨

🌿🟡 Sulfur Signaling 🟡 🌿

📝 Edited by Markus Wirtz, Stan Kopriva & Hideki Takahashi

📅 Deadline: 30 November 2025

📄 We welcome contributions! Got an manuscript in mind? Contact JXB office 👉 bit.ly/JXBissues

#JXBspecialissues #PlantScience 🧪 @sebiology.bsky.social
November 3, 2025 at 11:55 AM
oliverberkowitz.bsky.social
www.nature.com/articles/d41...
Plants have a secret language that scientists are only now starting to decipher
Signals from the plant cell wall help to orchestrate growth, reproduction and immune function. Can harnessing this molecular cross talk help in creating better crops?
www.nature.com
October 30, 2025 at 10:28 PM
Reposted by Oliver Berkowitz
kseniakrasileva.bsky.social
🚀 New preprint!
We introduce K-PROB, a k-mer–based Bayesian framework that mines pangenomic promoter and expression diversity to predict cis-regulatory elements driving gene expression variation in crops 🌽🌱
🔗 biorxiv.org/content/10.1101/2025.10.27.684862v1
#Genomics #GeneRegulation #Maize #Soybean
Natural variation in regulatory code revealed through Bayesian analysis of plant pan-genomes and pan-transcriptomes
Understanding the genetic code of cis-regulatory elements (CREs) is essential for engineering gene expression and modulating agronomic traits in crops. In plants, CREs underlying rapid evolution of ge...
biorxiv.org
October 29, 2025 at 4:47 PM
oliverberkowitz.bsky.social
www.nature.com/articles/s41...
A pangenome and pantranscriptome of hexaploid oat - Nature
A pangenome of oat, assembled from 33 wild and domesticated oat lines, sheds light on the evolution and genetic diversity of this cereal crop and will aid genomics-assisted breeding to improve product...
www.nature.com
October 30, 2025 at 11:00 AM
oliverberkowitz.bsky.social
www.nature.com/articles/d41...
Are these the happiest PhD students in the world?
Brazil, Australia and Italy have the highest satisfaction scores in Nature’s global 2025 PhD survey — but are these nations really the best places to do a doctorate?
www.nature.com
October 23, 2025 at 10:29 PM
oliverberkowitz.bsky.social
www.sciencedirect.com/science/arti...
Time-resolved fluorescent proteins expand fluorescent microscopy in temporal and spectral domains
Fluorescence microscopy has been widely applied in the life sciences. While intensity as a steady-state signal is widely used, the time-resolved (tr) …
www.sciencedirect.com
October 23, 2025 at 10:25 PM
oliverberkowitz.bsky.social
www.sciencedirect.com/science/arti...
The RLI1-OsPUB77-OsBZR3 module mediates the crosstalk between phosphate starvation and brassinosteroid signaling pathways to shape rice shoot architecture
Plant architecture is a critical agronomic trait directly affecting planting density and crop yield. Phosphate starvation in rice (Oryza sativa) leads…
www.sciencedirect.com
October 20, 2025 at 4:55 AM
oliverberkowitz.bsky.social
www.nature.com/articles/s41...
H2O2-mediated oxidation of PHOSPHATE STARVATION RESPONSE2 promotes adaptation to low phosphate in rice - Nature Communications
Phosphorus is an essential plant nutrient. Here Meng et al. show that low phosphorus availability stimulates hydrogen peroxide production which in turn promotes the oligomerization, nuclear translocat...
www.nature.com
October 20, 2025 at 4:53 AM
oliverberkowitz.bsky.social
Engineering crop flower morphology facilitates robotization of cross-pollination and speed breeding: Cell www.cell.com/cell/fulltex...
Engineering crop flower morphology facilitates robotization of cross-pollination and speed breeding
A genome editing and AI-driven robotic system that overcomes floral barriers to facilitate automated hybrid breeding in tomato and soybean.
www.cell.com
October 20, 2025 at 3:57 AM
oliverberkowitz.bsky.social
Tripping stones / Stolpersteine in Rome
October 14, 2025 at 8:24 PM
oliverberkowitz.bsky.social
If you have tickets and really want to get in, just wait 2 or 3 hours standing in the sun, but we might close it in the meantime... Only God knows...
October 13, 2025 at 7:47 PM
oliverberkowitz.bsky.social
Yeah, it's all nice, but the Westfalenstadion is still better
October 12, 2025 at 8:26 PM
oliverberkowitz.bsky.social
A day in Rome 1/n
October 12, 2025 at 8:23 PM
oliverberkowitz.bsky.social
First day in Rome
October 11, 2025 at 7:26 PM
oliverberkowitz.bsky.social
Palermo
October 11, 2025 at 7:24 PM