Omri Finkel עמרי عُمري

This week in the HUJI PES seminar:
@hebrewuniversity.bsky.social

Keystone Pseudomonas species in the wheat phyllosphere microbiome mitigate Fusarium head blight by altering host pH Fusarium graminearum (F. graminearum) pathogen induces wheat phyllosphere alkalinization, promoting the development of Fusarium head blight (FHB). Xu et al. show that host-acidifying Pseudomonas, sele...

🎉 Check out the latest from Qin Gu’s team at Nanjing Agricultural University: “Keystone Pseudomonas species in the wheat phyllosphere” (Cell Host & Microbe) 👉 www.cell.com/cell-host-mi...

Wish I could’ve been there for that :)

I remember Aharon destroying this paper in an epic departmental seminar just a couple weeks after it was published.

This week in the HUJI PES seminar:
@hebrewuniversity.bsky.social

I'm thrilled to share our newest publication in @natmicrobiol.nature.com, led by Drs. @botanichole.bsky.social, Valéria Custódio, and David Gopaulchan: Precipitation legacy effects on #SoilMicrobiota facilitate adaptive drought responses in plants. 🌾 🧪 (thread)

www.nature.com/articles/s41...

Call for Applications for the Azrieli International Postdoctoral Fellowship-2026-27 - The Azrieli Foundation

Call for Applications for the Azrieli International Postdoctoral Fellowship-2026-27 azrielifoundation.org/azrieli-fell...

The first time we are hearing about viruses at #PMS2025, thanks @sheilaroitman.bsky.social!

Fascinating talk on how to optimize microbe-microbe interactions with Bacillus as the focal species.

POV running with Asaf

I approve this message :)

Rolling out plaque-2-sequence: a single plaque sequencing approach enabling rapid, low-cost sequencing of phages directly from plaques Rapid, accurate, and scalable sequencing of bacteriophage genomes is critical to advance phage therapy, build phage biobanks and understand phage genomic diversity. Current methods are based on sequen...

Check out our latest preprint in which we describe a new phage plaque sequencing pipeline which lowers the cost of sequencing by up to 10-fold while significantly shortening the time required to obtain the phage genome sequences

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

This week in the HUJI PES seminar:
@hebrewuniversity.bsky.social

This week in the HUJI PES seminar:
@hebrewuniversity.bsky.social

In plant-pathogen or plant-microbe interactions what is the proper null.

- there is specific coevolution of any pathogen/microbe such that it was at least partly adapted to the host isolated.

-the host of isolation may have not effected the pathogen in the slightest.

New pre-print from the team!

The manuscript is @emma-raven.bsky.social's PhD work showing that whether a leaf is a carbon sink or a carbon source influences how they execute immune responses.

Have a read!

#PlantScience
@johninnescentre.bsky.social

The team at our research site in the alps

📣 New PhD student position opening in my lab!
Soils are full of microbes, but how many are active?
Surprisingly, we still lack reliable methods to answer this.
If you are interested in microbial dormancy and are fascinated by the Alps and glacier forefields, contact me.
🏔️ 🦠 💤 🧬 🎓

Our paper, describing how the T6SSs of P. putida shape the tomato rhizosphere, is now in its final format in @isme-microbes.bsky.social ISME Communications. If you'd like to learn more, here is a thread (1/11) or read the Article doi.org/10.1093/isme....

A diverse and distinct microbiome inside living trees - Nature Microbiome analyses of living trees show that a single tree can host approximately one trillion bacteria, with microbial communities distinctly partitioned between heartwood and sapwood and with minimal similarity to other tissues or ecosystem components.

Original article: www.nature.com/articles/s41...

Carving out the microbiota of Earth’s largest biomass reservoir Despite being an essential part of terrestrial ecosystems for ∼400 million years, the microbiome of wood is surprisingly underexplored. In a recent is…

Check out this preview @naturalist1986.bsky.social and I wrote about the fantastic paper on wood microbiota from Wyatt Arnold and colleagues: www.sciencedirect.com/science/arti...

Time-series metatranscriptomics reveals differential salinity effects on the methanogenic food web in paddy soil | mSystems Seawater intrusion and sea level rise (SWISLR), driven by climate change, pose significant threats to coastal agroecosystems, particularly salt-affected paddy soils. Despite the importance of these sy...

Time-series metatranscriptomics reveals differential salinity effects on the methanogenic food web in paddy soil | mSystems journals.asm.org/doi/full/10....

Unannotated translation products are widespread in model E. coli Genomes contain orders of magnitude more open reading frames (ORFs) than known protein coding genes, and recent work suggests there may be unannotated proteins present in even the best studied organis...

Unannotated translation products are widespread in model E. coli

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

A shared basis for nutrient limitation response in cyanobacteria Cyanobacteria possess diverse regulatory mechanisms to adapt to nutrient limitation, yet the extent to which these responses are shared across different nutrient stresses remains unclear. Understandin...

We've tried to take a different view at the issue of nutrient limitations-looking for the shared basis rather than for specific response. This is the result:
www.jbc.org/article/S002...
Led by Hagit Zer with Stav Chen and David Rasin, in close collaboration with Miguel Hernandez–Prieto. Thanks!

Very nice writeup on someone I've admired and learned from for many years. I didn't know he had passed until catching up on This Week in Microbiology driving to campus this morning. His 1958 paper on Salmonella growth rates basically founded the formal study of microbial physiology, which...

So excited to share this new paper by @sulheim.bsky.social and others! It's rare that you find a pattern, propose a hypothesis and the more you look, the more data you find that fits! Snorre's intuition, hard work and rigour to put it all together have been inspiring! Let us know what you think...

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...

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.

From a gene’s single cell expression–through spatial localization–to novel function, and beyond!
Now out @natplants.nature.com
We built a comprehensive spatial-transcriptomic atlas of Arabidopsis, revealing cell-type identities across organs in unprecedented detail
www.nature.com/articles/s41...

Why chocolate tastes so good: microbes that fine-tune its flavour Manipulating the microbial communities involved in cocoa bean fermentation could make chocolate even more delicious.

Why chocolate tastes so good: microbes that fine-tune its flavour www.nature.com/articles/d41...

In memory of Fabrice Rappaport. A myovirus encoding both photosystem I and II proteins enhances cyclic electron flow in infected Prochlorococcus cells www.nature.com/articles/s41...

A diverse and distinct microbiome inside living trees - Nature Microbiome analyses of living trees show that a single tree can host approximately one trillion bacteria, with microbial communities distinctly partitioned between heartwood and sapwood and with minim...

#NatMicroPicks

Hidden microbial world in trees🌳

Living wood hosts trillions of bacteria making trees a complex ecosystems with major roles in forest health and function.

#PlantMicro #MicroSky

www.nature.com/articles/s41...