Alex Probst

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...

Uranium mining fuels evolution in deep groundwater microbiomes Microbial communities in the deep biosphere underpin global biogeochemical cycles, yet their evolutionary responses to extensive anthropogenic disturbances remain unclear. Uranium in-situ leaching (IS...

Fresh out of the oven! 🍞
We're happy to see this preprint out, fruit of a recent collaboration with @wei-biogeochem.bsky.social! 🧬💻

Small 🧵 below going through the main points 👇
www.biorxiv.org/content/10.1...

We once collaborated with another lab by analyzing metagenomes (create MAGs, analyze the metabol. etc). The PI asked me for a conversation during which he explained to me that the work we do is technical & no real contribution. He does not consider bioinformatics science. Never worked w/ him again.

There exist some metrics that do not consider multi-author papers even though someone is corresponding/first/last author. Itms these metrics that probably make people reduce the number of authors. Yet, I think this is bs & as long as someone has made a genuine contribution they should be an author.

Retraction The Research Article “A bacterium that can grow by using arsenic instead of phosphorus” by F. Wolfe-Simon et al. (1) has been the subject of discussion and critique since its online publication in 201...

15 years later, finally, Science did the right thing at retracted the As life disaster paper! www.science.org/doi/10.1126/...

Take a photo with your iphone and you can copy from the photo!
(it’s a 16S rRNA seq of an uncultivated archaeon)

For more information about the MEB team and the position, please visit:
www.uni-due.de/umb/enzym_ho...

Inferring replication states of bacteria and viruses in enrichment cultures via long-read sequencing Abstract. Most microorganisms cannot be cultured in isolation, necessitating sophisticated methods for studying their (eco)physiology. While numerous appro

Want to know who’s replicating and who’s just hanging out in your enrichment cultures? Our new study led by @soansi.bsky.social shows how @nanoporetech.com long-read sequencing can reveal replication states, shedding light on microbial growth. 🦠🧬

See our latest publication: doi.org/10.1093/isme...

We never thought of giving the method a name. maybe we should have.
the project went by the name „shit show“ though 😅

😂😂😂

I just submitted an article to a journal in under 10 min! I'm stunned that there are eventually submission portals that extract all necessary information (with AI?) from manuscripts when it comes to authors, affiliations, or funding statements. I'm impressed! (journal: Microbiome)

🦠 #OilReservoirs harbor unseen microbial worlds! 🌍🔬 @alexjprobst.bsky.social lab study of a pristine reservoir reveals bacteria & fungi breaking down #hydrocarbons—and a global network of shared genes. But the mystery of plasmid distribution pattern remains! 🧬 #Biodegradation
https://buff.ly/4gwdYUJ

We’re kicking off our Archean Park ERC project at @uni-muenster.de with @alexjprobst.bsky.social Jens Kallmeyer, Ivan Berg and Kai-Uwe Hinrichs & respective groups! Thanks very much to @donatogiovannelli.bsky.social and Prof. William Martin for giving invited talks to get us started!

Time's running out to apply for two PhD positions at the @probstlab.bsky.social ! Come do multi-omics bioinformatics of river microbiomes with us! 🧬💻🧬
Please RT!!

Wanted: microbial ecology + bioinformatics enthusiasts for 2 PhD positions (@probstlab.bsky.social)

#1 on microbial & epigenetic stress response in rivers tinyurl.com/bdf8eu5a
#2 on virus-host stress response in rivers tinyurl.com/43cjd6es

@alexjprobst.bsky.social
@unidue.bsky.social

#PhD #position #alert

2 bioinfo PhD positions @ProbstLab @RESIST_CRC
#1 on microbial & epigenetic stress response in rivers
tinyurl.com/bdf8eu5a
#2 on virus-host stress response in rivers
tinyurl.com/43cjd6es (supervision Moraru)

Please share!

Pls add! :)

osf.io/preprints/os...

almost identical to the final version

We know they are major players in global carbon, nitrogen, and sulfur cycling 🦠

We can clearly see their fingerprints in metagenome data 🧬

And yet, just nobody can get ahold of them in culture 🧪

Join the hunt for the MOST WANTED uncultivated aquatic microbes. By @alexjprobst.bsky.social et al.

-a 🤪

Looking for a new target microbes for cultivation? Check out our new review on "Earth's most needed uncultivated aquatic prokaryotes"!
www.sciencedirect.com/science/arti...

I find the FISH images of the bacteria in the fish brain fishy. (lol)
I do not see an image which clearly shows that the Eub338 signal aligns well with a distinct DAPI signal.
I have my doubts…

MEGWARE GmBH
- 240 CPU nodes:
176x512 GB RAM, 51x1 TB RAM, 13x2 TB RAM
- 19 GPU nodes:
17x4x NVIDIA H100, 2x2x NVIDIA H100
- Mellanox InfiniBand NDR200
Lustre file system 2,1 PB

Grand opening of our new supercomputing cluster @unidue.bsky.social

One of the front images features correlative microscopy by Indra Banas!

please add me! :) thx

Here is a starter pack for anyone interested in environmental genomics: Members, users, and collaborators of the Joint Genome Institute @jgi.doe.gov

Still many open slots, if you are working with the JGI and want to be added, DM me.

go.bsky.app/7jENfK9

Ministerpräsident Wüst am Renderpult.

Eröffnung des Research Centers #OneHealth Ruhr durch Ministerpräsident Hendrik Wuest und NRW-Wissenschaftsministerin Ina Brandes! 🥳Hier werden die komplexen Wechselbeziehungen zwischen menschlicher Gesundheit und #Umweltgesundheit erforscht. #UARuhr www.uni-due.de/2024-11-04-e...
📸RUB/Katja Marquard

the porcini looks amazing 😋

The JGI announces FY25 awardees for our Community Science Program Annual Call - DOE Joint Genome Institute These projects include cutting-edge research into microbial communities — from freshwater estuaries reshaped by dam removal to Antarctica's photosynthetic mats — to reveal how these systems adapt and ...

Congrats to our Community Science Program Annual Call awardees! Recipients & collaborators include our Bluesky friends @alexjprobst.bsky.social, @cavenderg9.bsky.social & @andrewlhipp.bsky.social 🖥️🧬

Full list: jgi.doe.gov/announcement-fy25-csp-annual

@axelvisel.bsky.social @lbnlbiosci.bsky.social