Tessera
Folgen

The Probst Lab

@probstlab.bsky.social

Group for Microbial Systems Ecology, led by @alexjprobst.bsky.social Microbial, viral, & geochemical interactions by linking meta'omics & microscopy Managed by @geomicrosoares.bsky.social

38 Posts311 Follower51 Folgt
André Soares@geomicrosoares.bsky.social · last wk.

Come work with us, we're really cool people to hang out with 😁 You'll get to do interdisciplinary research exploring microbial metabolisms during the Archean Eon by investigating the deep biosphere in high-CO₂ ecosystems hundreds of meters below ground. Please retweet and spread the word! 🧬 💻

The Probst Lab@probstlab.bsky.social · last wk.

We're looking for a Postdoctoral Researcher (f/m/d) for the ERC Synergy project “Archean Park”! 📍 Location: Essen, Germany ⏱ Duration: 36 months (Full-time | EG 13 TV-L) 📅 Start Date: As soon as possible ⏰ Application Deadline: September 2, 2026 www.uni-due.de/karriere/ste...

The Probst Lab@probstlab.bsky.social · 5mo ago

🤯 Manual MAG refinement? Still doing it by hand?? We’ve been there... You could just leave those messy, ill-assigned contigs/scaffolds in your data for NCBI to pick up during your submission… …OR you could add itBins, our new automated MAG refiner by @jmk-ude.bsky.social, to your pipeline!! 🔥

Figure 1 shows the conceptual workflow of the algorithm. It first loads the configuration file and the input data of one or multiple binned metagenomes, yet evaluates each bin individually. It then iteratively processes each candidate bin in the input, going through the refinement tasks, potentially multiple times. The refinement either stops when the last step or a preset stop task have been reached or an unrecoverable error has been encountered. The algorithm tasks can be configured individually.
The Probst Lab@probstlab.bsky.social · 9mo ago

We are excited to share @probstlab.bsky.social's latest publication on the diversity of CRISPR-Cas spacers, led by @katharinasures.bsky.social !! 🧬 Have a read!! ➡️ doi.org/10.1093/gbe/... @emilruff.bsky.social @alexjaffe.bsky.social @geomicrosoares.bsky.social & others not in Bluesky!

Acquisition of Spacers from Foreign Prokaryotic Genomes by CRISPR-Cas Systems in Natural Environments

Abstract. Clustered regularly interspaced short palindromic repeats (CRISPR) and CRISPR-associated (Cas) systems of bacteria and archaea provide immunities

doi.org

The Probst Lab@probstlab.bsky.social · 11mo ago

Our own @alexjprobst.bsky.social @geomicrosoares.bsky.social and Cristina Moraru have recently authored a @natmicrobiol.nature.com Consensus Statement where they discuss new mechanisms for sequencing data reuse! 🧬💻 Check out their manuscript here: www.nature.com/articles/s41...

A roadmap for equitable reuse of public microbiome data - Nature Microbiology

In this Consensus Statement, a consortium of microbiome scientists discuss current sequencing data sharing policies and propose the use of a Data Reuse Information (DRI) tag to promote equitable and collaborative data sharing.

nature.com

The Probst Lab@probstlab.bsky.social · last yr.

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...

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...

biorxiv.org

The Probst Lab@probstlab.bsky.social · last yr.

Please RT this awesome opportunity to do a PhD at @unidue.bsky.social in collaboration with @jgi.doe.gov!! 🔥 Thanks!

André Soares@geomicrosoares.bsky.social · last yr.

The Central Collection of Algal Cultures (CCAC) at @unidue.bsky.social is advertising a 3-year PhD position supervised by the current Curator, Dr. Olga Matantseva! This PhD will take place in close collaboration with the @jgi.doe.gov. 🦠🧬💻 Apply here: www.uni-due.de/karriere/ste...

The Probst Lab@probstlab.bsky.social · last yr.

Our latest work is out - here, our own Dr. Sarah Eßer compares transcriptomic patterns of Altiarchaeum in Crystal Geyser (US) and the Muehlbacher sufidic spring (Germany)! 🧬 Read more below: enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...

Differential Expression of Core Metabolic Functions in Candidatus Altiarchaeum Inhabiting Distinct Subsurface Ecosystems

Major differences between Candidatus Altiarchaeum species living in two distinct subsurface ecosystems as determined via metatranscriptomics. Genes overly expressed in different Ca. Altiarchaea in Mu...

enviromicro-journals.onlinelibrary.wiley.com

The Probst Lab@probstlab.bsky.social · last yr.

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...

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

doi.org

The Probst Lab@probstlab.bsky.social · last yr.

Is stress response in stream sediments uniform across catchments? 🌊🦠 With @TheWrightonLab at CSU, we built river MAG & gene DBs and used metaT data to explore this while uncovering active stream microbiome metabolic functions! Read our preprint here: doi.org/10.1101/2025... @unidue.bsky.social

A uniform stress response of stream microbiomes in the hyporheic zone across North America

Background Stream hyporheic zones represent a unique ecosystem at the interface of stream water and surrounding sediments, characterized by high heterogeneity and accelerated biogeochemical activity. ...

doi.org

André Soares@geomicrosoares.bsky.social · 2y ago

We're hiring two bioinformatics-focused PhD students - one on microbial & epigenetic stress response in rivers, another on virus-host stress response in rivers! 🧬🦠💻 @unidue.bsky.social @cristinamoraru.bsky.social Please RT & spread the word - the @probstlab.bsky.social awaits you! 🦸 @idw-online.de

Alex Probst@alexjprobst.bsky.social · 2y ago

#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!

The Probst Lab@probstlab.bsky.social · 2y ago

We’re hiring!! Come do a PhD with us using -omics to better understand river microbiomes responses to drought processes! ⬇️

kermit the frog is standing behind a red curtain .

ALT: kermit the frog is standing behind a red curtain .

media.tenor.com

Alex Probst@alexjprobst.bsky.social · 2y ago

#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!