Marco Gabrielli

#microsky #mevosky @spp2389.bsky.social

A PhD position is available in my lab to work on:

Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.

Please RT

Deadline: 12.11.25

More infos 👇
shorturl.at/rAKAT

Have you ever wondered what is the best way to sample a biofilm?

Here we take real cm-scale biofilm sequencing data to show the impact of sampling strategies.
Better check this out before your next sampling campaign!

Does the sense of cringiness when doing that in fromt of another person decrease?

Eawag scientist Serina Robinson receives the ERC Starting Grant. She is investigating how microbial enzymes bind PFAS.

👉 www.eawag.ch/en/info/port...

@erc.europa.eu @ethz.ch #Eawag #pollutants #foreverchemicals #ERCStG

Protect transgender scientists Transgender and gender nonconforming (TGnC) people are a primary target of the Trump administration. Multiple executive orders seek to erase TGnC protections; mandate denial of gender identity; and ba...

Protect Trans Scientists.

cowritten with a lot of amazing people (I tagged those I could find but there are so many more incredible folks)
www.science.org/doi/10.1126/...
@thepunkscientist.bsky.social @jlw-ecoevo.bsky.social @bfrancescol.bsky.social @drsueishaq.bsky.social

UZH: Postdoctoral researcher in microbiology The Department of Quantitative Biomedicine is an interdisciplinary biomedical research unit that combines basic science with biotechnological and medical research, using both experimental and computat...

We are looking for a highly motivated postdoc to work on pathogen interactions. Please send in your application via

jobs.uzh.ch/job-vacancie...

Having fun catching up with #Eawag at #MEWE11

There is still time to apply for #PhD studentships with us!

Thanks for spreading the word.

#phdchat #phdlife #academiclife

What the Floc: Educational Wastewater Video Game Educational video game where players operate a wastewater treatment plant to protect the city and environment from pollution!

Please support my students kickstarter to finish an educational wastewater video game we started building!

I taught an interdisciplinary capstone class video game where programmers, artists, sound designers, and education students could work together!

www.kickstarter.com/projects/que...

Never used for isolates, but yes, I also agree with your assumption

In case of metagenomes, phyloflash (hrgv.github.io/phyloFlash/) is an option

This might be very basic, but what about generating different scenarios with different hypothesis (e.g., different eqs to describe a given phenomenon) and focusing on comparing the impact of those hypothesis?
Could also be couple with sensitivity and uncertainty analysis for various parameters

☎️ Calling #MEvoSky ☎️

2x 5-year research associate / research assistant positions in experimental evolution

ERC-funded project: How do mobile genetic elements and defence systems shape bacterial genome evolution?

Join the friendly and exciting @mermanchester.bsky.social community in Manchester!

Our global study on the state of trust in scientists is now out in Nature Human Behaviour! 🥳

With a team of 241 researchers, we surveyed 71,922 people in 68 countries, providing the largest dataset on trust in scientists post-pandemic 👇🧵https://www.nature.com/articles/s41562-024-02090-5

📢 Just 2 days left for #MEWE11 abstracts! Deadline: Jan 10
Submit ASAP at mewe11.ce.gatech.edu/call-for-papers

The 11th International Water Association Conference on Microbial Ecology and Water Engineering awaits your research! 🦠💧
#microbialecology #microbiomeengineering #water #sustainability

📢 Abstract submission deadline for #mewe11 extended to Jan 10, 2025! Early submissions (before Dec 15) are now under review. Later submissions reviewed rolling basis.

Learn more & submit: mewe11.ce.gatech.edu/call-for-papers

We are very happy to announce a free-to-attend #anvio workshop and ECR symposium in Oldenburg to discuss integrated microbial 'omics and learn applications of anvi'o.

More information and application link (application deadline is Jan 10): anvio.org/workshops/20...

Please apply and/or circulate 😇

Do you loop over the samples or parallelize them? I usually run tasksblike this in parallel using a Slurm array

Be sure to give a read to Alessio's latest work! Cool combination of cultivation, bioinformatics and LC-MS to understand Legionella antagonism 🦠

I just made a first release of TNA - new tool to compare 2 bacterial genomes. Is shamelessly inspired by ACT, but should be simpler to use. Drag-n-drop two genomes: it runs BLAST for you and then you can visualize. For Mac, Windows 11, Linux tna.readthedocs.io

Check out our new paper, led by Astrid Stubbusch and @nonresidentdesi.bsky.social on bacterial degradation-dispersal cycles, out in @elife.bsky.social!

A framework for understanding collective microbiome metabolism - Nature Microbiology This Perspective explores why microbiome members perform partial metabolism of substrates and suggests that proteome efficiency is a driver of collective microbiome metabolism.

My friend & colleague @micsysecolab.bsky.social Matthias has written this extremely insightful and fascinating perspective on bacterial collective metabolism, out now in @naturemicrobiol.bsky.social. So happy to see this out & super excited for proteome allocation! www.nature.com/articles/s41...

Antagonism as a foraging strategy in microbial communities In natural habitats, nutrient availability limits bacterial growth. We discovered that bacteria can overcome this limitation by acquiring nutrients through lysing neighboring cells via contact-depende...

New preprint! A bit of new direction for my research program: How can bacteria get nutrients when autonomous growth is not possible or passive leakage is not enough to support high growth? Shoot spearguns with toxins into other cells and leak out nutrients!

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

Last but not least, I want to thank @drinkmic.bsky.social
and @alecava.bsky.social for all the discussions and support through this journey into the Legionellaceae family!

n/n

I think these results highlight that to understand microbial ecology we he need to move beyond just tracking genera, but really move to species-level resolution.
This is not just valid for Legionella, but I think for all clades in which only a few bacteria are of interest

16/n

The correlation among the OTUs were quite low or negative, supporting once again that each species has its own environmental niche. Still, metabolically similar species presented higher correlations, stressing the link between functional potential and environmental niche.

15/n

Barplot showing the environmental classes of the samples in which different Legionellaceae OTUs were found

We saw that different OTUs are, in fact, more prevalent in different environments! Also, we found these OTUs in a lot of “animal-associated” samples derived from gut and stool. While there are reports of intestinal legionellosis, their total prevalence is surprising!

14/n

Finally, what do all these differences mean? Do they affect the species environmental prevalence?
We checked this linking the full-length 16S rRNA genes to the OTUs present in MicrobeAtlas getting an overview of these OTUs over the entire SRA

13/n

Heatmap representing the percentage of auxotrophs towards different amino acids in different Legionellaceae genus clusters

We then extended auxotrophy predictions to the entire family and found that each genus cluster presents a different auxotrophy profile.
Can we use this info to extend the number of cultured representatives?

12/n

This reconciles this discrepancy, but we would like to follow up on this with dedicated lab experiments!

11/n