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soilmicrobe.bsky.social
Somak 🥼💻✨️
@soilmicrobe.bsky.social
310 followers 910 following 20 posts
Microbial Ecologist posting about #Microbiome research #SciComm, #OpenAccess, #ClimateChange, #Rstats, #dataviz & inclusive science | Personal views|He/him/his
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soilmicrobe.bsky.social
Somak 🥼💻✨️ @soilmicrobe.bsky.social · Dec 14

🚨 New Paper 🚨

Metamorphosis of unicellular green algae in simulated natural environment. One of my PhD doodles got published! 😅 #microcosm #microbialecogy

Collab between #HKI #FSU

nph.onlinelibrary.wiley.com/doi/10.1111/...
Metamorphosis of a unicellular green alga in the presence of acetate and a spatially structured three‐dimensional environment
Photosynthetic protists, named microalgae, are key players in global primary production. The green microalga Chlamydomonas reinhardtii is a well-studied model organism. In nature, it dwells in aceta.....
nph.onlinelibrary.wiley.com
Reposted by Somak 🥼💻✨️
nature.com
Papers from research teams with a substantial number of beginners are highly disruptive and innovative

go.nature.com/4nrEvqg
Rookie scientists make research teams more innovative
Papers from research teams with a substantial number of beginners are highly disruptive and innovative, study shows.
go.nature.com
September 29, 2025 at 11:25 AM
Reposted by Somak 🥼💻✨️
evolvedbiofilm.bsky.social
Gene co-occurrence and its association with phage infectivity in bacterial pangenomes

Phil. Trans. R. Soc. B by @annecmg.bsky.social et al
with @fbaumdicker.bsky.social

royalsocietypublishing.org/doi/10.1098/...
Gene co-occurrence and its association with phage infectivity in bacterial pangenomes | Philosophical Transactions of the Royal Society B: Biological Sciences
Phages infect bacteria and have recently re-emerged as a promising strategy to combat bacterial infections. However, there is a lack of methods to predict whether and why a particular phage can or can...
royalsocietypublishing.org
September 5, 2025 at 10:16 AM
Reposted by Somak 🥼💻✨️
evolvedbiofilm.bsky.social
Assistant Professor position in the Microbiome Engineering group (Prof Sahar El Aidy) at University of Amsterdam

Assistant Professor in Microbiome Imaging and Functional Analysis
werkenbij.uva.nl/en/vacancies...
Vacancy — Assistant Professor in Microbiome Imaging and Functional Analysis
Are you pioneering molecular tools and applying advanced imaging strategies to uncover how microbial communities are organized and interact in space and time? If so, we invite you to join The Swammerd...
werkenbij.uva.nl
September 5, 2025 at 9:18 AM
Reposted by Somak 🥼💻✨️
jfcryan.bsky.social
Great to see our Review "The gut microbiome connects nutrition and human health" making the cover of this month's @natrevgastrohep.nature.com

@patrickveiga.bsky.social @eranelinav.bsky.social
www.nature.com/articles/s41...
August 8, 2025 at 9:36 AM
Reposted by Somak 🥼💻✨️
thinks.lol
Postdoc position opening in my group! Research projects: pangenomes for diverse organisms, genome evolution, biocomputing, language models. Please reach out if interested!
July 17, 2025 at 7:53 AM
Reposted by Somak 🥼💻✨️
soilmicrobe.bsky.social
Hi #microbiome folks, Do you have a custom recipe that is used for anaerobic faecal sample preservation during collection and transport at room temp? Need it for samples whose fate is culturomics.
#gutmicrobiome
July 14, 2025 at 1:12 PM
soilmicrobe.bsky.social
Hi #microbiome folks, Do you have a custom recipe that is used for anaerobic faecal sample preservation during collection and transport at room temp? Need it for samples whose fate is culturomics.
#gutmicrobiome
July 14, 2025 at 1:12 PM
Reposted by Somak 🥼💻✨️
fasnicar.bsky.social
🧬🖥️ Postdoc positions available SOON!!
Looking for researchers with strong computational skills (programming essential) to work on microbiome & phylogenetics projects.
📅 Start on Nov 1, 2025 (flexible)
📍 Trento, Italy
DM me for details or share!
#postdocjobs #microbiome #metagenomics #phylogenetics
July 4, 2025 at 9:11 AM
Reposted by Somak 🥼💻✨️
evolvedbiofilm.bsky.social
Systematic pairwise co-cultures uncover predominant negative interactions among human gut bacteria

-in BMC Microbiome

microbiomejournal.biomedcentral.com/articles/10....
Systematic pairwise co-cultures uncover predominant negative interactions among human gut bacteria - Microbiome
Background Understanding pairwise bacterial interactions in the human gut is crucial for deciphering the complex networks of bacterial interactions and their contributions to host health. However, the...
microbiomejournal.biomedcentral.com
July 10, 2025 at 2:16 PM
Reposted by Somak 🥼💻✨️
thomieh73.bsky.social
I think this is a paper every microbiome scientist should read:
www.nature.com/articles/s41...
Guidelines for preventing and reporting contamination in low-biomass microbiome studies - Nature Microbiology
In this Consensus Statement, the authors outline strategies for processing, analysing and interpreting low-biomass microbiome samples, and provide recommendations to minimize contaminants.
www.nature.com
June 24, 2025 at 11:48 AM
Reposted by Somak 🥼💻✨️
danieltamarit.bsky.social
New vacancy in my team!

PhD student position on microbial genome evolution, focusing on the evolutionary principles underlying bacterial genome architecture.

Please repost and share with talented MSc students in #evobio, bioinformatics or related :)

www.uu.nl/en/organisat...

#MEvoSky #MicroSky
May 14, 2025 at 2:07 PM
Reposted by Somak 🥼💻✨️
tilmweber.bsky.social
We're happy to announce that the #antiSMASH v8 paper is out in @narjournal.bsky.social: academic.oup.com/nar/advance-...
Many thanks to @kblin.bsky.social, @marnixmedema.bsky.social and many international collaborators!
antiSMASH 8.0: extended gene cluster detection capabilities and analyses of chemistry, enzymology, and regulation
Abstract. Microorganisms synthesize small bioactive compounds through their secondary or specialized metabolism. Those compounds play an important role in
academic.oup.com
April 28, 2025 at 9:14 AM
Reposted by Somak 🥼💻✨️
pronounced-ing.bsky.social
Your periodic reminder that one way to think about privilege is: who's allowed to make mistakes?
April 19, 2025 at 2:34 AM
Reposted by Somak 🥼💻✨️
erictopol.bsky.social
Now in airport vending machines.
The evidence that it does anything to promote one's health does not exist.
April 17, 2025 at 3:46 PM
Reposted by Somak 🥼💻✨️
alfmicrobe.bsky.social
I was waiting two years to see this out!! The genomic location of bacterial genes is not random!!! Congratulation on the authors (Martin Lercher and Team!). www.science.org/doi/10.1126/...
Most bacterial gene families are biased toward specific chromosomal positions
The arrangement of genes along bacterial chromosomes influences their expression through growth rate–dependent gene copy number changes during DNA replication. Although translation- and transcription-...
www.science.org
April 10, 2025 at 7:43 PM
Reposted by Somak 🥼💻✨️
baym.lol
Our latest paper, in which @brinda.eu (along with @zaminiqbal.bsky.social and others) introduces phylogenetic compression for storage and search of enormous microbial genome libraries, was published today in @naturemethods.bsky.social:

rdcu.be/eg4OA

1/
Efficient and robust search of microbial genomes via phylogenetic compression
Nature Methods - Phylogenetic compression achieves performant and lossless compression of massive collections of microbial genomes, facilitating fast BLAST-like search and versatile alignment tasks.
rdcu.be
April 9, 2025 at 9:07 PM
Reposted by Somak 🥼💻✨️
somssich.bsky.social
📜 A chemical radar allows bacteria to detect and kill predators

🧑‍🔬 Shuaibing Zhang, Pierre Stallforth, et al.

📔 @cellpress.bsky.social

🔗 www.cell.com/cell/fulltex...

#️⃣ #PlantImmunity #Microbiology #ChemicalEcology #SocialAmoebae #Pseudomonas
A chemical radar allows bacteria to detect and kill predators
Pseudomonas syringae can detect and kill microbial predators via a chemical radar (Cra), which also allows the bacterium to infect plants despite predation pressure.
www.cell.com
April 9, 2025 at 7:19 AM
Reposted by Somak 🥼💻✨️
kblin.bsky.social
DTU IT is tracking some network issues that seem to also affect the #antiSMASH servers. I'll post an update once I know more.
April 8, 2025 at 8:44 AM
Reposted by Somak 🥼💻✨️
stcmicrobeblog.bsky.social
chemical crosstalk at a distance of 𝘗𝘴𝘦𝘶𝘥𝘰𝘮𝘰𝘯𝘢𝘴 𝘴𝘺𝘳𝘪𝘯𝘨𝘢𝘦 with 𝘗𝘰𝘭𝘺𝘴𝘱𝘩𝘰𝘯𝘥𝘺𝘭𝘪𝘶𝘮 𝘱𝘢𝘭𝘭𝘪𝘥𝘶𝘮 amoebae. oh nos, this does not end well for the amoebas...

www.cell.com/cell/fulltex...
#MicroSky
A chemical radar allows bacteria to detect and kill predators
Pseudomonas syringae can detect and kill microbial predators via a chemical radar (Cra), which also allows the bacterium to infect plants despite predation pressure.
www.cell.com
April 3, 2025 at 2:03 PM
soilmicrobe.bsky.social
Hot of the Press 🎙️ : "A chemical radar allows bacteria to detect and kill predators"

Very glad to have been a part of this study from Stallforth lab published in journal @cellpress.bsky.social .

Link to the paper 🔗 : shorturl.at/4DWPp

Here is an explainer of the study🎙️. vimeo.com/1072064686
Radar_paper
This is "Radar_paper" by somak chowdhury on Vimeo, the home for high quality videos and the people who love them.
vimeo.com
April 3, 2025 at 7:18 AM
Reposted by Somak 🥼💻✨️
merenbey.bsky.social
If you are interested in a postdoc opportunity in Europe, I'd suggest you to consider the EU Marie Curie Postdoctoral Fellowship:

ec.europa.eu/info/funding...

If you are into marine microbial ecology and evolution, I'd love to support your application (see more at merenlab.org).

E-MAIL ME NOW! :)
EU Funding & Tenders Portal
The Funding and Tenders Portal is the single entry point (the Single Electronic Data Interchange Area) for applicants, contractors and experts in funding programmes and procurements managed by the Eur...
ec.europa.eu
March 31, 2025 at 12:39 PM
Reposted by Somak 🥼💻✨️
magdalenaskipper.bsky.social
How a PhD student’s lab size affects their chance of future academic success - perhaps not very surprising but still fascinating
🧪 #AcademicSky

Original work www.nature.com/articles/s41...
@naturehumbehav.bsky.social
@nature.com
www.nature.com/articles/d41...
How a PhD student’s lab size affects their chance of future academic success
Trainees in big research groups tend to go on to greater academic success than their small-group counterparts ― but are more likely to quit academia altogether.
www.nature.com
March 8, 2025 at 8:16 AM
Reposted by Somak 🥼💻✨️
pengellab.bsky.social
We are looking for a bioinformatician with expertise in microbiome data analysis join our team at the University of Lausanne. The successful candidate will lead and support research projects within nccr-microbiomes.ch. More details here: shorturl.at/mC46o . Please share with potential candidates.
Opportunités de carrière : Research Associate position in bioinformatics support (22124)
shorturl.at
February 18, 2025 at 10:09 PM
soilmicrobe.bsky.social
Not sorry to leave! F**k Elon! ✊🏽
Page shown when one deactivates / leaves twitter Quote by Elie Wiesl asking to take sides as neutrality favours the oppressor!
February 16, 2025 at 3:57 AM
Reposted by Somak 🥼💻✨️
natmicrobiol.nature.com
OUT NOW: Gut microbiota-derived hexa-acylated lipopolysaccharides enhance cancer immunotherapy responses

@pedicordlab.bsky.social #microsky

www.nature.com/articles/s41...
Gut microbiota-derived hexa-acylated lipopolysaccharides enhance cancer immunotherapy responses - Nature Microbiology
Hexa-acylated lipopolysaccharides from the gut microbiota are associated with efficacy in patients with cancer receiving anti-PD-1 and stimulate host immune activation for enhanced anti-tumour immunit...
www.nature.com
February 11, 2025 at 1:53 PM