What makes human guts and coral reefs similar? Here is a blog post with some thoughts on ecosystem stability, stress, and microbiome, following a fresh pre-print by Marko Terzin et al: merenlab.org/blog/coral-r...

From coral reefs to human guts: stress is stress

Reefs and colons share no taxa, no host, no timescale, but they report stress the same way, which tells us where NOT to look for solutions.

merenlab.org

Riboseek is a fast RNA/DNA search. More sensitive than nhmmer at 250x speed. Structure-aware realignment produces MSAs approaching rMSA quality. Plus 1.7M precomputed RNA MSAs, and an API to search your own 📄 www.biorxiv.org/content/10.6... 💾 github.com/steineggerla... 🌐 search.foldseek.com/riboseek

in case you missed it: profmcinerney.substack.com/p/the-pangen... "The Pangenome Is Not A Parts List"

The Pangenome Is Not a Parts List

The pangenome is the total genetic repertoire of a group of organisms. It is a property of populations, maintained by evolutionary processes.

profmcinerney.substack.com

@hifmb.de advertised 5 post-doc positions to work on social science / basic science interface, and here is a blog post to tell you why I care about this, and what it looks like: merenlab.org/blog/HIPP-on... Please spread the word if you can.

🔥 Published today, and just in time for summer conferences, here are your guidelines for presenting badly www.nature.com/articles/s41... rdcu.be/fqa92

Scientists and their good ideas: superficially, it always looks like the idea just sprouted out of their mind, when quite the opposite is true. Good ideas are brewed slowly, in the dark, long before anyone can see them.

There is a postdoctoral position available in our group: jobs.univie.ac.at/job/Universi... Please repost.

Doing science requires us to speak 2 different languages: (1) Day science language is a highly precise language for designing & executing experiments; while (2) Night science language uses analogies & anthropomorphizes to give us intuitions about the unknowns we explore. (Night Science recap, Day 4)

VIBRANT: Phase 1 trial of multi-strain L. crispatus for BV Women w/bacterial vaginosis receiving multi-strain vaginal L. crispatus live biotherapeutic 3–7 days post antibiotics showed vaginal colonization up to 12 wks, reducing risk of recurrent BV www.cell.com/cell-host-mi...

VIBRANT: A phase 1 randomized trial of multi-strain vaginal L. crispatus live biotherapeutic products in people with bacterial vaginosis

In this phase 1 randomized trial of women with bacterial vaginosis in South Africa and the United States, Potloane et al. show that a multi-strain vaginal Lactobacillus crispatus live biotherapeutic a...

cell.com

Finally out! 🥂 link.springer.com/article/10.1... We used 3 different methods to profile fecal DNA and analysed how gut microbiome composition and human cell fractions define disease severity in IBD pediatric patients. Many thanks to my supervisor Moran Yassour and our collaborators 🧵⬇️

Human DNA levels in feces reflect gut inflammation and associate with presence of gut species in IBD patients across the age spectrum - Microbiome

Background Feces represent a complex biological matrix that provides valuable information about intestinal physiology and gut microbial activity. Comprehensive fecal DNA sequencing is mostly utilized ...

link.springer.com

The new @mpi-cbg.de research group leader Daniela Egas Santander is looking for a Postdoctoral Researcher (m/f/d) in Applied Topology for Biology. Apply until November 16th here: careers.mpi-cbg.de/jobs/6002777...

TLDR: you can try using PMIDs instead of Journal names on your slides --> a small step towards shifting the scientific culture from one that values status to one that values substance.

Sophien Kamoun@kamounlab.bsky.social · last yr.

I just published: Stop displaying journal names on your slides A mentoring event at a Congress called for better support of early-career scientists - but what followed sent mixed signals. This blog reflects on those moments and ends with a pledge. medium.com/p/stop-displ...

🧬🖥️ 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

It's #WorldMicrobiomeDay! 🦠 We are proud to be a part of this exciting research area through contributions by our amazing authors. To celebrate this occasion, here are some of our favourite microbiome papers. Do you have a favourite of yours? let us know in the replies. #MicroSky #MicrobiomeSky

... and a few minutes ago our Chart-Checklist came out in @natcellbio.nature.com 🥳🎉 Gift link for #TCTeAC: rdcu.be/eqPpi www.nature.com/articles/s41...

A checklist for designing and improving the visualization of scientific data - Nature Cell Biology

Creating clear and engaging scientific figures is crucial to communicate complex data. In this Comment, I condense principles from design, visual perception and data visualization research in a checkl...

nature.com

Serious science #TCTeAC

Embedding your [personality] in the latent space of your [one-slide presentation] #TCTeAC (cit. @yanabromberg.bsky.social )

Science culture #TCTeAC (sigh, ChatGPT could not put the tape on the hole)

@woodstocknightsci.bsky.social full awakening is only 3 nights from now! Follow #TCTeAC also known as #theconferencetoendallconferences!

This episode of The Leap left me in awe and tears. Highly recommend! open.spotify.com/episode/3KG0...

The Leap: Be Bold Or Just Don't Do It

Science Friday · Episode

open.spotify.com

Next week, few days with a pack of 300 scientists, roaming around Prague, excited for genuine scientific exchange. I love it!! #theconferencetoendallconferences

Oded Rechavi@odedrechavi.bsky.social · last yr.

One week from now!!! The craziest scientific conference ever www.the-scientist.com/a-scientific... @svobodalab.bsky.social @paveltomancak.bsky.social @zernickagoetz.bsky.social @itaiyanai.bsky.social @natanellae.bsky.social see more here woodstock.img.cas.cz

Why do we need to wait for conferences, or even worse peer review, to exchange ideas? Sharing and posting feel like talking at the wall, nobody needs to listen really. Scientific discourse should not have geographical limits. Why don't we have a global system for this? #RePost 🙏🏼

Who does that? We rented a train JUST for the conference, that will take the participants from Prague to the woods of Bohemia. There'll be talks ON THE TRAIN. In Prague we'll have 5 locations with different atmospheres. #theconferencetoendallconferences Register now: woodstock.img.cas.cz