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Thibaut Brunet @thibautbrunet.bsky.social · 4d

Latest from ours: www.cell.com/cell-reports...

This is two stories in one: a case study/cautionary tale on developing genetic tools in new organisms, and the first hint at a gene regulatory network for choanoflagellate multicellular development (which turn out to involve a Hippo/YAP/ECM loop!) A 🧵

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JA Fields | NonCompliantCyborg @noncompliantcyborg.bsky.social · 6d

Happy Ctenophore Day!
🐙🦑🧪

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Roland Faure @rfaure.bsky.social · 6d

Our preprint on our new metagenomic HiFi assembler Alice is out 🥳 Based on a *new sketching method* (🧵1/6)
👉 Preprint www.biorxiv.org/content/10.1...
👉 Github github.com/rolandfaure/...

Alice: fast and haplotype-aware assembly of high-fidelity reads based on MSR sketching

We introduce Mapping-friendly Sequence Reduction (MSR) sketches, a sketching method for high-fidelity (HiFi) long reads, and Alice, an assembler that operates directly on these sketches. MSR produces ...

www.biorxiv.org

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James McInerney @jomcinerney.bsky.social · 8d

The job is still open. Get your application in ASAP. Or just pass it on to somebody that might be interested.

James McInerney @jomcinerney.bsky.social · 14d

OK, here it is. Come work with me at the University of Liverpool making ALL THE AI models from ALL THE prokaryote pangenome data. Heck, we will make models from ALL the pangenomes, even eukaryotes!!! (link below👇) 1/4

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Cameron Thrash @jcamthrash.bsky.social · 22d

EcoFoldDB: Protein Structure‐Guided Functional Profiling of Ecologically Relevant Microbial Traits at the Metagenome Scale enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs

EcoFoldDB: Protein Structure‐Guided Functional Profiling of Ecologically Relevant Microbial Traits at the Metagenome Scale

EcoFoldDB provides a curated database of protein structures for ecologically important microbial traits. Its companion annotation pipeline (EcoFoldDB-annotate) employs rapid structural homology searc...

enviromicro-journals.onlinelibrary.wiley.com

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BejaLab @bejalab.bsky.social · 22d

A genomic view of Earth’s biomes www.nature.com/articles/s41...

A genomic view of Earth’s biomes - Nature Reviews Genetics

Genome-wide approaches have uncovered the vast microbial and viral diversity across ecosystems. This Review explores advances in metagenomics, single-cell sequencing and functional profiling to elucid...

www.nature.com

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Tara Oceans Science @taraoceans-science.bsky.social · Sep 9

Here's a new paper that stresses the importance of microbes not only for human health but for planetary health in general, performing all sorts of essential activities at global scale : Incorporating microbiomes into the One Health Joint Plan of Action | mBio journals.asm.org/doi/10.1128/...

Incorporating microbiomes into the One Health Joint Plan of Action | mBio

One Health is a well-established concept that is now more crucial than ever in tackling modern challenges of zoonotic diseases, antimicrobial resistance, and climate- and environment-related health th...

journals.asm.org

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Nancy Knowlton @nancyknowlton.bsky.social · Sep 7

It being Sunday, and having been to the #Vatican in support of Pope Francis's environmental work, here's my news to me good news for Sept 7 #EarthOptimism #BeyondTheObituaries www.reuters.com/sustainabili...

Pope Leo, in climate push, to open Vatican-run ecological training centre

Pope Leo will open a new Vatican-run ecological training centre in the Italian countryside on Friday, in an initiative Catholic officials say is meant to encourage world leaders to address global climate change.

www.reuters.com

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Go Green @ecowarriorss.bsky.social · Aug 22

Catastrophic tipping point in Antarctica already happening
A "rapid and substantial slowdown" of ocean currents has already begun
Warming waters will further reduce Krill and phytoplankton populations and starve emperor penguins
Sea levels will rise

www.dw.com/en/antarctic...

Antarctic ice loss could have 'catastrophic' impact – DW – 08/21/2025

A study warned that Antarctic ice loss could cause more warming in the region and beyond, and could push some marine species toward extinction.

www.dw.com

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Nature @nature.com · Jul 31

This surprisingly relaxing footage is from SIX MILES under the ocean – and it’s the deepest ecosystem yet discovered

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Tara Oceans Science @taraoceans-science.bsky.social · Jul 31

Amazing new giant virus, found throughout the global ocean !!

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Jed Fuhrman @jedfuhrman.bsky.social · Jul 31

Just out: metagenomics with internal standards yields phylogenetically resolved genome ("~cell") counts of bacteria, archaea, and photosynthetic eukaryotes per L of seawater, over the AMT29 Atlantic transect, via "single copy" genes (recA, radA, psbO). Compares with microscopy and flow cytometry.

Cameron Thrash @jcamthrash.bsky.social · Jul 30

Quantitative metagenomics for marine prokaryotes and photosynthetic eukaryotes #USC_MEB #jcampubs 🌊 academic.oup.com/ismecommun/a...

Quantitative metagenomics for marine prokaryotes and photosynthetic eukaryotes

Abstract. High-throughput sequencing has provided unprecedented insights into microbial biodiversity in marine and other ecosystems. However, most sequenci

academic.oup.com

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BejaLab @bejalab.bsky.social · Jul 30

A dinoflagellate-infecting giant virus with a micron-length tail www.biorxiv.org/content/10.1...

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Javier del Campo @fonamental.bsky.social · Jul 22

Characterizing organisms from three domains of life with universal primers from throughout the global ocean www.nature.com/articles/s41...

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Veronika Meduna @veronikameduna.bsky.social · Jul 21

For my science column in this week's Listener, I talked to polar governance expert Alan Hemmings about the #Antarctic Treaty, geopolitics and emperors 🐧 current issue in shops now, online soon 🌎🇦🇶

Screenshot of a magazine page with a story about the Antarctic Treaty

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Saloni @scientificdiscovery.dev · Jul 21

Recently I learnt that EMBL-EBI has a free online course about AlphaFold — how it works, strengths and limitations, how to use it — and it's very good!

There are also little quizzes and interactives.
www.ebi.ac.uk/training/onl...

AlphaFold - A practical guide

www.ebi.ac.uk

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Holly Bik @hollybik.bsky.social · Jul 18

Even if you can’t attend this course in person, the online course materials are free and SO useful (I used this GitHub to plan out content for my new -Omics grad course)

Titus Brown @titus.idyll.org · Jul 18

#stamps2025

Metagenomics intro I: sampling & presence/absence

II: bioinformatics techniques for measuring genomes in metagenomes

III: reference-based metagenome interpretation & enhancing reference catalogs

IV: comprehensive metagenome content analysis and the challenge of bacterial strains

STAMPS 2025 tutorials - intro to metagenomics · Issue #3734 · sourmash-bio/sourmash

Metagenomics intro I: sampling & presence/absence Metagenomics intro II: bioinformatics techniques for measuring genomes in metagenomes Metagenomics intro III: reference-based metagenome interpreta...

github.com

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Fondation Tara Océan @fondationtaraocean.bsky.social · Jul 4

🎙️ #Podcast
Épisode 3 : Partager la science : le rôle de la médiation scientifique

🔬Léa Bello et Myriam Thomas vous embarquent pour un échange passionnant sur la #médiationscientifique.

🎧 Disponible sur toutes les plateformes : shows.acast.com/un-hublot-su...

Crédits : Agathe Roullin, Léa Bello

Partager la science : le rôle de la médiation scientifique | Un hublot sur l'Océan - Fondation Tara Océan

Léa Bello & Myriam Thomas

shows.acast.com

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Glen Wheeler @glwheeler2.bsky.social · Jul 4

Are you interested in how diatoms communicate with each other? Exciting post-doc position available in my lab to study the signalling mechanisms of cell-cell communication in diatoms. Deadline 14th July. @kehelliwell.bsky.social @thembauk.bsky.social www.jobs.ac.uk/job/DNO210/p...

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Katherine Helliwell @kehelliwell.bsky.social · Jul 4

We had a wonderful time at the Molecular Life of Diatoms meeting in Ghent last week!! Many stimulating conversations and fantastic talks. Huge thanks to the organizers for this splendid event #mld8 #protistsOnSky 🤎💛💚🌊

Gust Bilcke @gustbilcke.bsky.social · Jul 1

Looking back on last week's Molecular Life of Diatoms conference 🌊. Honored to be hosting this tight-knit, creative and collaborative community in Ghent! Topics ranged from single-cell approaches, imaging breakthroughs, new insights into photosynthesis and symbioses etc. #protistsOnSky #MLD8

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Simons Foundation @simonsfoundation.org · Jul 2

There is one month left to apply for our Simons Graduate Fellowships in Ecology and Evolution! These awards provide support for students entering U.S.-based Ph.D. programs with a plan to perform research in #ecology and #evolution. www.simonsfoundation.org/grant/simons... #science

Simons Graduate Fellowships in Ecology and Evolution

The purpose of these awards is to provide support for students entering U.S.-based Ph.D. programs with a plan to perform research in ecology and evolution. While we will consider all projects in ecolo...

www.simonsfoundation.org

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GEOTRACES @geotraces.bsky.social · Jul 3

Early Career Scientist at #Goldschmidt2025?🌊
Join the GEOTRACES ECS Mixer!

🍕 Free pizza & drinks
🗓 Tue 8 July | 🕖 19:45
📍 U Olmeru (5 min walk)
maps.app.goo.gl/5w6ibKqC8q64...

Sign up 👇https://docs.google.com/forms/d/e/1FAIpQLSeWXAsmdWIWU99S1WH-Anl4RNSnfxhrgoiOmEcmTSiWT77awA/viewform

Goldschmidt GEOTRACES ECR mixer

Secure your place! When: Tuesday 8th July, 19:45 - 22:00 Where: U Olmeru, a 5-minute walk from the Goldschmidt venue Details: Join us to network with fellow GEOTRACES Early Career Researchers*. Free p...

docs.google.com

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Jesse McNichol @jcmcnch.bsky.social · Jul 2

So excited to announce the GRUMP paper is published! This global dataset provides relative abundances for plankton spanning Archaea to Zooplankton from unfractionated (>0.2µm) water samples using 3-domain universal primers that amplify 16S and 18S in one PCR reaction.

www.nature.com/articles/s41...

Characterizing organisms from three domains of life with universal primers from throughout the global ocean - Scientific Data

Scientific Data - Characterizing organisms from three domains of life with universal primers from throughout the global ocean

www.nature.com

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The Keeling Curve @keelingcurve.bsky.social · Jul 2

429.17 parts per million (ppm) CO2 in air 01-Jul-2025 keelingcurve.ucsd.edu

The Keeling Curve

The Keeling Curve is a daily record of global atmospheric carbon dioxide concentration maintained by Scripps Institution of Oceanography at UC San Diego.

keelingcurve.ucsd.edu

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EMBL @embl.org · Jul 2

The Marine Research Centre (CIM) at the University of Vigo, Spain, and EMBL join forces to study how to curb red tides and anticipate the effects of marine heatwaves.

The CELLBLOOM project will advance scientific understanding of current global changes in the ocean.

www.embl.org/news/lab-mat...

Collage showing EMBL and CIM’s collaborative marine research in action. Top left: two researchers on a boat deploying a water sampling net into the sea. Center left: close-up of the net capturing water. Center right: the EMBL mobile laboratory truck parked outside the CIM building. Bottom row: interior of a mobile lab with scientists analyzing samples and conducting experiments in a well-equipped workspace.

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