Samuel Aroney
Postdoc at Centre for Microbiome Research at QUT. Bioinformatics, metagenomics, Bin Chicken, permafrost...
- Reposted by Samuel AroneyNew paper out! Here's a puzzle: phototrophy, the ability to use light for energy, is one of life's great innovations. It evolved early and transformed the biosphere. But it evolved 2x. Why not just once, why not more? Our work suggests the answer is priority effects. www.nature.com/articles/s44...
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- Reposted by Samuel AroneyIt's Friday! ...and a new #MVIF program is out! 🤩 Free registration: cassyni.com/s/mvif-46 Highlights: 🇺🇸 Rebecca L. Knoll 🇯🇵 Akito Sakanaka Keynote: 🇺🇸 @simrouxvirus.bsky.social ⭐️ Talks: 🇦🇺 @jeremyjbarr.bsky.social 🇨🇦 @erikbakkeren.bsky.social 🇨🇳 Guanxiang Liang
- Reposted by Samuel AroneyThe ISME Early Career Scientist Committee is glad to begin the year by spotlighting @aroneys.bsky.social, a Postdoctoral Researcher at QUT, and his paper, “Bin Chicken: targeted metagenomic coassembly for the efficient recovery of novel genomes.” doi.org/10.1038/s415... (1/2)
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- Reposted by Samuel Aroney🚨vConTACT3 now in Nature Biotechnology: - >95% agreement with ICTV for known viruses - Classifies both prokaryotic and eukaryotic viruses - Extends beyond genus → subfamily, family & order - Systematically assigns taxonomy to tens of thousands of previously unclassified viruses
- Reposted by Samuel AroneyNew paper up on bioRxiv! This is my third and hopefully final paper on rarefaction. It's still better than the other available methods. www.biorxiv.org/content/10.6...
- Reposted by Samuel AroneyReally important read for people working with long-read MAGs. www.nature.com/articles/s41...
- Reposted by Samuel AroneyA free, open-access library of high-quality organism illustrations for science communication
- Reposted by Samuel AroneyLandmark study in @Nature! 🇩🇰 The "Microflora Danica" project has created the first-ever national microbiome atlas. Led by Aalborg University, @fwf-at.bsky.social CoE Microplanet's Director @michiwagner4.bsky.social, and @daanspeth.bsky.social, Andrew Giguere @cemess.bsky.social analyzed nitrifiers.
- Reposted by Samuel AroneyNew preprint out! Using ~75k environmental OTUs + 77 fossil calibrations, we reconstructed a Proterozoic timeline of eukaryote evolution. Our results show crown eukaryotes were already diversifying >1.6 Ga, long before the first undisputed fossils (~1.05 Ga). 🔗 DOI: www.biorxiv.org/content/10.6...
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- Reposted by Samuel AroneyFrom @jhcepas.bsky.social and colleagues in the @narjournal.bsky.social #NARDatabaseIssue | eggNOG v7: phylogeny-based orthology predictions and functional annotations | #Bioinformatics #ProteinCentric #Database #OpenScience 🧬 🖥️🧪🇨🇭🇪🇸🇩🇪🔓 ⬇️ academic.oup.com/nar/advance-...
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- Reposted by Samuel AroneySome archaea—an ancient group of microorganisms—have an entirely novel genetic code, according to a new study in Science. The findings expand our understanding of how alternative genetic codes evolve and hint at new molecular tools for biotechnology applications. scim.ag/4omApQ7
- Reposted by Samuel AroneyAn Asgard Archaeon (Lokiarchaeum ossiferum) growing and retracting its arms
- Reposted by Samuel AroneyMicroflora Danica: What can you learn from collecting and sequencing 10,000+ samples from a single country? Check out our new paper in @nature.com to find out. Incredible work led by Caitlin Singleton, Thomas B. N. Jensen, and Mads Albertsen from @aau.dk. 🦠🧫🧬 www.nature.com/articles/s41...
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- Reposted by Samuel Aroney🧫 Just out in Bioinformatics Advances: “GlobDB: A comprehensive species-dereplicated microbial genome resource.” Explore the full study: doi.org/10.1093/bioadv/vbaf280
- Reposted by Samuel AroneyCelebrating Excellence at the Centre for Microbiome Research! We’re thrilled to share that Gene Tyson, @benjwoodcroft.bsky.social and @luispedrocoelho.bsky.social have once again been named Highly Cited Researchers for 2025 by Clarivate! #HighlyCited2025
- Reposted by Samuel AroneyOur paper describing the GlobDB is now published in @bioinfoadv.bsky.social doi.org/10.1093/bioa... The GlobDB is the largest species dereplicated genome database currently available, containing 306,260 species representatives. More information on globdb.org 1/5 🖥️🧬🦠
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- Reposted by Samuel AroneySoils contain an amazing diversity of functions encoded in plasmids. The Global Soil Plasmidome Resource: 98,728 soil plasmids from 6,860 samples. Led by @mattlabguy.bsky.social and @apcamargo.bsky.social at @jgi.doe.gov @biosci.lbl.gov @berkeleylab.lbl.gov www.nature.com/articles/s41...
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- Reposted by Samuel AroneyCurious about plasmid biology? Our latest paper is out now in Nature Communications! 🚨 doi.org/10.1038/s414... We analyzed thousands of diverse bacterial plasmids to shed light for the first time on a key aspect of plasmid biology: plasmid copy number. 1/7 👇
- “Bin Chicken” is now published in Nature Methods! It substantially improves genome recovery through rational coassembly 🧬🖥️. Applied to public 🌍 metagenomes, we recovered 24,000 novel species 🦠, including 6 new phyla. doi.org/10.1038/s415... @benjwoodcroft.bsky.social @rhysnewell.bsky.social 🧵1/6
- Bin Chicken compares marker gene sequences across metagenomic reads to group samples into coassemblies 🧬🧬 predicted to recover novel genomes 🦠. It can recover rare lineages that can’t be recovered from single-samples and target recovery of particular lineages of interest. 2/
- We used Bin Chicken to screen public 🌍 metagenomes, choosing the best 800 sample-sets for coassembly, and recovered 24,028 novel species 🦠 of Bacteria and Archaea, including the first representatives of 6 phyla and 41 classes. 3/
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View full threadShoutout to @georginajoyce.bsky.social for creating the amazing Bin Chicken logo! www.georginajoyce.com And thanks to everyone at @cmrqut.bsky.social for your support and @emerge-bii.bsky.social for funding this research!
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- Reposted by Samuel Aroney🚨vConTACT3 preprint live!🚨(Peer Review soon...!) vConTACT3 delivers a unified, scalable, and transparent framework for genome-based virus taxonomy — helping translate big viral data into systematic classification. 🔗 Read the preprint: doi.org/10.1101/2025... Improvements details below 👇
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- Reposted by Samuel AroneyScientists still have a very limited understanding of #marine #biodiversity. Jonathan Belmaker explores a new @plosbiology.org study that uses unprecedented global environmental DNA #eDNA sampling to reveal the extent of our ignorance 🧪 Paper: plos.io/47yRnEk Primer: plos.io/3XeJ2kl
- Reposted by Samuel AroneyGreat to see this finally published! Metalog: curated and harmonised contextual data for global metagenomics samples now out in @narjournal.bsky.social academic.oup.com/nar/advance-...
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- Reposted by Samuel Aroney🧵Remember the preprint claiming SARS-CoV-2 has a "synthetic fingerprint"? It said a restriction map was "extremely unlikely to have arisen by random evolution.” I took its claims seriously. The "synthetic fingerprint" hypothesis collapses. My new preprint explains why. arxiv.org/abs/2510.23833
- Reposted by Samuel AroneyWhat can the current global bacterial taxonomy knowledge reveal about the actual (past and present) ecological success of each lineage? | bioRxiv biorxiv.org/content/10.1101/202…
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- Reposted by Samuel AroneyOur @narjournal.bsky.social manuscript is out! It explores the growth of the GTDB (gtdb.ecogenomic.org) since its inception, as well as updates to the website, methodology, policies, and major taxonomic and nomenclatural changes over the past three years. academic.oup.com/nar/advance-...
- Reposted by Samuel AroneyMicrobes sustain all ecosystems yet they’re nearly absent from conservation frameworks. The @IUCN Microbial Conservation Specialist Group aims to change that. Honored to co-chair this global effort. Great @nytimes piece by Carl Zimmer: www.nytimes.com/2025/10/17/s...
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- Reposted by Samuel AroneyVery excited to share the latest work from our lab, which was published today in Nature! nature.com/articles/s41... PhD graduate and now post-doc Sofia Dahlman, along with co-senior author Sam Forster from The Hudson and other researchers from our lab and others.
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