🧪Big problem in profiling ancient microbiomes in #aDNA is making sure that the microbes you detect are truly ancient, not some modern contamination. Aranya Dhibar (@aranyad.bsky.social) developed a fast and highly memory-efficient pipeline, MAT-classifier, for this. www.biorxiv.org/content/10.6...

Attention folks in the weather, climate, disaster, wildfire, and Earth science communities: NSF has just published a new "Dear Colleague" letter inviting feedback (by Mar 13) on the proposal to dismantle the National Center for Atmospheric Research (NCAR). www.nsf.gov/funding/...

Exiciting new preprint from the Matz lab @heatshok.bsky.social @utaustin.bsky.social!! www.biorxiv.org/content/10.6...

"The response on this community makes one thing clear we are not facing this moment alone. In just 24 hours, our members have sent over 7,000 emails and counting." AGU President Brandon Jones. Join us here: agu.quorum.us/campaign/151...

Like math and plant community ecology? I am recruiting one or two new Ph.D. students to work on theory and its integration with data in the areas of forest dynamics, species coexistence, or plant community ecology more generally. Deadlines for the EEB and Plant Biology programs are Dec. 1.

“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

Do you teach #rstats? Do your students complain about how lame and old-fashioned dplyr is? Don't worry: I have the solution for you: github.com/hadley/genzp.... genzplyr is dplyr, but bussin fr fr no cap.

Excited to share our work using #aDNA to reconstruct #Symbiodiniaceae dynamics from #coral cores. Led by José Grillo, @jessireichert.bsky.social, @nessatir.bsky.social part of #TaraPacific expedition & supported by #SPP2299 @climatereefs.bsky.social doi.org/10.1111/gcb....

Happy Friday afternoon folks. Here be some leaf sheep wishing you a lovely day 🌊

Such a delight to share our work on the evolution of a cheese rind fungus in @currentbiology.bsky.social. This is the fantastic PhD work of @nicolasleonlouw.bsky.social and resulted from amazing collaborations, a wedding proposal(!), an undergrad course, & more! 🧵 www.cell.com/current-biol...

Did you know your students can make Data Nuggets, or that they can work with data collected by fellow students? Just search "student research" in our tables to find these activities! datanuggets.org/search-curre... #studentresearch #scicomm #stemed #k12 #realdata

We had a successful field trip collecting Siderastrea siderea coral cores for ancient DNA research, one of them appears to be on ver 100 years old. Colombian Caribbean.🌎🧪🦠🌊🪸🦑🌐

Hey wild immunologists of blue sky… do you work on a non-model taxa??? Would you have 15 min to spare to zoom in and share your research with my comparative immunology class? I’m looking to spotlight real research this semester. Please spread the word and reach out if you’re interested!

New paper on drivers of holobiont assembly in massive Porites #coral in Australia. Long story short: genetic structure trumps local environment and size class to determine both Symbiodiniaceae and microbiome communities. doi.org/10.1371/jour... @heatshok.bsky.social

Out in @natbiotech.nature.com: Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. Profiles of 700,000 metagenomes at sandpiper.qut.edu.au. A 🧵

I am making a Starter Pack for people who are looking for POSTDOC POSITIONS in the biological sciences! If you wish to be added, please respond directly to this post saying you want to be added. I need at least 5 people to create the pack. Please share widely!

Comprehensive taxonomic identification of microbial species in metagenomic data using SingleM and Sandpiper - @benjwoodcroft.bsky.social go.nature.com/3IwOxHh

New paper is out! We infer "isolation by environment" across landscape using random forest regression, and show how the resulting model (predicting optimal environment based on genotype) can be used in conservation. onlinelibrary.wiley.com/doi/epdf/10.... #RDAforest #GEA 🧪🌏

Exploring how corals connect with their environment! 🪸🌊 Our new preprint investigates the (surprisingly large!) role of diel time, genotype, and fine-scale reef variation in shaping metagenomic communities in and around corals during annual spawning: tinyurl.com/2u3jvwja @heatshok.bsky.social

Very excited to have our first #singlecell data paper out in the world. Dr. Valadez Ingersoll worked so hard on this piece and we learned so much about #coral #symbiosis! Cell type-specific immune regulation under symbiosis in a facultatively symbiotic coral url: academic.oup.com/ismej/articl...

Leveraging the GBR-MGD, we find that seawater microbes can reliably predict fisheries management practice. Microbes indicative of No Take Marine Reserves (NTMRs) have streamlined, low-GC genomes, fished reefs do not—turned out to be very interesting! Excellent work led by @markoterzin.bsky.social

Heard of "Darwin's paradox"? It refers to Charles Darwin's observation that coral reefs are wildly productive despite occurring in nutrient-poor tropical oceans. Reefs are, so the story goes, oases in marine deserts 🏝️... Turns out that 2/3 of these assertions are very wrong... 🌐 🦑🧪 🧵⬇️