Session proposals are now open for ASM Microbe 2027 ! asm.org/events/asm-m... If there is a specific topic or speaker you would like to see in Chicago, this is your chance (until Aug 12) ! This is for Micro Symposia and Hub Sessions, but my DMs are open if you have ideas for bigger AEM sessions

I love the reaction from former trainees when they're budgeting their first big independent grant and realize how much of the budget goes simply to pay people, as opposed to lab supplies etc... Suddenly all the things I bitch about make sense to them

Fred Flintstone: The Math Ain't Mathin'

ALT: Fred Flintstone: The Math Ain't Mathin'

static.klipy.com

It's out! Excited to present the Great Barrier Reef Microbial Genomes Database (GBR-MGD), a comprehensive DB of 1000s of high-quality prokaryote, virus, plasmid, and chromosome-level eukaryote MAGs using Nanopore long reads. Subthreads incoming. Please share widely. 🙂 www.nature.com/articles/s41...

The planktonic microbiome of the Great Barrier Reef - Nature

The Great Barrier Reef Microbial Genomes Database compiles prokaryotic, viral and eukaryotic genomes from seawater collected from the Great Barrier Reef, providing a rich resource for the study of mar...

nature.com

I'm hiring a #postdoc!! 🥳 Official ad is making its way through HR but If you have interests in statistical methodology OR microbial bioinformatics, please reach out via my UW email. I'll share the description with you when it's available. 🔥😻

Spent the last two years developing a new Intro to Physics course for undergrad biology majors. It features tons of examples from biology (especially Ecology & Evolution!) and requires only middle school-level math. Lecture note here shorturl.at/0PiVp Any comments or feedback are highly welcome!

Q: Does my thesis adviser pick the snake? A: No. Your adviser just tells the guy who picks the snakes how good your thesis was.

FAQ: The “Snake Fight” Portion of Your Thesis Defense

March 13 2022 4/24/23 5/8/24 5/13/26 CALENDAR 2027

buff.ly

Save the date - join the 9th International Conference on Microbiome Engineering! 📍Durham, NC 🗓️ Dec 1-3, 2026 Are you obsessed with controlling microbiomes? Want to learn all the ways accomplishing this goal benefits society? This is the meeting for you! www.aiche.org/sbe/conferen...

Thrilled to be heading to @ucriverside.bsky.social as the MCBL GSA invited speaker for the Microbiology Seminar Series! I'm looking forward to meeting everyone and learning about all the great science going on there!

Interested in a *staff computational scientist* position? We are looking for an experienced computational biologist (ideally with microbiology experience) to support published packages while also driving new research. Pay range $73k-$111k w excellent benefits. careers.peopleclick.com/careerscp/cl...

Computational Biology Program Scientist

MIT - Computational Biology Program Scientist - Cambridge MA 02139

careers.peopleclick.com

REMINDER - Abstract submission deadline for MEEHubs2026 is April 19! Get you abstract in and present at one of the hubs August 3-5, 2026✨You'll be in great company! We have a fantastic lineup of speakers‼️ Links and more info here: meehubs.org

I am excited to share our latest paper, Uniform bacterial genetic diversity along the gut, now out in Nature Communications! www.nature.com/articles/s41.... (1/n)

Excited to announce our new journal from @isme-microbes.bsky.social ISME Host Microbe is live and now accepting submissions. Look forward to receiving your papers! #Microsky 🧫 🦠

If I had only realized that my kids were running experiments all weekend! "Microbiota transfers were performed with repeated seeding of forest soil onto rugs placed in the home entryway." link.springer.com/article/10.1...

Environmental microbiota transfer from forest soil into urban homes: a proof-of-principle study - Microbiome

Background Urban lifestyles are characterized by reduced encounters of environmental microbe stimuli that activate immunoregulatory pathways. This has been linked to an increased risk of inflammatory ...

link.springer.com

New Preprint 📢 from our team 🔎 Critical assessment of #intratumor and #low #biomass #microbiome using #longread sequencing Some studies suggest bacteria 🦠 live inside tumors and influence cancer treatment. But there’s also been a major #debate: in these very​ low-microbe tissue samples, how much 1/

New preprint from my lab (with Arya Kaul, @fernpizza.bsky.social, and @brinda.eu), in which we explore new genes hitchhiking on the beneficial deletion that fused them together, and find them in the LTEE, M. Tb/bovis, and across the bacterial tree of life

bioRxiv Evolutionary Biology@biorxiv-evobio.bsky.social · 8mo ago

Novel genes arise from genomic deletions across the bacterial tree of life https://www.biorxiv.org/content/10.64898/2026.01.05.697752v1

I think everyone can relate to the importance of science for healthcare, and I’ve been sharing these slides for people to use and adapt with their own stories! youtu.be/BY_SFgi-Cig

Kara Marshall PHD-History of Science in America - Trilogy at Tehaleh 04/27/25

YouTube video by Steve Lawson

youtu.be

I'll be @dukemedschool.bsky.social next week presenting my research: “Ancient Partnerships, Modern Insights: Tracing the Assembly, Transmission, and Evolution of Mammalian Gut Microbes”. sites.duke.edu/microbiome/2... Come say Hi! @duke-university.bsky.social #microbiome

Special Research Seminar – 12/10/2025

Daniel Sprockett from Wake Forest University School of Medicine will be visiting Duke to present some of his research to…

sites.duke.edu

Poster deadline for the Keystone Microbiome Meeting in Banff is December 30th www.keystonesymposia.org/conferences/... Will be a great meeting focused on human microbiomes, spanning basic, mechanistic, and applied. Organized by myself, @amibhatt.bsky.social , and Harry Sokol. Join us!

Proud to have contributed to this important work! STREAMS guidelines: standards for technical reporting in environmental and host-associated #microbiome studies. www.nature.com/articles/s41... @natmicrobiol.nature.com

Ok; mim (github.com/COMBINE-lab/...) preprint submitted! Excited for folks to see it and share thoughts. The key takeaway; mim allows the quick, one-time, building of a small auxiliary index that then allows scaling gzipped FASTQ parsing linearly in # of threads. 1/2

GitHub - COMBINE-lab/mim: A small, auxiliary index to massively improve parallel fastq parsing

A small, auxiliary index to massively improve parallel fastq parsing - COMBINE-lab/mim

github.com

If anyone happens to be around UNC Chapel Hill this week, I'll be speaking on Tuesday: www.med.unc.edu/cgibd/event/... @microbiomeunc.bsky.social #microbiome

"The Assembly, Evolution, and Clinical Implications of the Gut Microbiota in Early Life" With Daniel Sprockett, PhD, MSc | Center for Gastrointestinal Biology and Disease

med.unc.edu

Excited to share a new preprint w/ the Sonnenberg lab, led by Matt Carter, @zzzhiru.bsky.social & @mattolm.bsky.social. We analyzed the microbiomes of two non-industrialized populations from opposite sides of the globe to try to reconstruct the recent evolutionary history of our gut microbiota.

Prehistoric Global Migration of Vanishing Gut Microbes With Humans

The gut microbiome is crucial for health and greatly affected by lifestyle. Many microbes common in non-industrialized populations are disappearing or extinct in industrialized populations. Understand...

biorxiv.org

Check out this incredible analysis! Prehistoric Global Migration of Vanishing Gut Microbes With Humans www.biorxiv.org/content/10.1...

Prehistoric Global Migration of Vanishing Gut Microbes With Humans

The gut microbiome is crucial for health and greatly affected by lifestyle. Many microbes common in non-industrialized populations are disappearing or extinct in industrialized populations. Understand...

biorxiv.org

The Xue lab at UC Irvine is looking for a staff scientist to support our work investigating how microbes interact and evolve in the gut microbiome! Open to a wide range of previous experience levels, see ad for more. recruit.ap.uci.edu/JPF09601

Junior, Assistant, or Associate Specialist – Xue Lab

University of California, Irvine is hiring. Apply now!

recruit.ap.uci.edu

I am seeking a postdoc for my group at UCLA. We work at the intersection of population genetics x microbiome (garud.eeb.ucla.edu). If interested, please message me!

Looks like it'll be a good one!

Ákos T Kovács@evolvedbiofilm.bsky.social · last yr.

Cell Symposia: Host-microbiome dynamics May 10–12, 2026 | Bruges, Belgium by @cp-immunity.bsky.social @cp-cellhostmicrobe.bsky.social and @cp-trendsmicrobiol.bsky.social www.cell-symposia.com/microbiome-2...

Excited to share the Compendium Manager -- our new tool for scaling bioinformatics pipelines! Launch thousands of analyses, track progress, and maintain reproducibility. Developed by @richabdill.com. Check it out: arxiv.org/abs/2505.11385

Compendium Manager: a tool for coordination of workflow management instances for bulk data processing in Python

Compendium Manager is a command-line tool written in Python to automate the provisioning, launch, and evaluation of bioinformatics pipelines. Although workflow management tools such as Snakemake and N...

arxiv.org

#NatureMicroPicks Microbial integrons in focus 🦠🧬 Two studies showing microbial integrons encoding phage defense systems #MicroSky www.science.org/doi/10.1126/... www.science.org/doi/10.1126/...

Mobile integrons encode phage defense systems

Integrons are bacterial genetic elements that capture, stockpile, and modulate the expression of genes encoded in integron cassettes. Mobile integrons (MIs) are borne on plasmids, acting as a vehicle ...

science.org

A very open-ended question: Has anyone developed a lab policy for for AI use in their biomedical research that they'd be willing to share? Have people even thought about defining what should be allowed/encouraged, and what should be outright banned? Please share with anyone who might have ideas.

🔬 New Perspective in mBio (@asm.org)! We call for a shift from disease surveillance to microbial stewardship, and highlight testable, cross-system hypotheses to unravel central rules of microbial life–spanning multiple scales, taxa, and environments. 🦠🌎 journals.asm.org/doi/10.1128/...

Ecologically expanding the One Health framework to unify the microbiome sciences | mBio

Microbiome research rapidly expanded in the last two decades, with nearly 200,000 peer-reviewed articles that use the word “microbiome” and significant microbial lineage discoveries reshaping the evol...

journals.asm.org