While I navigate the policy hiring timeline, I am opening up bandwidth for freelance bioinformatics consulting and meta-omics data analysis (especially if you’ve got microbial eukaryotes in there!) If your microbiome data is fighting you, or your pipeline needs a structural edit, my DMs are open.

Just got invited to my first predatory/scam conference. "microbiomecongress" ?🧐 Oh well...🫷

Looking for a #postdoc outside the US, focusing on gut microbiome, AMR dynamics & phage-bacteria interactions. Bridging wet lab and computational approaches🦠👩‍💻. Hartmann Lab, Northwestern University, defending late 2026. Boosts appreciated 🙏🧫🧪 #microbiome #metagenomics #MicroSky

We're recruiting! We're looking for two graduate students to join us at UBC in Vancouver. Fully funded and open to global applicants, with flexible start-date. Topics include theory, bioinformatics, and microbiology. More details: asherleeks.com/apply #socialviruses #evosky #virosky 🧪

Please share - full funded (UK students only) PhD studentship in the Duncan lab ‘intergrated ‘omics for accelerated antibtioic dicovery from abyssal actinomycetes’. Co-supervisors @thecopperdoctor.bsky.social, Marcel Jaspars, @zmaw.bsky.social- deadline 20th May www.findaphd.com/phds/project...

f you've wrestled with sacB escape in Pseudomonas, or found tricks to enrich for true double crossovers, I'd genuinely love to hear from you. DMs open 🙏 #MicroSky #Pseudomonas #bacterialgenetics #microbiology

Calling all bacterial geneticists 🧫 Anyone done allelic exchange with sacB counter-selection in Pseudomonas aeruginosa? I'm hitting a wall and would love to connect with people who've been through this. #MicroSky #Pseudomonas #bacterialgenetics #microbiology

We've known the gut-brain axis is a key underpinning of Parkinson's disease. Today, for the 1st time, a gut microbiome signature denoting risk found in healthy individuals with genetic predisposition nature.com/articles/s41...

omg everybody go draw a horse this is what the internet was made for gradient.horse

🥁 NEW Our study on infant gut microbiome and #straintransmission is now published in @nature.com: doi.org/10.1038/s415... 1/10

A free, open-access library of high-quality organism illustrations for science communication

Excited to share work I led during my PhD - now out in @cp-cellhostmicrobe.bsky.social 🎉 Using multiomics, we show that microbiome and host expression profiles dynamically shift during pneumonia treatment and track with clinical outcomes 🧪🫁 #MicroSky www.cell.com/cell-host-mi...

As a phd student coming from “ a country of concern” seems like all the ways to continue my research as a postdoc In the US might get blocked. Absolutely heartbroken. I can’t even think straight. Not to sure what to do or where to find the strength to stay productive. #phd #postdoc #microbiomesky

Long read Metagenomics, #phage and #prophage in the gut by Ami Bhatt's group. Beautiful data showing changes in phages over two years #phagesky www.nature.com/articles/s41...

Baym continues to make freakin' art. Must see thread/paper

Thinking only of Rosalind Franklin today, and what was stolen from her (and so many other female scientists alongside her).

It's International Women in Science Day ♀️, and I want to talk briefly about Rosalind Franklin. A conventional choice for unconventional reasons: Dr. Franklin was one of the FIRST STRUCTURAL VIROLOGISTS. Let's talk about her work outside of the Crick & Watson debacle.

R.I.P Hamilton Smith, 1978 Nobel Laureate for the discovery of type II restriction-modification systems (HindII).

NEW publication from our lab: One of the first methodologies (FUGAsseM) for gene function prediction from microbial community multi-omics data! www.nature.com/articles/s41... 🧵⬇️ 1/8

Very 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.

UChicago Microbiology is searching for tenured or tenure-track faculty working in host-pathogens interactions, viral and bacterial pathogenesis, and emerging infectious diseases. Come join our vibrant Department! microbiology.uchicago.edu Apply here apply.interfolio.com/174404

Wow, more than 2.4M of assembled bacteria in the new release of ABT! We plan to index these using our efficient colored De Bruijn graph index, Fulgor. We recently conducted experiments with nearly 1M genomes…getting there :) www.biorxiv.org/content/10.1...

First time seeing someone else experiencing this. It’s usually happens when I’m extremely tired. But for me instead of feeling it in my core, I mostly feel it in my head and neck. My head starts vibrating, and it usually takes an hour to go away.

We are hiring! The Dept of Microbiology and Molecular Genetics is looking for faculty at the Assistant or Associate professor level (tenure track). Please consider joining our vibrant microbiology and immunology community at the University of Pittsburgh School of medicine

Excited to share new published work on Phaeocystis antarctica microbiomes! Given the world, I was hesitant to self-promote, but a key finding is P. antarctica phycosphere interactions should be studied in situ. Antarctic fieldwork is necessary! onlinelibrary.wiley.com/doi/full/10.... #microbialsky

Faculty search announcement 2025: Tenure-Track Assistant Professor in Microbiology at UT Southwestern. We seek candidates working in microbial pathogenesis (some preference may be given to bacterial pathogens). Come join our community! (1/5) www.utsouthwestern.edu/departments/...

Got my first invitation to review a manuscript🥹🥹🤓🤓

‼️I'm looking for a postdoc‼️ Come join effort in using metagenomes to quantify microbial catabolic potential and carbon substrate availability at the ecosystem level. We seek to understand evolutionary forces shaping the carbon cycle. Part of ccomp-stc.org careers.peopleclick.com/careerscp/cl...

Check out this list of awesome #virome tools and be sure to add yours! github.com/shandley/awe... #phagesky #microsky

Exciting opportunity to join our group as postdoc! Apply now for this project on computational (meta)genome mining as part of a collaborative European research consortium: www.wur.nl/en/vacancy/p... Please share!

Looks interesting, plasmid assembly from multiple metagenomes "On synthetic benchmark datasets, PlasMAAG reconstructed 50-121% more near-complete plasmids than competing methods and improved the Matthews Correlation Coefficient of geNomad contig classif. by 28-106% www.biorxiv.org/content/10.1...

we recently found some really neat RNA-guided DNA-cutting systems in phages. Despite remarkable similarities to CRISPR systems, including encoding guide RNAs in arrays, they appear entirely evolutionarily distinct (but definitely related to snoRNAs 🤓) We decided to call them TIGR-Tas systems 🐯

the microbiome and metabolome is out of this world 🌏 🚀 🌏 🚀 🌏 🚀 🌏 🚀 congratulations to my UC San Diego colleagues in the Knight, Dorrestein, and Chu laboratories — led by Rodolfo Salido and Nina Zhao www.cell.com/cell/fulltex...

This is such a cool website for seeing and choosing color palettes for R. You can also put different filters on your color palette ( like Protanopia) to ensure it is accessible to all! #R #Microbiome #SciSky r-graph-gallery.com/color-palett...

So I was peer reviewing a manuscript... Authors cited me - cool. But wait... the paper they cite does not exist. It lists coauthors who are real people I have published with, and a real journal that I have published in, with a title that sounds plausible - but is completely made up. 🧵

Curtis will be giving a free webinar on our new tool MaAslin3 on February 20th. Come check out what's new and the changes we made to improve differential abundance testing in microbiome data! cmbio.io/webinars/maa...

Want to learn more about genetic tools for studying bacteria and phage, check out the summer ABG Course at CSHL. This will be the 80th anniversary of the original CSHL Phage course, so you'll also meet many additional visiting genetics gurus! <https://meetings.cshl.edu/courses.aspx?course=C-ABG>

Grad student funding - Apply for the ASN Student Research Awards. $2k each for research that advances the conceptual unification of ecology, evolution, or behavior. Applications due March 14 www.amnat.org/announcement...

I don’t know how this is gonna be received, but here we go: As an international student from Iran that came to the US for four years ago, it still blows my mind how fast and accessible sequencing technologies can be./

Last chance to apply for the Emerging Leaders Seminar series! We start going over applications later this month!

It's interesting how various versions of a tool can be so different. I was using StrainPhlAn 4.0 before, and for my dataset, it took more than 48 hours to create the consensus-marker files. Updated to 4.1.1, the same dataset took less than an hour!

One of my favorite visualizations, showing the sizes of host and microbial cells on the same scale, spanning several orders of magnitude From a review by Baker et al : pubmed.ncbi.nlm.nih.gov/37700024/

In a great collaboration with @typaslab.bsky.social, @lisamaierlab.bsky.social and @biocs.bsky.social found that 24% of the tested human-targeted drugs inhibit the growth of gut commensal bacteria. "Extensive impact of non-antibiotic drugs on human gut bacteria" (2018) www.nature.com/artic...

Gut stress as in inflammatory bowel disease (#IBD) favors microbes that thrive more independently of other components of gut #microbiome. https://doi.org/10.7554/eLife.89862.2

The Bluesky science community has been incredibly vibrant and engaging—so much better than X! The only feature I wish we had here is a "save" button to bookmark all the amazing posts and papers. #microsky

Hello, Bluesky Community! I'm finally writing my #intro post after being here for a while! I'm currently a PhD candidate at Northwestern. I've done a few microbial 'Omics projects, worked with bioinformatic tools for metagenomics, and am very interested in synthetic biology! #microsky

Today we publish an (in my opinion) important paper in @naturemicrobiol.bsky.social 🍾 showing that gut physiology and environment are factors explaining substantial variations in human gut #microbiome composition and #metabolism🦠 Fantastic work Procházková et al. 👏 www.nature.com/articles/s41...

Soil microbiomes show consistent and predictable responses to extreme events We’re out in Nature !! doi.org/ntzk Very exciting for my first bluesky post! – it’s been a long haul by an excellent team from across Europe, led by @frantecol.bsky.social