Marc Chevrette
@wildtypemc.bsky.social
Microbiome gen(om|et)ics, secondary metabolism, comp bio, antibiotic/drug disco, evolution, & hockey. he/him.
Now out in @acs.org JACS Au, the manuscript by #BarbaraTerlouw et al. describing PARAS, a high-accuracy machine-learning algorithm to predict substrate specificities of nonribosomal peptide synthetase (NRPS) adenylation domains, key for estimating natural product structures from BGC sequence. 1/n
See a brief review summarizing the use of synthetic microbial communities (SynComs) for revealing the ecology of specialized metabolites [my holiday break writing exercise] portlandpress.com/essaysbioche... #MicrobiomeEcology at Institute of Biology Leiden (IBL)
This is how we started implementing the similarity metric (GATOR Focal Scores) and how it actually turned out
GATOR-GC is out at @narjournal.bsky.social!! Check out our new targeted genome mining tool featuring a novel similarity metric to efficiently compare and deduplicate gene clusters. We uncover biosynthetic diversity missed by other genome mining tools academic.oup.com/nar/article/...
Targeted genome mining with GATOR-GC maps the evolutionary landscape of biosynthetic diversity
Abstract. Gene clusters, groups of physically adjacent genes that work collectively, are pivotal to bacterial fitness and valuable in biotechnology and med
academic.oup.com
#ISBA2025 will be my official introduction in the Actino community. As we all look at understanding the diversity of these Microorganisms. I remain convinced that diversity drives discovery, from natural product discovery to human community. #PrideMonth #QueerInScience
Nice lunch with Bea Camara, @lore-fermar.bsky.social, @wildtypemc.bsky.social, Jordi Weijers and @evodivmet.bsky.social (not on photo) discussing microbes and their interactions #InternationalScience
Distinguishing among evolutionary and ecological processes shaping microbiome dynamics #ISMEJournal review by Tiffany N Batarseh and @bkoskella.bsky.social academic.oup.com/ismej/advanc...
Distinguishing among evolutionary and ecological processes shaping microbiome dynamics
Abstract. Evolution is defined as the change in allele frequency over time as a result of either neutral processes, such as genetic drift, or as an adaptiv
academic.oup.com
If you are a PhD student in microbial interactions or natural products that is displaced by this political bullshit and looking for a new lab, I have room for one (or potentially two) PhD students in my group in the fall when I move to UW. Feel free to reach out via email.
In other words, when you ask for example “do vaccines cause autism?” you are looking for information about whether a thing in the world (a vaccination) produces an outcome (autism). But the LLM can only answer “what words could sound right after this?”
antiSMASH8: The Ocho Manuscript is out! doi.org/10.1093/nar/...
antiSMASH 8.0: extended gene cluster detection capabilities and analyses of chemistry, enzymology, and regulation
Abstract. Microorganisms synthesize small bioactive compounds through their secondary or specialized metabolism. Those compounds play an important role in
doi.org
CeMiSt affiliated Caja Dinesen defended her PhD "Microbial signaling and secondary metabolites" Congratulations! With examiners Thomas Tørring @thomastorring.bsky.social, Lone Gram @lonegram.bsky.social, co-supervisor Thomas Ostenfeld Larsen, and supervisor Ákos T. Kovács@evolvedbiofilm.bsky.social.
All our #secmet and #ethnobotany people should come spread your #botany knowledge this summer!!
Josh Kellogg@kelloggnpgroup.bsky.social · last yr.Come join us at Penn State for the our Plant Biology Symposium this June 24-26th. The theme is #Plant Secondary Metabolism (from #genetics to #ethnobotany to medicine!) Abstracts and registration are open now! Travel awards available for students/PDs! Click for more information! vqr.vc/oG1KKYNSh
We put together this protocol in part to encourage broader adoption of Multiplexed Activity Metabolomics, an engine for functional metabolomics of all types including specialized metabolite discovery. We enjoy knowing if metabolite is active before isolating it, and so should you! #natprod
Multiplexed cytometry for single cell chemical biology
Flow cytometry has great potential for screening in translational research areas due to its deep quantification of cellular features, ability to colle…
sciencedirect.com
Well done, Wisconsin thehill.com/homenews/cam...
Liberal candidate wins Wisconsin Supreme Court race in blow to Trump, Musk
Susan Crawford was projected to win an open seat on the Wisconsin Supreme Court race, keeping the high court’s 4-3 liberal majority intact and delivering a blow to Elon Musk and President Trump, ac…
thehill.com
The Chevrette Lab has some big news. Beginning in August we'll be joining @uwmadscience.bsky.social in the Department of Plant Pathology and @widofficial.bsky.social Beyond excited for this new chapter. youtu.be/t-M09m-y1KU?...
Kenny Chesney - Back Where I Come From (Live at Farm Aid 2005)
YouTube video by Farm Aid
youtu.be
A message sent to tonight to all UMass faculty reminding us that we sacrifice 1st and 4th amendment rights when we travel internationally, and warning that non-citizens put themselves at risk when traveling. I’m glad for the warning & but pissed that this is where we’re at.
New preprint collab with the Zhou lab! www.biorxiv.org/content/10.1... Learning gene interactions and functional landscapes from entire bacterial proteomes
Learning gene interactions and functional landscapes from entire bacterial proteomes
Unraveling complex gene interactions and understanding their functions in the genomes of bacteria will provide critical advancements in fields including bacterial genome evolution, microbiome studies,...
biorxiv.org
🎉We are delighted to welcome @tilmweber.bsky.social from the Technical University of Denmark to the @natprodreports.rsc.org Editorial Board! Learn more about Tilmann here🔽 blogs.rsc.org/np/2025/03/1...
I don't usually get much email about my #MattersMicrobial podcast, which is okay. But I had a PhD student in Brazil just write to me, thanking me for a prior podcast I did with @wildtypemc.bsky.social on genome mining, which she found useful. That made me happy.
a man with a mustache says how bout that in blue
ALT: a man with a mustache says how bout that in blue
media.tenor.com
Anyone have a good way to bulk backup a full Outlook 365 email account (with attachments)?
Congratulations to Claudia Solís-Lemus! The Bassam Z. Shakhashiri Public Science Engagement Award recognizes one University of Wisconsin–Madison faculty member and one academic staff member for excellence in engaging the public with STEAM (Science, Technology, Engineering, Arts, and Math) research.
Preprint for @wildtypemc.bsky.social 's GATOR-GC is out! Have been looking forward to using this to explore secondary metabolite BGCs! www.biorxiv.org/content/10.1...
Targeted genome mining with GATOR-GC maps the evolutionary landscape of biosynthetic diversity
Gene clusters, groups of physically adjacent genes that work collectively, are pivotal to bacterial fitness and valuable in biotechnology and medicine. While various genome mining tools can identify a...
biorxiv.org
Extending my grant update this morning. Here are data limited to new and competitive renewal applications. The Pause is dead, Long live the Pause...
