Andrés Cumsille

🎉We’re super excited to announce that Paco Barona Gomez from the University of Leiden will be joining the Organising Committee for the 5th edition of #SBNP meeting! 🎉
Click here to see what the conference already has in store: bit.ly/4sUgRpx

Grab the chance to already pre-register for the MIBiG 5.0 annotathons that we plan to organize in spring 2026!

Strategies for community-sourced biocuration in bioinformatics: a case study on MIBiG 4.0 Abstract. Biocuration is essential to transform molecular sequence data into standardized, machine-readable resources. Such curated datasets enable compara

Have you ever used a #bioinformatics #database and were frustrated by its lack of coverage? Did you ever think about starting your own resource? We just published a new strategy for community-driven #biocuration, based on our experiences with the #MIBiG database (1/8)! doi.org/10.1093/bib/...

A Perspective on Unintentional Fragments and Their Impact on the Dark Metabolome, Untargeted Profiling, Molecular Networking, Public Data, and Repository Scale Analysis In/postsource fragments (ISFs) arise during electrospray ionization or ion transfer in mass spectrometry when molecular bonds break, generating ions that can complicate data interpretation. Although ISFs have been recognized for decades, their contribution to untargeted metabolomics─particularly in the context of the so-called “dark matter” (unannotated MS or MS/MS spectra) and the “dark metabolome” (unannotated molecules)─remains unsettled. This ongoing debate reflects a central tension: while some caution against overinterpreting unidentified signals lacking biological evidence, others argue that dismissing them too quickly risks overlooking genuine molecular discoveries. These discussions also raise a deeper question: what exactly should be considered part of the metabolome? As metabolomics advances toward large-scale data mining and high-throughput computational analysis, resolving these conceptual and methodological ambiguities has become essential. In this perspective, we propose a refined definition of the “dark metabolome” and present a systematic overview of ISFs and related ion forms, including adducts and multimers. We examine their impact on metabolite annotation, experimental design, statistical analysis, computational workflows, and repository-scale data mining. Finally, we provide practical recommendations─including a set of dos and do nots for researchers and reviewers─and discuss the broader implications of ISFs for how the field explores unknown molecular space. By embracing a more nuanced understanding of ISFs, metabolomics can achieve greater rigor, reduce misinterpretation, and unlock new opportunities for discovery.

The existence of unintentional fragmentation (often referred to as in-source fragments) in untargeted #metabolomics data can cause uncertainty among newcomers to the field and skepticism among data consumers such as medical experts or biologists.

pubs.acs.org/doi/10.1021/...

The undiscovered natural product potential of Actinomycetes The Journal of Antibiotics - The undiscovered natural product potential of Actinomycetes

Recommended reading for those of us who study actinomycetes using untargeted metabolomics. Incredible work by @amcaraballor.bsky.social, @pieterdorrestein.bsky.social, and collaborators. rdcu.be/eSRxT

After a coup by head of ads Prabhakar Raghavan in 2019, Google intentionally made search results worse as a means of increasing the amount of times that people would search for something on the site. Ever wonder why your workplace uses Sharepoint and other horrible Microsoft apps? That’s because Microsoft’s massive software monopoly meant that it was cheaper for your boss to buy all of it in one place, and thus its incentive is to make it good enough to convince your boss to sign up for all of their stuff rather than an app that makes your life easier or better. Why does every website feel different, and why do some crash randomly or make your phone burn your hand? It’s because every publisher has pumped their sites full of as much ad tracking software as possible as a means of monetizing every single user in as many ways as possible, helping ads follow you across the entire internet. And why does everybody need your email? Because your inbox is one of the few places that advertisers haven’t found a consistent way to penetrate. It’s digital tinnitus. It’s the pop-up from a shopping app that you downloaded to make one purchase, or the deceptive notification from Instagram that you have “new views” that doesn’t actually lead anywhere. It is the autoplaying video advertisement on your film review website. It is the repeated request for you to log back into a newspaper website that you logged into yesterday because everyone must pay and nothing must get through. It is the hundredth Black Friday sale you got from a company that you swear you unsubscribed from eight times, and perhaps even did, but there’s no real way to keep track. It’s the third time this year you’ve had to make a new password because another data breach happened and the company didn’t bother to encrypt it.

The Rot Economy's digital tinnitus has ruined everything you love about tech - Search, mobile browsing, and social media to name a few. When growth is all that matters, the user experience only exists to promote growth, even if the experience sucks.

www.wheresyoured.at/never-forgive-them/

Never Forgive Them In the last year, I’ve spent about 200,000 words on a kind of personal journey where I’ve tried again and again to work out why everything digital feels so broken, and why it seems to keep getting wor...

Newsletter: Our digital lives are unregulated growth-hacked ecological disasters. The modern tech ecosystem's growth-at-all-costs mindset is actively harming billions of people, pushing them toward authoritarianism for profit. We must fight back.

www.wheresyoured.at/never-forgive-them/

CALL TO ACTION: Tiny Earth encourages everyone to be educated about the effects of antimicrobial resistance (AMR) and the consequences for our society.

#TinyEarthWAAW #antimicrobialresistance #WAAW #TinyEarth #microbes #antibioticsresearch

Policy suggestions adopted from WHO's 2025 AMR Campaign.

You could see them with your bare eyes

This is not a drill! Auroras in Madison :)!

On Wisconsin

Ayer presentamos "Amor Microbiano" a la comunidad de Ecología Microbiana Latinoamericana en Mérida, México 🇲🇽🙌
Muchas gracias por la oportunidad, excelentes preguntas y la excelente recepción.

#ISMELat2025 😊🦠🩷 🌈

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

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/...

This paper represents a great effort by @roman-bushuiev.bsky.social and his brother @anton-bushuiev.bsky.social. The DreaMS foundation model for mass spectra of small molecules now opens lots of avenues for possible downstream applications. It might be a game changer for computational metabolomics.

My absolute favourite movie, my day just got so much better 🥲

ISME-LAT 2025 ISME Latin America - Regional conference

ismelat2025.org
Registration closes at the end of April! Please share!!
No olviden registrarse! Vengan a Mérida!!

It does for me. I do enjoy it tbh

April Ludgate from Parks and Rec saying “I didnt think March 31st existed”

What’s exciting about Bluesky is that I’ve replaced my dopamine-scrolling addiction with a thrilling cortisol-scrolling addiction

Kenny Chesney - Back Where I Come From (Live at Farm Aid 2005) YouTube video by Farm Aid

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?...

There’s a pond in my apt building.
There’s an alligator there and there was an otter :(
This is Florida
Video by @nelsonfacilin.bsky.social

GATOR-GC preprint is live! If you haven't already, check out our new tool for targeted gene cluster mining. @jcedielbecerra.bsky.social

doi.org/10.1101/2025...

Thursday: time for #MattersMicrobial Episode #81! Dr. Marc Chevrette talks about genome mining, secondary metabolites, and why microbes are the very best chemists. Please share the #GoodMicrobialWord. @profvrr @wildtypeMC

youtu.be/QYGiAc4lRsk?...

got microbial metabolites? Add to the public knowledgebase available through GNPS2!

cmmc.gnps2.org

Anastasia state park
#fungifriends

✨Florida✨

Those are great news! Hope to see you there!

Disappointed but not surprised of not seeing FL in that list

Florida Butterfly rainforest

Come and meet with fellow queer microbiologists at our LGBTQ+ Networking Event on Tuesday 1 April 20:30 GMT, with a Trans and Nonbinary pre-meet. For further information and to secure your place, visit our website: https://microb.io/Microbio25 #Microbio25