First slide of Francis Gyapong's (3rd year PhD student) talk on culturing the stickleback microbiome.

First slide of Mel Lawson's (PDRA) talk on using a Drosophila model of pathogen-microbe interactions.

First slide of Michelle Hardman's (PDRA) talk on microbe-microbe interactions.

The Whelan lab is well represented at #microbio26 today!

@fgyapong.bsky.social culturing the 🐟 microbiome (10:45 Microbiome f.& B182)

@melissalawson.bsky.social a 🪰 model pathogen-microbe int. (14:30 Infection f.)

@michelle-micro.bsky.social on microbe-microbe int. (15:00 Und. Microbe Function f)

Fantastic two days at #Microbio26, with inspiring talks, posters and discussions on phage therapy, phage biology, defence systems, and a really enjoyable lecture on quorum sensing. Great to reconnect with friends and heading back with lots of food for thought.

Fantastic collaboration w/ @dbikard.bsky.social @audeber.bsky.social @rayanchikhi.bsky.social labs led by @jmouradesousa.bsky.social : We assessed the rates of variation of anti-phage systems in P4-like satellites and P2 helper phages. Quick conclusion: Huge variation! We focus on 4 key questions/5

In the lab, antibiotics can make integrated viruses (prophages) pop out of bacterial genomes. In this (short!) preprint, we asked a simple question: how much does this happen outside the lab, in the human gut?

TLDR: Not much overall, in specific bacterial species.
🧵

www.biorxiv.org/content/10.6...

📣 New paper out in @plosbiology.org

What drives global patterns of species richness? 🌍 Using a unified framework across 129 tetrapod clades 🐸🦎🐦🐘, we find:

👉 Productivity-driven equilibrium dynamics largely explain biodiversity patterns ⚖️🌱

doi.org/10.1371/jour...

#Macroecology #Biogeography

Stimulating keynote from @jojofoth.bsky.social on advancing phage therapy for chronic respiratory infections in cystic fibrosis, addressing key translational challenges from clinical pathways and phage biobanking to delivery, diagnostics, and public engagement at #Microbio26.

Great to see exciting work from @megllewellyn.bsky.social on how expression context shapes the protection provided by bacterial defence systems. Comparing chromosomal and plasmid-encoded systems highlights how regulatory architecture influences defence effectiveness.

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

How does treatment induced antibiotic resistance happen in real-world infections? We analysed 25k Pseudomonas isolates from 180 patients in a clinical trial to find out! TLDR: The ecological and evolutionary paths are surprisingly diverse & complex even in patients receiving identical treatment…

CBASS is a cyclic nucleotide-based antiviral system in bacteria that is related to cGAS-STING signaling in animals. One of the big questions is how CBASS is activated during phage infection? We made some progress on this during my final year in the Kranzusch lab.
www.biorxiv.org/content/10.6...

🚨 New pre-print! 🚨 In the largest study of its kind to-date, we investigate the ecological and evolutionary mechanisms driving within-patient evolution of antimicrobial resistance (AMR). Read here:
www.biorxiv.org/content/10.6... , and follow along with this thread, discussing our findings (1/21)

What happens *after* enemy release? In a new paper, we present 7 years of infection & immune trait dynamics in 16 lake populations of stickleback.
www.journals.uchicago.edu/doi/10.1086/...
This is definitely the longest-scale study I've done in my career, I'm very excited to see it out.
1/6

Phages are full of genes of unknown function that are likely adaptive in specific conditions.
New preprint: Phage TnSeq identifies essential genes rapidly and knocks all non-essentials. We would like to send a pool of phiKZ mutants to anyone wanting it! Reach out
tinyurl.com/bdcfrejh

Comparison of short-read and long-read metagenome assemblies in a natural soil community highlights systematic bias in recovery of high-diversity populations Abstract. Comparisons of long-read and short-read (meta)genome assemblies typically show that short-read sequence assemblies are less error-prone, but stru

100%, both ONT and PacBio (although most of what we do is not marine / streamlined genome). We just published a specific study of soil metag short- vs long-read, and we see that, among other things, long-reads assemble regions too complex for short reads academic.oup.com/nargab/artic...

Intracellular interactions shape antiviral resistance outcomes in poliovirus via eco-evolutionary feedback - Nature Ecology & Evolution A model of intrahost poliovirus replication shows that, after several rounds of replication, pocapavir, a poliovirus capsid inhibitor, collapses viral density, preventing intracellular interactions th...

My first lead author paper is out with Ben Kerr and @alisonfeder.bsky.social! We found that making an antiviral too strong can sometimes make resistance easier to evolve. This has implications for how we design drugs, choose doses, and think about viral evolution in the face of treatment. (1/n)

Rowan standing in front of a title slide reading “defective viral genomes in natural infections”

Lavish standing in front of a title slide reading “trade-offs in bacterial evolution in the context of temperate phage infection”

We had two fantastic visiting speakers today

MERMan alumnus @rowancallumg.bsky.social spoke about his current work with viral cheating in influenza with @asherleeks.bsky.social

And @lavishaparab.bsky.social talked about phage infection trade-offs

Thanks to @microbesng.bsky.social for our snacks!

Metabolic interplay drives population cycles in a cross-feeding microbial community - Nature Communications Here the authors leverage a crossfeeding, engineered microbial community to demonstrate that strain abundance cycles are robust across environmental conditions. They pair this with a nonlinear dynamic model to elucidate population cycles.

Metabolic interplay drives population cycles in a cross-feeding microbial community

@natcomms.nature.com from @oventurelli2.bsky.social

www.nature.com/articles/s41...

Trade-offs between phage resistance and conjugative ability shape the ecological and evolutionary response of a multidrug resistance plasmid to plasmid-dependent phage Phage therapy is a promising alternative to antibiotics to treat multidrug resistant infections. Plasmid dependent phages (PDPs) are particularly attractive as therapeutics because they can both kill ...

New pre-print www.biorxiv.org/content/10.1...
Plasmid-dependent phage (PDPs) are ubiquitous, but the selective pressures that they impose on plasmids are not well understood. Project led by Daniel Cazares in collaboration with @brockhurstlab.bsky.social!
#phagesky#microsky

Bacterial immune systems as causes and consequences of microbiome structure Bacterial immune systems have evolved in response to diverse molecular "parasites", yet their ecological roles remain poorly understood. This Essay explores how interactions between mobile genetic ele...

Very happy to see this piece out in @plosbiology.org, on the bacterial immune systems and microbial communities. It was a great team effort with Rafael Custodio, @brockhurstlab.bsky.social , @brownlab.bsky.social, and Edze Westra! 🦠🧫 #phagesky #mevosky

journals.plos.org/plosbiology/...

Resistance mutation supply modulates the benefit of CRISPR immunity against virulent phages Only a fraction of bacterial genomes encode CRISPR-Cas systems but the selective causes of this variation are unexplained. How naturally virulent bacteriophages (phages) select for CRISPR immunity has...

New preprint!

Ever wondered why only a fraction of genomes encode CRISPR immunity? 🧬 🦠

Turns out CRISPR is rarely beneficial against virulent phages, being most beneficial against those for which resistance mutations are rare!

An epic effort by Rosanna Wright

www.biorxiv.org/content/10.1...

The mechanism of Lamassu, an abundant bacterial immune system, is now solved

Lamassu evolved from a DNA repair complex

Beautiful study from the Patel, Bernheim and Sternberg labs

More amazing posters presented by our researchers @zahraaalbaqsami.bsky.social and Rana at #MicroEvo25!

Come chat to Dan at poster 22 to learn about endosymbiosis evolution #MicroEvo25

If you’re interested in antibiotic resistance evolution in Pseudomonas, come to @flanagella.bsky.social’s poster (number 11) 💊 #MicroEvo25

Learn about hot spring microbial communities from @magdalenakurteu.bsky.social at poster 62 🌋 #MicroEvo25

Find out more about DNA repair protein single-molecule tracking from @bexlowrypalms.bsky.social at poster 18🔬 #MicroEvo25

Come and see @willpjsmith.bsky.social at poster 71 to find out more about microbial warfare! #MicroEvo25

Starting day two of #MicroEvo25 strong with our first MERMan speaker of the day! An amazing talk by @mattjago.bsky.social about mutational bias in E. coli 🧬

Fantastic talk about the impact of inflammation on Pseudomonas aeruginosa evolution by @taoranfu.bsky.social #MicroEvo25

Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy Nature Communications - It is commonly thought that bacterial species borders tend to be fuzzy, due to frequent exchange of DNA. Here, Diop et al. quantify the patterns of gene flow between core...

Our latest paper is out with @adiop.bsky.social and @gmdouglas.bsky.social. We analyzed the extent of homologous recombination between bacterial species (introgression) and how it affects species borders (it can vary a lot depending on the approach used to classify species!). rdcu.be/eQAMf