Daniel Croll

“groundbreaking” research indeed!

Thrilled to be hosting this session with @henriklicht.bsky.social and @agesiorska.bsky.social 🥳

Already looking forward to @danielcroll.bsky.social's talk and the other talks and posters that'll form part of this session! 🤩

Agreed, although I think baggage fees are more justified and can even be avoided with carry-on. Abstract fees must have a >99% profit margin. 🫠

SMBE2026 Symposium 3 | Genome plasticity and evolutionary innovation Organisers - Henrik H. de Fine Licht — University of Copenhagen, Denmark (Male) - Andi M. Wilson — University of Copenhagen, Denmark (Female) - Aleksandra Z. Gesiorska — University of Copenhagen, Denmark (Female) Invited Speaker - Daniel Croll — University of Neuchatel, Switzerland (Male)

Organisers
- Henrik H. de Fine Licht | University of Copenhagen
- @drandiwilson.bsky.social | University of Copenhagen
- @agesiorska.bsky.social | University of Copenhagen

Invited Speaker
- @danielcroll.bsky.social | University of Neuchatel

Big congratulations @guidopuccetti.bsky.social !! Very proud of your achievement.

It can feel like an eternity as a PhD student sometimes to see their first chapter in published form. Enjoy the moment!! 🎉

A large European diversity panel reveals complex azole fungicide resistance gains of a major wheat pathogen | mBio Sustainable food production requires the management of disease agents attacking crops. Application of antifungal compounds is among the key elements of pathogen containment; however, resistance can ri...

Finally out!
A large European diversity panel reveals complex azole fungicide resistance gains of a major wheat pathogen
journals.asm.org/doi/10.1128/...

A big thanks to @danielcroll.bsky.social & @GabrielScalliet

#azole #DMI #GWAS #fungicide #resistance #zymoseptoria #Europe

Three-dimensional genome architecture connects chromatin structure and function in a major wheat pathogen - BMC Biology Background Genome spatial organization plays a fundamental role in biological function across all domains of life. While the principles of nuclear architecture have been well-characterized in animals ...

Our paper on Zymoseptoria tritici 3D genome organization is officially out! @iglavincheska.bsky.social
link.springer.com/article/10.1...

Wonderful work! Congrats everyone!

Our new collaborative work led by @taliamycota.bsky.social
Jiajun Cui & Emma Caullireau between my lab @ucllifesciences.bsky.social @cloeucl.bsky.social & the Karasov Lab (tkarasovlab.org) @uofubiology.bsky.social
and collaborators: @plantricia.bsky.social et al.

tinyurl.com/5yx2wmz5

(1/n)

New record in Project funding SNSF Project funding reaches an all-time high with 1,451 applications and CHF 1.3 billion requested – while federal funding is stagnating.

The number of Project funding applications and the requested amounts have risen to record levels, consequently decreasing researchers' chances of receiving a grant.📈⚠️

Evaluation is under way, and funding decisions will follow in spring 2026.

➡️ buff.ly/gEdD3OY

#research #science

Responses to Temperature Shocks in Zymoseptoria tritici Reveal Specific Transcriptional Reprogramming and Novel Candidate Genes for Thermal Adaptation | Phytopathology® Pathogens’ responses to sudden temperature fluctuations, spanning various temporal scales, are critical determinants of their survival, growth, reproduction, and homeostasis. Here, we combined phenoty...

Responses to Temperature Shocks in Zymoseptoria tritici Reveal Specific Transcriptional Reprogramming and Novel Candidate Genes for Thermal Adaptation | Phytopathology® apsjournals.apsnet.org/doi/full/10....

The virulence gene ToxB is both amplified and disrupted by transposons in the wheat pathogen Pyrenophora tritici-repentis ### Competing Interest Statement The authors have declared no competing interest. Agriculture and Agri-Food Canada, https://ror.org/051dzs374 Alberta Grain Saskatchewan Wheat Development Commissio...

Our latest pre-print on TE-mediated tandem duplication of the ToxB effector is now online...still a puzzle for us but we think it is in a Helitron! Together with amazing collaborators, Reem Aboukhaddour and Ryan Gourlie #TE #fungi
www.biorxiv.org/content/10.1...

On my way to visit the very impressive CAS Institute of Microbiology in Beijing. Then, on to the AMC in Guangzhou.

Very excited about my first trip to China.

Congrats Rebecca!

Big congratulations @tobybarilbio.bsky.social!

Please check out and share our final version of the transposon mobilization work in a fungal pathogen - out now in Nature Communications

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

Historic transposon mobilisation waves create distinct pools of adaptive variants in a major crop pathogen - Nature Communications In this study, the authors analysed a large genomic dataset to trace how jumping genes shaped the global spread of a major wheat pathogen and reveal bursts of activity over decades that drove adaptati...

TEs aren’t just genomic parasites, they’re also engines of genomic novelty.

Our new study with ~2,000 Z. tritici genomes shows repeated TE mobilization waves during global expansion.

With @danielcroll.bsky.social & @guidopuccetti.bsky.social

🧬 www.nature.com/articles/s41...

#TEworldwide

Really not that high of a plant in my opinion.

My new Emmy Noether Group is recruiting!

🔬 Two PhD positions in plant pathogen evolution

🧬 Start: April 2026 (flexible)

📍 Dept. of Phytopathology & Plant Protection @rstam.bsky.social @uni-kiel.de

⏰ Apply by 15 Dec 2025

🔗 More info: www.uni-kiel.de/personal/de/...

Do get in touch or share 😊

Check out here our work: microbiomejournal.biomedcentral.com/articles/10....

There is even a neat video to an upbeat tune to watch!

Follow
@luzia-stalder.bsky.social
for much more exciting research to come.

High-resolution profiling of bacterial and fungal communities using pangenome-informed taxon-specific long-read amplicons - Microbiome Background High-throughput sequencing technologies have greatly advanced our understanding of microbiomes, but resolving microbial communities at species and strain levels remains challenging. Results...

Still using 16S/ITS profiling? You might want to reconsider👀

Our new paper presents pangenome-informed amplicons that provide up to 10× higher phylogenetic resolution than full-length ribosomal markers- while remaining cost effective and scalable!
microbiomejournal.biomedcentral.com/articles/10....

Very proud to see part of @luzia-stalder.bsky.social inspiring PhD work now published in Microbiome!

We tackled the lack of resolution that affects many plant microbiome studies by designing new barcoding loci from scratch. Our multi-kb amplicons resolve Pseudomonas and fungal strain diversity.

@tobybarilbio.bsky.social and I are very excited to release MycoMobilome! A very extensive effort to discover, QC and annotate TEs across the fungal kingdom.

👉 Ready-to-use for your own genome with a simple tutorial!
👉 Metadata about TEs discovered in your genome!
👉 Contribute and get recognition!

1/ Ever needed to annotate TEs in a fungal genome, but didn't know where to start?

We have released #MycoMobilome, a community-focused non-redundant database of transposable element consensus sequences for the fungal kingdom, constructed from >4,000 fungal genomes!

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

I’m excited to announce the launch of my lab at EPFL in Jan 2026 🎉. We’ll combine evolution & synthetic biology to study and (re)engineer bacterial communication.
I’m recruiting PhD students to start in the first semester of 2026.
Apply via EPFL PhD programs by Nov 1
drive.google.com/file/d/1cm-t...

Thank you!

Widespread shifts in genome architecture and trophism across fungi. Phylogenetic positions of the shifts identified for genome size. Negative values denote an identified decrease in the genomic trait value while positive values denote an increase in the genomic trait value.

Fungal #GenomeSize variation is largely driven by TEs & lineage-specific genome defenses. @tbadet.bsky.social & @danielcroll.bsky.social show that presence/absence of RIP mutation systems influences #genome architecture, identifying a likely novel defense mechanism @plosbiology.org 🧪 plos.io/4hcC5tx

Very excited to see the final version of our kingdom-scale fungal genome defense manuscript out in @plosbiology.org !

This work has been a major project of @tbadet.bsky.social during his time in our lab.

We hope to stimulate much more exciting work on fungal TEs.

journals.plos.org/plosbiology/...

Young lives cut short on an unimaginable scale: the 18,457 children on Gaza’s list of war dead Every name on a list compiled by health authorities in Gaza of the child victims of Israel’s offensive

Young lives cut short on an unimaginable scale: the 18,457 children on Gaza’s list of war dead

"Far from comprehensive, the list does not include the thousands still buried under the rubble of destroyed buildings, as well as the war’s many indirect victims"

www.theguardian.com/world/ng-int...

Now with official press release. I'm very much looking forward to welcome @cbarragan.bsky.social in January

www.uni-kiel.de/en/details/n...

If you saw my talk on the population structure of #Aspergillus flavus at Fungal Genetics in 2024, you might have heard someone ask "how does Aspergillus oryzae fit into the picture?"
If so, you heard my answer was "wait and see--we're working on this exact topic"
Well, the wait is over! Preprint ⬇️