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Guido Puccetti

@guidopuccetti.bsky.social
281 followers 655 following 6 posts

Keen on fungal genetics, fungicide resistance, phenomics, genomics, image analysis, epigenetics, epistasis, pleiotropy, host-pathogen interaction, TEs.

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Reposted by Guido Puccetti
Jessica Stapley @jessstapley.bsky.social · 02/09/2026
Excited to share our most recent manuscript on the genetic architecture of phenotypic plasticity in the fungal pathogen Zymoseptoria tritici
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Reposted by Guido Puccetti
bioRxiv Molecular Biology @biorxiv-molbio.bsky.social · 19/08/2026
The bZIP transcription factor PnAda1 functions as a regulator of virulence, fungicide tolerance and necrotrophy in the wheat pathogen Parastagonospora nodorum www.biorxiv.org/content/10.64898/20…
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Guido Puccetti @guidopuccetti.bsky.social · 14/07/2026
www.frontiersin.org/journals/mic...
frontiersin.org
Frontiers | Genomic variant-driven prediction of azole resistance in Aspergillus fumigatus using GWAS and machine learning
Azole resistance in Aspergillus fumigatus, a major cause of invasive aspergillosis, threatens public health. Known drivers include cyp51A/B mutations (e.g., ...
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Reposted by Guido Puccetti
Christian Landry @christianlandry.bsky.social · 08/07/2026
Our latest work on drug resistance and epistasis. We performed comparative deep mutational scanning of two fungal orthologs to estimate how much data on one can help predict the impact of mutations on the other. We dissect the source of epistasis at the atomic level. www.biorxiv.org/content/10.6...
biorxiv.org
Epistasis limits but does not prevent the transfer of mutation-drug resistance mapping across 600 million years of fungal evolution
Whether different pathogens acquire resistance to antimicrobials through the same mutations is a major question in evolution and microbiology. Most antifungal drugs are used to treat infections caused...
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Reposted by Guido Puccetti
Thomas Badet @tbadet.bsky.social · 11/06/2026
Nearly a year after our symposium on Repeat-Induced Point (RIP) mutations, I’m happy to share the fruit of some of our discussions. The fungal RIP hypermutator mechanism has deep eukaryotic roots www.sciencedirect.com/science/arti... We hope to spark interest in this underappreciated mechanism.
Evolution of major eukaryotic genome defense systems.
The figure is organized along two axes representing core mechanistic features (homology recognition, small interfering RNA, and
heterochromatin assembly) and their lineage-specific elaborations. We hypothesize that a recombination-independent DNA
homology recognition system present in the eukaryotic common ancestor facilitated the emergence of both heterochromatin
assembly and small RNA-based repeat silencing. From this conserved ancestral core, lineage-specific gene neofunctionalizations
gave rise to distinct defense pathways: the RdDM pathway in plants; the piRNA and KRAB–ZFP pathways in vertebrates; and the
repeat-induced point mutation (RIP), methylation induced premeiotically (MIP), MSUD, and tandem repeat-induced sexual silencing
(TRISS) systems in filamentous ascomycete fungi. Question marks indicate steps for which the molecular mechanisms remain
unknown.
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Reposted by Guido Puccetti
Neil Gow @neil-gow.bsky.social · 02/03/2026
Do consider coming to this premium fungal AMR conference in Bangkok in November. @youngecmm.bsky.social @youngisham.bsky.social @ishamycology.bsky.social @mrccmm.bsky.social @bsmm-meeting.bsky.social
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 31/05/2026
An Aspergillus lncRNA atlas reveals a novel modulator of aflatoxin biosynthesis www.biorxiv.org/content/10.64898/20…
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Team Thomma @teamthomma.bsky.social · 30/05/2026
📣Last week another @biorxivpreprint.bsky.social dropped: "A fungal pathogen effector that shapes host plant microbiota kills bacteria through lipoteichoic acid binding and membrane disruption" a joint effort by @nicksnelders.bsky.social & @gabriellapetti.bsky.social www.biorxiv.org/content/10.6...
biorxiv.org
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Reposted by Guido Puccetti
Shreyas Pai @theshreyaspai.bsky.social · 24/04/2026
Thrilled to have my first PhD paper with @mmdesai.bsky.social out! @science.org Link: www.science.org/doi/10.1126/... Thread below: #mevosky #evosky #evobio #popgen #evolsky #ecoevo #molevol
science.org
Sex decreases the pleiotropic costs of local adaptation by purging hitchhiking load
Understanding the evolutionary mechanisms that maintain sex despite its direct costs is a long-standing challenge. Previous work has shown that sexual recombination can accelerate adaptation, in part ...
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Reposted by Guido Puccetti
Harry Chown @chownbioinf.bsky.social · 17/04/2026
First day back after a great time in Belfast at #MicroSoc26 @microbiologysociety.org. Thank you to the organisers for the opportunity to present my work. Which, if you missed, is now currently available on bioRxiv!
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Molecular Systems Biology @molsystbiol.org · 24/03/2026
fitness costs are associated with acquired antifungal resistance in N. glabratus, and these trade-offs can be targeted by drugs as shown by @gabaldonlab.bsky.social ➡️ link.springer.com/article/10.1...
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Reposted by Guido Puccetti
Cecile Lorrain @ccilelorrain.bsky.social · 15/04/2026
Thrilled to share our paper now out in Nature Plants 🎉 We developed a genome-host association (GHA) approach to study pathogen adaptation directly from field metadata by using the originating host cultivar as phenotype. www.nature.com/articles/s41...
nature.com
Genome–host association mapping reveals wheat pathogen genes involved in host specialization - Nature Plants
This study introduces genome–host association (GHA), leveraging natural epidemics to map the genetic landscape of host adaptation in the pathogen Zymoseptoria tritici. Applied to 832 wheat fungal stra...
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Guido Puccetti @guidopuccetti.bsky.social · 09/04/2026
www.nature.com/articles/s41...
nature.com
Pan-drug resistance and hypervirulence in a human fungal pathogen are enabled by mutagenesis induced by mammalian body temperature - Nature Microbiology
Development of pan-drug resistance and hypervirulence in Rhodosporidiobolus fluvialis are enabled by mutagenesis induced by mammalian body temperature.
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Reposted by Guido Puccetti
Nature Microbiology @natmicrobiol.nature.com · 20/03/2026
#NatMicroPicks Same destination, different routes 🍄🧫🧪 Following 10,000 generations, parallel evolution occurred in separate yeast species, but took different genetic routes driven largely by transcriptomic and trans‑regulatory differences. #MicroSky www.nature.com/articles/s41...
nature.com
Parallel but distinct adaptive routes in the budding and fission yeasts after 10,000 generations of experimental evolution - Nature Ecology & Evolution
Experimental evolution of fission yeast (Schizosaccharomyces pombe) in the same environment as a previous experiment with budding yeast (Saccharomyces cerevisiae) reveals parallel evolution but distin...
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Reposted by Guido Puccetti
Marie-Claire Harrison @marie-clairehar.bsky.social · 12/05/2025
www.biorxiv.org/content/10.1... new preprint on predicting antifungal drug resistance in yeasts is out!
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Reposted by Guido Puccetti
Daniel Croll @danielcroll.bsky.social · 05/03/2026
Please share widely! We think MycoMobilome can go a long way to support high-quality TE annotations across fungi! Also, try it on your favorite 🍄 genome and tell us what you think 😉
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Daniel Croll @danielcroll.bsky.social · 10/03/2026
The latest work by @margaridasampaio.bsky.social is out as a preprint! Using an eQTL dataset for the fungal wheat pathogen Zymoseptoria tritici, we asked whether new regulatory mutations had a predominant effect towards up- or downregulation.
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Alexandra Dallaire @alexdallaire.bsky.social · 12/03/2026
Wow! Here's some solid evidence that arbuscular mycorrhizal fungi use small RNAs to regulate plant gene expression. Congratulations to the teams of @carogutj.bsky.social and Arne Weiberg doi.org/10.1038/s414...
doi.org
Cross-kingdom RNA interference promotes arbuscular mycorrhiza development - Nature Plants
The authors provide evidence that symbiotic fungi forming widespread arbuscular mycorrhiza symbioses use cross-kingdom RNA interference to silence plant genes and promote their colonization of host ro...
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Guido Puccetti @guidopuccetti.bsky.social · 13/02/2026
journals.plos.org/plosbiology/...
journals.plos.org
The human fungal pathogen Aspergillus fumigatus can produce the highest known number of meiotic crossovers
Aspergillus fumigatus is a saprotrophic fungus that can cause serious life-threatening invasive infections in immunocompromised individuals. By constructing a recombination map, this study shows that ...
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Toby Baril @tobybarilbio.bsky.social · 19/01/2026
🍄Transposon traffic in the mycocosmos🍄 Fascinating work reveals extensive horizontal TE transfer across fungi (@jromeijn.bsky.social, Iñigo Bañales & @mfseidl.bsky.social; doi.org/10.1016/j.cu...). I wrote a Dispatch to prime non-specialists,check it out here: doi.org/10.1016/j.cu.... #TEworldwide
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Fabrice Jean-Pierre @fabricejpierre.bsky.social · 05/12/2025
“Transcriptional and metabolic modeling analyses of developing Aspergillus fumigatus biofilms reveal metabolic shifts required for biofilm maturation” #microsky
journals.asm.org
Transcriptional and metabolic modeling analyses of developing Aspergillus fumigatus biofilms reveal metabolic shifts required for biofilm maturation | mSphere
Aspergillus fumigatus is the most common etiological agent of a collection of diseases termed aspergillosis. Chronic and invasive manifestations of aspergillosis are highlighted by the development of biofilm-like structures on and in tissue. These biofilm structures are resistant to contemporary antifungal drugs, even for strains that are susceptible by standard antimicrobial susceptibility testing methods. Consequently, understanding the mechanisms by which A. fumigatus induces, develops, and maintains biofilms to evade antifungal therapies is expected to illuminate biofilm-specific therapeutic targets. Here, we identify genes involved in fungal fermentation and regulation of transcription as important mediators of A. fumigatus biofilm development.
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Reposted by Guido Puccetti
Zoe Bernasconi @zoebernasconi.bsky.social · 12/01/2026
Our new article is now online on @natplants.nature.com! ✨ We identified and characterised AvrPm4 and SvrPm4, a pair of powdery mildew effectors controlling avirulence on the wheat kinase fusion resistance protein Pm4 🌾 check it out ➡️ www.nature.com/articles/s41...
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Genome Biology and Evolution @genomebiolevol.bsky.social · 23/12/2025
Alkemade, @timbarra.bsky.social et al. did temporal association analysis on three major fungal crop pathogens collected between 1956 and 2023, identifying genes linked to fungicide resistance and stress responses as frequent sites of adaptation. 🔗 doi.org/10.1093/gbe/evaf241 #genome #evolution
doi.org
Genomic Insights into Historical Adaptation of Three Key Fungal Plant Pathogens
Abstract. Fungal culture collections hold a wealth of historical isolates that could be used to study fungal evolution over the past decades, an era that c
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Guido Puccetti @guidopuccetti.bsky.social · 23/12/2025
link.springer.com/article/10.1...
link.springer.com
Discovery of globally rare CYP51 mutations associated with azole resistance in Iranian Zymoseptoria tritici isolates - BMC Plant Biology
Background Septoria tritici blotch, caused by Zymoseptoria tritici, is a major wheat disease worldwide. Demethylation inhibitor (DMI) fungicides, which target the sterol 14α-demethylase enzyme encoded...
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Reposted by Guido Puccetti
Tom McLean @tommclean.bsky.social · 16/12/2025
Delighted to see the main work from my PhD finally published in @mbio.bsky.social! It all started with the observation that deleting the cutRS two-component system in S. venezuelae caused this amazing explorer phenotype in the presence of glucose. But what was going on?! (1/n)
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Robert Arkowitz @robertarkowitz.bsky.social · 10/12/2025
👉Excited to share our latest work @natmicrobiol.nature.com, revealing a decrease in cytoplasmic crowding during filamentous growth in the human fungal pathogen Candida albicans. Furthermore we found that inhibition of ribosome biogenesis can trigger filamentous growth in this pathogen rdcu.be/eT1Su
rdcu.be
Decreased cytoplasmic crowding via inhibition of ribosome biogenesis can trigger Candida albicans filamentous growth
Nature Microbiology - During filamentous growth in the human fungal pathogen Candida albicans, a reduction in ribosome concentration leads to a decrease in macromolecular crowding. Inhibition of...
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HittingerLab @hittingerlab.bsky.social · 08/12/2025
New preprint with @rokaslab.bsky.social! We used genomic, metabolic, environmental, and phenotypic data sets from 1,154 Saccharomycotina strains to asses filamentation variability and predict filamentation types across the subphylum. 🧩 www.biorxiv.org/content/10.1...
biorxiv.org
The Macroevolution of Filamentation Morphology Across the Saccharomycotina Yeast Subphylum
Saccharomycotina yeasts are a highly diverse and widely distributed subphylum of ascomycete fungi that exhibit diversity in their asexual growth morphologies; the human commensal yeast Candida albican...
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Frédéric Suffert @wheatpath.bsky.social · 01/12/2025
k-mer-based GWAS reveals a candidate avirulence gene and structural variation in Puccinia triticina linked to gain of Lr20 virulence doi.org/10.1186/s128...
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Robin Allshire 🇮🇪 🇪🇺✊🏿 ⬆️ Zak’s favourite nucleosome: K9me @allshire-lab.bsky.social · 01/12/2025
www.embopress.org/doi/full/10.... Our latest now online at EMBO Journal. Read if you are interested in how epimutations mediate antifungal resistance & how this might result in heteroresistance in human & cereal crop fungal pathogens. Big Thx & congrats to Andreas Fellas, Pin Tong & Alison Pidoux
embopress.org
Heterochromatin epimutations impose mitochondrial dysfunction to confer antifungal resistance | The EMBO Journal
imageimageHeterochromatin-island epimutations can provide resistance to caffeine and antifungal drugs in the fission yeast Schizosaccharomyces pombe. This study reveals that some epimutations cause re...
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Guido Puccetti @guidopuccetti.bsky.social · 01/12/2025
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
journals.asm.org
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...
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Cecile Lorrain @ccilelorrain.bsky.social · 28/11/2025
Our paper on Zymoseptoria tritici 3D genome organization is officially out! @iglavincheska.bsky.social link.springer.com/article/10.1...
link.springer.com
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 ...
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Molecular Plant & Plant Communications @mplantpcom.bsky.social · 15/11/2025
Cross-kingdom RNA trafficking from bacteria to fungi enables plant protection against fungal pathogens #research #MolecularPlant cell.com/molecular-pl...
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Jo Rhodes @drjorhodes.com · 13/11/2025
Over many years, and a pandemic, we have worked with an international team of researchers to answer the question through genomics. We believe the origin is recent (in the last few decades, in line with previous research) and spatially from Western Europe
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Toby Baril @tobybarilbio.bsky.social · 12/11/2025
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
nature.com
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...
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Jo Rhodes @drjorhodes.com · 11/11/2025
Genomic and phenotypic insights into the expanding phylogenetic landscape of the Cryptococcus genus journals.plos.org/plosgenetics...
journals.plos.org
Genomic and phenotypic insights into the expanding phylogenetic landscape of the Cryptococcus genus
Author summary Cryptococcus is a genus of fungi that includes both pathogenic species capable of causing life-threatening infections in humans and many environmental species that inhabit soil, fruit, ...
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eLife @elife.bsky.social · 02/11/2025
Lifestyles shape genome size and gene content in fungal pathogens. buff.ly/tec1Tds
Genomic traits associated with pathogenicity.
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Luzia Stalder @luzia-stalder.bsky.social · 30/10/2025
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....
microbiomejournal.biomedcentral.com
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...
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KC👨‍🔬🌾🍄🇦🇺 @karchuntan.bsky.social · 22/10/2025
WHY USE #YEAST AS A TOOL WHEN YOU'VE GOT STAGO?😁 Out now on @biorxivpreprint.bsky.social, our collab @theccdm.bsky.social led by @labkatz.bsky.social and Fran Lopez-Ruiz developed Parastagonospora nodorum as a tool to study #fungicideresistance genes. www.biorxiv.org/content/10.1...
biorxiv.org
Dissecting allele-specific fungicide resistance mechanisms by heterologous expression of the demethylase inhibitor target gene Cyp51 in a phytopathogen model
BACKGROUND Fungicide resistance is a major concern both in agriculture and clinical disease control. Whilst several mechanisms of resistance have been elucidated, assigning phenotype to genotype is of...
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PLOS Biology @plosbiology.org · 16/10/2025
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
 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.
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James McInerney @jomcinerney.bsky.social · 29/08/2025
New preprint reveals bacteria can't just collect all resistance genes like Pokemon cards. We found mutually exclusive evolutionary pathways to multidrug resistance in E. coli & P. aeruginosa - some resistance mechanisms actively prevent others from coexisting www.biorxiv.org/content/10.1...
biorxiv.org
Genomic constraints shape the evolution of alternative routes to drug resistance in prokaryotes
Background Variation within the prokaryotic pangenome is not random, and natural selection that favours particular combinations of genes appears to dominate over random drift. What is less clear is wh...
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Amelia Barber @ameliabarberphd.bsky.social · 22/08/2025
I thought the Aspergillus fumigatus pan-genome was pretty wild when we started this project. Aspergillus flavus said, "hold my beer..." Not only does it have a strong population structure with differences between environmental and clinical strains, only 58%of genes are conserved across the species!
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Neta Shlezinger @shlezingerlab.bsky.social · 14/08/2025
🚨 Fungi + viruses + mammalian lungs? Buckle up! Our new paper in @natmicrobiol.nature.com uncovers the story of a deadly fungus and its gnarly viral hitchhiker — and how this duo may change how we diagnose & treat fungal disease 🍄🫁🚨 doi.org/10.1038/s415... ⬇️
doi.org
Aspergillus fumigatus dsRNA virus promotes fungal fitness and pathogenicity in the mammalian host - Nature Microbiology
A mycovirus infecting the pathogenic fungus Aspergillus fumigatus enhances its stress tolerance and virulence in mice.
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Jo Rhodes @drjorhodes.com · 29/07/2025
A little holiday news: Evolution of antifungal resistance in the environment www.nature.com/articles/s41... This started out as a little thought way back in early 2024 between @normanvanrhijn.bsky.social and I, and turned into a full on review! We hope it proves useful to the community.
nature.com
Evolution of antifungal resistance in the environment - Nature Microbiology
This Review discusses the evolution, emergence and expansion of environmental fungicide and antifungal drug resistance.
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 20/07/2025
A pangenomics-enabled platform for the high-throughput discovery of antifungal resistance factors in crop pathogens www.biorxiv.org/content/10.1101/202…
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Emile Gluck-Thaler @mycomile.bsky.social · 13/05/2025
We dive into the dynamics of #starships 🚀 in a fungal pathogen to ask: how might these giant #transposons impact human health? We find they drive genome-wide variation, encode clinically-relevant traits and even transpose within the same strain! 🍄🧪 out today in mBio #goteam doi.org/10.1128/mbio...
doi.org
Giant transposons promote strain heterogeneity in a major fungal pathogen | mBio
No “one size fits all” option exists for treating fungal infections in large part due to genetic and phenotypic variability among strains. Accounting for strain heterogeneity is thus fundamental for d...
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Alice Laigle @alicelaigle.bsky.social · 20/04/2025
Super happy to see it out with all the hard work of everyone ! Such a nice story ! 🔥
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Alice Laigle @alicelaigle.bsky.social · 01/05/2025
It's been so many months that I have been postponing the publication of my poster's comics since I wanted to translate it (which I did not officially...), so why not doing it on the Labour Day ? 😅 It is now on Zenodo (French): doi.org/10.5281/zeno... 🧪🐡🎨 (1/2)
doi.org
Les Aventures de Zymo: un champignon mangeur de blé
Ce poster comprend quatre pages de bande dessinée, originalement créée pour ma famille, et n’a d’autres prétentions que d’ouvrir à la discussion sur ce champignon pathogène du blé, Zymoseptoria tritic...
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Daniel Croll @danielcroll.bsky.social · 09/04/2025
Very excited with @tobybarilbio.bsky.social to share this preprint about his latest work on TEs! We knew that TEs were very pretty active in this global fungal pathogen of wheat. Now with nearly 2000 Illumina genomes available, we could finally ask questions about historic TE activation waves.
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Thomas Badet @tbadet.bsky.social · 28/03/2025
🔥 Exciting news! The first Symposium on Repeat-Induced Point mutations is happening June 30 – July 1 at the University of Neuchâtel🇨🇭! 🔹 Want to join? Register here > forms.gle/XWTd4gJAXZSx... 🚨 Limited spots available! So first come, first served! 🔹 More info > crolllab.github.io/ripm2025/
crolllab.github.io
RIPM 2025
Symposium on Repeat-induced Point Mutation research, 30.6 - 1.7, Neuchatel, Switzerland
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Daniel Croll @danielcroll.bsky.social · 25/03/2025
@guidopuccetti.bsky.social, Gabriel Scalliet and I are excited to share our latest work. Resistance in agriculture emerges fast, but we fail to grasp how the myriad mutations in pathogen populations contribute to this. Please check out and share our latest preprint: www.biorxiv.org/content/10.1...
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