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Ksenia Krasileva

@kseniakrasileva.bsky.social
1.2K followers 107 following 66 posts

Associate Professor UC Berkeley, puzzle-solver interested in comparative immunology 🌱🍄‍🟫🧬 and computational biology 💻

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Reposted by Ksenia Krasileva
bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 08/09/2026
Decoupled evolution of antimicrobial repertoires in lichen-forming fungi www.biorxiv.org/content/10.64898/20…
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Nature Plants @natplants.nature.com · 08/09/2026
New Brief Communication: "Cell-based CRISPRa screen identifies a papillae-specific receptor kinase mediating broad-spectrum fungal resistance in rice" rdcu.be/ZZFv8dTuRi8a A RK that positively regulates fungal resistance via silicon-mediated physical & biochemical defences. #PlantScience
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Mary Williams @PlantTeaching @plantteaching.bsky.social · 27/08/2026
In a global first, Mexico approves use of RNA-based fungicide. Oifirax, created by GreenLight Biosciences, uses RNA molecules to kill the fungus responsible for powdery mildew on grapes. www.science.org/content/arti...
science.org
In a global first, Mexico approves use of RNA-based fungicide
Oifirax, created by GreenLight Biosciences, uses RNA molecules to kill the fungus responsible for powdery mildew on grapes
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GeminiTeamLab @geminiteamlab.bsky.social · 18/08/2026
So excited and incredibly grateful for this opportunity! 🦠🌱🧬
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Jonathan Eisen @phylogenomics.bsky.social · 13/08/2026
Job Opening. Faculty Position in Plant Evolutionary Biology at University of California, Davis in the Department of Evolution and Ecology (EVE, my home department). More detail here. recruit.ucdavis.edu/JPF07777
POSITION DESCRIPTION

The College of Biological Sciences at the University of California, Davis invites applications and nominations for a 9-month, tenure-track position in the Department of Evolution and Ecology at the ASSISTANT PROFESSOR level. The Department of Evolution and Ecology is seeking a plant evolutionary biologist with interests in the evolution of plants at any taxonomic, geographic, organizational, or evolutionary scale. Candidates must have a Ph.D. (or equivalent) in the biological sciences, evolutionary biology, ecology, genetics, or a related field, and will be expected to complement and build upon existing faculty strengths in the Department of Evolution and Ecology and across UC Davis.

We welcome applicants working on any group of plants and using empirical, computational, experimental, and/or theoretical approaches. Possible areas of study are broad, and include macroevolutionary research on plant diversification, trait evolution in a phylogenetic context, major evolutionary innovations, comparative genomics, and evolutionary developmental biology, as well as research focusing at or below the species level including population biology, quantitative genetics, adaptive evolution, speciation, biogeography, and the evolution of life histories or species interactions.

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Chenxin Li, PhD @chenxinli2.bsky.social · 15/08/2026
Arabidopsis Col-0 is not one thing "Genetic and epigenetic divergence among Arabidopsis thaliana Col-0 laboratory lineages since the 1950s". #PlantScience From: www.biorxiv.org/content/10.6...
biorxiv.org
Genetic and epigenetic divergence among Arabidopsis thaliana Col-0 laboratory lineages since the 1950s
The model plant Arabidopsis thaliana has been a workhorse of plant biology since the 1950s, when the Columbia-0 (Col-0) accession was widely adopted by the research community as a reference genotype. ...
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PlantEvolution 🌱🌾 @plantevolution.bsky.social · 09/08/2026
A major advice I try to pass on: science is only worth it if you can delight in the discoveries of others. It’s great to make your own discoveries but they are too few to sustain you over the long haul.
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Edel Pérez-López 🇨🇦 @edelplopez.bsky.social · 31/07/2026
🚨🪲🧬🦠 We have a new preprint out! Link: doi.org/10.64898/202... Insects and microbes are more connected than we realize. Some insects owe part of their ability to feed on plants to genes acquired from bacteria millions of years ago 🤯 See what we found about glycoside hydrolases in leafhoppers.
representation of the study
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Sonali Roy @sonaliroy.bsky.social · 22/07/2026
Apparently the midpoint between Berkeley and Nashville is Munich, Germany! So good to see @kseniakrasileva.bsky.social even if we’re half way across the world! Running into her is always worth the travels. 🤩😃
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Volker Lipka @volkerlipka.bsky.social · 14/07/2026
We are currently recruiting an Independent Junior Research Group Leader in the field of biotic and/or abiotic stress biology in plants at the University of Göttingen (starting in January 2027). www.uni-goettingen.de/de/644546.ht... Best, Salma Balazadeh & Volker Lipka
uni-goettingen.de
Stellenanzeigen - Georg-August-Universität Göttingen
Webseiten der Georg-August-Universität Göttingen
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Ksenia Krasileva @kseniakrasileva.bsky.social · 10/07/2026
We welcome Amy Stephen (center) who joined us as a new computational biology graduate student this year! 💻🍹
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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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Plant Science Spotlight @plant-sci.bsky.social · 04/06/2026
🍇🧬Optimized hairy root protocol for grapevine. Tested multiple strains, cultivars & explants. Universal primers confirm transformation. DsRed reporter works well. Overexpressed VviMYBA1 turns roots red First CRISPR edited grapevine hairy roots reported #plantscience academic.oup.com/jxb/advance-...
academic.oup.com
Optimized protocol for efficient generation, confirmation, transformation, and CRISPR editing of grapevine hairy roots
Optimized workflows and methods are provided for the establishment of Rhizobium rhizogenes-mediated transgenic or CRISPR-edited hairy root cultures for gra
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Reposted by Ksenia Krasileva
Anna-Liisa Laine @annaliisalaine.bsky.social · 25/05/2026
There are still a couple of days left to apply for a position as an Ecological Statistician in @rececochange.bsky.social!!
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Riccardo Baroncelli @riccardobaroncelli.bsky.social · 15/05/2026
Thrilled to see this finally out!! Our new work suggests #Starships helped #Colletotrichum acquire the genes needed to infect lupin. A glimpse into how fungal pathogens emerge through horizontal transfer and genome reshaping. biorxiv.org/content/10.6... #Fungi #Genomics #Pathogenicity #evolution
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Nature Plants @natplants.nature.com · 06/05/2026
New Article: "Water lily complete genomes illuminate the innovations of water lilies and early angiosperms" rdcu.be/fhdEb Gapless genomes for three water lily species: genetic keys to fertilization, floral colour and scent, and evolution of early flowering plants.
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American Phytopathological Society (APS) @plantdisease.bsky.social · 08/05/2026
Explore how molecular insights drive disease management at this pre-meeting symposium on Saturday, Aug 1. Featuring keynotes from Sheng-Yang He & Roger Innes. Add to your registration #planthealth2026 registration for $49: bit.ly/4u1UsHc #planthealth2026 #mpmi
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Fantin Mesny @mesny.bsky.social · 10/05/2026
Bacteria evolving to survive the soil battleground 🦠🛡️ Super glad I got to be part of this fascinating study, led by my friend @jinyi-zhu.bsky.social, who’s equally impressive in the lab and at the gym 💪
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Science Magazine @science.org · 09/05/2026
Breaking news: Indiana University plant microbiologist Roger Innes has been locked out of his laboratory by the school in response to a request by one of his federal funders. The move comes after Innes complained about the government’s prosecution of Chinese postdocs. scim.ag/4tsDqRr
scim.ag
After USDA request, Indiana plant biologist locked out of lab by school
Move comes after Roger Innes complained about the government’s prosecution of Chinese postdocs
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Jonathan Eisen @phylogenomics.bsky.social · 10/05/2026
Another random share biology.indiana.edu/news-events/...
biology.indiana.edu
Five faculty honored
View the news article.
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Jonathan Eisen @phylogenomics.bsky.social · 10/05/2026
Just a random post biology.indiana.edu/news-events/...
biology.indiana.edu
Biologists awarded $2.3 million to investigate how plants use RNA to fight off disease
IU Biology news: Biologists awarded $2.3 million to investigate how plants use RNA to fight off disease.
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Jonathan Eisen @phylogenomics.bsky.social · 10/05/2026
Sharing for no reason www.nasonline.org/directory-en...
nasonline.org
Roger W. Innes – NAS
Roger Innes holds the Class of 1954 Professorship in Biology and is former Chair of the Department of Biology at Indiana University Bloomington. He earned his B.A. in Biology at Humboldt State Univers...
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Tera Levin @teralevin.bsky.social · 02/05/2026
Link to the preprint! 14/ www.biorxiv.org/content/10.6...
biorxiv.org
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Tera Levin @teralevin.bsky.social · 02/05/2026
Bacterial immune proteins have repeatedly evolved to become parts of eukaryotic immunity. But how? Our new preprint uncovers a recent horizontal transfer event & shows how eukaryotes co-opted a toxic bacterial immune protein 🦠🧪🧵 1/
Microscopy image showing yeast cells expressing a fluorescently tagged version of the amoeba TirC protein. TirC forms filaments that span the yeast cells.
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Prof. Ruth Ley FRS @microbiome.bsky.social · 03/05/2026
Come and work with us in a beautiful corner of Germany: 5 years of funding for your microbiology research and lots of great colleagues 🦠🧫
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Chenxin Li, PhD @chenxinli2.bsky.social · 24/04/2026
Really interesting paper from @grey-monroe.bsky.social lab at UC Davis: www.pnas.org/doi/10.1073/... "Genome degradation in plant tissue culture" #PlantScience The data presented have a lot of implications both on basic biology and applications.
pnas.org
Genome degradation in plant tissue culture | PNAS
Many plants, unlike most animals, can reproduce as clones [D. Kester, HortScience 18, 831–837 (1983), 10.21273/hortsci.18.6.831]. Cloning plants is...
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David Lowry @davidlowry.bsky.social · 24/04/2026
Woah www.pnas.org/doi/10.1073/...
pnas.org
Genome degradation in plant tissue culture | PNAS
Many plants, unlike most animals, can reproduce as clones [D. Kester, HortScience 18, 831–837 (1983), 10.21273/hortsci.18.6.831]. Cloning plants is...
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Neta Shlezinger @shlezingerlab.bsky.social · 20/04/2026
🚨A random solution to a growing fungal threat🚨 Our work on random peptide mixtures reveals potent antifungal activity against multidrug-resistant pathogens like C. auris, with low resistance potential and strong biofilm activity. Now out in mBio! Congrats to John and Yael for the fantastic work 👏
journals.asm.org
Harnessing random peptide mixtures to combat multidrug-resistant fungal infections | mBio
The rising prevalence of invasive fungal infections, particularly among immunocompromised individuals, has become a critical public health concern. However, antifungal drug development has not kept pace with this growing need, and treatment options remain limited to a small number of drug classes. The emergence of multidrug-resistant fungal pathogens, such as Candida auris, further exacerbates this crisis by reducing the efficacy of existing therapeutics and increasing the risk of treatment failure. In this study, we evaluate the antifungal potential of FK20, a random peptide mixture (RPM) composed of L-phenylalanine and L-lysine. FK20 displays potent activity against C. auris and other clinically relevant Candida species, impairs biofilm formation, and exhibits synergy with caspofungin. Importantly, FK20 limits the emergence of resistance and demonstrates therapeutic efficacy in a murine model of systemic candidiasis. These findings establish RPMs as a promising new class of antifungals with broad-spectrum activity and clinical potential against drug-resistant fungal infections.
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NPR @npr.org · 18/04/2026
They can pose a threat to human health — yeast infections are but one example. Scientists say not enough attention is paid to their ability to develop resistance to medications that treat them.
n.pr
Why scientists are nervous about fungi
They can pose a threat to human health — yeast infections are but one example. Scientists say not enough attention is paid to their ability to develop resistance to medications that treat them.
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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 18/04/2026
That time of year again! If you'd like an example of job apps in academia or industry, here's a good resource. If you got a job in industry or academia in the last few years, please consider adding yours! github.com/RILAB/statem...
github.com
GitHub - RILAB/statements: Successful Job Applications and Grants
Successful Job Applications and Grants. Contribute to RILAB/statements development by creating an account on GitHub.
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Alejandro Montenegro @aemonten.bsky.social · 17/04/2026
I'm looking for #NewPIs (<3 years as lab heads) in the gene regulation/functional genomics space. If you are one or know one, please comment below! 🧪
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Gitta Coaker @gittacoaker.bsky.social · 18/04/2026
We are hiring! We’re excited to recruit a postdoc to our lab at UC Davis to work on plant immune engineering and single-cell analyses of plant pathogen interactions. Apply by June 1. Please repost. www.coakerlab.org/postdoctoral...
Postdoctoral Scholar position in the Coaker group
University of California, Davis
We are seeking a Postdoctoral Scholar to join our research program focused on immune receptor engineering and spatial analyses of plant pathogens interactions using computational and imaging approaches. The position will involve integration of molecular, imaging, and computational approaches. Relevant publications from the laboratory include Nature Plants (2025, PMID: 40721669), Proceedings of the National Academy of Sciences (2024, PMID: 38814867), and Cell Reports (2023, PMID: 37342910). https://www.coakerlab.org/
Qualifications:
•	Ph.D. in plant biology, molecular biology, genetics, computational biology, or a related field
•	Strong background in genomics and/or computational biology 
•	First author publications in peer-reviewed journals
•	Ability to work both independently and collaboratively in a multidisciplinary environment
•	Experience in plant innate immunity is preferred

Application Instructions:
The position is initially available for two years, with the possibility of extension based on performance and funding. Salary is based on the University of California postdoctoral salary scale (https://www.ucop.edu/academic-personnel-programs/_files/2025-26/represented-oct-2025-scales/t23.pdf). The salary range for this position is $69,073-$82,836 US Dollars/year. 
Review of applications will begin June 1, 2026 and will continue until the position is filled.
Please submit a CV, a brief statement of research interests (~1 page), and contact information for three references to glcoaker@ucdavis.edu. The research statement should describe your previous work, how your expertise aligns with ongoing research in the lab, and potential future research directions.
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Isabel saur @izzysaurlab.bsky.social · 16/04/2026
That is very very cool! I always thought that we should/could put autoactive NLRs or even CC domains unter a pathogen inducible promoter….only worried that may not be able to control the expression by a) non-pathogenic microbes and b) necrotrophs 🤔 anything here tested @kseniakrasileva.bsky.social ?
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New Phytologist @newphyt.bsky.social · 09/04/2026
Transferred resistance – interspecific transfer of plant defence against soilborne pathogens 📖 nph.onlinelibrary.wiley.com/doi/10.1111/... 👆 A #Commentary by Costa & Mathesius on this article by Hama et al. 👇 📖 nph.onlinelibrary.wiley.com/doi/10.1111/... #LatestIssue
Fig. 1 Proposed mechanism of benzoxazinoid (BX) transfer from BX-producing rye plants (Secale cereale) to clover plants (Trifolium repens) in live, arable soil.
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Şuayb Üstün @suaybuestuen.bsky.social · 09/04/2026
Preprint alert 🚨 (1/10) 🧵 𝘈𝘶𝘵𝘰𝘱𝘩𝘢𝘨𝘺 𝘪𝘴 𝘢 𝘱𝘢𝘳𝘢𝘥𝘰𝘹 𝘪𝘯 𝘱𝘭𝘢𝘯𝘵 𝘪𝘮𝘮𝘶𝘯𝘪𝘵𝘺: It can promote resistance, susceptibility, or restrict cell death 🤯 So what is its actual role? We show it acts as a spatial organizer of immunity across cell types 🌱🦠 #proteostasis www.biorxiv.org/content/10.6...
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Ya’el Courtney, PhD @scienceyael.bsky.social · 09/04/2026
Just updated my HHMI Gilliam Fellowship application guide for the 2026 cycle. Big changes this year: international PhD students and MD-PhDs can now apply, and there's a new postdoc pathway extending HHMI support up to 7 years total. www.yaelcourtney.com/resources-an...
yaelcourtney.com
HHMI Gilliam Fellowship Application Guide (From a Gilliam Fellow) | Ya'el Courtney — Ya'el Courtney
A detailed walkthrough of every component of the HHMI Gilliam Fellowship application — from the equity and inclusion statement to the community engagement plan — written by a three-year Gilliam Fellow with advice from successful applicants and HHMI leadership.
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CosmicRami 🏳️‍🌈🏳️‍⚧️ @rami.spaceaustralia.com · 06/04/2026
Latest #ArtemisII Moon pic 🌕 LOOK HOW DIFFERENT THE FAR SIDE IS! so unfamiliar! Good day to remind everyone that we must fight to preserve the radio heritage / quietness of this region, it’s the only place shielded from Earth’s EM radiation. I hope there are radio telescope there one day! 📡 🔭
Lunar orb showing mostly the far side which has many more craters and less dark patches
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Evan Groover @evangroover.bsky.social · 31/03/2026
Excited to see the major chapter of my PhD in print! We present a massively-parallel approach for screening CRISPR edits in plants to speed up agricultural test cycles + benchmark genomic LMs. Thanks to my fantastic co-authors and advisors. Link below!
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UCDavisPlants @ucdavisplants.bsky.social · 30/03/2026
🌱 From UC Davis: Congratulations to Gitta Coaker. AAAS recognition highlights how decoding plant immunity can guide the development of durable disease resistance and more resilient crop systems. @gittacoaker.bsky.social ▶️ www.ucdavis.edu/news/4-elect... #PlantScience #PlantPathology
ucdavis.edu
4 Elected as AAAS Fellows
Four faculty from the University of California, Davis, have been elected as Fellows of the American Association for the Advancement of Science, class of 2025. They are among nearly 500 scientists, eng...
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Dor Russ @dorruss12.bsky.social · 28/03/2026
What if plant immunity doesn’t stop bacteria from arriving - but from staying? Excited to share our new Dangl Lab paper (doi.org/10.1073/pnas.2535583123), asking a fundamental co-evolutionary question: which flagellar function is targeted by plant immunity? #Coevolution #Plant-Microbiome #PNAS 🧵1/8
doi.org
PNAS
Proceedings of the National Academy of Sciences (PNAS), a peer reviewed journal of the National Academy of Sciences (NAS) - an authoritative source of high-impact, original research that broadly spans...
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Mariana Schuster @marischuster.bsky.social · 29/03/2026
Congrats to Christian et al! @sinzandrea.bsky.social
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Nick Talbot @talbotlabtsl.bsky.social · 22/03/2026
Some reflections on #Fungal26 This was a great meeting as always but set against some turbulent times of course, which meant many regular attendees were not present. This thread is mainly for them. However, the proportion of first-time attendees was very high and very international. #Fungal26 1/15
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Molecular Plant-Microbe Interactions® (MPMI) @mpmijournal.bsky.social · 23/02/2026
C. H. Parada-Rojas et al. present a reference-quality NLRome for the hexaploid sweetpotato and diploid wild relatives. Learn more: doi.org/10.1094/MPMI-03-25-0034-R
Fig. 4.
Sweetpotato genotypes and wild relatives harbor a compact NRC-H subclade. Maximum likelihood (ML) phylogeny of complete coiled-coil nucleotide-binding and leucine-rich repeat immune receptor (CNL) proteins identified across all 35 sweetpotato and wild relative genotypes, using NB-ARC domain sequences as predicted by NLRtracker. Branches predicted to correspond to major nucleotide-binding and leucine-rich repeat receptor (NLR) required for cell death (NRC) helper and sensor clades (NRC-H, NRC-S) were highlighted based on phylogenetic placement of NRC0/1 (helpers, purple) and Hero-A, Rpi-amr3i, and Bs2 (sensors, green), respectively. Tips linked to CNLs containing integrated domains are labeled with yellow dots. The purple phylogenetic tree (right) includes only sequences from the indicated NRC-H lineage (left), underlining the Ipomoea batatas, I. trifida, I. triloba, and I. littoralis sequences phylogenetically predicted as helper NLRs.
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Ksenia Krasileva @kseniakrasileva.bsky.social · 23/02/2026
Out in New Phytologist! The annotated blueprint: integrated functional genomic resources for a model tetraploid wheat cv. Kronos 🌾 chromosome-scale genome, high-conf annotations, manually curated 1000+ NLRs, ~3000 remapped datasets 🔗 doi.org/10.1111/nph.... #Plants #Genomics #FunctionalGenomics
doi.org
The annotated blueprint: integrated functional genomic resources for a model tetraploid wheat Triticum turgidum cv Kronos
Triticum turgidum cv Kronos is a tetraploid wheat cultivar that underpins one of the most widely used community platforms for functional genomics. Over the past decade, researchers have generated c. ...
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Jeffrey Ross-Ibarra @jrossibarra.bsky.social · 09/02/2026
Fun news! @gcbias.bsky.social and I are teaching a 2-week online population genetics workshop this summer to raise money for the Center for Population Biology at UC Davis. We're trying to gauge interest -- please fill this out if you might be interested! And please share broadly!
docs.google.com
Davis Summer Population Genomics Program
Want to learn population genetics? Please fill out this form to indicate your potential interest in a 2-week intensive online summer population genetics course taught by Jeffrey Ross-Ibarra and Graham...
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Paul Carini @uncultured.carinilab.com · 06/02/2026
If you are interested in using AI to predict and test microbial (bacterial, archaeal) cultivation requirements, please reach out. We are ~waist deep in this already.
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Matteo Pivato @matteopivato.bsky.social · 03/02/2026
Super excited to share that I’ve joined @theplantcell.bsky.social as an Assistant Feature Editor! I’ll be writing “In Brief” highlights, receiving editor and peer-review training, and helping share amazing plant science with a wider audience, all with a fantastic community of editors and authors 🌱🦠🔬
academic.oup.com
The Plant Cell welcomes 2026 Assistant Features Editors
The Plant Cell is pleased to announce our Assistant Features Editors (AFEs) for 2026 (Fig. 1). The Plant Cell AFE program provides AFEs with experience in
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PlantEvolution 🌱🌾 @plantevolution.bsky.social · 02/02/2026
Full professor for plant ecology in Regensburg. #plantscience #plantscijobs jobs.zeit.de/jobs/w3-prof...
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Peter Repetti @monstera999.bsky.social · 03/02/2026
Fungi can become drug-resistant without changing their DNA. They just... turn off the gene. And turn it back on when the drug's gone. This is wild and concerning for treating infections like mucormycosis (50-90% mortality). From Joe Heitman's group at @duke-university.bsky.social.
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Gregor Mendel Institute of Molecular Plant Biology @gmivienna.bsky.social · 30/01/2026
Duckweeds are an important plant research model but have been challenging to modify genetically. A study published in @newphyt.bsky.social by the Marí-Ordóñez group at the GMI, presents a new and highly reproducible method for genetic transformation in the duckweed species Spirodela polyrhiza.
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