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Maliheh Mehrshad

@mehrshmali.bsky.social
361 followers 421 following 55 posts

Multipartite parasitic interactions in the microbial world, Phage co-infection studies (ERC_StG: MULTIPHAGE) Wallenberg Academy Fellow #curiosity_driven #microbiology_without_borders www.bionomics-mmlab.com

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Reposted by Maliheh Mehrshad
Krzysztof T Jurdzinski @ktjurdzinski.eurosky.social · 20h
Glad to see our paper on differences in bacterial and protist diversity patterns of brackish (Baltic) plankton out in @commsbio.nature.com! Thanks to @doubleanders.bsky.social and all the co-authors. #MicroSky #ProtistsOnSky www.nature.com/articles/s42...
nature.com
DNA-based monitoring uncovers contrasting salinity-driven diversity patterns of bacterial and protist plankton in the Baltic Sea area - Communications Biology
Communications Biology - DNA-based monitoring uncovers contrasting salinity-driven diversity patterns of bacterial and protist plankton in the Baltic Sea area
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Nobel Prize @nobelprize.org · 05/10/2026
BREAKING NEWS The 2026 Nobel Prize in Physiology or Medicine has been awarded to Karl Deisseroth, Peter Hegemann and Georg Nagel “for their discoveries concerning light-gated ion channels and optogenetics.”
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Maliheh Mehrshad @mehrshmali.bsky.social · 05/10/2026
What we can find in nature can lead to amazing progress! Algae are amazing 🤩 www.nobelprize.org/prizes/medic...
nobelprize.org
Nobel Prize in Physiology or Medicine 2026
The Nobel Prize in Physiology or Medicine 2026 was awarded jointly to Karl Deisseroth, Peter Hegemann and Georg Nagel “for their discoveries concerning light-gated ion channels and optogenetics.”
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Reposted by Maliheh Mehrshad
Evgenii Protasov @evgenii-protasov.bsky.social · 01/10/2026
Salinity and diatom host community jointly shape chytrid parasite diversity along a natural salinity gradient #diatoms #fungi #eukaryotes #parasites #MicroSky #ProtistsOnSky @isme-microbes.bsky.social doi.org/10.1093/isme...
doi.org
Salinity and diatom host community jointly shape chytrid parasite diversity along a natural salinity gradient
Abstract. Parasitic fungi of the phylum Chytridiomycota are known parasites of phytoplankton yet little is known about drivers of their diversity and host
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Mart Krupovic @mkrupovic.bsky.social · 11/09/2026
Why did some #viruses evolve to be #giants while others did not? Our perspective piece on this topic with Eugene Koonin. www.pnas.org/doi/10.1073/...
pnas.org
Why did some viruses evolve to be giants while others did not? | PNAS
Viruses are ubiquitous mobile genetic elements that are obligate symbionts of cellular life forms and replicate exclusively within host cells. The ...
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Reposted by Maliheh Mehrshad
Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 26/08/2026
Foldseek-Interface enables fast search/clustering of the protein interface universe! We clustered 3.1M PDB dimers into 77,167 groups and found new interfaces keep appearing even as fold discovery plateaus. 🧵 📄 www.biorxiv.org/content/10.6... 🔎 search.foldseek.com/interface 🌐 interface.foldseek.com
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Helmut Hillebrand @hillebr1.bsky.social · 26/08/2026
Get to know @redileep.bsky.social a European doctoral network on response diversity which asks how biodiversity is linked to ecosystem resilience. See partners and program on redileep.eu, doctoral candidate positions are or will be announced on euraxess.ec.europe.eu
redileep.eu
ReDiLEEP
A funded MSCA Doctoral Network using response diversity knowledge to leverage efficient ecosystem preservation and restoration.
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Reposted by Maliheh Mehrshad
Mart Krupovic @mkrupovic.bsky.social · 26/08/2026
Check out our paper on ESCRTs in large DNA viruses. Most enveloped viruses use the host #ESCRT for envelopment, but only mirusviruses and nucleocytoviricots encode it! Congrats @sonaida.bsky.social, @tomdelmont.bsky.social, Ulysse Guyet & Eugene Koonin. @pasteur.fr www.nature.com/articles/s41...
nature.com
Large eukaryotic DNA viruses encode ESCRT machinery for membrane remodelling - Nature Microbiology
A genomic screen reveals homologues of ESCRT components in mirusviruses that infect unicellular aquatic eukaryotes.
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Reposted by Maliheh Mehrshad
Julia Meltzer @juliameltzer.bsky.social · 13/08/2026
Excited to share what I've been working on with an incredible team! Visualisation of Asgard viruses on cell surfaces and vesicles, and a story of complex viral interactions. Preprint: www.biorxiv.org/content/10.6... @brendanburns999.bsky.social @belindaferrari.bsky.social @xabivc.bsky.social
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 01/08/2026
Riboseek is a fast RNA/DNA search. More sensitive than nhmmer at 250x speed. Structure-aware realignment produces MSAs approaching rMSA quality. Plus 1.7M precomputed RNA MSAs, and an API to search your own 📄 www.biorxiv.org/content/10.6... 💾 github.com/steineggerla... 🌐 search.foldseek.com/riboseek
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Rafal Mostowy @rafalmostowy.bsky.social · 10/07/2026
Klebsiella phages often modify the bacterial capsule instead of degrading it, stripping acetyl groups. Nobody's traced how this evolves. I'm hiring a computational postdoc to find out — Kraków, apply by 21 July. mostowylab.com/job-postdoc-...
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Maliheh Mehrshad @mehrshmali.bsky.social · 10/07/2026
Viruses of Microbiologists! We had a great time at #vom2026! #Bionomics_mmlab
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Maliheh Mehrshad @mehrshmali.bsky.social · 09/07/2026
Now it's complete I think! #vom2026
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A. Murat Eren (Meren) @merenbey.bsky.social · 04/07/2026
New study by Alexander Henoch (@ahenoch.bsky.social), a PhD student in our group @hifmb.de and @awi.de, shows what it takes to bring gene synteny into microbial pangenomes, and what we learn about the variability landscape of genomes when we do that. See the pre-print here: doi.org/10.64898/202...
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 04/07/2026
Synteny-aware microbial pangenome graphs reveal blueprints of genomic variation www.biorxiv.org/content/10.64898/20…
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Anders Andersson @doubleanders.bsky.social · 29/06/2026
Did you know that microscopic phytoplankton "commute" every day? Using in situ imaging flow cytometry and AI, we show that nearly 80% of phytoplankton biomass in the Skagerrak and Baltic Sea undergoes daily vertical migration. New study by @garefelt.bsky.social et al. doi.org/10.1093/isme...
doi.org
High throughput in situ imaging reveals widely occurring diel vertical migration among phytoplankton
Abstract. Phytoplankton undertake daily vertical migration through the water column to optimize light and nutrient access while avoiding predators. However
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Reposted by Maliheh Mehrshad
Simon Roux @simrouxvirus.bsky.social · 29/06/2026
🚨New paper alert 🚨 Here we tried to leverage an (incredible) metagenome time-series to better understand MGE diversity and activity in soil across decade(s). @scbagby.bsky.social has an amazing thread about this work with all the details - bsky.app/profile/scba...
nature.com
Mobile genetic elements shape microbial diversity and functions in thawing permafrost soils - Nature Microbiology
An 8-year soil meta-omic time series shows how mobile genetic elements shape permafrost microbial diversity and impact a range of functions, including carbon and nutrient cycling.
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Masaru Nobu @masarunobu.bsky.social · 23/06/2026
Parasitic bacteria feeding on their hosts’ RNA!? New cultures and Patescibacteriota/Minisyncoccota/CPR continue to surprise us… www.biorxiv.org/content/10.6...
biorxiv.org
A representative of a ubiquitous bacterial lineage parasitically feeds on host RNA
Cellular metabolism is widely understood as an integrated network of redox reactions, energy conservation, and biosynthetic pathways. Here we show that across diverse prokaryotic lineages, loss of red...
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Maliheh Mehrshad @mehrshmali.bsky.social · 07/06/2026
Including an author's name in their native script (Chinese, Japanese, Hebrew, Indic scripts, Arabic , Persian and so many more...) next to the romanization is a tiny edit with a big impact!
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Maliheh Mehrshad @mehrshmali.bsky.social · 04/06/2026
🔬 We have an open PhD position at SLU Uppsala! We're looking for a curious & driven PhD student to join the #ECOPHARM project funded by @kawresearch.bsky.social and investigate plasmid-dependent phages in aquatic ecosystems. Pls share with anyone who might be interested! www.slu.se/en/about-slu...
slu.se
Diversity of Plasmid-Dependent Phages in Aquatic Ecosystems | slu.se
SLU - Science and Education for Sustainable Life
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BejaLabTechnion @bejalab.bsky.social · 20/05/2026
we got the cover!!! Novel light-driven schizorhodopsins from Antarctic Minisyncoccota (Patescibacteria) and cyanobacteria www.sciencedirect.com/science/arti...
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Reposted by Maliheh Mehrshad
Mart Krupovic @mkrupovic.bsky.social · 11/05/2026
With Eugene Koonin, we wrote a rather comprehensive review on the origin, evolution and organization of the #virosphere. We describe all 10 viral realms and the logic behind them, and so much more. Check it out! comptes-rendus.academie-sciences.fr/biologies/ar...
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Maliheh Mehrshad @mehrshmali.bsky.social · 07/05/2026
Mitochondria can spawn new ‘organelles’ — hinting at how modern cells evolved www.nature.com/articles/d41...
nature.com
Mitochondria can spawn new ‘organelles’ — hinting at how modern cells evolved
Discovery bolsters theory that ancient mitochondria formed brand-new, specialized ‘sacs’ in cells by shedding their outer membranes.
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Reposted by Maliheh Mehrshad
Kenneth Loi @kenjmloi.bsky.social · 27/04/2026
Excited to share our discovery of a new programmable RNA-guided DNA-targeting system hiding inside bacteriophages that predates CRISPR. We call it VIPR (Viral Interference Programmable Repeat), and it uses an entirely new logic to find its targets. Thread + link below.
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Nature Reviews Microbiology @natrevmicro.nature.com · 23/04/2026
New online! Phage host range: determinants, dynamics and applications
dlvr.it
Phage host range: determinants, dynamics and applications
Nature Reviews Microbiology, Published online: 23 April 2026; doi:10.1038/s41579-026-01306-xComprehensive assessment of the host range of phages is a prerequisite for their safe and effective use in multiple applications but is rarely undertaken. This Review outlines the molecular and ecological determinants of phage host range and discusses the importance of these determinants for developing phage-based applications.
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Reposted by Maliheh Mehrshad
Ella Sieradzki @sieravirus.bsky.social · 09/03/2026
I'm hiring my first postdoc! Apply by 20/4/26, position #20443. Seeking an environmental microbiologist with experience in metagenomics (preferably viromics) and molecular biology. Experience with targeted metabolomics is a plus. international.au.dk/about/profil...
international.au.dk
Postdoc in Soil viral ecology - Vacancy at Aarhus University
Vacancy at Department of Agroecology - Plant Pathology and Microbiology, Aarhus University
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Reposted by Maliheh Mehrshad
The Banfield Lab @banfieldlab.bsky.social · 30/03/2026
Congratulations @wshuai.bsky.social and co-authors! We’re excited to introduce MODIFI, our new scalable method for detecting DNA modifications in PacBio metagenomic data and estimating ECE-host linkage. Check out the preprint: www.biorxiv.org/content/10.6...
biorxiv.org
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Courtney Stairs @cstairs.bsky.social · 04/04/2026
We tested the efficacy of semi-permeable capsules to capture protists from cultures and environmental samples using the Onyx from @atrandi.bsky.social. Tremendous effort from everyone in the lab and led by Marco Fantini and Nik Brask - check out the videos here: www.biorxiv.org/content/10.6...
biorxiv.org
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DEEMteam_Orsay @deemteam.bsky.social · 04/04/2026
With @animalculum.bsky.social, we have studied the phylogeny of cryptophyte nucleomorphs within an enriched dataset of red algae. Surprisingly, they seem to be related to Cyanidiophytina. The origin of red secondary plastids remains an open question! nph.onlinelibrary.wiley.com/doi/10.1111/...
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Eduardo Rocha @epcrocha.bsky.social · 17/03/2026
Horizontal gene transfer is often depicted as a process distributing pre-existing functions to novel genetic backgrounds. Yet HGT can also increase the rate of functional innovation after transfer. Here's a brief review on the topic: ecoevorxiv.org/repository/v... #evosky #microsky
ecoevorxiv.org
From Trading Genes to Crafting New Tricks: How Horizontal Gene Transfer Potentiates the Emergence of Novel Functions
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 17/03/2026
Kieran et al. trained a generative protein binder design model. The training is based on Teddymer, a dataset developed by @sooyoung-cha.bsky.social. By treating monomer domains as multimers and clustering them with Foldseek, she created a set that allowed Complexa to learn. 💾 teddymer.foldseek.com
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Martin Steinegger 🇺🇦 @martinsteinegger.bsky.social · 17/03/2026
AlphaFold database has entered the era of complexes. Together with NVIDIA, DeepMind and EBI, we use ColabFold, OpenFold and MMseqs2-GPU to predict ~31 million complexes (homo & hetro-dimers) resulting in 1.8 million high-quality predictions 📄 research.nvidia.com/labs/dbr/ass... 🌐 alphafold.ebi.ac.uk
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Waggoner Lab @labwaggoner.bsky.social · 12/03/2026
Capturing dynamic phage–pathogen coevolution by clinical surveillance @nature.com @ucberkeleyofficial.bsky.social www.nature.com/articles/s41...
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 06/03/2026
Phage protease enzymes activate CBASS antiphage immunity www.biorxiv.org/content/10.64898/20…
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BejaLabTechnion @bejalab.bsky.social · 27/02/2026
CONGRATULATIONS galitzlil.bsky.social for receiving the Gutwirth award for the Technion best paper in 2025!!!! www.nature.com/articles/s41...
nature.com
Structural insights into light harvesting by antenna-containing rhodopsins in marine Asgard archaea - Nature Microbiology
Uncultured open-ocean Asgard archaea can harvest light energy using rhodopsins and diverse hydroxylated carotenoid antennas.
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José Manuel García-Fernández @jmgarciafnandez77.bsky.social · 26/02/2026
How a protein repurposes vitamin B12 as a light sensor www.nature.com/articles/d41...
nature.com
How a protein repurposes vitamin B12 as a light sensor
Intense, ultrashort X-ray pulses have been used to probe the extraordinary reactions that occur in a light-sensing receptor, resolving a biochemical conundrum.
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Francisco Nadal-Molero @nadal-molero.bsky.social · 22/02/2026
🚀New study out! We identify freshwater phage-host interactions in situ using metaHi-C and connect infection dynamics with evolution.🦠
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Tominaga K. (tomiken) @pacyc184.bsky.social · 20/02/2026
Eco-evolutionary dynamics of active virus-host interactions in a freshwater lake: revealed through metaHi-C | bioRxiv www.biorxiv.org/content/10.64898/20…
biorxiv.org
Eco-evolutionary dynamics of active virus-host interactions in a freshwater lake: revealed through metaHi-C
Detecting active phage-bacteria interactions in natural microbial communities remains a major limitation for understanding their ecological dynamics and associated co-evolutionary processes. Here, we applied metaHi-C, a chromosome conformation capture method, to resolve active virus-host associations in a freshwater microbial community. From >900 microbial and >33,000 viral Hi-C-assembled genomes, we identified 100 high-confidence phage-host linkages spanning major freshwater bacterial lineages, including Limnohabitans, Acidimicrobium, Synechococcus, Candidatus Nanopelagicus, Candidatus Planktophila, Candidatus Methylopumilus and Polynucleobacter. The inferred networks revealed diverse infection patterns, including broad-host-range phages, cellular-level co-infection, kill-the-winner dynamics and one-to-one interactions. These ecological patterns were associated with signatures of diversifying selection in host-interaction genes, consistent with host-range expansion, alongside conserved genomic regions in broad-host-range and co-infecting phages, indicating functional constraints on essential infection modules. Together, these results demonstrate that metaHi-C enables direct linking of community-level infection dynamics to underlying evolutionary processes, revealing how these forces shape bacterial population dynamics of freshwater bacteria. ### Competing Interest Statement The authors have declared no competing interest. European Research Council, https://ror.org/0472cxd90, 101117028 Generalitat Valenciana, https://ror.org/0097mvx21, “VIRHOS” project, Ref. CIPROM/2021/006
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 20/02/2026
Eco-evolutionary dynamics of active virus-host interactions in a freshwater lake: revealed through metaHi-C www.biorxiv.org/content/10.64898/20…
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Maliheh Mehrshad @mehrshmali.bsky.social · 20/02/2026
Phage–host interactions are a key driver of microbial ecology, but observing them in nature is hard! With metaHi-C, we detect freshwater phage–host pairs and link their infection dynamics to evolution. Together with @nadal-molero.bsky.social & Ana Martin-Cuadrado www.biorxiv.org/content/10.6...
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Kranzusch Lab @kranzuschlab.bsky.social · 17/02/2026
Max Fels @mfels.bsky.social from our lab discovers giant DNA viruses that infect amoeba encode eIF4E and the entire suite of 4F complex proteins to control mRNA translation, including beautiful crystal structures of viral 4E bound to modified mRNA 5' caps: www.cell.com/cell/fulltex...
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Maliheh Mehrshad @mehrshmali.bsky.social · 14/02/2026
Protist predators engineer bacterial metabolic cooperation www.cell.com/cell-host-mi...
cell.com
Protist predators engineer bacterial metabolic cooperation
In the current issue of Cell Host & Microbe, Liu et al. establish a scalable framework and find that protist predation drives bacterial metabolic cooperation. This study offers insights for investigat...
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Maliheh Mehrshad @mehrshmali.bsky.social · 14/02/2026
Predicting phage–host specificity www.nature.com/articles/s41...
nature.com
Predicting phage–host specificity - Nature Reviews Microbiology
This Genome Watch article explores how protein language models are transforming phage–host specificity prediction by capturing meaningful biological information from viral sequences, from individual p...
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Jay T Lennon @jaytlennon.bsky.social · 09/02/2026
www.growkudos.com/publications... New work with @ckarakoc.bsky.social and @shoestrapped.bsky.social in @pnas.org
growkudos.com
The hidden energy cost of cellular dormancy
Many organisms survive harsh environments by switching into special survival modes. Some bacteria do this by forming spores—dormant, highly resilient cells that can persist for years or even centuries...
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Vardilab @vardilab.bsky.social · 05/02/2026
🌊Paper announcement! 📣 Viral infections rewire the metabolic makeup of their host and thereby create distinct chemical signatures. Can we use metabolic biomarkers to diagnose infections of algal blooms in the ocean? Well, take a look at our new article led by Conny Kuhlisch in @pnas.org >>
doi.org
Mapping of the viral shunt across widespread coccolithophore blooms using metabolic biomarkers | PNAS
The viral shunt is a fundamental ecosystem process which diverts the flux of organic carbon fixed through photosynthesis during algal bloom events ...
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David Bikard @dbikard.bsky.social · 28/01/2026
🚨 Hiring Alert! 🚨My lab at Institut Pasteur is recruiting several Postdocs! We have exciting open projects in: 🦠 Synthetic Biology and🛡️ Bacterial Immunity. Come do great science with us in the middle of Paris! 🇫🇷🥐 research.pasteur.fr/en/job/postd...
research.pasteur.fr
Postdoctoral position - Synthetic Biology / Bacterial Immunity - Research
The Bikard lab at Institut Pasteur in Paris is seeking to hire postdoctoral researchers. We are investigating bacteria / bacteriophages interactions, and the genetic innovation that happens at this in...
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BejaLabTechnion @bejalab.bsky.social · 17/01/2026
Viral theft of light: A cyanophage protein dismantles cyanobacterial photosynthesis to accelerate infection www.cell.com/cell-host-mi...
cell.com
Viral theft of light: A cyanophage protein dismantles cyanobacterial photosynthesis to accelerate infection
Auxiliary metabolic genes, acquired by cyanobacterial viruses (cyanophages) from their hosts, are thought to manipulate host metabolism during infection. A recent study by Nadel et al. performed in vi...
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Krzysztof T Jurdzinski @ktjurdzinski.eurosky.social · 26/01/2026
New preprint with @emma-bell.bsky.social, @doubleanders.bsky.social, Karin Garefelt et al. We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors. www.biorxiv.org/content/10.6...
biorxiv.org
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Taylor priest @taylorpriest.bsky.social · 23/01/2026
Do you have experience in bioinformatics and are looking for a new challenge? To immerse yourself in a group and institute doing highly diverse research? Then come and join our group !
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Maliheh Mehrshad @mehrshmali.bsky.social · 07/01/2026
Anti-phage defense through prophage-exprrssed type IV pilus www.cell.com/cell-reports...
cell.com
A prophage-expressed type IV pilus component provides anti-phage defense
Sztanko et al. demonstrate that Pseudomonas aeruginosa prophages encode proteins resembling the type IV pilus minor pilin protein, FimU. These prophage-expressed FimU proteins are incorporated into th...
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