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Emmanuele Severi

@emmseveri.bsky.social
1.3K followers 1.3K following 482 posts

Research Fellow at Northumbria University: phage, synthetic biology, sialic acid, transport proteins. He/him.

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Emmanuele Severi @emmseveri.bsky.social · 10/09/2026
#phagesky #microsky #phage www.biorxiv.org/content/10.6...
biorxiv.org
Sequential assembly in vivo of the bacteriophage P22 genome translocation channel
Bacteriophage P22 ejects four internal proteins into infected cells to assemble a channel for genome translocation across the cell envelope. However, how these proteins cooperate to build the trans-en...
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Emmanuele Severi @emmseveri.bsky.social · 20/08/2026
#microsky #phagesky T7’s phospho-bombing of host proteins overcomes (-whelms) E. coli #phage defence mechanisms www.nature.com/articles/s41...
nature.com
Pervasive phosphorylation by phage T7 kinase disarms bacterial defences - Nature
The T7 bacteriophage deactivates bacterial defence systems through T7K phosphorylation of nearly all host and phage proteins during infection.
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Reposted by Emmanuele Severi
Jasper Gomez @jasgomez.bsky.social · 15/08/2026
My PhD work with my awesome mentor Chris Waters and collaborator Jeff Barrick looking at how phages encode contingency loci to overcome phage defense systems and potentially other stresses via phase variation is out! www.nature.com/articles/s41...
nature.com
Phage-encoded contingency loci enable bet-hedging against host defence mechanisms - Nature Microbiology
Diverse E. coli phage genomes have hypermutable DNA regions that promote reversible frameshift mutations through DNA polymerase slippage, generating population heterogeneity that enables host exploita...
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Emmanuele Severi @emmseveri.bsky.social · 14/08/2026
#microsky #phagesky #phage Phase variation FTW www.nature.com/articles/s41...
nature.com
Phage-encoded contingency loci enable bet-hedging against host defence mechanisms - Nature Microbiology
Diverse E. coli phage genomes have hypermutable DNA regions that promote reversible frameshift mutations through DNA polymerase slippage, generating population heterogeneity that enables host exploita...
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Emmanuele Severi @emmseveri.bsky.social · 09/08/2026
#microsky #phagesky #phage journals.plos.org/plospathogen...
journals.plos.org
Intact architectures of myophage phi92 in extended and contracted states
Author summary With the increasing severity of the problem of drug-resistant bacteria, phage therapy is regaining renewed attention as an effective alternative strategy. Myophage phi92 exhibits broad-...
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Emmanuele Severi @emmseveri.bsky.social · 07/08/2026
#microsky #phagesky #phage defence www.nature.com/articles/s41...
nature.com
Antiviral defence is a conserved function of diverse bacterial DNA glycosylases - Nature Microbiology
DNA glycosylases, typically used for DNA repair, can also protect bacteria against phages that would otherwise evade host immunity by incorporating modified bases into their genomes.
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Emmanuele Severi @emmseveri.bsky.social · 07/08/2026
#microsky #phagesky #phage www.science.org/doi/10.1126/...
science.org
Generative design of bacteriophages with genome language models
Many important biological functions arise not from single genes but from complex interactions encoded by entire genomes. We report the first generative design of complete bacteriophage genomes using g...
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Ákos T Kovács @evolvedbiofilm.bsky.social · 29/07/2026
A novel stress response pathway mediates biofilm architecture in Pseudomonas aeruginosa PLOS Pathogens by Ainelen Piazza et al from Jakob Malone @johninnescentre.bsky.social with @friendlymicrobe.bsky.social journals.plos.org/plospathogen...
journals.plos.org
A novel stress response pathway mediates biofilm architecture in Pseudomonas aeruginosa
Author summary Biofilm formation by the opportunistic pathogen Pseudomonas aeruginosa represents a major clinical challenge, with biofilms typically associated with chronic infection, increased antibi...
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Emmanuele Severi @emmseveri.bsky.social · 29/07/2026
#glycotime #glycotimesky Finally, the structure of the #sialic acid-binding SBP from the Streptococcal ABC transporter is determined! And binding alpha-NeuAc no less - interesting! Only one SBP left to solve now… www.nature.com/articles/s42...
nature.com
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Micklefield Lab @micklefield-lab.bsky.social · 28/07/2026
Hello Bluesky! 👋 We're a research group at Imperial College working at the interface of chemistry, biology & biotechnology. 🔬 #BiosyntheticPathways, #NaturalProducts & #Antibiotics 🧬 #EnzymeStructure, #EnzymeMechanism & #EnzymeEngineering ⚗️ #Biocatalysis & #SustainableSynthesis. News to follow
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Emmanuele Severi @emmseveri.bsky.social · 27/07/2026
#glycotime #glycotimesky From Alan Cartmell and collaborators: sulfatases from Akk muciniphila involved in mucin degradation www.nature.com/articles/s41...
nature.com
Unique adaptations in sulfatases underpin colonic mucin degradation by Akkermansia muciniphila - Nature Microbiology
Structural and biochemical follow-up of a serendipitous discovery reveals that Akkermansia muciniphila carbohydrate sulfatases are uniquely adapted to digest colonic mucins in collaboration with other...
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Emmanuele Severi @emmseveri.bsky.social · 24/07/2026
#microsky Leu auxotrophy as genetic marker for Mycobacterium abscessus #synbio journals.asm.org/doi/10.1128/...
journals.asm.org
Leucine auxotrophic marker for genetic manipulation of Mycobacterium abscessus | Applied and Environmental Microbiology
The development of a leucine auxotroph-based genetic system for Mycobacterium abscessus addresses critical challenges in mycobacterial genetics. By avoiding established antibiotic resistance markers, ...
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ISVM @isvm-society.bsky.social · 22/07/2026
Looking for a 𝐩𝐨𝐬𝐭𝐝𝐨𝐜 in phage research? A 𝟐𝟒-𝐦𝐨𝐧𝐭𝐡 position is available at 𝐂𝐘 𝐂𝐞𝐫𝐠𝐲 𝐏𝐚𝐫𝐢𝐬 𝐔𝐧𝐢𝐯𝐞𝐫𝐬𝐢𝐭é starting 𝐉𝐚𝐧𝐮𝐚𝐫𝐲 𝟐𝟎𝟐𝟕 to develop genetically engineered therapeutic phages against 𝘚. 𝘢𝘶𝘳𝘦𝘶𝘴 biofilms. 📄Details in the attached announcement—please share! #PhageResearch #Postdoc #ISVM
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Emmanuele Severi @emmseveri.bsky.social · 20/07/2026
#microsky #phagesky Lanthipeptides involved in #phage defence! What a blast!! www.cell.com/cell-host-mi...
cell.com
A family of lanthipeptides with anti-phage function
Shomar, Guillaume, et al. report the genomics-driven discovery of a family of more than 2,000 lanthipeptide biosynthetic gene clusters with anti-phage potential. They experimentally demonstrate anti-p...
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Emmanuele Severi @emmseveri.bsky.social · 17/07/2026
#microsky #phagesky #phage The secret life of prophages journals.asm.org/doi/10.1128/...
journals.asm.org
From hijackers to architects: the role of prophages in bacterial genome evolution | Journal of Bacteriology
Bacteriophages (phages) are one of the most important drivers of bacterial evolution, regulating physiology, genetic diversity, population dynamics, and coevolution through complex host-phage interact...
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Emmanuele Severi @emmseveri.bsky.social · 17/07/2026
#phagesky #microsky #phage www.cell.com/cell-reports...
cell.com
A receptor-centered approach identifies Lom as a LamB-bound superinfection exclusion factor in bacteriophage λ
Ge et al. develop a receptor-centered strategy to identify phage proteins that target host receptors during infection and discover the λ outer-membrane protein Lom. Lom binds and occludes LamB, blocki...
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Emmanuele Severi @emmseveri.bsky.social · 14/07/2026
New #glycotime #glycotimesky paper reporting the super-fun isolation of “rule-breaking” #sialic acid transporter mutants! The phenotype is a real tease, much to ponder about. Worth a read: febs.onlinelibrary.wiley.com/doi/10.1002/...
febs.onlinelibrary.wiley.com
FEBS Press
Biophysical characterisation shows that NanX, a membrane transport protein from the major facilitator superfamily (MFS), forms both monomers and dimers after purification. AlphaFold modelling and sub...
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Reposted by Emmanuele Severi
Nature Biotechnology @natbiotech.nature.com · 09/07/2026
High-quality phage assembly from metagenomes with PALACE www.nature.com/articles/s41...
nature.com
High-quality phage assembly from metagenomes with PALACE - Nature Biotechnology
PALACE combines homology features and deep learning to improve phage assembly from metagenomics.
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Biochemical Society @biochemsoc.bsky.social · 09/07/2026
Registration is now open for Synthetic Biology UK 2026. Join the UK synthetic and engineering biology community on 2–3 November in Hampshire to explore the future of biological design and innovation. ow.ly/x7KT50ZlVF9 🧪
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Alex Crits-Christoph @acritschristoph.bsky.social · 08/07/2026
What are your favorite papers that linked patients, traced outbreaks, or distinguished epidemiological hypotheses on the careful basis of just a few SNVs? Like ~ <20? Bacterial best, viruses OK too
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Sebastian S. Cocioba @atinygreencell.bsky.social · 08/07/2026
@breakliquid.bsky.social and I are delighted to say our OpenEVO preprint is finally live! An open source hand-made turbidostat that's modular, affordable, and made to be customized. Designed with love for the research community. Enjoy!!!💚 www.biorxiv.org/content/10.6...
biorxiv.org
OpenEvo: An Open-Source Platform for Automated Evolution and Analysis
Here we introduce OpenEvo, a fully open-source, low-cost turbidostat platform for automated continuous culture and directed evolution experiments. Existing tools are expensive, complex, or lack open-s...
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Reposted by Emmanuele Severi
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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Xavier Charpentier @labxc.bsky.social · 07/07/2026
#microsky New preprint from the lab! Widespread immune systems protect bacteria against conjugative plasmids www.biorxiv.org/content/10.6... Kudos to the extremely talented lead author Ludovic Poiré! Key contributions by @francoisrousset.bsky.social and also help from C. Lesterlin/TacC lab. 🧵⬇️
biorxiv.org
Widespread immune systems protect bacteria against conjugative plasmids
Conjugative plasmids are a class of mobile genetic elements capable of efficient transfer between bacterial cells. Although they can introduce beneficial traits such as antibiotic resistance to recipi...
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Reposted by Emmanuele Severi
Microbiology Society @microbiologysociety.org · 02/07/2026
Are you a UK-based researcher working in microbiology or environmental biotechnology? Researchers at the University of Edinburgh are seeking your views on the natural environment, microbes and microbiomes. Complete their survey by 17 July: microb.io/4y7OWoX
Heathy soil from regenerative agriculture field stock photo ©iStock/Jacob Mathers
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Emmanuele Severi @emmseveri.bsky.social · 27/06/2026
#microsky #phagesky #phage 440K tail-fibre mutants… 440K… Mind-boggling doesn’t even start describing this
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Vivek Mutalik @vivekmutalik.bsky.social · 27/06/2026
New preprint!! 🎉 A cool collaborative work with @copabio.bsky.social and Chase Beisel teams on the phage editing technology. @sarshad.bsky.social led the work from our side to validate & characterize the lib. #phage #phagesky www.biorxiv.org/content/10.6... Work supported by: phagefoundry.org
biorxiv.org
Targeted DNA nicking enables efficient, single-step and counterselection-free editing of bacteriophage genomes
Genetic manipulation of bacteriophages is essential for interrogating phage biology and advancing antimicrobial therapies. However, current genome editing approaches can be inefficient, require multip...
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Emmanuele Severi @emmseveri.bsky.social · 27/06/2026
#microsky #phagesky #phage www.nature.com/articles/s41...
nature.com
END nucleases are antiphage defence systems targeting multiple phages with modified genomes - Nature Microbiology
The END nuclease targets eight phage families with at least ten different known DNA modifications, but not unmodified DNA. Its specificity is dictated by the C-terminal iEndoIII domain. To combat END,...
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Reposted by Emmanuele Severi
Microbiology Society @microbiologysociety.org · 26/06/2026
Access Microbiology is recruiting Editor Mentees across all fields of microbiology! Applications close 31 July 2026. For more information and details on how to apply, visit our website: microb.io/Vacancies #AcMi
Microbiology Society logo.
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Jose Bengoechea @josebengoechea.bsky.social · 26/06/2026
Recruiting a postdoc to join my lab at @lshtm.bsky.social to work in an MRC porgramme grant funded project to dissect the gut colonziation by Klebsiella. In vivo and in vitro models, and new approaches to identify Klebsiella factors involved. jobs.lshtm.ac.uk/vacancy.aspx...
jobs.lshtm.ac.uk
Job Opportunity at LSHTM: Research Fellow
The London School of Hygiene & Tropical Medicine (LSHTM) is one of the world’s leading public health universities. Our mission is to improve health and health equity in the UK and worldwide; working i...
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Oded Rechavi @odedrechavi.bsky.social · 23/06/2026
Time from submission to acceptance: 3 UK Prime Ministers.
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ISVM @isvm-society.bsky.social · 24/06/2026
📢 Join us at the ISVM General Meeting during #VoM2026 in Prague! 📅 6 July 2026 🕠 17:30–18:30 📍 Prague, Czech Republic We'll discuss: 🔹 ISVM development 🔹 Activities for members 🔹 Future directions and member engagement Programme: www.vom2026.org/program #ISVM #Virology #Microbiology #Phages
VOM2026
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Emmanuele Severi @emmseveri.bsky.social · 25/06/2026
#microsky #phagesky Years ago a stray temperate #phage lysogenised an E. coli mutant of mine unable to take in a Sia. The small portion of lysed cells was enough to predigest the Sia into catabolites the cells could take in and use for growth!!! And here I was 1/2 academic.oup.com/ismej/advanc...
academic.oup.com
Bacteriophage-mediated cell lysis externalizes a metabolically valuable nutrient to broadly modulate bacterial communities
Abstract. Cobamides, including vitamin B12, are essential cofactors exchanged between organisms across diverse ecosystems including oceans, soils, and the
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Emmanuele Severi @emmseveri.bsky.social · 25/06/2026
Chuffed I was included for my mini contribution ❤️. Authentic tour de force and beautiful discovery by the REAL authors of the story! 🎉🎉👏👏👏
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Patrick Moynihan @pmoyniha.bsky.social · 24/06/2026
New paper in collaboration with @proftracypalmer.bsky.social, @lislowe.bsky.social and many more. We show that mycobacteria produce Type VII secreted anti-bacterial protein toxins. Excited to explore this new area of mycobacterial biology. www.nature.com/articles/s41...
nature.com
A Type VII-secreted toxin enables inter-mycobacterial competition - Nature Communications
Mycobacteria have not yet been reported to engage in interbacterial competition via secretion of proteinaceous toxins. Here, Benedict et al. show that some mycobacteria can use their type-VII secretio...
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Tracy Palmer @proftracypalmer.bsky.social · 24/06/2026
Check out our latest T7SS toxin story. These reverse toxins aren’t as rare as we thought!
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Nature Microbiology @natmicrobiol.nature.com · 24/06/2026
Out Now! Phages tame plant pathogens #MicroSky
go.nature.com
Phages tame plant pathogens
Nature Microbiology, Published online: 23 June 2026; doi:10.1038/s41564-026-02395-3Predicting infection heterogeneity requires looking beyond the host. Phage–bacteria coevolution in tomato fields maintains diverse bacterial strategies and explains uneven disease occurrence across plant populations.
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Emmanuele Severi @emmseveri.bsky.social · 22/06/2026
#microsky More Tat!!! www.nature.com/articles/s41...
nature.com
Structure and substrate recognition by the bacterial twin-arginine translocation (Tat) core complex - Nature Microbiology
Cryo-EM structural, biochemical and functional analyses of the bacterial twin-arginine translocation system for protein transport across membranes reveal mechanisms of substrate binding.
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Emmanuele Severi @emmseveri.bsky.social · 22/06/2026
#microsky Gosh, Tat!! www.cell.com/molecular-ce...
cell.com
Structure of E. Coli twin-arginine translocase (Tat) complex with bound cargo
The structure of the Tat protein complex bound to a substrate reveals how folded proteins are recognized and offers insight into subsequent substrate transport across the membrane.
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Matt Hutchings @handle.invalid · 21/06/2026
Structures of DnaA domain I reveal a dimer conserved across Actinomycetes academic.oup.com/nar/article/...
academic.oup.com
Structures of DnaA domain I reveal a dimer conserved across Actinomycetes
Abstract. DNA replication is a fundamental process in biology, and initiation marks a key regulatory step. In bacteria, DNA replication is initiated by the
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Emmanuele Severi @emmseveri.bsky.social · 20/06/2026
#microsky #glycotime #glycotimesky and kinda #sialicacid New tools to study protein pseudaminylation www.nature.com/articles/s41...
nature.com
Uncovering bacterial pseudaminylation with pan-specific antibody tools - Nature Chemical Biology
Pseudaminic acids (Pse) are a family of carbohydrates found within bacterial lipopolysaccharides, capsular polysaccharides and glycoproteins. Now, monoclonal antibodies have been developed that recogn...
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Ákos T Kovács @evolvedbiofilm.bsky.social · 17/06/2026
Bacterial–fungal interactions: connections and consequences Essays Biochem by Rebecca A. Hall and @katherine-baxter.bsky.social portlandpress.com/essaysbioche...
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Emmanuele Severi @emmseveri.bsky.social · 17/06/2026
#microsky and kinda #phagesky www.nature.com/articles/s41...
nature.com
Structure of a contractile injection system in Salmonella enterica subsp. salamae - Nature Communications
Contractile injection systems (CISs) are nanomachines that inject proteins into target cells. Here, the authors resolve the atomic structure of a CIS in the opportunistic human pathogen Salmonella ent...
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BejaLabTechnion @bejalab.bsky.social · 17/06/2026
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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Ákos T Kovács @evolvedbiofilm.bsky.social · 16/06/2026
Biosynthetic gene clusters in Pseudomonas viridiflava have a fitness cost during Arabidopsis thaliana infection #mSystems by Alejandra Duque-Jaramillo et al from Talia Karasov, Detlef Weigel @plantevolution.bsky.social journals.asm.org/doi/10.1128/...
orcid.org
ORCID
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Reposted by Emmanuele Severi
George O'Toole (he/him/his) @geiselbiofilm.bsky.social · 16/06/2026
Check out out the 15 papers that are part of our collction called "The Pseudomonads: Versatile Organisms" - lots to learn about this interesting bug! journals.asm.org/topic/sss-ta... @asm.org #JBacteriol
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STCmicrobeblog @stcmicrobeblog.bsky.social · 16/06/2026
#MicroSky
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Emmanuele Severi @emmseveri.bsky.social · 16/06/2026
#microsky #phagesky AF3 models of Klebsiella #phage RBPs. This was done for coliphages and (to a lesser extent) phages against A. baumannii. Field heating up! www.biorxiv.org/content/10.6...
biorxiv.org
Structural modularity of receptor-binding proteins underlies host-range strategy diversification in Klebsiella pneumoniae phages
Bacteriophage receptor-binding proteins (RBPs) determine bacterial host recognition and are central to phage host-range evolution, yet the structural principles governing how RBPs diversify and expand...
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Emmanuele Severi @emmseveri.bsky.social · 15/06/2026
#microsky #synbiosky #streptomyces academic.oup.com/nar/article/...
academic.oup.com
Inducible CRISPRi enables efficient and high-fidelity genome editing in Streptomyces
Abstract. Streptomycetes are prolific producers of bioactive natural products, but many of the biosynthetic gene clusters (BGCs) are silent in the laborato
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Emmanuele Severi @emmseveri.bsky.social · 14/06/2026
#microsky #glycotimesky #glycotime #microbiomesky I read “mucin” & I think “sialic acid” ;-) www.nature.com/articles/s41...
nature.com
Cayman enables large-scale analysis of gut microbiome carbohydrate-active enzyme repertoires - Nature Microbiology
Cayman enables computational analysis of carbohydrate-active enzymes (CAZymes) in microbial community data. It revealed novel mucus-foraging gut microorganisms and differences in gut microbial CAZyme ...
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STCmicrobeblog @stcmicrobeblog.bsky.social · 13/06/2026
new pili for the lilliputians (CPR/Patescibacteria) 👇 #MicroSky
Figure 1. (D) Representative cryo-675
EM micrograph showing morphologically uniform filaments. Red and green arrowheads indicate the two distinct pilus types identified by 2D classification. Scale bar, 100 nm
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