Using AI as a teaching partner: enhancing critical thinking and digital literacy in microbiology journals.asm.org/doi/10.1128/... #jcampubs

Our paper is finally out! 🥳 If you want to know how a single Salmonella effector rewires the whole macrophage transcriptional landscape by hijacking one host transcription factor, check our latest research! Thanks to the @thurstonlab.bsky.social and @peterwshill.bsky.social labs for an amazing work!

Thrilled to share the first paper from the lab, out now in Molecular Cell! A wonderful collaboration with @thurstonlab.bsky.social bridging Salmonella host-pathogen interactions and regulatory genomics - two of my favourite things in one story. www.cell.com/molecular-ce... 🦠 🧵1/10

www.science.org/doi/10.1126/... 🦠 #AMR

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...

Epigenetics Update - Regulation of inflammatory responses by pH-dependent transcriptional condensates bit.ly/4kJ2Ju0 Ruslan Medzhitov and Xu Zhou reporting in Cell #Epigenetics #Condensates #Chromatin --- Perfect for cancer, immunology, and aging research; epigenometech.com

🧫🦠🔬🧬🖥 A much needed review on #plasmids from @eprocha.bsky.social lab!

We have a new preprint on Salmonella effector SteE! Here we describe how kinase reprogramming drives transcriptional remodelling of the infected macrophage www.biorxiv.org/cgi/content/... - work led by @ines-ddo.bsky.social and fantastic collaboration with @peterwshill.bsky.social

🌟 paper tweetorial! 🌟 check out my first first-author paper from my Ph.D! We wrote a small (=easy-to-read) Perspective piece trying to bridge the gap between #evolutionarybiology and the expanding world of #genomic assays, specifically #chromatin conformation capture (3C and related approaches) 🧵1/7

🧬🖥️ scAtlas of CD34+ cells from 148 people reveals how circulating hematopoietic stem/progenitor cells (cHSPCs) shift with age, sex & disease. Reference model enables myelodysplastic syndrome (MDS) diagnosis. From great Liran Shlush & Amos Tanay ‪@natmed.nature.com‬: doi.org/10.1038/s415... 🧪

#Medsky🧪 #IDsky #immunosky Macrophages are versatile innate immune cells that act as sentinels, warriors & healers in virtually every tissue. This review on current insights into their developmental origins and the organ-specific cues that imprint diverse tissue-resident & monocyte derived programs

In this episode of the Epigenetics Podcast, Petra Hajkova from the @mrc-lms.bsky.social‬ discusses her research on mammalian development, focusing on DNA methylation, histone modifications and TET enzymes. #podcast #epigenetics 🎧 Listen here: activemotif.com/podcasts-pet...

NEW Highlight of @nature.com paper by @davidjlynn.bsky.social and colleagues @sahmri.bsky.social reporting a prospective observational study of human immune responses to #vaccination after early-life #antibiotic exposure. #immunology #immunosky #medsky #IDsky #pedsky #publichealth

Reporting in Nature, Eitan Yaffe and colleagues demonstrate that resistance to an antibiotic can rapidly emerge in commensal gut bacteria in vivo, and that such resistant lineages can persist for a long period following cessation of the antibiotic. 👇 🧪 www.nature.com/articles/s41...

🚨 Exciting news for #UKCellMicro2025! The meeting is now supported by the EMBO Young Investigator Programme We’re thrilled to have their backing for this year’s meeting. 🌟 🔗 Full details & programme: www.ukcellmicro.org #CellMicro #ECR #EMBO

Adapting systems biology to address the complexity of human disease in the single-cell era go.nature.com/3XBo6Vh #Review by @davidsebfischer.bsky.social, Martin A. Villanueva, Peter S. Winter & Alex K. Shalek @broadinstitute.org @mitofficial.bsky.social @ragoninstitute.bsky.social

🚨 New paper on ArXiv: “Uncertainty quantification and posterior sampling for network reconstruction” TL;DR; We present an efficient method to sample the entire ensemble of possible network reconstructions that are compatible with an indirect observation, e.g. a dynamics. Short thread: 1/N

Given hyperbole about this paper www.nature.com/articles/s41... in the news today (eg www.bbc.co.uk/news/article...) it is a good day to post this classic from >20 years ago: www.microbiologyresearch.org/content/jour...

#Immunology out now @science.org Machine learning, using the sequences of an individual's B and T cell receptors, has the potential to diagnose immune-related diseases. https://buff.ly/3QvxSVf By Maxim Zaslavsky, Erin Craig, @anshulkundaje.bsky.social , @scottboydlab.bsky.social et al.

Are you interested in bacterial pathogen physiology 🧫 and their interactions with our tissues during infections? Alex and I wrote about how organoids + microbiology offer a powerful, tractable way to decode these interactions. Check it out! 👇 🔗 doi.org/10.1038/s443... @embojournal.org  #MicroSky

Legitmately thrilled to share our latest work, in which @fernpizza.bsky.social solved an experimental challenge in plasmid biology as old as the field: measuring how plasmids compete and evolve within individual cells!

Nature whispering (from Crow & Casanova, Human life within a narrow range: The lethal ups and downs of type I interferons) #Immunology www.science.org/doi/abs/10.1...

Identifying perturbation targets through causal differential networks #SingleCell 🧪🧬🖥️ https://arxiv.org/abs/2410.03380

Fun to share our experience using tissue micro arrays to lower cost and increase throughput in spatial transcriptomic studies.

Awesome data from the Moffit lab! #spatialbiology www.science.org/doi/abs/10.1...

How cool! Amit Singh lab shows M. tuberculosis exploits macrophage metabolism to dodge drugs. Flipping macrophages from OXPHOS to glycolysis with FDA-approved meclizine subverts redox heterogeneity & cuts drug tolerance 🚀 #TBResearch #DrugResistance #MicroSky www.biorxiv.org/content/10.1...

Is it anything Hfq-like (RNA chaperone)? Or similar to CsrA (global translation modulator)? We don't know yet. But as it stands, Bacteroidota RRM proteins appear as excellent candidates to map post-transcriptional networks in a substantial fraction of the microbiota. www.nature.com/articles/s41...

🌟 Exciting news! Our latest collaborative research with team @aarhusuni.bsky.social introduces pH-FISH, a novel technique combining pH ratiometry and FISH to simultaneously unravel microbial identity and local biofilm pH. 🔬 🧪 #MicroSky link.springer.com/article/10.1... #Microbiome #Biofilms

1/🚀 Excited to share RegVelo, our new cell model combining RNA velocity with gene regulatory network (GRN) dynamics to model cellular changes and predict in silico perturbations. Here's how it works and why it matters! 🧵👇 biorxiv.org/content/10.1101/2024.12.11.627935v1

I’m excited to share our latest study led by @giuliapasquesi.bsky.social out today in @cellpress.bsky.social , uncovering a new way transposons have been repurposed for human interferon signaling! Read on for a thread on cryptic splice variants, decoy receptors, and viruses (1/N) 👇🧵 #TESky 🧪

Today we report that an engineered skin bacterium, swabbed gently on the head of a mouse, can unleash a potent antibody response against a pathogen. Could lead to topical vaccines that are applied in a cream. @djenetbousbaine.bsky.social led the charge... @natureportfolio.bsky.social 1/55

Check out this bombshell publication by Michael Fischbach @mfgrp.bsky.social and coworkers @stanford-chemh.bsky.social @stanfordmedicine.bsky.social, imagine a cancer immune therapy/vaccine where treatment begins and ends with a painless topical skin treatment! 🤯 www.nature.com/articles/s41...

🚨 Delighted to share our paper defining a new role for IL-6 in TB. 🚨 We used genetic variation to show *reduced* IL-6 signalling is causally associated with *lower* risk of TB. Lead author @gushamilton.bsky.social #TBSky #IDSky #ImmunoSky www.thelancet.com/journals/lan... Thread 👇 (1/8)

This drug repurposing project for the clearance of intracellular pathogens - led by @ronni.bsky.social - is now published in ASC Infectious Diseases. 🤩 pubs.acs.org/doi/10.1021/...

This week #ScienceMagazine Ribozyme-activated mRNA trans-ligation enables large gene delivery to treat muscular dystrophies #URochesterResearch @urochester.bsky.social www.science.org/doi/10.1126/...

New #Preprint from INSERM Paris: 🔬Mucosa isolated #Tcells from #CrohnsDisease patients show increased interaction with AUTOLOGOUS(!) organoids, leading to: - ⚡Enhanced epithelial differentiation - 💥Increased epithelial cell death - 🛡️Cytotoxic T cell activation www.biorxiv.org/content/10.1...

Hopefully DURATION study will eventually inform on whether we may be able to go even lower than 7 days.... (not comparing like with like, i know, as this study inclusion is pyelo, irrespective of bacteraemia) #UTISky #IDSky www.phctrials.ox.ac.uk/recruiting-t...

Recent paper (Nature)-why are males more vulnerable to severe infections (ex acute #COVID), while females suffer more from autoimmunity (SLE, MS etc and also #LongCovid)? X/Y or hormones? We study adaptation of immune systems in gender-affirming testosterone treatment: nature.com/articles/s41...

This is a cool story that may contribute to Staph aureus survival in tissues rich in collagen (skin & bone to name 2!) Bacteria adapt by increasing collagen degradation and using breakdown proline as fuel! #IDSky #MicroSky #MedSky 🧪 www.nature.com/articles/s41...

Inhibition of neutrophil swarming by type I interferon promotes intracellular bacterial evasion Nice paper on co-infections and how in heavy viral infection this can weaken anti-bacterial responses, also by inhibiting neutrophil swarming. www.nature.com/artic... 1/9

The march of the mRNA vaccines goes on. Clostridiodes difficile (C diff) next... #IDSky #MicroSky #MedSky 🧪 www.science.org/doi/10.1126/...

Thinking of doing a PhD? Come and join our group! Applications now open for the @kcl.ac.uk MRC doctoral training programme. Our project on targeting macrophage plasticity with RNA drugs during invasive Salmonella infections can be found here kcl-mrcdtp.com/project/targ...

Nice evidence that, in mice, macrophages important in controlling #tuberculosis infections #ImmunoSky #TB #IDSky #MicroSKy "Disruption of GM-CSF production in the lungs severely affects the ability of mice to control Mycobacterium tuberculosis infection" jlb.onlinelibrary.wiley.com/doi/full/10.....

'In a mouse model of abdominal #sepsis (...) Abrogating bacterial ATP release shows that bacterial ATP suppresses local immune responses, resulting in reduced neutrophil counts & impaired survival' #Immunology #Immunosky

This is so true. Antibiotic use is always a double edge sword. They have tremendous benefits, even as post exposure prophylaxis, but we need to weight that up against risks of resistance. #AMR #IDSky #MicroSky www.thelancet.com/journals/lan...

'As demonstrated in this review, 277 human pathogenic diseases can be aggravated by the broad array of climatic hazards triggered by our ongoing emission of GHGs and include 58% of all infectious diseases known to have impacted humanity in recorded history.' www.nature.com/articles/s41...

Sobering story from @bbcbreaking-bot.bsky.social about how fast sepsis can strike and how it is no respecter of age. Glad to have been able to contribute to this vital awareness raising with Sepsis Research FEAT nd also good to hear Freddie has made a great recovery. www.bbc.co.uk/news/article...

One for the bacterial vaccinologists 'A rationally designed antigen elicits protective antibodies against multiple nosocomial Gram-positive pathogens [Enterococcus faecium, Enterococcus faecalis, Staphylococcus aureus]' www.nature.com/articles/s41...