marvig.bsky.social - Profile | ThreadSky | a Reddit-style client for Bluesky

Excited to share the first beta release of AMRrules at #ABPHM! (Poster 42 tonight) interpretamr.github.io/AMRrules

submitted 14 days ago • 5 comments

Today "a milestone in the evolution of personalized therapies for rare & ultra-rare inborn errors of metabolism" —the 1st human to undergo custom genome editing —from decades of NIH funded research www.nejm.org/doi/full/10.... @nejm.org www.nejm.org/doi/full/10.... www.nytimes.com/2025/05/15/h...

submitted 21 days ago • 10 comments

Great paper by @target-amr.bsky.social leadership team colleagues @drtessjohnson.bsky.social and Steph Johnson on the ethics of clinical metagenomics www.microbiologyresearch.org/content/jour...

submitted 27 days ago • 0 comments

Great paper out by Ben Chan, Jon Koff and co at Yale highlighting compassionate use of phage therapy in nine patients with CF with multi-drug resistant strains of Pseudomonas aeruginosa www.nature.com/articles/s41...

submitted 35 days ago • 1 comment

Human de novo mutation rates from a four-generation pedigree reference www.nature.com/articles/s41... 🧬🖥️🧪

submitted 34 days ago • 0 comments

Do people in the same household share strains when they have the same species? How many cells transmit when a strain is shared? Can strain composition be dynamic when species composition is stable? We answer these and related questions for the facial skin microbiome in our latest paper. 🧵[1/10]

submitted 35 days ago • 4 comments

Happy to share the first preprint from my lab. Great work by Lewis Fisher and collaboration with Jukka Corander www.biorxiv.org/content/10.1...

submitted 35 days ago • 1 comment

Our paper out in @cidjournal.bsky.social 2-years of real-time genomic surveillance + intervention - 172 outbreaks, 476 transmissions - 95% of interventions halted transmission - 62 infxs prevented - $695,000 net savings, 3.2 ROI Should this be standard? #IDSky 📄: academic.oup.com/cid/advance-...

submitted 36 days ago • 4 comments

I love both these stories. They are inspiring, and I am also working heavily on metagenomic diagnostics But this also shows we have made little to zero progress in a decade in using NGS in clinical microbiology and ID, which is depressing www.bbc.co.uk/news/article... www.nejm.org/doi/10.1056/...

submitted 36 days ago • 3 comments

🦠Happy to share that our paper studying >3000 Klebsiella pneumoniae genomes in a #OneHealth perspective is now published in Genome Medicine! #MicroSky 🎉 @irenlohr.bsky.social @katholt.bsky.social genomemedicine.biomedcentral.com/articles/10....

submitted 36 days ago • 0 comments

I am very happy (and anxious) to share with you our most recent work in which we evaluated four of the most popular long-read assemblers, www.biorxiv.org/content/10.1... and tell you just a little bit about it in the following 🧵

submitted 38 days ago • 5 comments

Antibiotics are life-saving, but even short use can drive resistance in gut bacteria, with mutations lasting over a year, as seen here for ciprofloxacin. Antibiotic stewardship helps protect these powerful drugs for the future. #AMR #OneHealth #AntibioticResistance www.nature.com/articles/s41...

submitted 43 days ago • 0 comments

I spent a week in Georgia 🇬🇪 talking about genomic epidemiology: from the very basics to case studies and false information as a part of the EU funded TWINNING project. It was a week full of beautiful Tbilisi 🏔, incredible food 🥘 and insightful discussions about the power of genomic epidemiology 🧬.

submitted 52 days ago • 1 comment

Ceftazidime-avibactam (a last resort drug) use selects multidrug-resistance and prevents designing collateral sensitivity based therapies against P. aeruginosa (no robust patterns emerge). Happy to see it published! 🥳 @cnb-csic.bsky.social @idisba.bsky.social www.nature.com/articles/s41...

submitted 57 days ago • 2 comments

Dear American friends. We agree that status quo in the Artcic is not an option. So let’s talk about how we can fix it - together. Lars Løkke Rasmussen Danish Foreign Minister

submitted 69 days ago • 78 comments

Cell free microbial DNA as a biomarker of Infection is nascent, but intriguing. Intuitively it makes sense, but undoubtedly we'll end up in the weeds of sensitivity, specificity and defining the true gold standard for clearance of infection! #IDSky #ClinMicro #AMR @cidjournal.bsky.social

submitted 83 days ago • 1 comment

Landmark paper claxon! 'Evaluating the economic and health impact of proactive genomic epidemiology in a hospital setting' www.medrxiv.org/content/10.1... Significant savings associated with proactive genomic epidemiology.

submitted 107 days ago • 4 comments

New pre-print from folks @ Copenhagen University Hospital: 🔬 28-month WGS surveillance 🦠 7,760 patient infections 📊 27.1% genetically related, 69% w/ epi link 💰 €1.25M net savings/year if acted upon/prevented! #IDSky more great evidence for WGS for IP&C 📄: www.medrxiv.org/content/10.1...

submitted 107 days ago • 0 comments

In this study, 18 940 clinical isolates from 7 760 patients were WGSed. >27% of the patients are suspected for between-patient transmission of bacterial isolates. Almost 70% had direct or indirect epidemiological links. 1/3

submitted 107 days ago • 1 comment

I was today years old when I learned what Newick trees were named for... "Newick trees, named after a meeting of several scientists in Newick’s restaurant in Dover, New Hampshire, in 1986 (Archie, Day, Maddison, Meacham, Rohlf, Swofford, and Felsenstein;" doi.org/10.1093/jher...

submitted 121 days ago • 2 comments

Interested in predicting AMR in bacteria? We show ignoring phylogenetic structure in genome collections leads to overly optimistic evaluations of machine learning methods for AMR prediction. With @nwheeler443.bsky.social and former PhD student Yanying Yu. 🦠🧫🧬🖥️🧪 www.biorxiv.org/content/10.1...

submitted 139 days ago • 2 comments

We derive iron-siderophore interaction networks among Pseudomonas strains from sequencing data. One key insight: natural strains form dense networks, whereas pathogens are loners. With @frimanscience.bsky.social @zhiyuanli.bsky.social & Nanjing colleagues www.science.org/doi/10.1126/...

submitted 140 days ago • 1 comment

Siderophore synthetase-receptor gene coevolution reveals habitat- and pathogen-specific bacterial iron interaction networks Science Advances from Zhong Wei, Zhiyuan Li at Nanjing Agricultural University with @rkmicrobes.bsky.social @frimanscience.bsky.social Alex J www.science.org/doi/10.1126/...

submitted 140 days ago • 0 comments

Ha, a taxonomy time machine. I bet it has fun with with virus names over coming months

submitted 174 days ago • 1 comment

Our blood tests are interpreted by average reference values. That's missing a lot of rich information! Each person has their own tightly regulated setpoints. One healthy person's complete blood count setpoint can be differentiated from 98% of other healthy adults. www.nature.com/articles/s41...

submitted 176 days ago • 9 comments