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

All microbiologists have fond memories of spending hours in lab kitchens preparing synthetic media. In this work, authors show that by adding trace elements to the mix greatly reduces technical variability in microbial growth experiments. Cool stuff! 🔗 royalsocietypublishing.org/doi/full/10....

submitted 1 day ago • 2 comments

ICYMI @katholt.bsky.social and I wrote a piece on genomic data sharing and the legacy of foundational HGP documents, the Bermuda Principles and the Ft Lauderdale Agreement. We ask: What do we want science to look like? Who should be included or excluded from doing science? bsky.app/profile/natr...

submitted 3 days ago • 0 comments

Supported by @camo-net.bsky.social's travel grant, I attended the 20th International Congress on Infectious Diseases (ICID 2024) and CAMO-Net meeting in Cape Town, South Africa in early-December 2024. In this blog, I share my reflections on this productive journey. camonet.org/2025/02/20/d...

submitted 5 days ago • 0 comments

"I think, therefore I am", Descartes's philosophy underscores the essence of being a human.

submitted 7 days ago • 0 comments

Out now, a comprehensive guide to metagenomics -- from sample collection to data analysis. This primer covers best practices, challenges, and applications in health, agriculture & environment. A roadmap for studying microbial communities 👇 www.nature.com/articles/s43...

submitted 30 days ago • 2 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 8 days ago • 1 comment

This is another excellent output from our @imperialcollegeldn.bsky.social HPRU - highlighting how blending academic expertise with national public heath responses brings immense benefit. Please see @aliciad3.medsky.social’s past posts to see the wealth of output on the S. capitis response alone.

submitted 9 days ago • 1 comment

Excited to share our latest publication on Staphylococcus capitis. Here, we provide complete genome assemblies and accompanied antimicrobial MIC values of 22 genetically diverse isolates, including the type strains DSM 6717 (subsp. urealyticus) and DSM 20326 (subsp. capitis). doi.org/10.1186/s128...

submitted 9 days ago • 1 comment

It was a great pleasure to visit UCL's Grant Museum of Zoology near the Euston Railway Station in London. The slide walls were impressive.

submitted 11 days ago • 0 comments

Helpful guidance if PubMed ‘goes down’ - use Europe PMC and doi from Crossref 🧪

submitted 11 days ago • 0 comments

OK folks, I have now created a google form that allows people to sign to show their support for my open letter to the President of the Royal Society. Please sign and share widely: forms.gle/miDciq35oxyw...

submitted 15 days ago • 22 comments

Antimicrobial resistance data is now on the UKHSA data dashboard! 🧫 ukhsa-dashboard.data.gov.uk/antimicrobia...

submitted 16 days ago • 1 comment

Modern-Day Oracles or Bullshit Machines? Jevin West (@jevinwest.bsky.social) and I have spent the last eight months developing the course on large language models (LLMs) that we think every college freshman needs to take. thebullshitmachines.com

submitted 22 days ago • 125 comments

It's so proud to be elected as a member of the British Society for Antimicrobial Chemotherapy (BSAC). Looking forward to Society's events and making my contributions. @bsacandjac.bsky.social

submitted 18 days ago • 0 comments

Dot plots are an effective (if old school!) way to visualise the pairwise comparison of genomes. For our recent pangenomics project (rdcu.be/d8PZ7), I wrote a small Python package to produce publication ready dot plots. Check it out! github.com/drboothtj/do... pypi.org/project/dotp... 🧪🧬🦠

submitted 20 days ago • 0 comments

Medical journal editors must resist CDC order and anti-gender ideology via @bmj.com www.bmj.com/content/388/...

submitted 20 days ago • 0 comments

Global health partnerships help combat AMR by strengthening antimicrobial stewardship and education, as seen in a Zambia-UK collaboration training pharmacy champions and improving prescribing practices. pharmaceutical-journal.com/article/opin...

submitted 20 days ago • 0 comments

It's even worse. I noted a few of my previously submitted genomes were missing from NCBI's queue of processing, and my published genome assembly had a wrong version, with my recent update to GenBank missing. Hope they can recover my data. Otherwise, it's a terrible incident in managing public data.

submitted 20 days ago • 0 comments

Scientific drawing is an important skill that used to be an integral part of a scientist's training 📝 I use vectors for my drawings- here are 5 reasons why they are awesome (1/6 🧵)

submitted 51 days ago • 3 comments

The PopPIPE (github.com/bacpop/PopPIPE) analysis pipeline can be used to subcluster data, create visualisations and run transmission analyses. Preprint now here: www.biorxiv.org/content/10.1... Including a case study on nosocomial transmission of vancomycin resistant Enterococcus faecium

submitted 78 days ago • 0 comments

Infectious Disease Modelling starter pack update! First pack is full so I created a second one. Pls keep on sending suggestions! (bio should contain experience relevant for this pack) IDModelling pack 1: go.bsky.app/86Ao1a5 IDModelling pack 2 : go.bsky.app/2oBB7KX

submitted 96 days ago • 13 comments

Incredibly excited to share that our manuscript was just published in @nature.com ! What a way to start the new year! 🎉 https://buff.ly/4gyYCzx We present phylowave, a framework that enables to learn the fitness dynamics of pathogens from phylogenies. 🧵 A thread... 1/n #IDSky #IDModelling

submitted 55 days ago • 4 comments

Conference report of the 2024 Antimicrobial Resistance Meeting on 13–15th March 2024, in Hinxton, UK by @ksbakes.bsky.social @sylvainbrisse.bsky.social et al. www.nature.com/articles/s44...

submitted 28 days ago • 0 comments

I just made a starter pack on Ecology and Evolution of AMR. 🦠 ⚡ 💊 Feel free to suggest names and I’ll add them as soon as I can!! go.bsky.app/CwEzc79

submitted 107 days ago • 32 comments

I wanted to write briefly about a very pleasant experience we recently had coordinating and collaborating closely on competing publications with 2 other teams. 1/

submitted 33 days ago • 2 comments

Use the Human Microbiome Compendium data! We made the data and code available, & created a website and R package to navigate the compendium. Links: - Website: microbiomap.org - Data: zenodo.org/records/1373... - R package: blekhmanlab.github.io/MicroBioMap/ - Code: github.com/blekhmanlab/...

submitted 33 days ago • 3 comments

Excited to introduce the preprint for CoverM: the Swiss Army knife of coverage calculators for metagenomics! 🧬🖥️ DOI: doi.org/10.48550/arX... @benjwoodcroft.bsky.social @viralinstruction.bsky.social @apcamargo.bsky.social

submitted 35 days ago • 2 comments

Do you make core genome alignments for phylogenomics? Mona Taouk and I explored how including sites with some missing data (a soft core) can improve analysis, especially for large datasets. www.microbiologyresearch.org/content/jour... (1/4)

submitted 37 days ago • 2 comments

If your New Year's resolution involves reading more books here is a list of recommended titles about the microbial world in, on and around us that will blow your mind. 🦠🧫🔬📚📖🤓

submitted 56 days ago • 7 comments

#KLEBS2024 replay now available at www.klebs-2024.conferences-pasteur.org/replay - great opportunity to catch-up about #Klebsiella or to relive the conference - enjoy!

submitted 54 days ago • 0 comments

New year, new assemblies! I'm excited to announce Autocycler, my new tool for consensus assembly of long-read bacterial genomes! It's the successor to Trycycler, designed to be faster and less reliant on user intervention. Check it out: github.com/rrwick/Autoc... (1/5)

submitted 57 days ago • 2 comments

www.nature.com/articles/s41... New paper out!!

submitted 58 days ago • 1 comment

Find out in our interactive timeline how devastating infections like polio, cholera, plague, measles and diphtheria became preventable and treatable diseases. In English, Welsh, Gaelic, Irish, Spanish and German. #ScienceMatters #VaccinesWork 🧫🦠🔬 🤧🤒 🏥💊💉 🇬🇧🏴󠁧󠁢󠁷󠁬󠁳󠁿🏴󠁧󠁢󠁳󠁣󠁴󠁿🇮🇪🇪🇸🇩🇪

submitted 59 days ago • 0 comments

Shocking and despicable. Exploiting the arguably most vulnerable people in society. No wonder public trust in scientists is moving towards rock bottom. Thank you @elisabethbik.bsky.social and all the others shining a light into these dark corners of 'research'.

submitted 58 days ago • 0 comments

Walked to Liverpool Cathedral this afternoon and found Kitty Wilkinson's (1785-1860) tombstone nearby. Kitty was an Irish migrant and helped her neighbourhood in maintaining hygiene during the 1832 cholera outbreak in #Liverpool. Later, she opened UK's first public washhouse here to combat diseases.

submitted 59 days ago • 1 comment

This morning #Klebsiella2024 @olayarendueles.bsky.social is presenting work on the interactions between capsule, fitness and Horizontal Gene Transfer in Klebsiella pneumoniae. Great story, some of it published journals.plos.org/plosbiology/...

submitted 96 days ago • 0 comments

Some cracking papers in MGen this week! zoonotic transmission of asymptomatic Staph aureus in dairy farms www.microbiologyresearch.org/content/jour...

submitted 82 days ago • 1 comment

"Disentangling the impact of environmental and phylogenetic constraints on prokaryotic within-species diversity" by @omaistrenko.bsky.social (2020) investigated which factors contribute to pangenome size – e.g. it's higher in soil and lower in host-associated habitats academic.oup.com/ism...

submitted 82 days ago • 0 comments

It was a pleasure to present UKHSA's incident response to Staphylococcus capitis in neonatal units at @bsacandjac.bsky.social #Infection2024 Our findings in a 🧵, with links to publications... 1/n #IPSky #AntimicrobialResistance #AMSSky

submitted 83 days ago • 4 comments

Behind the first door of the 100% CI advent calendar is a new blog post! In which I hand out unsolicited writing advice -- with a focus on writing about technical topics in an accessible manner, but most of it is fairly general: www.the100.ci/2024/12/01/w...

submitted 87 days ago • 18 comments