Josie Bryant

Was great to put the dream team back together for a commentary on this with @alisonmather.bsky.social very cool study on AMR flow through food production chains in Europe www.nature.com/articles/s41...

Super interesting. Does it work for NTM?

Be thAIR or be squAIR

(My second entry into the organising committee pun competition. A winner there I think).

Early notice of NEW Wellcome Conference -
AIR 2026: Genomic and Systems Approaches to Respiratory Infection, Microbiomes and Immunity 11th-13th February, sign up below for notifications

coursesandconferences.wellcomeconnectingscience.org/our-events/c...

It's immunulogy AND it's microbiology 🫁

⭐ Excellence fellowships accepting applications ⭐ for Black ECRs who have a degree from the UK. sanger.wd103.myworkdayjobs.com/en-US/Wellco...
I have an amazing spatial transcriptomics project available on the world's most important pathogen, TB: www.sanger.ac.uk/wp-content/u...
Please reach out!

BEAST X for Bayesian phylogenetic, phylogeographic and phylodynamic inference - Nature Methods BEAST X advances Bayesian phylogenetic, phylogeographic and phylodynamic analysis by incorporating a broad range of complex models and leveraging advanced algorithms and techniques to boost statistica...

BEAST X for Bayesian phylogenetic, phylogeographic and phylodynamic inference

www.nature.com/articles/s41...

Great faculty opportunities within the Cellular Genomics Programme @sangerinstitute.bsky.social

Please share with your networks and do contact me if you would like to find out more

sanger.wd103.myworkdayjobs.com/en-US/Wellco...

New paper that looked at 15 million biomedical abstracts and found specific words that abruptly increased in frequency in 2024, likely due to the authors using LLMs.

Take home message: don't use the word "Delve"

www.science.org/doi/10.1126/...

Prevalent chromosome fusion in Vibrio cholerae O1 - Nature Communications The pathogenic bacterium Vibrio cholerae typically has two circular chromosomes. Here, Cuénod et al. analyse 467 clinical isolates and identify several independent chromosome fusion events that are li...

One of my favourite serendipitous results from the lab came about because we were long-read sequencing bacterial:

Vibrio cholerae, which is "supposed to" have TWO circular chromosomes (3 + 1 million base pairs) often has just ONE fused chromosome (4 Mbp).

www.nature.com/articles/s41...

(1/n)

I did loads of writing and panic applied to loads of awards at the end of both my pregnancies. Didn't get any of the awards and all the writing was crap

The natural history of the emergence of sexually transmissible shigellosis Shigellosis is a gastrointestinal illness caused by bacteria belonging to one of four species of Shigella . Sexually transmissible shigellosis was first reported in 1974, but recently there has been a...

Sexually transmissible shigellosis has gone from an obscure cause of sporadic outbreaks to a sustained endemic AMR priority in only two decades! 🧫💊 Check out our latest preprint to understand how this happened 1/11
www.medrxiv.org/content/10.1...

Congrats Lindsey!!! 🎉

I am excited to begin my new journey as the Head of Cellular Genomics @sangerinstitute.bsky.social

We will decode and recode tissue ecosystems using AI + big data…

Our amazing faculty include Roser Vento-Tormo, @bayraktarlab.bsky.social, Mo Lotfollahi, Sam Behjati and Song Chen..

www.bath.ac.uk/jobs/Vacancy...
Post doc available to work on Candida genomics with me at the Milner Centre for Evolution (U Bath, UK) as part of the JPIAMR funded project Fugaci www.jpiamr.eu/projects/fug...
For queries, email me!

New Research Assistant position available in my lab to work on a project testing the efficacy of pills dependent #phage against clinical isolates of enteric bacteria . Part of a growing phage research theme in my lab my.corehr.com/pls/uoxrecru...

Happy to share our first preprint looking at the nasal microbiome in ~1000 healthy adults from the CARRIAGE study of 20,000 healthy blood donors to understand nasal colonisation by Staphylococcus aureus. Ten years in the making! doi.org/10.21203/rs....

A tube-based biosensor for DNA and RNA detection The sensor performs cheap, sensitive, and visual DNA/RNA detection based on target-triggered change of surface wettability.

Scientists in Beijing built a 10¢ test that detects Covid in under 1 minute—faster, cheaper & more sensitive than PCR or CRISPR. No machines, no enzymes, no labs. Just flip a test tube and read the result, similar to a pregnancy test but faster & more sensitive.

www.science.org/doi/10.1126/...

Escherichia coli with a 57-codon genetic code The near-universal genetic code of living organisms uses 64 codons to encode the 20 canonical amino acids in protein synthesis. Here we design and generate a variant of Escherichia coli with a 4 Mb sy...

Interesting. A 57-codon genome. www.biorxiv.org/content/10.1...

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]

Global genetic structure of human gut microbiome species is related to geographic location and host health The human gut harbors thousands of microbial species, each exhibiting significant inter-individual genetic variability. Although many studies have ass…

Out now in Cell! Thrilled to share our recent study on global analysis of microbial genetic diversity in geography and human health. Congrats @seandreu.bsky.social and all other co-authors. Special thanks go to @cibiocm.bsky.social and lifelines.

High frequency body site translocation of nosocomial Pseudomonas aeruginosa Pseudomonas aeruginosa is an important nosocomial pathogen which can cause serious infections across diverse anatomic locations. Infections can spread within an individual to different body sites, but...

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...

Microbial metabolite drives ageing-related clonal haematopoiesis via ALPK1 - Nature ADP-heptose binds to ALPK1, triggering transcriptional reprogramming and NF-κB activation, endowing pre-leukaemic cells with a competitive advantage due to excessive clonal proliferation.

B͓̊å͓c͓̊t͓̊e͓̊r͓̊i͓̊å͓l͓̊ s͓̊ů͓g͓̊å͓r͓̊ f͓̊ů͓e͓̊l͓̊s͓̊
c͓̊å͓n͓̊c͓̊e͓̊r͓̊ r͓̊i͓̊s͓̊k͓̊

Study in 𝘕𝘢𝘵𝘶𝘳𝘦 finds ADP-HEPTOSE, a bacterial sugar produced by Gram- gut flora, leaks into the bloodstream with age, activating NF-κB, giving pre-leukaemic blood cells a growth edge, and triggering dangerous clonal haematopoiesis

Starczynowski Lab U Cincinnati

Rapid tuberculosis diagnosis from respiratory or blood samples by a low cost, portable lab-in-tube assay A low complexity, portable lab-in-tube tuberculosis assay for resource-limited areas analyzes blood, saliva, and sputum with a handheld device.

1 hour lab-in-tube assay for TB!

"point-of-care single-tube assay...to attain single-nucleotide specificity and high sensitivity within 1 hour of sample application, without a conventional DNA isolation procedure"
www.science.org/doi/10.1126/...

So glad this is finally out. The method has been instrumental in allowing us to compress the AllTheBacteria data - ~2 million bacterial genomes shrink from 3Terabytes (gzipped) to 100Gb using phylogenetic compression. Great work by @brinda.eu

1 week until deadline for this postdoc position. Really key position in my lab working on amazing datasets

Cecilia Kyany'a will be presenting our very cool work applying spatial transcriptomics to mycobacterial infections at 12.10 in the infection forum #Microbio25

Genome Science UK 2025 - 9th-11th July - Newcastle

www.genomescience.org.uk

There's a great programme developing - covering Microbial / Plant / Animal / Human #Genomics with a major focus on emerging and transformative technologies!

Onset of infectiousness explains differences in transmissibility across Mycobacterium tuberculosis lineages Mycobacterium tuberculosis complex (MTBC) lineages show substantial variability in virulence, but the epidemiological consequences of this variability…

We published a cool new paper showing that some M tuberculosis lineages (mainly L1 and L6) seem less transmissible but that's mainly because they have longer initial non-infectious 'latent' periods.

www.sciencedirect.com/science/arti...

Excited to share our last study. Huge congrats to Sarah Monard, Arnaud Métais, @gclugo.bsky.social, @chrisverollet.bsky.social and all colleagues!
We have found a mysterious cell type inside TB lung lesions that seems neuron-like but isn't quite a nerve cell.
Let's dive in👇

shorturl.at/x4Sb5

If you have experience in sc/spatial transcriptomics with an interest in microbes....come and join our team as a computational postdoc:
sanger.wd103.myworkdayjobs.com/WellcomeSang...

Incredibly exciting datasets on host-microbe interactions in the lung.

Pls RT and reach out if you are interested.