Tim Stinear

Snippy: Microbial Variant Calling Community Survey Help us drive the next wave of innovation in Single-Nucleotide Polymorphism (SNP) discovery and genome analysis by sharing your valuable experiences and insights. This in-depth survey aims at understa...

🦘✂️ Thanks to @cziscience.bsky.social , @wytamma.bsky.social and I are writing the next version of the Snippy bacterial variant calling pipeline. We want your input on what features s it will have. Please fill out this (longish) survey to help make Snippy great again!
forms.gle/YJP6WQjsk8KK...

🚀🧬 MY former colleague @micamer.bsky.social who I worked with in the early years of my career has released a BLAST service (GUI + API options) which replicates the NCBI services but with faster response times.

Buruli ulcer: flesh-eating bacteria spreads in Melbourne suburb amid warning about rise in cases Increase in cases ‘linked to Ascot Vale’ leads health officials to warn the disease is ‘spreading geographically’ * Get our breaking news email, free app or daily news podcast Victoria has seen a surge of cases of a flesh-eating bacteria, prompting…

Buruli ulcer: flesh-eating bacteria spreads in Melbourne suburb amid warning about rise in cases

I am hiring a Research Assistant microbiologist! We are new, expanding research group in the School of Microbiology, UCC and APC Microbiome Ireland in Cork studying anaerobic gut bacteria.
Deadline for applications 29th November. Apply here:
ore.ucc.ie
Job ID: 081111

pQEB1: a hospital outbreak plasmid lineage carrying bla KPC-2 While conducting genomic surveillance of carbapenemase-producing Enterobacteriaceae (CPE) from patient colonisation and clinical infections at Birmingham’s Queen Elizabeth Hospital (QE), we identified...

Our latest paper now published in MGen. Long read surveillance identifying inter-species spread of a KPC plasmid in Birmingham

www.microbiologyresearch.org/content/jour...

Marine sponge microbe provides insights into evolution and virulence of the tubercle bacillus Author summary Tuberculosis, caused by Mycobacterium tuberculosis, is still one of the world’s deadliest infectious diseases. However, the origins and rise of M. tuberculosis as a successful pathogen ...

The M.spongiae paper is online! A really cool cousin (that's not how phylogenetics works) of Mtb identified in Marine sponges in the great barrier reef.

journals.plos.org/plospathogen...

Congrats especially to @tstinear.bsky.social and Sacha, driving the project over the last decade. I contributed to the project while in Roland Brosch's lab.

…small correction Louis it was @ianmonknz.bsky.social who cloned the M. spongiae ESX-1 locus in BCG :-)

A marine sponge-associated mycobacterium closely related to Mycobacterium tuberculosis bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution

Look at this great story! @tstinear.bsky.social presented the genome of the new species Mycobacterium spongiae isolated from a sponge in the great barrier reef in Paris about 8 years ago. 1/x

www.biorxiv.org/content/10.1...

Really good blog post from Ryan (as always) on latest ONT accuracy rrwick.github.io/2023/10/24/o...

Did a big thread on Twitter, but will keep it short here.

We have a new paper out! If you're into signal transduction, staph aureus, and/or nifty molecular biology then check it out.

journals.asm.org/doi/10.1128/...

Our latest paper is out now. The brilliant Chris Connor’s entire PhD in one paper. And I hope a new avenue of research opened in MDR E. coli

journals.plos.org/plosbiology/...

1/n