Reposted by Tim Stinear
🦘✂️ 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...
forms.gle/YJP6WQjsk8KK...
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...
forms.gle
March 4, 2025 at 9:04 AM
🦘✂️ 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...
forms.gle/YJP6WQjsk8KK...
Reposted by Tim Stinear
🚀🧬 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.
We would love feedback on a new NCBI-BLAST service we are launching today: sky-blast.com
Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable
Under the hood it's the same BLAST executable and databases provided by NCBI, with a replica of the NIH's interface - providing an alternative to the US gov service that's less congested, faster & more reliable
March 12, 2025 at 1:19 AM
🚀🧬 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.
Reposted by Tim Stinear
Buruli ulcer: flesh-eating bacteria spreads in Melbourne suburb amid warning about rise in cases
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…
www.theguardian.com
December 21, 2024 at 4:52 AM
Buruli ulcer: flesh-eating bacteria spreads in Melbourne suburb amid warning about rise in cases
Reposted by Tim Stinear
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
Deadline for applications 29th November. Apply here:
ore.ucc.ie
Job ID: 081111
University College Cork Vacancies
ore.ucc.ie
November 2, 2024 at 2:12 PM
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
Deadline for applications 29th November. Apply here:
ore.ucc.ie
Job ID: 081111
Reposted by Tim Stinear
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...
www.microbiologyresearch.org/content/jour...
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...
www.microbiologyresearch.org
September 2, 2024 at 3:28 PM
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...
www.microbiologyresearch.org/content/jour...
Reposted by Tim Stinear
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...
journals.plos.org/plospathogen...
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 ...
journals.plos.org
September 2, 2024 at 1:07 PM
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...
journals.plos.org/plospathogen...
Reposted by Tim Stinear
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.
September 2, 2024 at 1:08 PM
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.
Reposted by Tim Stinear
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...
www.biorxiv.org/content/10.1...
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
www.biorxiv.org
January 29, 2024 at 9:12 PM
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...
www.biorxiv.org/content/10.1...
Reposted by Tim Stinear
Really good blog post from Ryan (as always) on latest ONT accuracy rrwick.github.io/2023/10/24/o...
October 25, 2023 at 1:34 PM
Really good blog post from Ryan (as always) on latest ONT accuracy rrwick.github.io/2023/10/24/o...
Reposted by Tim Stinear
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/...
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/...
The two-component system WalKR provides an essential link between cell wall homeostasis and DNA repl...
The opportunistic human pathogen Staphylococcus aureus uses an array of protein sensing systems called two-component systems (TCS) to sense
environmental signals and adapt its physiology in response b...
journals.asm.org
October 17, 2023 at 7:02 AM
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/...
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/...
Reposted by Tim Stinear
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
journals.plos.org/plosbiology/...
1/n
October 18, 2023 at 6:49 AM
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
journals.plos.org/plosbiology/...
1/n