🦠🌍microplanet.at Interested in working with us in Austria on how 'Microbiomes Drive Planetary Health'? >30 PostDoc & >16 PhD positions available in our Cluster of Excellence. Wide range of topics at the interface of environmental & medical microbiome sciences FWF

🔥 Bactopia v3 is here! 🔥 The Nextflow pipeline for bacterial genomes is now faster, packed with more tools, updated docs, and much much more! Get started at: bactopia.github.io/v3.0.0/ #bioinformatics #genomics

Looking forward to using the updated Bactopia pipeline! Congrats to Robert A. Petit III, PhD for getting this done 🎉

Microbiome studies are new? Nope. You have more microbe cells than human cells? Not true. Lederberg invented the term “microbiome”? Again….well, you get the gist of it. Human microbiome myths and misconceptions | Nature Microbiology nature.com/articles/s4156…

.World Health Organization (WHO) has published cholera statistics for 2022 and the reality is sobering - cases were reported in 44 countries, representing a doubling of the case count when compared to 2021. Action and resources are needed to #EndCholera. who.int/news/item/22-0…

Move over, Norse Gods – Marvel at new Asgard archaea named instead (Luis E. Valentín-Alvarado) for the Puerto Rican goddess of the soil, Atabeya. Atabeyarchaeia is a new member of the lineage now widely believed to have given rise to eukaryotes – that is fungi, algae, trees and us.

A #cholera outbreak with two strains: the power of #bacterialgenomics. A great collaboration between (in particular) Lebanese University, American University of Beirut and Institut Pasteur, since 1887. 👉biorxiv.org/content/10.110…

Congratulations to an awesome team on our new article in PLOS NTDs journals.plos.org/plosntds/artic…

Cholera requires an integrated approach using robust and early detection and effective case management of cases. Prevention is key - vaccines work in the immediate term and WSH is the long term solution.

Bactopia is in pretty good company with nf-core! If Bactopia has been useful for you consider starring it, it's a metric I can use when applying for funding (haha unsuccessfully so far!), but mostly it's very motivating for continued development! github.com/bactopia/bacto…

Thrilled to announce the upcoming VIBRIO 2024 meeting in Lima Peru Oct 20-23,2024. Check out website for preliminary program. Registration will open soon. Please share! Big thanks to the BWFUND for the generous support. Also, thanks to UCF and UT San Antonio! event.fourwaves.com/vibrio2024/pag…

Congruity of genomic and epidemiological data in modelling of local cholera outbreaks: ow.ly/3nym50QXy4E #ProcB #Epidemiology Daryl Domman Andrey Lokhov

Bactopia now supports AllTheBacteria assemblies! 🎉 If you are planning secondary analyses, this feature allows you to seamlessly use Bactopia. To demonstrate this, here's a blog post using Bactopia to analyze 5400 L. pneumophila assemblies bactopia.github.io/latest/blog/20…

If you want to learn more about the history, epidemiology, population structure, virulence determinants, and AMR of Salmonella enterica serotype Paratyphi B phylogroup 1 (d-tar-), the etiological agent of paratyphoid B fever, please have a look at: researchsquare.com/article/rs-450…

Huge congrats to Torsten Seemann (Doherty Institute) and Robert A. Petit III, PhD (Wyoming Department of Health) for wining separate awards from CZI Science for Essential Open Source Software for Science! 🏆 These two are legends of open bioinformatics and are set to elevate their groundbreaking tools even

Really excited to share that our study is finally published in nature ! Longer post to follow but thanks so much to all of my co-authors, supervisors, the GPS consortium, and reviewers. Noémie Lefrancq @hsalje Stephen Bentley GlobalPneumoSeq nature.com/articles/s4158…

Genomic insights into the 2022–2023 Vibrio cholerae outbreak in Malawi. nature.com/articles/s4146…

Preventing and Controlling Global Antimicrobial Resistance — Implementing a Whole-System Approach | New England Journal of Medicine nejm.org/doi/full/10.10…

It was an absolute delight to deliver a course on cholera genomics alongside the esteemed Nicholas Thomson Thank you Wellcome Sanger Institute for the opportunity to share knowledge and engage in such an important topic.

🚨 Out now!🚨 Our #OneHealth study on multidrug-resistant #Shigella spread between humans & primates in Albuquerque is live Nature Communications 👉 nature.com/articles/s4146… Massive thanks to NM Dept. of Health , UNM Health Sciences , Los Alamos National Laboratory , ABQ BioPark , City of Albuquerque & lead author Sarah Shrum Davis ! 🔬🦠