etienneruppe.bsky.social @etienneruppe.bsky.social · 02/02/2026Hope this will be useful! Thanks to Marion Dutkiewicz and Jozsef Soki! @upcite.bsky.social @inserm.fr @iame-umr1137.bsky.social 000
etienneruppe.bsky.social @etienneruppe.bsky.social · 02/02/2026Antibiotic resistant genes from pathogenic bacteria are very well known, but what about those carried by commensals from our intestinal microbiota? we wrote a short narrative review on this topic, focusing on beta-lactamases (open access). www.sciencedirect.com/science/arti...sciencedirect.comBeta-lactamases in anaerobic, intestinal bacteria: a narrative reviewAnaerobic bacteria in the human intestinal microbiota play a pivotal role in antibiotic resistance, primarily through the production of β-lactamases. … 100
Reposted by @etienneruppe.bsky.socialSegata Lab @cibiocm.bsky.social · 05/11/2025This week at #IccMg in Geneva 🇨🇭 Nicola Segata will discuss the concepts of personalized nutrition that build on or integrate microbiome! Full program here: clinicalmetagenomics.org?page_id=286clinicalmetagenomics.orgProgramme – ICCMG 2025 031
etienneruppe.bsky.social @etienneruppe.bsky.social · 02/09/2025📅 Deadline to submit your abstract: 17 September 2025 👉 Discover the full program and submit your abstract here: clinicalmetagenomics.org We look forward to your contributions and to an inspiring exchange of ideas!clinicalmetagenomics.orgICCMG 2025 – November 6-7, 2025 000
etienneruppe.bsky.social @etienneruppe.bsky.social · 02/09/2025🚨 NEW OPPORTUNITY FOR YOUNG SCIENTISTS! 🚨 We’re excited to announce the “5 BEST ABSTRACTS” initiative at the upcoming ICCMg10! ✅ CALL FOR ABSTRACTS The 5 best abstracts will have their registration fees waived! (Eligibility: posters submitted by young scientists under the age of 35)clinicalmetagenomics.orgICCMG 2025 – November 6-7, 2025 100
etienneruppe.bsky.social @etienneruppe.bsky.social · 25/08/2025you're right they are D-Ala D-Ala ligases, selected on cycloserine and not on glycopeptides, my bad 110
etienneruppe.bsky.social @etienneruppe.bsky.social · 25/08/2025though from functional metagenomics experiments single genes seem to confer a lower susceptibility to glycopeptides when transferred/expressed in E. coli 100
etienneruppe.bsky.social @etienneruppe.bsky.social · 25/08/2025I loved this one, but an update may be necessary (especially with regards to detection) Review Nat Rev Microbiol . 2015 Feb;13(2):116-23. doi: 10.1038/nrmicro3399. Epub 2014 Dec 15. What is a resistance gene? Ranking risk in resistomes José L Martínez, Teresa M Coque, Fernando Baquero 100
etienneruppe.bsky.social @etienneruppe.bsky.social · 25/08/2025I have been grumpy on many occasions :-) I would say that the main issues are (1) the inadequation between the choice of the database and the scientific question (e.g. choose ResFinder to look for intrinsinc ARG of soil bacteria) and (2) the lack of discussion/criticism of the results 010
etienneruppe.bsky.social @etienneruppe.bsky.social · 04/07/2025When ➡️ November 6-7 2025 Where ➡️ Campus Biotech Geneva, Switzerland How to register ➡️https://clinicalmetagenomics.org/?page_id=53 Abstracts are welcome ➡️https://clinicalmetagenomics.org/?page_id=265 Looking forward to seing you in Geneva to celebrate the 10 years of clinical metagenomics! 010
etienneruppe.bsky.social @etienneruppe.bsky.social · 04/07/2025For this 10th birthday, we will review the last decade of clinical metagenomics and forecast the next. To this aim, we have built a line-up of top speakers, with Charles Chiu, Ruth Ley, Nicola Segata, Curtis Huttenhower, Flaminia Olearo, Alice Chen-Liaw, Iwijn De Vlaminck, David Gaston and others! 100
etienneruppe.bsky.social @etienneruppe.bsky.social · 04/07/2025The program of the 10th International Conference on Clinical Metagenomics is (ICCMg10) is online! clinicalmetagenomics.org?page_id=286clinicalmetagenomics.orgProgramme – ICCMG 2025 100
etienneruppe.bsky.social @etienneruppe.bsky.social · 23/06/2025After our session at the last @escmid.bsky.social meeting, Stefan Green and I were interviewed by Jessica Allerton for The Pathologist Magazine about NGS and its applications in infectious diseases. Bravo Jessica and thank you for the opportunity! thepathologist.com/issues/2025/...thepathologist.comNGS Platforms, Pitfalls, and ProgressExperts Etienne Ruppe and Stefan Green reflect on the evolving role of next-generation sequencing 000
Reposted by @etienneruppe.bsky.socialbioRxivpreprint @biorxivpreprint.bsky.social · 27/05/2025Environmental reservoir of resistance genes for the last resort antibiotic Cefiderocol. www.biorxiv.org/content/10.1101/202… 001
etienneruppe.bsky.social @etienneruppe.bsky.social · 27/05/2025Congrats @remigsc.bsky.social this is the culmination of a colossal work! 021
etienneruppe.bsky.social @etienneruppe.bsky.social · 16/05/2025The 9th International Conference on Clinical Metagenomics (ICCMg9) meeting report is out in Trends in Microbiology www.cell.com/trends/micro... See you in Geneva for the ICCMg10! www.clinicalmetagenomics.orgcell.com9th International Conference on Clinical Metagenomics (ICCMg9): meeting reportThe 9th International Conference on Clinical Metagenomics (ICCMg9) continued its tradition of advancing the clinical applications of metagenomics. Experts from around the world shared insights on path... 000
etienneruppe.bsky.social @etienneruppe.bsky.social · 18/04/2025Congrats @svetlanaup.bsky.social for this brilliant and useful piece of work! 020
etienneruppe.bsky.social @etienneruppe.bsky.social · 11/02/2025Full paper and all supp mat doi.org/10.1016/j.ij...doi.orgRedirecting 000
etienneruppe.bsky.social @etienneruppe.bsky.social · 11/02/2025For clinical metagenomics, we also show that distinguishing contaminants from actual pathogens can be improved using data such as 16S qPCR Ct value, number of CMg species identified, number of non-human CMg reads and, highest genome completeness among CMg species. 110
etienneruppe.bsky.social @etienneruppe.bsky.social · 11/02/2025Glad to share our work about the comparison between clinical metagenomics (CMg) and the good old 16S rDNA Sanger sequencing for bacteriological diagnosis. Our work shows that they are rather complementary. 112
etienneruppe.bsky.social @etienneruppe.bsky.social · 03/12/2024Today at Bichat medical school we honour the work of Prof. Erick Denamur on E. coli. High-level and inspiring presentations, including from Imane El Meouche from our IAME unit. 010
Reposted by @etienneruppe.bsky.socialVíctor Hugo Jarquín-Díaz @vhjarquind.bsky.social · 28/11/2024🚨SEARCHER WEBINAR🚨 Join the last webinar of 2024 with: 💊 #TommiVatanen & 💊 @etienneruppe.bsky.social We'll be discussing #AMR trasmission and ARG prediction 🗓️ Dec 11, 2024 ⏰ 02:00 PM CEST (GMT +1) Register 👉 mdc-berlin.zoom-x.de/meeting/regi... Details 👇👀 #MicroSky #AMRSky 032
etienneruppe.bsky.social @etienneruppe.bsky.social · 22/11/2024indeed they're helpful in preventing from feeling alone too long! 010
etienneruppe.bsky.social @etienneruppe.bsky.social · 22/11/2024Dear bluesky users, our research unit is currently considering migrating from X to Bluesky, could you share the pros and cons? Thanks for your ideas! 412
