Reposted by Axel JanssenBest of Wikipedia @bestofwikipedia.bsky.social · 25/07/2026The Picture of the Day of Saturday 25 July 2026 on @wikipedia.org is: Lavaux. Credits: Lorenz Poffet. 001
Reposted by Axel JanssenJan-Willem Veening @veeninglab.com · 07/08/2025Of course, we ( @axeljanssen.bsky.social) setup a genome browser with a track with sgRNA target sites for easy target validation and gene hunting 121
Axel Janssen @axeljanssen.bsky.social · 07/08/2025Don't miss out on our work on Haemophilus influenzae fitness profiling using CRISPRi-Seq! Visit our HaemoBrowse genome browser as well: haemobrowse.veeninglab.com.haemobrowse.veeninglab.comHaemoBrowseGenome browser for Haemophilus influenzae 000
Reposted by Axel Janssenfbm-unil.bsky.social @fbm-unil.bsky.social · 24/04/2025👏 And another one from @jwveening.bsky.social @dmf-unil.bsky.social @unil.bsky.social @mvmazzuoli.bsky.social @axeljanssen.bsky.social Published in @natcomms.nature.com 👇 062
Reposted by Axel JanssenMV Mazzuoli @mvmazzuoli.bsky.social · 23/04/2025OUT NOW! 👇🏼We built a make-or-break Prime editing tool—have a read to discover how it’s changing the way we do genomic engineering. www.nature.com/articles/s41... @JWVeening @AxelJans & all others authors! 👏🏻 1206
Reposted by Axel Janssenmicamer.bsky.social @micamer.bsky.social · 11/03/2025We 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 1012274
Reposted by Axel JanssenDirk-Jan Scheffers 🟥 @dirkscheffers.bsky.social · 16/12/2024"...opvallend is dat slechts 31 procent van de respondenten die ervaring heeft met het beoordelen van subsidieaanvragen dit proces eerlijk vindt. “Zelfs succesvolle aanvragers en commissieveteranen vinden het beoordelingsproces voor subsidieaanvragen niet eerlijk”, concluderen de auteurs." 1/scienceguide.nlBeursafhankelijkheid wetenschappers beknot academische vrijheid - ScienceGuideHet huidige beoordelingsproces van subsidieaanvragen is oneerlijk, vindt de helft van de Nederlandse wetenschappers. 144
Reposted by Axel JanssenJan-Willem Veening @veeninglab.com · 13/12/2024Now updated! www.biorxiv.org/content/10.1...biorxiv.orgMake-or-break prime editing for bacterial genome engineeringCRISPR-Cas9 has revolutionized genome engineering by allowing precise introductions of DNA double-strand breaks (DSBs). However, genome engineering in bacteria is still a complex, multi-step process r... 044
Reposted by Axel JanssenJan-Willem Veening @veeninglab.com · 31/10/2024Checkout this preprint from Bevika Sewgoolam! She used CRISPRi-seq to determine antibiotic-stress signatures, specifically of pneumococci treated with fluoroquinolone antibiotics. It's a really powerful approach revealing a surprising antibiotic combination therapy. www.biorxiv.org/content/10.1...biorxiv.orgGenome-wide antibiotic-CRISPRi profiling identifies LiaR activation as a strategy to resensitize fluoroquinolone-resistant Streptococcus pneumoniaeStreptococcus pneumoniae is a human pathogen that has become increasingly resistant to the synthetic fluoroquinolone antibiotics that target bacterial topoisomerases. To identify pathways that are ess... 196
Axel Janssen @axeljanssen.bsky.social · 25/10/2024Do you use D39V, TIGR4, EF3030, BHN418, or another pneumococcal strain in your research? Easily browse their genome on PneumoBrowse 2 pneumobrowse2.veeninglab.com! Now out in shiny PDF in Nucleic Acids Research! Do you have any feedback? Please let us know! academic.oup.com/nar/advance-...pneumobrowse2.veeninglab.comPneumoBrowseGenome browser for Streptococcus pneumoniae 100
Reposted by Axel JanssenSophie G Martin @sophiemartinlab.bsky.social · 23/10/2024The Martin lab has an open postdoc position at the interface of #cytoskeleton and #condensate biology, in a fantastic research community! If interested, do not hesitate to contact us: mocel.unige.ch/research-gro... Please RT! 0913
Reposted by Axel JanssenDirk-Jan Scheffers 🟥 @dirkscheffers.bsky.social · 08/10/2024Deze is voor jou, @eppobruins.bsky.social ukrant.nl/hier-wordt-g...ukrant.nlHier wordt gewerkt aan de afbraak van het hoger onderwijsEppo Bruins was bijna bijzonder hoogleraar, maar toen werd hij minister die de sloopkogel door het hoger onderwijs haalt. Is Bruins een principeloze baantjesjager? vraagt columnist Dirk-Jan Scheffers ... 01311
Reposted by Axel JanssenFrans van Heest @fransvanheest.bsky.social · 12/09/2024Bij het aanvragen van een Vidi-subsidie verlangt NWO dat universiteiten toezeggen de aanvrager een vaste positie te zullen geven. Dat hindert onderzoekers met een tijdelijk contract, want veel universiteiten willen zo’n toezegging alleen doen bij medewerkers in vaste dienst, stelt Mehrdad Alipour.scienceguide.nl‘Geen vast contract, geen kans: verborgen ongelijkheid in NWO-beleid voor Vidi-subsidies’ - ScienceGuideUniversiteiten willen alleen vast personeel een inbeddingsverklaring geven bij Vidi-aanvragen, schrijft Mehrdad Alipour. 044
Reposted by Axel JanssenSara Mitri @saramitri.bsky.social · 12/09/2024Our bacterial community breeding experiment is now published! doi.org/10.1038/s414... Huge congratulations to Flora, Björn and all co-authors on making a very ambitious project a reality! In short: you can select communities to improve pollutant degradation (with caveats)doi.orgArtificial selection improves pollutant degradation by bacterial communities - Nature CommunicationsArtificial selection is a promising way to improve microbial community functions. Here, Arias-Sánchez et al. evaluate a method inspired by genetic algorithms to select small bacterial communities of k... 32416
Reposted by Axel JanssenJan-Willem Veening @veeninglab.com · 17/08/2024Genome-wide dual CRISPRi-seq! Knocking down every gene with every other gene in the pneumococcus, identifying > 4000 genetic interactions (GIs), most of which have never been reported. www.biorxiv.org/content/10.1...biorxiv.orgDual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cyclebioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution 1159
Reposted by Axel JanssenbioRxiv Microbiology @biorxiv-microbiol.bsky.social · 15/08/2024Dual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle www.biorxiv.org/content/10.1101/202… biorxiv.orgDual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle https://www.biorxiv.org/content/10.1101/2024.08.14.607739v1 A major goal in biology is to uncover the relationship between genotype and phenotype. However, iden 001
Reposted by Axel JanssenRenske van Raaphorst 🟥 @vrrenske.bsky.social · 09/08/2024It was already a very useful resource, now it is an absolutely fabulous resource! 011
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 09/08/2024We are looking for a Network Manager for TARGet (Transdisciplinary Antimicrobial Resistance Genomics network). Apply by scanning the QR code or via www.birmingham.ac.uk/jobs 0312
Axel Janssen @axeljanssen.bsky.social · 09/08/2024Did you like PneumoBrowse, our pneumococcal genome browser? We just released the newest version: PneumoBrowse 2! Try it out on pneumobrowse2.veeninglab.com, and read the preprint! www.biorxiv.org/content/10.1...pneumobrowse2.veeninglab.comPneumoBrowseGenome browser for Streptococcus pneumoniae 143
Reposted by Axel JanssenSara Mitri @saramitri.bsky.social · 11/07/2024We're looking for an enthusiastic experimentalist PhD student to join our interdisciplinary group interested in the ecology & evolution of microbial communities unil.ch/mitrilab. Apply tinyurl.com/mu5swnk8 before Aug 31! Bonus: Lausanne is a beautiful place to live! 21030
Axel Janssen @axeljanssen.bsky.social · 01/07/2024🚨New work alarm🚨 Very happy to see this work out, together with Monica, @mvmazzuoli.bsky.social, Anne-Stephanie, Xue, and @jwveening.bsky.social. We developed make-or-break Prime Editing, through which we can make a wide variety of mutations. Read more on BioRxiv! 053
Reposted by Axel JanssenMarjon de Vos @lizscurious.bsky.social · 07/06/2024New preprint from the lab: Microbial interactions affect the tempo and mode of antibiotic resistance evolution. www.biorxiv.org/content/10.1... #microskybiorxiv.orgMicrobial interactions affect the tempo and mode of antibiotic resistance evolutionbioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution 12020
Reposted by Axel JanssenYolanda Schaerli @yschaerli.bsky.social · 02/04/2024Very happy to share our latest preprint DMF UNIL: Jung and Gábor controlled the ring patterns in E. coli colonies generated by a synthetic oscillator with optogenetics. We observed synchronisation, resonance, entrainment, undertone, period doubling and even chaos! Feedback welcome. 096
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 20/03/2024Job claxon: 18-month PDRA position in my group on the correlation between gut microbiome composition and psychological status in a unique military cohort: www.jobs.ac.uk/job/DGQ655/r... Email me for details!jobs.ac.ukResearch Fellow at University of BirminghamAn opportunity for an academic position as a Research Fellow is available, as advertised on jobs.ac.uk. Apply now and explore other academic job openings. 0713
Reposted by Axel JanssenJessica Blair @jessicamablair.bsky.social · 15/02/2024Funded PhD opportunity with me and Dr Tim Overton. This scholarship is open to Black British students & will investigate the links between efflux, energy metabolism & drug resistance. Please get in touch with us if you would like more information! www.birmingham.ac.uk/study/postgr... 0116
Reposted by Axel JanssenKimberly Kline 🏔 @kimingeneva.bsky.social · 06/02/2024PhD student opening! We are collaborating with the team of David Johnson @EawagResearch to understand E. faecalis polymicrobial community assembly, interactions, and consequences for AMR and infection. Details of the position and how to apply can be found here: tinyurl.com/ywa52a6a. 12128
Reposted by Axel JanssenStephan Gruber @gruberlab.bsky.social · 02/02/2024Our new work on the Wadjet (JET) anti-plasmid defence system is out: authors.elsevier.com/a/1iXM53vVUP... Showing structures of SMC complexes on extruded DNA (first time?) and blockage (!) of DNA extrusion by obstacles on DNA and more... 01611
Reposted by Axel JanssenPhilipp Engel @pengellab.bsky.social · 16/01/2024Two PhD positions available in our lab @FBM_UNIL. We are looking for microbiologists interested in microbiota-host interactions, symbiosis, metabolomics, and social bees! Lausanne is amazing: Vibrant scientific environment & high quality of life 🇨🇭🚞🏂🌄🧪🐝🦠 shorturl.at/ptyOT shorturl.at/dipvA 21421
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 16/01/2024Enterococci doing weird stuff claxon! Very excited that our manuscript 'Integration of vanHAX downstream of a ribosomal RNA operon restores vancomycin resistance in a susceptible Enterococcus faecium strain' has been published in npj Antimicrobials and Resistance www.nature.com/articles/s44...nature.comIntegration of vanHAX downstream of a ribosomal RNA operon restores vancomycin resistance in a susce...npj Antimicrobials and Resistance - Integration of vanHAX downstream of a ribosomal RNA operon restores vancomycin resistance in a susceptible Enterococcus faecium strain 11210
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 12/01/2024New paper from our UK-China AMR DETECTIVE project 'Global emergence of a hypervirulent carbapenem-resistant Escherichia coli ST410 clone' www.nature.com/articles/s41...nature.comGlobal emergence of a hypervirulent carbapenem-resistant Escherichia coli ST410 clone - Nature Commu...In this work, the authors identified a hypervirulent carbapenem-resistant Escherichia coli ST410 clone which carries a high pathogenicity island and an O-antigen gene cluster. The findings highlight t... 062
Reposted by Axel JanssenEduardo Rocha @epcrocha.bsky.social · 15/12/2023New postdoc position in our lab for a project led by Marie Touchon (bioinformatics) and with O Tenaillon (experiments) on the evolution and dynamics of microbial genomes to understand their diversification by gene flow. Check research.pasteur.fr/en/job/postd... 22233
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 11/01/2024Ross McInnes, a post-doc in my group, will sadly be leaving in Spring 2024 as we reach the end of a grant. He is now looking for a job. Ross is excellent and has a skill set that includes molecular biology, functional and comparative genomics, and microbiome research: rosssmcinnes.github.iorosssmcinnes.github.ioRoss S McInnes 01217
Axel Janssen @axeljanssen.bsky.social · 08/01/2024Want to know what articles the world is reading on @wikipedia.bsky.social every day? Look no further! I created a bot that tells you about the top 3 most viewed English Wikipedia articles every day. Find it on @topwikien.bsky.social! 100
Reposted by Axel JanssenMichael Brockhurst @brockhurstlab.bsky.social · 05/01/2024If understanding the eco-evo dynamics of Icelandic hot-spring microbial communities sounds like fun, then this might be the perfect PhD for you! With @coytelab.bsky.social and Sophie Nixon and part of an exciting multidisciplinary consortium www.findaphd.com/phds/project... 01424
Reposted by Axel JanssenÁkos T Kovács @evolvedbiofilm.bsky.social · 02/01/2024Starting 2024 with a PhD position advertised in our new group at #InstituteBiologyLeiden on the topic "Spatial and temporal plant microbiome" Apply before 11 February 2024 bit.ly/3S3isrN 0310
Reposted by Axel JanssenPaul Hoskisson 🧫 🦠🐸 @paulhoskisson.bsky.social · 02/01/2024Reminder that @lore-fermar.bsky.social and I have a studentship available, starting autumn 2024 - on evolution of antibiotic-producing bacteria - closing date 9th Feb gla.ac.uk/postgraduate/d… pls RT and/or pass on to potential studentsgla.ac.ukUniversity of Glasgow - Postgraduate study - not foundsearchSearch iconClose menu iconMenu icon bar ... 0312
Reposted by Axel JanssenMeike Wortel @meikewortel.bsky.social · 23/12/2023I'm happy 😀 to announce I have a PhD position on the mathematical 🧮 modelling 💻 of microbial 🦠 evolution! I'm looking forward to working with an enthousiastic candidate on this project, please contact me with any questions! #JobAlert Please retweet! vacatures.uva.nl/UvA/job/PhD-... 12433
Reposted by Axel JanssenThijs J. G. Ettema 🦠🔬🇳🇱🇸🇪🇪🇺 @ettema.bsky.social · 21/12/2023Ten days remaining to apply to this exciting PhD position - join us in our quest to explore novel archaeal lineages! 01017
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 20/12/2023New, fairly short, paper by the group just got published. Funded by, and in collaboration with, DSTL. 'Differences in the gut microbiota between Gurkhas and soldiers of British origin' journals.plos.org/plosone/arti...journals.plos.orgDifferences in the gut microbiota between Gurkhas and soldiers of British originPrevious work indicated that the incidence of travellers’ diarrhoea (TD) is higher in soldiers of British origin, when compared to soldiers of Nepalese descent (Gurkhas). We hypothesise that the com... 0124
Axel Janssen @axeljanssen.bsky.social · 15/12/2023Now out, our work on characterization of a Klebsiella pneumoniae ompR mutant using dual RNA-seq and murine infection models! Thank you to @jwveening.bsky.social, Vincent de Bakker, Rieza Aprianto, and our collaborators at Bioversys for all their work! journals.asm.org/doi/10.1128/...journals.asm.orgKlebsiella pneumoniae OmpR facilitates lung infection through transcriptional regulation of key viru...Bacteria use two-component regulatory systems (TCSs) to adapt to changes in their environment by changing their gene expression. In this study, we show that the EnvZ/OmpR TCS of the clinically relevan... 0147
Reposted by Axel JanssenRob Edwards @linsalrob.bsky.social · 12/12/2023Assistant/associate professor position for machine learning in Bioinformatics at Wageningen University, Netherlands www.wur.nl/en/vacancy/a... 🧬💻 #microskywur.nlAssistant/associate professor machine learning in bioinformatics 01022
Reposted by Axel JanssenDr Geertje van Keulen @drgvank.bsky.social · 01/12/2023Great news received! Chris Phillips and I will be recruiting soon for an exciting EPSRC iCASE PhD studentship with Dstl on ‘Development of tunable protein-based bioadhesives’! Pls share with motivated applicants interested in in interdisciplinary microbial science and materials engineering🧫🔬🧪⚙️ 264
Reposted by Axel JanssenWillem van Schaik @wvschaik.bsky.social · 28/11/2023New PhD position in the MRC Doctoral Training Programme for an Oct 2024 start with @milja001.bsky.social and myself as supervisors. The gut phageome as a driver for microbiome dynamics in critically ill patients Scroll down on more.bham.ac.uk/mrc-aim/phd-... for details 0813