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Axel Janssen

@axeljanssen.bsky.social
148 followers 213 following 23 posts

Postdoctoral researcher in the Department of Fundamental Microbiology, at the University of Lausanne. Opinions my own.

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Reposted by Axel Janssen
Best of Wikipedia @bestofwikipedia.bsky.social · 25/07/2026
The Picture of the Day of Saturday 25 July 2026 on @wikipedia.org is: Lavaux. Credits: Lorenz Poffet.
Lavaux is a region in the canton of Vaud in Switzerland, in the district of Lavaux-Oron. The region consists of 830 hectares (2,100 acres) of terraced vineyards that stretch for about 30 kilometres (19 mi) along the south-facing northern shores of Lake Geneva. The region is designated a UNESCO World Heritage Site with the formal name Lavaux, Vineyard Terraces. The vine terraces in the area date to the 11th century, under the rule of Benedictine and Cistercian monasteries. The main variety of wine grape grown here is Chasselas. This photograph shows an aerial view of the terraced vineyards of Lavaux near the village of Rivaz, overlooking Lake Geneva. Type: photograph. Credits: Lorenz Poffet.
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Reposted by Axel Janssen
Jan-Willem Veening @veeninglab.com · 07/08/2025
Of course, we ( @axeljanssen.bsky.social) setup a genome browser with a track with sgRNA target sites for easy target validation and gene hunting
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Axel Janssen @axeljanssen.bsky.social · 07/08/2025
Don'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.com
HaemoBrowse
Genome browser for Haemophilus influenzae
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Reposted by Axel Janssen
fbm-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 👇
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MV Mazzuoli @mvmazzuoli.bsky.social · 23/04/2025
OUT 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! 👏🏻
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micamer.bsky.social @micamer.bsky.social · 11/03/2025
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
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Dirk-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.nl
Beursafhankelijkheid wetenschappers beknot academische vrijheid - ScienceGuide
Het huidige beoordelingsproces van subsidieaanvragen is oneerlijk, vindt de helft van de Nederlandse wetenschappers.
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Jan-Willem Veening @veeninglab.com · 13/12/2024
Now updated! www.biorxiv.org/content/10.1...
biorxiv.org
Make-or-break prime editing for bacterial genome engineering
CRISPR-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...
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Reposted by Axel Janssen
Jan-Willem Veening @veeninglab.com · 31/10/2024
Checkout 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.org
Genome-wide antibiotic-CRISPRi profiling identifies LiaR activation as a strategy to resensitize fluoroquinolone-resistant Streptococcus pneumoniae
Streptococcus 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...
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Axel Janssen @axeljanssen.bsky.social · 25/10/2024
Do 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.com
PneumoBrowse
Genome browser for Streptococcus pneumoniae
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Sophie G Martin @sophiemartinlab.bsky.social · 23/10/2024
The 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!
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Dirk-Jan Scheffers 🟥 @dirkscheffers.bsky.social · 08/10/2024
Deze is voor jou, @eppobruins.bsky.social ukrant.nl/hier-wordt-g...
ukrant.nl
Hier wordt gewerkt aan de afbraak van het hoger onderwijs
Eppo 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 ...
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Frans van Heest @fransvanheest.bsky.social · 12/09/2024
Bij 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’ - ScienceGuide
Universiteiten willen alleen vast personeel een inbeddingsverklaring geven bij Vidi-aanvragen, schrijft Mehrdad Alipour.
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Sara Mitri @saramitri.bsky.social · 12/09/2024
Our 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.org
Artificial selection improves pollutant degradation by bacterial communities - Nature Communications
Artificial 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...
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Jan-Willem Veening @veeninglab.com · 17/08/2024
Genome-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.org
Dual CRISPRi-Seq for genome-wide genetic interaction studies identifies key genes involved in the pneumococcal cell cycle
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
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bioRxiv Microbiology @biorxiv-microbiol.bsky.social · 15/08/2024
Dual 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.org
Dual 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
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Renske van Raaphorst 🟥 @vrrenske.bsky.social · 09/08/2024
It was already a very useful resource, now it is an absolutely fabulous resource!
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Willem van Schaik @wvschaik.bsky.social · 09/08/2024
We 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
A job posting for a research project manager at the University of Birmingham.
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Axel Janssen @axeljanssen.bsky.social · 09/08/2024
Did 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.com
PneumoBrowse
Genome browser for Streptococcus pneumoniae
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Mathijs Bouman @mathijsbouman.nl · 12/07/2024
fd.nl/opinie/15232...
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Sara Mitri @saramitri.bsky.social · 11/07/2024
We'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!
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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!
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Marjon de Vos @lizscurious.bsky.social · 07/06/2024
New preprint from the lab: Microbial interactions affect the tempo and mode of antibiotic resistance evolution. www.biorxiv.org/content/10.1... #microsky
biorxiv.org
Microbial interactions affect the tempo and mode of antibiotic resistance evolution
bioRxiv - the preprint server for biology, operated by Cold Spring Harbor Laboratory, a research and educational institution
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Yolanda Schaerli @yschaerli.bsky.social · 02/04/2024
Very 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.
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Willem van Schaik @wvschaik.bsky.social · 20/03/2024
Job 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.uk
Research Fellow at University of Birmingham
An 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.
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Jessica Blair @jessicamablair.bsky.social · 15/02/2024
Funded 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...
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Kimberly Kline 🏔 @kimingeneva.bsky.social · 06/02/2024
PhD 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.
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Stephan Gruber @gruberlab.bsky.social · 02/02/2024
Our 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...
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Philipp Engel @pengellab.bsky.social · 16/01/2024
Two 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
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Willem van Schaik @wvschaik.bsky.social · 16/01/2024
Enterococci 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.com
Integration 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
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Willem van Schaik @wvschaik.bsky.social · 12/01/2024
New 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.com
Global 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...
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Eduardo Rocha @epcrocha.bsky.social · 15/12/2023
New 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...
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Willem van Schaik @wvschaik.bsky.social · 11/01/2024
Ross 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.io
rosssmcinnes.github.io
Ross S McInnes
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Axel Janssen @axeljanssen.bsky.social · 08/01/2024
Want 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!
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Michael Brockhurst @brockhurstlab.bsky.social · 05/01/2024
If 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...
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Jamie Hall @jpjhall.bsky.social · 03/01/2024
Under a week left to apply!
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Ákos T Kovács @evolvedbiofilm.bsky.social · 02/01/2024
Starting 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
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Paul Hoskisson 🧫 🦠🐸 @paulhoskisson.bsky.social · 02/01/2024
Reminder 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 students
gla.ac.uk
University of Glasgow - Postgraduate study - not foundsearchSearch iconClose menu iconMenu icon bar ...
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Meike Wortel @meikewortel.bsky.social · 23/12/2023
I'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-...
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Thijs J. G. Ettema 🦠🔬🇳🇱🇸🇪🇪🇺 @ettema.bsky.social · 21/12/2023
Ten days remaining to apply to this exciting PhD position - join us in our quest to explore novel archaeal lineages!
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Willem van Schaik @wvschaik.bsky.social · 20/12/2023
New, 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.org
Differences in the gut microbiota between Gurkhas and soldiers of British origin
Previous 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...
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Axel Janssen @axeljanssen.bsky.social · 15/12/2023
Now 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.org
Klebsiella 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...
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Rob Edwards @linsalrob.bsky.social · 12/12/2023
Assistant/associate professor position for machine learning in Bioinformatics at Wageningen University, Netherlands www.wur.nl/en/vacancy/a... 🧬💻 #microsky
wur.nl
Assistant/associate professor machine learning in bioinformatics
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Dr Geertje van Keulen @drgvank.bsky.social · 01/12/2023
Great 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🧫🔬🧪⚙️
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Willem van Schaik @wvschaik.bsky.social · 28/11/2023
New 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
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