Gerben de Zwaan
@gerbenz.bsky.social
PhD candidate at Microbial Evolution/Ettema lab @ the Laboratory of Microbiology - Wageningen University and Research.
Enthusiastic about Evolution, Microbiology, Microscopy. He/Him.
Enthusiastic about Evolution, Microbiology, Microscopy. He/Him.
Reposted by Gerben de Zwaan
Reposted by Gerben de Zwaan
Opportunity!
Anybody knows of young marine ecologists (within 7 years from earned PhD) that would like to come to Gothenburg, Sweden, for a nationally funded Assistant Professorship? It is highly competitive but well funded. (1) of (3)
Anybody knows of young marine ecologists (within 7 years from earned PhD) that would like to come to Gothenburg, Sweden, for a nationally funded Assistant Professorship? It is highly competitive but well funded. (1) of (3)
November 10, 2025 at 9:32 AM
Opportunity!
Anybody knows of young marine ecologists (within 7 years from earned PhD) that would like to come to Gothenburg, Sweden, for a nationally funded Assistant Professorship? It is highly competitive but well funded. (1) of (3)
Anybody knows of young marine ecologists (within 7 years from earned PhD) that would like to come to Gothenburg, Sweden, for a nationally funded Assistant Professorship? It is highly competitive but well funded. (1) of (3)
Reposted by Gerben de Zwaan
Soon available in my group: 1 PhD position to investigate prokaryotic histones. See our recent work that highlights the existence and diversity of prokaryotic histones (e.g. Schwab et al., TIBS, 2025; Schwab et al., Nat Comm, 2024; Hu et al., Nucl Acids Res, 2024). Please DM for informal enquiries.
November 5, 2025 at 12:57 PM
Soon available in my group: 1 PhD position to investigate prokaryotic histones. See our recent work that highlights the existence and diversity of prokaryotic histones (e.g. Schwab et al., TIBS, 2025; Schwab et al., Nat Comm, 2024; Hu et al., Nucl Acids Res, 2024). Please DM for informal enquiries.
Reposted by Gerben de Zwaan
🧙♀️ Something is brewing in the WitChi cauldron…
After some excellent peer review feedback, a new update of WitChi is taking shape, refining how we detect and prune compositional bias in phylogenomic alignments.
Stay tuned for the next release!
🧙♀️ Can’t model it? Prune it!
github.com/stephkoest/w...
After some excellent peer review feedback, a new update of WitChi is taking shape, refining how we detect and prune compositional bias in phylogenomic alignments.
Stay tuned for the next release!
🧙♀️ Can’t model it? Prune it!
github.com/stephkoest/w...
October 31, 2025 at 9:59 AM
🧙♀️ Something is brewing in the WitChi cauldron…
After some excellent peer review feedback, a new update of WitChi is taking shape, refining how we detect and prune compositional bias in phylogenomic alignments.
Stay tuned for the next release!
🧙♀️ Can’t model it? Prune it!
github.com/stephkoest/w...
After some excellent peer review feedback, a new update of WitChi is taking shape, refining how we detect and prune compositional bias in phylogenomic alignments.
Stay tuned for the next release!
🧙♀️ Can’t model it? Prune it!
github.com/stephkoest/w...
Reposted by Gerben de Zwaan
Lab’s first paper is out!! We show the first structures of #Asgard #chromatin by #cryo-EM 🧬❄️
Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...
Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...
October 28, 2025 at 3:07 PM
Lab’s first paper is out!! We show the first structures of #Asgard #chromatin by #cryo-EM 🧬❄️
Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...
Asgard histones form closed and open hypernucleosomes. Closed are conserved across #Archaea, while open resemble eukaryotic H3–H4 octasomes and are Asgard-specific. More here: www.cell.com/molecular-ce...
Reposted by Gerben de Zwaan
I’m very happy this is finally out! Here, we showcase the combination of BONCAT and SIP metaproteomics to uncover rare and active microbes driving anaerobic acetate turnover. We are excited to see what other microbial metabolisms and ecosystems this approach can help to illuminate! 🦠
OUT NOW Activity-targeted metaproteomics uncovers rare syntrophic bacteria central to anaerobic community metabolism by @ryanziels.bsky.social www.nature.com/articles/s41...
Activity-targeted metaproteomics uncovers rare syntrophic bacteria central to anaerobic community metabolism - Nature Microbiology
An approach combining BONCAT, stable isotope probing and metaproteomics showcases the hidden metabolic interconnectivity of microorganisms within an anaerobic digestion community.
www.nature.com
October 21, 2025 at 5:08 PM
I’m very happy this is finally out! Here, we showcase the combination of BONCAT and SIP metaproteomics to uncover rare and active microbes driving anaerobic acetate turnover. We are excited to see what other microbial metabolisms and ecosystems this approach can help to illuminate! 🦠
Reposted by Gerben de Zwaan
Glad to share our paper out today @NatureEcoEvo: “Serial innovations by Asgard archaea shaped the DNA replication machinery of the early eukaryotic ancestor”. www.nature.com/articles/s41... #microsky #archaeasky
Serial innovations by Asgard archaea shaped the DNA replication machinery of the early eukaryotic ancestor - Nature Ecology & Evolution
Phylogenetic and biochemical analyses show a diversity of components of the DNA replication machinery in different Asgard archaea that contributed to the eukaryotic DNA replication machinery.
www.nature.com
October 21, 2025 at 3:06 PM
Glad to share our paper out today @NatureEcoEvo: “Serial innovations by Asgard archaea shaped the DNA replication machinery of the early eukaryotic ancestor”. www.nature.com/articles/s41... #microsky #archaeasky
Reposted by Gerben de Zwaan
Nou nee, dat mag niet.
Een school moet een veilige plek zijn voor álle leerlingen. Dat staat ook in de wet. Het afwijzen van homoseksuele relaties geeft de boodschap dat iemand niet zichzelf mag zijn.
Dat mag niet én is ronduit schadelijk.
nos.nl/nieuwsuur/co...
Een school moet een veilige plek zijn voor álle leerlingen. Dat staat ook in de wet. Het afwijzen van homoseksuele relaties geeft de boodschap dat iemand niet zichzelf mag zijn.
Dat mag niet én is ronduit schadelijk.
nos.nl/nieuwsuur/co...
CDA-leider Bontenbal: religieus onderwijs mag botsen met grondrecht van gelijkheid
Dat religieuze scholen homoseksuele relaties afwijzen, is volgens CDA-leider Henri Bontenbal nu eenmaal een gevolg van de vrijheid van onderwijs. Daar wil hij niet aan tornen. "Een andere mening doet ...
nos.nl
October 20, 2025 at 10:02 PM
Nou nee, dat mag niet.
Een school moet een veilige plek zijn voor álle leerlingen. Dat staat ook in de wet. Het afwijzen van homoseksuele relaties geeft de boodschap dat iemand niet zichzelf mag zijn.
Dat mag niet én is ronduit schadelijk.
nos.nl/nieuwsuur/co...
Een school moet een veilige plek zijn voor álle leerlingen. Dat staat ook in de wet. Het afwijzen van homoseksuele relaties geeft de boodschap dat iemand niet zichzelf mag zijn.
Dat mag niet én is ronduit schadelijk.
nos.nl/nieuwsuur/co...
Reposted by Gerben de Zwaan
Live cell imaging of Ca. Nha. antarcticus and Hrr. lacusprofundi using agarose pads. Protocol now live!
www.archaea.bio/protocols/li...
www.archaea.bio/protocols/li...
Live Cell Imaging of Ca. Nha. antarcticus and Hrr. lacusprofundi using agarose pads
This protocol is an adapted form of the protocol developed for imaging haloarchaea (Liao et al., 2021) and subsequently applied to co-cultures containing nanohaloarchaea and haloarchaea (Hamm et al., ...
www.archaea.bio
October 15, 2025 at 11:19 AM
Live cell imaging of Ca. Nha. antarcticus and Hrr. lacusprofundi using agarose pads. Protocol now live!
www.archaea.bio/protocols/li...
www.archaea.bio/protocols/li...
Reposted by Gerben de Zwaan
There's a PhD position now available with me in Bath, on the evolution of symbiosis. www.findaphd.com/phds/project.... The supervisory team also includes @anja1.bsky.social @phil-donoghue.bsky.social and others. NB, this is open both to UK-based students *and* to international students :)
The genomic basis of symbiotic integration at University of Bath on FindAPhD.com
PhD Project - The genomic basis of symbiotic integration at University of Bath, listed on FindAPhD.com
www.findaphd.com
October 9, 2025 at 9:39 AM
There's a PhD position now available with me in Bath, on the evolution of symbiosis. www.findaphd.com/phds/project.... The supervisory team also includes @anja1.bsky.social @phil-donoghue.bsky.social and others. NB, this is open both to UK-based students *and* to international students :)
Reposted by Gerben de Zwaan
Very nice documentary about the origins of complex life with my PhD advisor Berend Snel @binfutrecht.bsky.social!
Hoe is al het complexe leven op aarde eigenlijk ontstaan?
Wat DNA uit slootwater ons vertelt over jouw onbekende voorouders | VPRO Tegenlicht
YouTube video by VPRO Tegenlicht
youtu.be
October 9, 2025 at 8:46 AM
Very nice documentary about the origins of complex life with my PhD advisor Berend Snel @binfutrecht.bsky.social!
Reposted by Gerben de Zwaan
OK, somebody should say it: the term 'one-stop-shop' has no place in academic research. Due to their diverse and exploratory nature, there is no single solution for scientific projects - else this would be routine research. RT if you agree, or feel free to argue otherwise below.
michael scott from the office is wearing a suit and tie and making a funny face .
ALT: michael scott from the office is wearing a suit and tie and making a funny face .
media.tenor.com
October 6, 2025 at 2:38 PM
OK, somebody should say it: the term 'one-stop-shop' has no place in academic research. Due to their diverse and exploratory nature, there is no single solution for scientific projects - else this would be routine research. RT if you agree, or feel free to argue otherwise below.
Reposted by Gerben de Zwaan
Coincidental and exciting! Anaerobic methanotrophic archaea (ANME) do like carbon monoxide - two independent studies showcasing CO metabolism across freshwater and marine ANME (ANME-2d and -2b).
ANME-2d: doi.org/10.1101/2025... (Welte lab)
ANME-2b: reposted (Orphan lab)
ANME-2d: doi.org/10.1101/2025... (Welte lab)
ANME-2b: reposted (Orphan lab)
Carbon monoxide oxidation expands the known metabolic capacity in anaerobic methanotrophic consortia https://www.biorxiv.org/content/10.1101/2025.09.21.677609v1
September 22, 2025 at 9:46 AM
Coincidental and exciting! Anaerobic methanotrophic archaea (ANME) do like carbon monoxide - two independent studies showcasing CO metabolism across freshwater and marine ANME (ANME-2d and -2b).
ANME-2d: doi.org/10.1101/2025... (Welte lab)
ANME-2b: reposted (Orphan lab)
ANME-2d: doi.org/10.1101/2025... (Welte lab)
ANME-2b: reposted (Orphan lab)
Reposted by Gerben de Zwaan
hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!
September 15, 2025 at 5:26 PM
hey bluesky 👋 visa hurdles mean I’m looking for opportunities outside the US. I’m a computational biologist (bacterial + phage genomics, postdoc in Koonin’s group @ NIH). I am interested in teaming up on funding apps. reach out if this resonates!
Reposted by Gerben de Zwaan
Archaeal Virus Ph.D. project! (With Tessa Quax)
www.rug.nl/about-ug/wor...
www.rug.nl/about-ug/wor...
Vacatures bij de RUG
www.rug.nl
September 12, 2025 at 4:34 AM
Archaeal Virus Ph.D. project! (With Tessa Quax)
www.rug.nl/about-ug/wor...
www.rug.nl/about-ug/wor...
Reposted by Gerben de Zwaan
We are hiring a PhD student! Are you fascinated by microbes and evolution? Come join us in Barcelona!
#WeAreHiring
📣 The #IBE_Barcelona is seeking a #PhD Student for the Evolutionary #Microbiology Lab.🔬🧫
⏳ Apply before September 30th and #JoinOurTeam!
#UnravellingEvolution #ConservingBiodiversity
✍ https://www.ibe.upf-csic.es/work-with-us/job-offers
📣 The #IBE_Barcelona is seeking a #PhD Student for the Evolutionary #Microbiology Lab.🔬🧫
⏳ Apply before September 30th and #JoinOurTeam!
#UnravellingEvolution #ConservingBiodiversity
✍ https://www.ibe.upf-csic.es/work-with-us/job-offers
September 10, 2025 at 8:39 AM
We are hiring a PhD student! Are you fascinated by microbes and evolution? Come join us in Barcelona!
Reposted by Gerben de Zwaan
We are looking for a 3-year postdoc to work with Daniel Probst, Justin van der Hooft and myself on an exciting project involving federated learning and integrative omics for discovery of new antibiotics from natural products.
Apply here: www.wur.nl/en/vacancy/p...
Please share!
Apply here: www.wur.nl/en/vacancy/p...
Please share!
www.wur.nl
September 8, 2025 at 9:07 AM
We are looking for a 3-year postdoc to work with Daniel Probst, Justin van der Hooft and myself on an exciting project involving federated learning and integrative omics for discovery of new antibiotics from natural products.
Apply here: www.wur.nl/en/vacancy/p...
Please share!
Apply here: www.wur.nl/en/vacancy/p...
Please share!
Reposted by Gerben de Zwaan
Please re-post: If you know (or are!) somebody who might fancy doing a PhD (Oct 2026 start) in my group @oxfordbiochemistry.bsky.social, working on chromatin evolution in prokaryotes (or other things we're interested in), please have a look at www.bioch.ox.ac.uk/supervisors-...
Supervisors and Projects
www.bioch.ox.ac.uk
September 1, 2025 at 9:27 AM
Please re-post: If you know (or are!) somebody who might fancy doing a PhD (Oct 2026 start) in my group @oxfordbiochemistry.bsky.social, working on chromatin evolution in prokaryotes (or other things we're interested in), please have a look at www.bioch.ox.ac.uk/supervisors-...
Reposted by Gerben de Zwaan
Then @kassipan.bsky.social from Wageningen University showed her PhD work to expand the genome diversity in the PVC superphylum, finding multiple phylum-level lineages and opening a door to investigating the cool cellular features in this phylum.
Way to go, Kassi! #ProudSupervisor
#ESEB2025
Way to go, Kassi! #ProudSupervisor
#ESEB2025
August 22, 2025 at 12:58 PM
Then @kassipan.bsky.social from Wageningen University showed her PhD work to expand the genome diversity in the PVC superphylum, finding multiple phylum-level lineages and opening a door to investigating the cool cellular features in this phylum.
Way to go, Kassi! #ProudSupervisor
#ESEB2025
Way to go, Kassi! #ProudSupervisor
#ESEB2025
Reposted by Gerben de Zwaan
🧵 Our study on the elusive titration control mechanism of the replication initiator DnaA in Escherichia coli is now out on @natcomms.nature.com! @stephkoe.bsky.social
@hohlbeinlab.bsky.social @nicoc-micsynmet.bsky.social @ettema.bsky.social @mib-wur.bsky.social
doi.org/10.1038/s414...
@hohlbeinlab.bsky.social @nicoc-micsynmet.bsky.social @ettema.bsky.social @mib-wur.bsky.social
doi.org/10.1038/s414...
The Escherichia coli replication initiator DnaA is titrated on the chromosome - Nature Communications
A DNA-binding protein, DnaA, regulates the initiation of chromosomal replication in bacteria. Here, Olivi et al. show that the bacterial chromosome sequesters DnaA in a growth rate-dependent manner, s...
doi.org
August 22, 2025 at 8:58 AM
🧵 Our study on the elusive titration control mechanism of the replication initiator DnaA in Escherichia coli is now out on @natcomms.nature.com! @stephkoe.bsky.social
@hohlbeinlab.bsky.social @nicoc-micsynmet.bsky.social @ettema.bsky.social @mib-wur.bsky.social
doi.org/10.1038/s414...
@hohlbeinlab.bsky.social @nicoc-micsynmet.bsky.social @ettema.bsky.social @mib-wur.bsky.social
doi.org/10.1038/s414...
Reposted by Gerben de Zwaan
academic.oup.com/mbe/advance-...
Happy to share this one. We investigated the #phylogenetic placement and #genome_evolution of Pangui/Njordarchaea-unique #Asgardarchaea that might have undergone genome reduction...
Happy to share this one. We investigated the #phylogenetic placement and #genome_evolution of Pangui/Njordarchaea-unique #Asgardarchaea that might have undergone genome reduction...
August 14, 2025 at 7:28 PM
academic.oup.com/mbe/advance-...
Happy to share this one. We investigated the #phylogenetic placement and #genome_evolution of Pangui/Njordarchaea-unique #Asgardarchaea that might have undergone genome reduction...
Happy to share this one. We investigated the #phylogenetic placement and #genome_evolution of Pangui/Njordarchaea-unique #Asgardarchaea that might have undergone genome reduction...
Reposted by Gerben de Zwaan
The @scilifelab.se ancient DNA unit is looking for an bioinformatician placed at Uppsala University. This is a great way to be part of diverse #aDNA research projects as a staff scientist with permanent (!!) employment:
www.uu.se/en/about-uu/...
www.uu.se/en/about-uu/...
Bioinformatician - Uppsala University
Bioinformatician, Department of Organismal Biology, Uppsala University
www.uu.se
August 12, 2025 at 7:10 AM
The @scilifelab.se ancient DNA unit is looking for an bioinformatician placed at Uppsala University. This is a great way to be part of diverse #aDNA research projects as a staff scientist with permanent (!!) employment:
www.uu.se/en/about-uu/...
www.uu.se/en/about-uu/...
Reposted by Gerben de Zwaan
We are on the lookout for postdocs for two different projects at the intersection of ecology, evolution, and the human microbiome.
See thread for more information and reach out!
See thread for more information and reach out!
July 22, 2025 at 7:34 PM
We are on the lookout for postdocs for two different projects at the intersection of ecology, evolution, and the human microbiome.
See thread for more information and reach out!
See thread for more information and reach out!
Reposted by Gerben de Zwaan
Feels surreal to say but: I'm hiring! If you are or know anyone interested in looking at the evolution of phage resistance using A. baumannii and natural transformation, then this might be for you
www.jobbnorge.no/en/available...
www.jobbnorge.no/en/available...
Research position in Microbial Pharmacology and Population Biology (282139) | UiT The Arctic University of Norway
Job title: Research position in Microbial Pharmacology and Population Biology (282139), Employer: UiT The Arctic University of Norway, Deadline: Wednesday, August 27, 2025
www.jobbnorge.no
August 8, 2025 at 7:52 AM
Feels surreal to say but: I'm hiring! If you are or know anyone interested in looking at the evolution of phage resistance using A. baumannii and natural transformation, then this might be for you
www.jobbnorge.no/en/available...
www.jobbnorge.no/en/available...
Reposted by Gerben de Zwaan
Dr. Anni Hämäläinen from @tcsmtutu.bsky.social is looking for a PhD researcher to @utu.fi co-supervised by me and @teppo-h.bsky.social on experimental evolution of host-microbiota interactions (Drosphila). Please spread the message. ats.talentadore.com/apply/vaitos...
Doctoral Researcher / Project researcher in Experimental Evolution of Host–Microbiota Interactions
The Faculty of Science at the University of Turku invites applications for a doctoral researcher / project researcher position at the Department of Biology. The position is fully funded 4-years. Emplo...
ats.talentadore.com
August 8, 2025 at 8:31 AM
Dr. Anni Hämäläinen from @tcsmtutu.bsky.social is looking for a PhD researcher to @utu.fi co-supervised by me and @teppo-h.bsky.social on experimental evolution of host-microbiota interactions (Drosphila). Please spread the message. ats.talentadore.com/apply/vaitos...