Joshua Hamm
@joshnhamm.bsky.social
Post-Doctoral Researcher in the EvoSym Group. Investigating DPANN-host interactions.
jnhamm.wordpress.com
jnhamm.wordpress.com
Reposted by Joshua Hamm
Exultant to have been awarded a Vidi grant by the Dutch Research Council (NWO)! Can't wait to get started!
Stay tuned for two upcoming (PhD student & postdoc) positions to study archaeal genome evolution.
Also huge congrats to my colleague @dorotakawa.bsky.social!
www.uu.nl/en/news/21-v...
Stay tuned for two upcoming (PhD student & postdoc) positions to study archaeal genome evolution.
Also huge congrats to my colleague @dorotakawa.bsky.social!
www.uu.nl/en/news/21-v...
21 Vidi grants awarded to Utrecht-based researchers
21 researchers from Utrecht University, University Medical Center Utrecht, and Princess Máxima Center have each been awarded a Vidi grant worth up to €850,000.
www.uu.nl
October 23, 2025 at 12:49 PM
Exultant to have been awarded a Vidi grant by the Dutch Research Council (NWO)! Can't wait to get started!
Stay tuned for two upcoming (PhD student & postdoc) positions to study archaeal genome evolution.
Also huge congrats to my colleague @dorotakawa.bsky.social!
www.uu.nl/en/news/21-v...
Stay tuned for two upcoming (PhD student & postdoc) positions to study archaeal genome evolution.
Also huge congrats to my colleague @dorotakawa.bsky.social!
www.uu.nl/en/news/21-v...
Reposted by Joshua Hamm
Lunch today halfway around the world in Hangzhou and met a new asst professor who was very thankful for this resource. Please help out folks like them and other early career scientists with examples of job apps. Submit yours!
github.com/RILAB/statem...
github.com/RILAB/statem...
GitHub - RILAB/statements: Successful Job Applications and Grants
Successful Job Applications and Grants. Contribute to RILAB/statements development by creating an account on GitHub.
github.com
October 21, 2025 at 6:55 AM
Lunch today halfway around the world in Hangzhou and met a new asst professor who was very thankful for this resource. Please help out folks like them and other early career scientists with examples of job apps. Submit yours!
github.com/RILAB/statem...
github.com/RILAB/statem...
Reposted by Joshua Hamm
The ecological and phylogenetic partitioning of coastal and offshore SAR11 is underpinned by a handful of distinct metabolic traits under high selective pressure - academic.oup.com/ismej/advanc...
Habitat-specificity in SAR11 is associated with a few genes under high selection
Abstract. The order Pelagibacterales (SAR11) is the most abundant group of heterotrophic bacteria in the global surface ocean, where individual sublineages
academic.oup.com
October 21, 2025 at 5:40 AM
The ecological and phylogenetic partitioning of coastal and offshore SAR11 is underpinned by a handful of distinct metabolic traits under high selective pressure - academic.oup.com/ismej/advanc...
Reposted by Joshua Hamm
WE ARE BACK!!! Archaea Power Hour will return this coming WEDNESDAY, Oct. 22nd at 10AM EST/4PM CET. Check your email for the Zoom link (coming soon) or register here: forms.gle/6QvCjHH2H4pxro…. Take a look at the exciting talks we have planned to kick off our fall seminar series:
October 17, 2025 at 3:50 PM
WE ARE BACK!!! Archaea Power Hour will return this coming WEDNESDAY, Oct. 22nd at 10AM EST/4PM CET. Check your email for the Zoom link (coming soon) or register here: forms.gle/6QvCjHH2H4pxro…. Take a look at the exciting talks we have planned to kick off our fall seminar series:
Reposted by Joshua Hamm
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 Joshua Hamm
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 Joshua Hamm
New article on equitable reuse of public sequencing data, published in @natmicrobiol.nature.com!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!
September 26, 2025 at 7:34 PM
New article on equitable reuse of public sequencing data, published in @natmicrobiol.nature.com!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!
Led by the Data reuse core team @lhug.bsky.social @environmicrobio.bsky.social Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and with Anke Heyer and The Data Reuse Consotrium!
Reposted by Joshua Hamm
Our article on equitable reuse of public sequencing data is out! Led by @alexjprobst.bsky.social, @lhug.bsky.social, Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and myself -, co-authored by Anke Heyder, and developed in consultation with 167 scientists. tinyurl.com/n6yeanmk
A roadmap for equitable reuse of public microbiome data - Nature Microbiology
In this Consensus Statement, a consortium of microbiome scientists discuss current sequencing data sharing policies and propose the use of a Data Reuse Information (DRI) tag to promote equitable and collaborative data sharing.
tinyurl.com
September 26, 2025 at 8:14 PM
Our article on equitable reuse of public sequencing data is out! Led by @alexjprobst.bsky.social, @lhug.bsky.social, Cristina Moraru, @geomicrosoares.bsky.social, @folker.bsky.social and myself -, co-authored by Anke Heyder, and developed in consultation with 167 scientists. tinyurl.com/n6yeanmk
Reposted by Joshua Hamm
Great new trait of #Methanoperedens archaea: Carbon monoxide metabolism in freshwater anaerobic #methanotrophic archaea #aom #anme
Egas @cuwelte.bsky.social et al #microbiology @ribesresearch.bsky.social
www.biorxiv.org/content/10.1...
Egas @cuwelte.bsky.social et al #microbiology @ribesresearch.bsky.social
www.biorxiv.org/content/10.1...
September 18, 2025 at 7:26 AM
Great new trait of #Methanoperedens archaea: Carbon monoxide metabolism in freshwater anaerobic #methanotrophic archaea #aom #anme
Egas @cuwelte.bsky.social et al #microbiology @ribesresearch.bsky.social
www.biorxiv.org/content/10.1...
Egas @cuwelte.bsky.social et al #microbiology @ribesresearch.bsky.social
www.biorxiv.org/content/10.1...
Reposted by Joshua Hamm
Happy to share that our story on the bacterial archaellum was published today in @natmicrobiol.nature.com
www.nature.com/articles/s41...
Congrats to the authors: @sshamphavi.bsky.social @loumollat.bsky.social @mariejoest.bsky.social Najwa Taib and @sgribaldo.bsky.social
www.nature.com/articles/s41...
Congrats to the authors: @sshamphavi.bsky.social @loumollat.bsky.social @mariejoest.bsky.social Najwa Taib and @sgribaldo.bsky.social
September 17, 2025 at 5:41 PM
Happy to share that our story on the bacterial archaellum was published today in @natmicrobiol.nature.com
www.nature.com/articles/s41...
Congrats to the authors: @sshamphavi.bsky.social @loumollat.bsky.social @mariejoest.bsky.social Najwa Taib and @sgribaldo.bsky.social
www.nature.com/articles/s41...
Congrats to the authors: @sshamphavi.bsky.social @loumollat.bsky.social @mariejoest.bsky.social Najwa Taib and @sgribaldo.bsky.social
Reposted by Joshua Hamm
🦠➡️🧬 Community context matters!
In the second part of my PhD, we show how microbial complexity drives phage–bacteria ecology & evolution.
Check out the preprint 👇🏼
In the second part of my PhD, we show how microbial complexity drives phage–bacteria ecology & evolution.
Check out the preprint 👇🏼
Biological context modulates virus-host dynamics and diversification https://www.biorxiv.org/content/10.1101/2025.09.10.675297v1
September 11, 2025 at 5:18 AM
🦠➡️🧬 Community context matters!
In the second part of my PhD, we show how microbial complexity drives phage–bacteria ecology & evolution.
Check out the preprint 👇🏼
In the second part of my PhD, we show how microbial complexity drives phage–bacteria ecology & evolution.
Check out the preprint 👇🏼
Reposted by Joshua Hamm
Huang, @tweethinking.bsky.social, Sepang et al. use phylogenetic analyses to reveal that the Njordarchaeales and Panguiarchaeales constitute the new class Njordarchaeia within Asgard archaea.
🔗 doi.org/10.1093/molbev/msaf201
#evobio #molbio #archaea
🔗 doi.org/10.1093/molbev/msaf201
#evobio #molbio #archaea
Phylogenomic Analyses Reveal that Panguiarchaeum Is a Clade of Genome-Reduced Asgard Archaea Within the Njordarchaeia
Abstract. The Asgard archaea are a diverse archaeal phylum important for our understanding of cellular evolution because they include the lineage that gave
doi.org
September 8, 2025 at 4:50 PM
Huang, @tweethinking.bsky.social, Sepang et al. use phylogenetic analyses to reveal that the Njordarchaeales and Panguiarchaeales constitute the new class Njordarchaeia within Asgard archaea.
🔗 doi.org/10.1093/molbev/msaf201
#evobio #molbio #archaea
🔗 doi.org/10.1093/molbev/msaf201
#evobio #molbio #archaea
Reposted by Joshua Hamm
The JEDI marker - a new approach for measuring #biodiversity that captures all domains of life and is applicable across biological and ecological scales. It's time to change the way we perceive biodiversity - www.biorxiv.org/content/10.1...
The JEDI marker as a universal measure of planetary biodiversity
Despite its critical importance in the formation and maintenance of ecosystems and homeostasis on Earth, biodiversity remains a complex and non-unified concept. Consequently, standards for measuring b...
www.biorxiv.org
August 14, 2025 at 7:31 AM
The JEDI marker - a new approach for measuring #biodiversity that captures all domains of life and is applicable across biological and ecological scales. It's time to change the way we perceive biodiversity - www.biorxiv.org/content/10.1...
Reposted by Joshua Hamm
🧵 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 Joshua Hamm
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 Joshua Hamm
Who would have thought I would ever publish an article about a bacterium?
But here it is, but of course only because Litorilinea aerophilum actually has an archaellum!
Here is what we learned about its cell structure and other surface appendages:
www.biorxiv.org/content/10.1...
But here it is, but of course only because Litorilinea aerophilum actually has an archaellum!
Here is what we learned about its cell structure and other surface appendages:
www.biorxiv.org/content/10.1...
Filamentous growth, cell envelope architecture, and surface appendages of a member of the Chloroflexota, Litorilinea aerophila
Litorilinea aerophila, a filamentous bacterium of the phylum Chloroflexota (class Caldilineae), exhibits unique morphological and cell envelope features that challenge traditional bacterial models. In...
www.biorxiv.org
August 20, 2025 at 10:32 AM
Who would have thought I would ever publish an article about a bacterium?
But here it is, but of course only because Litorilinea aerophilum actually has an archaellum!
Here is what we learned about its cell structure and other surface appendages:
www.biorxiv.org/content/10.1...
But here it is, but of course only because Litorilinea aerophilum actually has an archaellum!
Here is what we learned about its cell structure and other surface appendages:
www.biorxiv.org/content/10.1...
New preprint up now!
Interested in the evolution of halophily within DPANN archaea we decided to investigate the sister phylum to the Nanohaloarchaeota, GTDB phylum EX4484-52, for which we propose the name Caliditerrarchaeota
www.biorxiv.org/content/10.1...
Interested in the evolution of halophily within DPANN archaea we decided to investigate the sister phylum to the Nanohaloarchaeota, GTDB phylum EX4484-52, for which we propose the name Caliditerrarchaeota
www.biorxiv.org/content/10.1...
Caliditerrarchaeota, a new sister to Nanohaloarchaeota, provides insights into the evolution of DPANN halophily
The Nanohaloarchaeota are a clade of halophilic symbionts with small cells and genomes. Originally placed within the Euryarchaeota, they are now widely thought to belong to the DPANN archaea. However,...
www.biorxiv.org
August 8, 2025 at 6:49 AM
New preprint up now!
Interested in the evolution of halophily within DPANN archaea we decided to investigate the sister phylum to the Nanohaloarchaeota, GTDB phylum EX4484-52, for which we propose the name Caliditerrarchaeota
www.biorxiv.org/content/10.1...
Interested in the evolution of halophily within DPANN archaea we decided to investigate the sister phylum to the Nanohaloarchaeota, GTDB phylum EX4484-52, for which we propose the name Caliditerrarchaeota
www.biorxiv.org/content/10.1...
Reposted by Joshua Hamm
If you are a postdoc working on any topic related to environmental microbiology and are looking for exposure, the Thermal Biology Institute (tbi.montana.edu) has slots open for virtual talks via zoom this fall. Email me if you are interested! Seminars are most Mondays, 3-4 pm Mountain Time.
Thermal Biology Institute - Default | Montana State University
Index to the Thermal Biology Institute's website.
tbi.montana.edu
August 6, 2025 at 5:08 PM
If you are a postdoc working on any topic related to environmental microbiology and are looking for exposure, the Thermal Biology Institute (tbi.montana.edu) has slots open for virtual talks via zoom this fall. Email me if you are interested! Seminars are most Mondays, 3-4 pm Mountain Time.
Reposted by Joshua Hamm
Check out the new paper of my former lab about novel haloviruses infecting Haloquadratum walsbyi, the "square queen archaeon" of hypersaline systems 👑🟪
academic.oup.com/ismej/advanc...
academic.oup.com/ismej/advanc...
Novel viruses of Haloquadratum walsbyi expand the known archaeal virosphere of hypersaline environments
Abstract. Solar salterns represent unique systems with low diversity microbial communities that serve as an excellent model for studying the evolution and
academic.oup.com
August 4, 2025 at 11:14 AM
Check out the new paper of my former lab about novel haloviruses infecting Haloquadratum walsbyi, the "square queen archaeon" of hypersaline systems 👑🟪
academic.oup.com/ismej/advanc...
academic.oup.com/ismej/advanc...
Reposted by Joshua Hamm
New vacancy in my team!
PhD student position on microbial genome evolution, focusing on the evolutionary principles underlying bacterial genome architecture.
Please repost and share with talented MSc students in #evobio, bioinformatics or related :)
www.uu.nl/en/organisat...
#MEvoSky #MicroSky
PhD student position on microbial genome evolution, focusing on the evolutionary principles underlying bacterial genome architecture.
Please repost and share with talented MSc students in #evobio, bioinformatics or related :)
www.uu.nl/en/organisat...
#MEvoSky #MicroSky
May 14, 2025 at 2:07 PM
New vacancy in my team!
PhD student position on microbial genome evolution, focusing on the evolutionary principles underlying bacterial genome architecture.
Please repost and share with talented MSc students in #evobio, bioinformatics or related :)
www.uu.nl/en/organisat...
#MEvoSky #MicroSky
PhD student position on microbial genome evolution, focusing on the evolutionary principles underlying bacterial genome architecture.
Please repost and share with talented MSc students in #evobio, bioinformatics or related :)
www.uu.nl/en/organisat...
#MEvoSky #MicroSky
Reposted by Joshua Hamm
Exciting news! I'm looking for a computational biologist to join my lab at Wageningen University & Research! It's a 3-year postdoc position on Holomycota genome architecture and evolution. Spread the word! www.wur.nl/en/vacancy/p...
Postdoc Comparative genomics and genome architecture in early-diverging fungi and their protist relatives (3-year position)
www.wur.nl
March 5, 2025 at 11:56 AM
Exciting news! I'm looking for a computational biologist to join my lab at Wageningen University & Research! It's a 3-year postdoc position on Holomycota genome architecture and evolution. Spread the word! www.wur.nl/en/vacancy/p...
Reposted by Joshua Hamm
Asgardarchaea & Alphaproteobacteria: key players for the assembly eukaryotic central carbon metabolism! Our new study reveals their gene contributions to glycolysis & TCA cycle, supporting synthrophic scenarios of eukaryogenesis.
rdcu.be/eb0aK
rdcu.be/eb0aK
Chimeric origins and dynamic evolution of central carbon metabolism in eukaryotes
Nature Ecology & Evolution - Analysis of the eukaryotic gene repertoires mediating central carbon metabolism identifies ancestral contributions from Alphaproteobacteria, Asgardarchaeota and...
rdcu.be
March 3, 2025 at 1:28 PM
Asgardarchaea & Alphaproteobacteria: key players for the assembly eukaryotic central carbon metabolism! Our new study reveals their gene contributions to glycolysis & TCA cycle, supporting synthrophic scenarios of eukaryogenesis.
rdcu.be/eb0aK
rdcu.be/eb0aK
Reposted by Joshua Hamm
www.biorxiv.org/content/10.1... A new collaborative paper with Anja Spang, Wen-Cong Huang, @chrisrinke.bsky.social @ettema.bsky.social @ssolo.bsky.social Zheng-Shuang Hua Maraike Probst and Lenard Szantho. We investigated the phylogenetic position and metabolic evolution of Panguiarchaeum.
Phylogenomic analyses reveal that Panguiarchaeum is a clade of genome-reduced Asgard archaea
The Asgard archaea are a diverse archaeal phylum that includes the host lineage from which eukaryotes evolved. Due to the importance of the Asgard archaea for our understanding of cellular evolution a...
www.biorxiv.org
February 17, 2025 at 4:59 PM
www.biorxiv.org/content/10.1... A new collaborative paper with Anja Spang, Wen-Cong Huang, @chrisrinke.bsky.social @ettema.bsky.social @ssolo.bsky.social Zheng-Shuang Hua Maraike Probst and Lenard Szantho. We investigated the phylogenetic position and metabolic evolution of Panguiarchaeum.
Reposted by Joshua Hamm
Are you interested in studying archaea with their diverse symbionts? We look forward hearing from you: workingat.nioz.nl/o/postdoc-po...
NIOZ - Postdoc position: “to elucidate the role of archaeal symbionts in cellular evolution and ecology”
The EvoSym Team within the Department of Marine Microbiology and Biogeochemistry (MMB) located at the Netherlands Institute for Sea Research (NIOZ), is looking for a postdoctoral researcher with a bac
workingat.nioz.nl
February 12, 2025 at 11:26 AM
Are you interested in studying archaea with their diverse symbionts? We look forward hearing from you: workingat.nioz.nl/o/postdoc-po...
Reposted by Joshua Hamm
January 30, 2025 at 3:16 PM