Anne Daebeler
@anne-daebeler.bsky.social
Microbes, their ecology, physiology, and genomes - especially nitrifiers and CH4 cyclers. Group leader at BC CAS, Czechia. Co-founder of PCI Microbiology. 🦠🐈🌱🏳️🌈
https://microbescancycle.wordpress.com
https://microbescancycle.wordpress.com
Reposted by Anne Daebeler
In addition to the 2 postdoc jobs posted yesterday, we’re recruiting 2 PhD students (environmental microbiology/ molecular ecology) to join us from April. The projects will map microbial populations across niches in bioelectrochemical systems relevant to biomethanation & link them to performance.
Two fully funded PhD candidate positions in Electromicrobiology (3 years)
Application deadline: 4 March 2026 at 23:59 hours local Danish time
fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com
February 4, 2026 at 4:17 PM
In addition to the 2 postdoc jobs posted yesterday, we’re recruiting 2 PhD students (environmental microbiology/ molecular ecology) to join us from April. The projects will map microbial populations across niches in bioelectrochemical systems relevant to biomethanation & link them to performance.
Reposted by Anne Daebeler
I’m looking for two postdoctoral scientists in experimental evolution to join my team from April 2026 (or soon after). Please share! fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com/hcmUI/Candid...
Two postdoctoral positions (3-year) in Experimental Evolution of Methanogenic Microbiomes in Bioelectrochemical Systems
Application deadline: 4 March 2026 at 23:59 hours local Danish time
fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com
February 3, 2026 at 10:34 AM
I’m looking for two postdoctoral scientists in experimental evolution to join my team from April 2026 (or soon after). Please share! fa-eosd-saasfaprod1.fa.ocs.oraclecloud.com/hcmUI/Candid...
Reposted by Anne Daebeler
A national baseline for methane sink habitats and methanotroph diversity https://www.biorxiv.org/content/10.64898/2026.02.02.703227v1
February 3, 2026 at 2:18 AM
A national baseline for methane sink habitats and methanotroph diversity https://www.biorxiv.org/content/10.64898/2026.02.02.703227v1
Reposted by Anne Daebeler
New preprint with @emma-bell.bsky.social, @doubleanders.bsky.social, Karin Garefelt et al.
We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors.
www.biorxiv.org/content/10.6...
We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors.
www.biorxiv.org/content/10.6...
www.biorxiv.org
January 26, 2026 at 11:16 AM
New preprint with @emma-bell.bsky.social, @doubleanders.bsky.social, Karin Garefelt et al.
We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors.
www.biorxiv.org/content/10.6...
We assessed the use of 16S and 18S rRNA gene metabarcoding as input for machine learning models predicting abiotic and biotic factors.
www.biorxiv.org/content/10.6...
Finally a satisfying answer to why some microbes just 'hate' organics. Amazing work!
Cell cycle dysregulation of globally important SAR11 bacteria resulting from environmental perturbation www.nature.com/articles/s41...
Cell cycle dysregulation of globally important SAR11 bacteria resulting from environmental perturbation - Nature Microbiology
Without key cell cycle control genes, SAR11 cells experience aneuploidy and growth inhibition when exposed to changes in nutrients, carbon sources or temperature stress, a vulnerability that may repre...
www.nature.com
January 22, 2026 at 2:16 PM
Finally a satisfying answer to why some microbes just 'hate' organics. Amazing work!
Reposted by Anne Daebeler
📢 20 postdoctoral positions (full-time, 4 years) for outstanding female scientists 👩🔬 🔬 @univie.ac.at
The E-STEEM programme call opens January 7th, 2026 and closes March 3rd, 2026.
careers.univie.ac.at/en/postdoc/e...
I participate as a host...
The E-STEEM programme call opens January 7th, 2026 and closes March 3rd, 2026.
careers.univie.ac.at/en/postdoc/e...
I participate as a host...
careers.univie.ac.at
December 16, 2025 at 12:56 PM
📢 20 postdoctoral positions (full-time, 4 years) for outstanding female scientists 👩🔬 🔬 @univie.ac.at
The E-STEEM programme call opens January 7th, 2026 and closes March 3rd, 2026.
careers.univie.ac.at/en/postdoc/e...
I participate as a host...
The E-STEEM programme call opens January 7th, 2026 and closes March 3rd, 2026.
careers.univie.ac.at/en/postdoc/e...
I participate as a host...
🚨 New paper out: Ecogenomics of Methylobacter 🦠
- three different MMOs to oxidize CH4 in single species
- machinery for nitrogen, sulfur, iron, and hydrogen metabolisms
- adaptations to low O2 conditions
...
led by @wutkowska.bsky.social
tinyurl.com/pmntwuk6
#MicrobeSky #pangenome
- three different MMOs to oxidize CH4 in single species
- machinery for nitrogen, sulfur, iron, and hydrogen metabolisms
- adaptations to low O2 conditions
...
led by @wutkowska.bsky.social
tinyurl.com/pmntwuk6
#MicrobeSky #pangenome
Uncovering hidden phylo: and ecogenomic diversity of the widespread methanotrophic genus Methylobacter
Abstract. The globally distributed genus Methylobacter plays a crucial role in mitigating methane emissions from diverse ecosystems, including freshwater a
academic.oup.com
December 15, 2025 at 3:11 PM
🚨 New paper out: Ecogenomics of Methylobacter 🦠
- three different MMOs to oxidize CH4 in single species
- machinery for nitrogen, sulfur, iron, and hydrogen metabolisms
- adaptations to low O2 conditions
...
led by @wutkowska.bsky.social
tinyurl.com/pmntwuk6
#MicrobeSky #pangenome
- three different MMOs to oxidize CH4 in single species
- machinery for nitrogen, sulfur, iron, and hydrogen metabolisms
- adaptations to low O2 conditions
...
led by @wutkowska.bsky.social
tinyurl.com/pmntwuk6
#MicrobeSky #pangenome
Reposted by Anne Daebeler
The scikit-bio paper in online in Nature Methods! Many thanks to our collaborators, community contributors and reviewers! We couldn’t have done it without you. www.nature.com/articles/s41... #Bioinformatics #OpenSource
Scikit-bio: a fundamental Python library for biological omic data analysis - Nature Methods
Nature Methods - Scikit-bio: a fundamental Python library for biological omic data analysis
www.nature.com
December 11, 2025 at 5:57 PM
The scikit-bio paper in online in Nature Methods! Many thanks to our collaborators, community contributors and reviewers! We couldn’t have done it without you. www.nature.com/articles/s41... #Bioinformatics #OpenSource
😍 It was wonderfully rewarding yesterday to see my first PhDs' student impressive performance defending his work on methanotrophs of 4 years. Congratulations Justus! Thanks to the two opponents @matehg.bsky.social and Antti Rissanen and to all our collaborators!!!
December 10, 2025 at 8:37 AM
😍 It was wonderfully rewarding yesterday to see my first PhDs' student impressive performance defending his work on methanotrophs of 4 years. Congratulations Justus! Thanks to the two opponents @matehg.bsky.social and Antti Rissanen and to all our collaborators!!!
Reposted by Anne Daebeler
From January 1st 2026, the CNRS will cut access to one of the largest commercial bibliometric databases, Clarivate Analytics' Web of Science, along with the Core Collection and Journal Citation Reports.
The CNRS is breaking free from the Web of Science
From January 1st 2026, the CNRS will cut access to one of the largest commercial bibliometric databases, Clarivate Analytics'
www.cnrs.fr
December 1, 2025 at 11:04 AM
From January 1st 2026, the CNRS will cut access to one of the largest commercial bibliometric databases, Clarivate Analytics' Web of Science, along with the Core Collection and Journal Citation Reports.
... and others not on bluesky
In a nutshell:
1. CO and H2 oxidizers seem more resilient to long-term warming than CH4 oxidizers
2. In consequence, the soil CO and H2 sink remained strong
3. And of course, more research is needed covering other seasons and biomes
In a nutshell:
1. CO and H2 oxidizers seem more resilient to long-term warming than CH4 oxidizers
2. In consequence, the soil CO and H2 sink remained strong
3. And of course, more research is needed covering other seasons and biomes
November 19, 2025 at 9:02 AM
... and others not on bluesky
In a nutshell:
1. CO and H2 oxidizers seem more resilient to long-term warming than CH4 oxidizers
2. In consequence, the soil CO and H2 sink remained strong
3. And of course, more research is needed covering other seasons and biomes
In a nutshell:
1. CO and H2 oxidizers seem more resilient to long-term warming than CH4 oxidizers
2. In consequence, the soil CO and H2 sink remained strong
3. And of course, more research is needed covering other seasons and biomes
📢 Extra, extra: our collaborative study on trace gas oxidizers in a warmer soil is out as a preprint
www.biorxiv.org/content/10.1...
Big thanks to @thanh0109.bsky.social @bobpmleung.bsky.social @wutkowska.bsky.social @andreasrichter.bsky.social @mathildebio.bsky.social @greening.bsky.social
...
www.biorxiv.org/content/10.1...
Big thanks to @thanh0109.bsky.social @bobpmleung.bsky.social @wutkowska.bsky.social @andreasrichter.bsky.social @mathildebio.bsky.social @greening.bsky.social
...
Soil trace gas oxidizers divergently respond to short- and long-term warming
The upland soil microbiome is dominated by aerobic bacteria that oxidize atmospheric trace gases, including CO, H2, and CH4. As a result, soils are the largest biological sink for these climate-active...
www.biorxiv.org
November 19, 2025 at 9:02 AM
📢 Extra, extra: our collaborative study on trace gas oxidizers in a warmer soil is out as a preprint
www.biorxiv.org/content/10.1...
Big thanks to @thanh0109.bsky.social @bobpmleung.bsky.social @wutkowska.bsky.social @andreasrichter.bsky.social @mathildebio.bsky.social @greening.bsky.social
...
www.biorxiv.org/content/10.1...
Big thanks to @thanh0109.bsky.social @bobpmleung.bsky.social @wutkowska.bsky.social @andreasrichter.bsky.social @mathildebio.bsky.social @greening.bsky.social
...
Reposted by Anne Daebeler
📢 Interested in #chromosomes 🧬 & #archaea thriving at the edge of life? PhD project in York,UK on how archaea pass on their genome to daughter cells.Friendly supervisors: me, @steve-quinn-lab.bsky.social & @georgerheath.bsky.social
www.findaphd.com/phds/project...
📅 January 7, 2026
Please RP🙏thx!
www.findaphd.com/phds/project...
📅 January 7, 2026
Please RP🙏thx!
November 9, 2025 at 5:20 PM
📢 Interested in #chromosomes 🧬 & #archaea thriving at the edge of life? PhD project in York,UK on how archaea pass on their genome to daughter cells.Friendly supervisors: me, @steve-quinn-lab.bsky.social & @georgerheath.bsky.social
www.findaphd.com/phds/project...
📅 January 7, 2026
Please RP🙏thx!
www.findaphd.com/phds/project...
📅 January 7, 2026
Please RP🙏thx!
Reposted by Anne Daebeler
🧙♀️ 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...
🚨 Come and work with us 🦠🧪🖥️
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Postdoc in ecogenomics and physiology of nitrifiers/methane-cyclers – ISME
isme-microbes.org
October 29, 2025 at 3:39 PM
🚨 Come and work with us 🦠🧪🖥️
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
Postdoc position with lots of freedom available in my group
- 1.5 years with options to extend
- work on ecogenomics and physiology of N/CH4-cyclers
- remote work possible 🤓
more info here: isme-microbes.org/postdoc-ecog...
#microbesky
🚨 Recent analyses out on ecogenomics of #Methylobacter led by Magda from our group! There sure is more to the genus than we tend(ed) to think 🤩
#microsky
#microsky
🦠 Among #Methylococcales, the genus #Methylobacter has the most genomes and MAGs deposited in the dbs. We found interesting stuff, e.g., some M. spp. encode all three MMOs: pMMO, pXMO, sMMO! Have a look at our ms: doi.org/10.1101/2025...
with @anne-daebeler.bsky.social, Vojta, Justus&Julius
with @anne-daebeler.bsky.social, Vojta, Justus&Julius
September 29, 2025 at 9:45 AM
🚨 Recent analyses out on ecogenomics of #Methylobacter led by Magda from our group! There sure is more to the genus than we tend(ed) to think 🤩
#microsky
#microsky
Reposted by Anne Daebeler
🦠 Among #Methylococcales, the genus #Methylobacter has the most genomes and MAGs deposited in the dbs. We found interesting stuff, e.g., some M. spp. encode all three MMOs: pMMO, pXMO, sMMO! Have a look at our ms: doi.org/10.1101/2025...
with @anne-daebeler.bsky.social, Vojta, Justus&Julius
with @anne-daebeler.bsky.social, Vojta, Justus&Julius
September 29, 2025 at 8:26 AM
🦠 Among #Methylococcales, the genus #Methylobacter has the most genomes and MAGs deposited in the dbs. We found interesting stuff, e.g., some M. spp. encode all three MMOs: pMMO, pXMO, sMMO! Have a look at our ms: doi.org/10.1101/2025...
with @anne-daebeler.bsky.social, Vojta, Justus&Julius
with @anne-daebeler.bsky.social, Vojta, Justus&Julius
Reposted by Anne Daebeler
Who fixes carbon in the dark ocean? A new study in @nature.com, led by @barbarabayer.bsky.social @univie.ac.at shows that ammonia‐oxidizing microbes contribute much less to dark carbon fixation than previously thought – leaving room for unknown players.
Read more: 🔗 dome.univie.ac.at/news-events/...
Read more: 🔗 dome.univie.ac.at/news-events/...
Who fixes carbon in the dark ocean?
A new study led by Barbara Bayer (CeMESS, University of Vienna) discovered that ammonia-oxidizing microorganisms contribute much less to carbon fixation in the ocean than previously assumed. The study...
dome.univie.ac.at
September 23, 2025 at 9:47 AM
Who fixes carbon in the dark ocean? A new study in @nature.com, led by @barbarabayer.bsky.social @univie.ac.at shows that ammonia‐oxidizing microbes contribute much less to dark carbon fixation than previously thought – leaving room for unknown players.
Read more: 🔗 dome.univie.ac.at/news-events/...
Read more: 🔗 dome.univie.ac.at/news-events/...
Reposted by Anne Daebeler
📢 🦠 🏜️ Meet the first cultured methanogens from oxic soils! Using cultivation and comparative genomics, we descirbe Methanobacterium limanense sp. nov., Methanocella ebodanensis sp. nov., and a strain of Methanosarcina mazei as dwellers of desert biocrusts.
With @anne-daebeler.bsky.social and other
With @anne-daebeler.bsky.social and other
September 23, 2025 at 2:54 PM
📢 🦠 🏜️ Meet the first cultured methanogens from oxic soils! Using cultivation and comparative genomics, we descirbe Methanobacterium limanense sp. nov., Methanocella ebodanensis sp. nov., and a strain of Methanosarcina mazei as dwellers of desert biocrusts.
With @anne-daebeler.bsky.social and other
With @anne-daebeler.bsky.social and other
It was wonderful to take some time to think and develop new ideas ideas together on our annual retreat. And: great vegetarian food, amazing weather, and cats!
@roeyangel.bsky.social, @wutkowska.bsky.social
@roeyangel.bsky.social, @wutkowska.bsky.social
September 22, 2025 at 9:54 AM
It was wonderful to take some time to think and develop new ideas ideas together on our annual retreat. And: great vegetarian food, amazing weather, and cats!
@roeyangel.bsky.social, @wutkowska.bsky.social
@roeyangel.bsky.social, @wutkowska.bsky.social
Reposted by Anne Daebeler
We are hiring! On the search for an ambitious post-doc with hot skills in metagenomics, metatranscriptomics and bioinformatics to join our EcoEnergeticS project with
@michaeladippold.bsky.social
Find the ad here: uni-tuebingen.de/zh/266340
@michaeladippold.bsky.social
Find the ad here: uni-tuebingen.de/zh/266340
Opportunities
uni-tuebingen.de
September 17, 2025 at 6:10 AM
We are hiring! On the search for an ambitious post-doc with hot skills in metagenomics, metatranscriptomics and bioinformatics to join our EcoEnergeticS project with
@michaeladippold.bsky.social
Find the ad here: uni-tuebingen.de/zh/266340
@michaeladippold.bsky.social
Find the ad here: uni-tuebingen.de/zh/266340
Reposted by Anne Daebeler
Application deadline: 17 September 2025
Apply now to join us at CeMESS!
ter.univie.ac.at/news-talks/n...
Apply now to join us at CeMESS!
ter.univie.ac.at/news-talks/n...
September 10, 2025 at 6:54 AM
Application deadline: 17 September 2025
Apply now to join us at CeMESS!
ter.univie.ac.at/news-talks/n...
Apply now to join us at CeMESS!
ter.univie.ac.at/news-talks/n...
Reposted by Anne Daebeler
🤩New recommendation out: DNA capture for sequencing genes in N&C cycling microbiol.peercommunityin.org/articles/rec... by Siljanen et al.
Thanks to W. Orsi, @kennethwasmund.bsky.social, and C. Wurzbacher for their review and Lizzy Wilbanks & Craig Herbold for handling.
#microbesky #microbiomesky
Thanks to W. Orsi, @kennethwasmund.bsky.social, and C. Wurzbacher for their review and Lizzy Wilbanks & Craig Herbold for handling.
#microbesky #microbiomesky
A DNA capture approach for enrichment of nitrogen and methane cy...
microbiol.peercommunityin.org
September 1, 2025 at 10:30 AM
🤩New recommendation out: DNA capture for sequencing genes in N&C cycling microbiol.peercommunityin.org/articles/rec... by Siljanen et al.
Thanks to W. Orsi, @kennethwasmund.bsky.social, and C. Wurzbacher for their review and Lizzy Wilbanks & Craig Herbold for handling.
#microbesky #microbiomesky
Thanks to W. Orsi, @kennethwasmund.bsky.social, and C. Wurzbacher for their review and Lizzy Wilbanks & Craig Herbold for handling.
#microbesky #microbiomesky
Thanks Alex! Yes, SeqCode is on the to-do list for sure ;)
September 2, 2025 at 6:49 AM
Thanks Alex! Yes, SeqCode is on the to-do list for sure ;)
📢 🦠 A new methanotroph from Czech peat! Through an effort led by PhD student in my group Justus Nweze we isolated and describe a new CH4-muncher. Potential for a flexible (annaerobic) metabolisms and cool pH adaptations.
www.biorxiv.org/content/10.1...
#microbesky #microbiomesky
www.biorxiv.org/content/10.1...
#microbesky #microbiomesky
Genomic and physiological characterization of 'Candidatus Methylocystis sumavensis', a novel acid-tolerant methanotroph from peatland
Methanotrophic bacteria in peatlands mitigate emissions of methane (CH4), a potent greenhouse gas. Yet, the identity, physiology, and adaptive traits of methanotrophs inhabiting acidic peatlands are s...
www.biorxiv.org
September 1, 2025 at 10:39 AM
📢 🦠 A new methanotroph from Czech peat! Through an effort led by PhD student in my group Justus Nweze we isolated and describe a new CH4-muncher. Potential for a flexible (annaerobic) metabolisms and cool pH adaptations.
www.biorxiv.org/content/10.1...
#microbesky #microbiomesky
www.biorxiv.org/content/10.1...
#microbesky #microbiomesky