Microbiome Research Lab, ETH Zürich
@microbiomeresearch.bsky.social
The Microbiome Research Lab in the @eth-microbiology.bsky.social - ETH Zurich
What is the fundamental level at which ecology and evolution shape microbial diversity?
Our new preprint shows that genomically discrete and ecologically cohesive subspecies are a common feature in the global ocean microbiome - www.biorxiv.org/content/10.6...
Our new preprint shows that genomically discrete and ecologically cohesive subspecies are a common feature in the global ocean microbiome - www.biorxiv.org/content/10.6...
Genomically and ecologically cohesive subspecies as biologically meaningful units in the global ocean microbiome
Microbial diversity is organised into operationally defined species. However, it remains unclear whether these, or finer-scale groups represent biologically meaningful units in natural communities. He...
www.biorxiv.org
October 6, 2026 at 6:29 AM
What is the fundamental level at which ecology and evolution shape microbial diversity?
Our new preprint shows that genomically discrete and ecologically cohesive subspecies are a common feature in the global ocean microbiome - www.biorxiv.org/content/10.6...
Our new preprint shows that genomically discrete and ecologically cohesive subspecies are a common feature in the global ocean microbiome - www.biorxiv.org/content/10.6...
Reposted by Microbiome Research Lab, ETH Zürich
'Reconstructing ocean life: metagenome-assembled genomes in marine research', the webinar, will run on 9 October 2026 from 11:00 – 12:30 UK time: www.ebi.ac.uk/training/eve...
Registration is free but essential.
@samuelmiver.bsky.social
@microbiomeresearch.bsky.social
🧬📊🔬
Registration is free but essential.
@samuelmiver.bsky.social
@microbiomeresearch.bsky.social
🧬📊🔬
September 26, 2026 at 6:44 AM
'Reconstructing ocean life: metagenome-assembled genomes in marine research', the webinar, will run on 9 October 2026 from 11:00 – 12:30 UK time: www.ebi.ac.uk/training/eve...
Registration is free but essential.
@samuelmiver.bsky.social
@microbiomeresearch.bsky.social
🧬📊🔬
Registration is free but essential.
@samuelmiver.bsky.social
@microbiomeresearch.bsky.social
🧬📊🔬
🚨New Preprint from our lab
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
The Ocean Microbiomics Database reveals thermal niches and projected pressure on marine microbes in a warming ocean
Temperature is a key driver of ocean microbial community structure, yet its role in shaping global distributions and their response to warming remains unclear due to fragmented studies, inconsistent m...
www.biorxiv.org
October 5, 2026 at 7:03 AM
🚨New Preprint from our lab
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
We present the Ocean MicroBiomics Database - a comprehensive and easily accessible resource containing taxonomic, functional and distribution information on >31,000 microbial species
Preprint www.biorxiv.org/content/10.6...
Website omdb.microbiomics.io/repository/o...
Reposted by Microbiome Research Lab, ETH Zürich
I'm proud to share the latest @microbiomeresearch.bsky.social preprint introducing the Ocean Microbiomics Database (OMDB).
📄 Read the preprint: doi.org/10.64898/202...
#MicrobialEcology #OceanScience #ClimateChange #Metagenomics #AI #Bioinformatics
📄 Read the preprint: doi.org/10.64898/202...
#MicrobialEcology #OceanScience #ClimateChange #Metagenomics #AI #Bioinformatics
October 1, 2026 at 4:02 PM
I'm proud to share the latest @microbiomeresearch.bsky.social preprint introducing the Ocean Microbiomics Database (OMDB).
📄 Read the preprint: doi.org/10.64898/202...
#MicrobialEcology #OceanScience #ClimateChange #Metagenomics #AI #Bioinformatics
📄 Read the preprint: doi.org/10.64898/202...
#MicrobialEcology #OceanScience #ClimateChange #Metagenomics #AI #Bioinformatics
We're at #ISME20!
Come and say hi to Marija:
🎤 13:30-14:30 - DEIA Panel on funding policy and inclusion
📊 16:30-17:30 - poster session (PS3.22.386)
Come and say hi to Marija:
🎤 13:30-14:30 - DEIA Panel on funding policy and inclusion
📊 16:30-17:30 - poster session (PS3.22.386)
August 19, 2026 at 10:32 PM
We're at #ISME20!
Come and say hi to Marija:
🎤 13:30-14:30 - DEIA Panel on funding policy and inclusion
📊 16:30-17:30 - poster session (PS3.22.386)
Come and say hi to Marija:
🎤 13:30-14:30 - DEIA Panel on funding policy and inclusion
📊 16:30-17:30 - poster session (PS3.22.386)
Reposted by Microbiome Research Lab, ETH Zürich
Our consortium of scientists and artists invites you to join us in our effort to address the corl reef crisis 🧪🌊🪸🧬🐡🌎🌐🦠https://coralartscience.org/
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
Communicating coral: Art and science for global reef action
Coral reefs are experiencing unprecedented rapid decline. Art can act as a beacon to engage audiences, influence policy, and inspire global action.
www.science.org
July 8, 2026 at 8:48 PM
Our consortium of scientists and artists invites you to join us in our effort to address the corl reef crisis 🧪🌊🪸🧬🐡🌎🌐🦠https://coralartscience.org/
www.science.org/doi/10.1126/...
www.science.org/doi/10.1126/...
How diverse are E. coli capsules? In collaboration with @mucosalimmunology.bsky.social we mapped this uncharted diversity in >66k genomes with a new tool, kTYPr, paving the way to capsule-targeted therapies and vaccines www.nature.com/articles/s41...
@eth-microbiology.bsky.social
@eth-microbiology.bsky.social
In silico typing maps the natural diversity of Escherichia coli transporter-dependent capsules - Nature Microbiology
Escherichia coli ABC transporter-dependent capsule gene analysis alongside the development and application of the kTYPr in silico capsule typing tool uncovers E. coli capsule diversity across environm...
www.nature.com
April 23, 2026 at 12:13 PM
How diverse are E. coli capsules? In collaboration with @mucosalimmunology.bsky.social we mapped this uncharted diversity in >66k genomes with a new tool, kTYPr, paving the way to capsule-targeted therapies and vaccines www.nature.com/articles/s41...
@eth-microbiology.bsky.social
@eth-microbiology.bsky.social
Reposted by Microbiome Research Lab, ETH Zürich
Nature research paper: Coral microbiomes as reservoirs of unknown genomic and biosynthetic diversity
go.nature.com/3ZYniLb
go.nature.com/3ZYniLb
Coral microbiomes as reservoirs of unknown genomic and biosynthetic diversity - Nature
Reconstructing microbial genomes from 820 reef-building corals collected at 99 reefs across 32 islands throughout the Pacific Ocean highlights the importance of conserving coral reefs as vital reservoirs of molecular diversity.
go.nature.com
February 26, 2026 at 2:01 PM
Nature research paper: Coral microbiomes as reservoirs of unknown genomic and biosynthetic diversity
go.nature.com/3ZYniLb
go.nature.com/3ZYniLb
We are thrilled to announce the newest study from our lab (and great collaborators) is out now in @nature.com
We show that #coral #microbes are untapped "biosynthetic reservoirs", full of unique
natural products.
doi.org/10.1038/s415...
We show that #coral #microbes are untapped "biosynthetic reservoirs", full of unique
natural products.
doi.org/10.1038/s415...
Coral microbiomes as reservoirs of unknown genomic and biosynthetic diversity - Nature
Reconstructing microbial genomes from 820 reef-building corals collected at 99 reefs across 32 islands throughout the Pacific Ocean highlights the importance of conserving coral reefs as vital reservo...
doi.org
February 25, 2026 at 7:37 PM
We are thrilled to announce the newest study from our lab (and great collaborators) is out now in @nature.com
We show that #coral #microbes are untapped "biosynthetic reservoirs", full of unique
natural products.
doi.org/10.1038/s415...
We show that #coral #microbes are untapped "biosynthetic reservoirs", full of unique
natural products.
doi.org/10.1038/s415...
🚨We are hiring a Bioinformatician who will be embedded in our lab and work with members of the NCCR Microbiomes at ETH Zurich, as well as the Institute of Microbiology.🚨
nccr-microbiomes.ch
jobs.ethz.ch/job/view/JOP...
nccr-microbiomes.ch
jobs.ethz.ch/job/view/JOP...
Bioinformatician in Microbiome Research
jobs.ethz.ch
January 23, 2026 at 2:31 PM
🚨We are hiring a Bioinformatician who will be embedded in our lab and work with members of the NCCR Microbiomes at ETH Zurich, as well as the Institute of Microbiology.🚨
nccr-microbiomes.ch
jobs.ethz.ch/job/view/JOP...
nccr-microbiomes.ch
jobs.ethz.ch/job/view/JOP...
It is with great sadness that we mourn the loss of Peer Bork, an exceptionally impactful scientist and leader, and a lifelong mentor full of energy, passion, and warmth. He will be sorely missed.
www.embl.org/news/embl-an...
www.embl.org/news/embl-an...
In remembrance of Peer Bork | EMBL
EMBL and its community are deeply saddened by the death of Peer Bork, the organisation’s Interim Director General.
www.embl.org
January 17, 2026 at 12:17 AM
It is with great sadness that we mourn the loss of Peer Bork, an exceptionally impactful scientist and leader, and a lifelong mentor full of energy, passion, and warmth. He will be sorely missed.
www.embl.org/news/embl-an...
www.embl.org/news/embl-an...
Another fantastic #zukunftstag where we welcomed a group of enthusiastic kids into our lab for the day to learn about cultivation and helps us pick colonies for identification!
Thanks to our great team members @martinsperfeld.bsky.social & Fabienne, Luca and Lisa
@eth-microbiology.bsky.social
Thanks to our great team members @martinsperfeld.bsky.social & Fabienne, Luca and Lisa
@eth-microbiology.bsky.social
Stay curious guys and come to the good side, we need you here! Fun at Swiss National Future Day @microbiomeresearch.bsky.social @eth-microbiology.bsky.social @eth-microbiology.bsky.social. Most legit question of the day: “Wait… you have a pipetting robot, so why do we have to pipette by hand?”
November 28, 2025 at 5:10 PM
Another fantastic #zukunftstag where we welcomed a group of enthusiastic kids into our lab for the day to learn about cultivation and helps us pick colonies for identification!
Thanks to our great team members @martinsperfeld.bsky.social & Fabienne, Luca and Lisa
@eth-microbiology.bsky.social
Thanks to our great team members @martinsperfeld.bsky.social & Fabienne, Luca and Lisa
@eth-microbiology.bsky.social
Reposted by Microbiome Research Lab, ETH Zürich
Stay curious guys and come to the good side, we need you here! Fun at Swiss National Future Day @microbiomeresearch.bsky.social @eth-microbiology.bsky.social @eth-microbiology.bsky.social. Most legit question of the day: “Wait… you have a pipetting robot, so why do we have to pipette by hand?”
November 15, 2025 at 8:06 AM
Stay curious guys and come to the good side, we need you here! Fun at Swiss National Future Day @microbiomeresearch.bsky.social @eth-microbiology.bsky.social @eth-microbiology.bsky.social. Most legit question of the day: “Wait… you have a pipetting robot, so why do we have to pipette by hand?”
Mirusviruses are predicted to reproduce in the nuclei of unicellular eukaryotes
Very happy that members of our lab could contribute to this!
#virus #ecoevo
www.nature.com/articles/s41...
Very happy that members of our lab could contribute to this!
#virus #ecoevo
www.nature.com/articles/s41...
Widespread and intron-rich mirusviruses are predicted to reproduce in nuclei of unicellular eukaryotes - Nature Microbiology
Environmental metagenomic explorations show that Mirusviricota lineages lack essential replication and transcription genes and contain spliceosomal introns, suggesting nuclear reproduction.
www.nature.com
November 28, 2025 at 4:40 PM
Mirusviruses are predicted to reproduce in the nuclei of unicellular eukaryotes
Very happy that members of our lab could contribute to this!
#virus #ecoevo
www.nature.com/articles/s41...
Very happy that members of our lab could contribute to this!
#virus #ecoevo
www.nature.com/articles/s41...
Reposted by Microbiome Research Lab, ETH Zürich
Dr. Fabienne Wiederkehr (Postdoc in der Gruppe von Prof. Shinichi Sunagawa, Institut für Mikrobiologie, D-BIOL) gibt im "Wissenschaftsmagazin" von SRF als Expertin auf diesem Gebiet Auskunft zu hitzeresistenten Korallen im Korallendreieck in Indonesien. www.srf.ch/audio/wissen...
Korallen trotzen Hitzestress
In einigen Regionen der Welt sind Korallen hitzeresistenter als anderswo. Was ist das Geheimnis dieser Riffe? Zudem: Wir begleiten einen Mars-Rover im Sinkflug. Und: Die Internationale Raumstation ISS...
www.srf.ch
November 3, 2025 at 12:30 PM
Dr. Fabienne Wiederkehr (Postdoc in der Gruppe von Prof. Shinichi Sunagawa, Institut für Mikrobiologie, D-BIOL) gibt im "Wissenschaftsmagazin" von SRF als Expertin auf diesem Gebiet Auskunft zu hitzeresistenten Korallen im Korallendreieck in Indonesien. www.srf.ch/audio/wissen...
Interessierst du dich für Korallenriffe und dafür, wie es ihnen im Klimawandel ergeht? Eine Postdoktorandin in unserem Labor, Fabienne Wiederkehr, wurde kürzlich eingeladen, ihre Einblicke diesbezüglich im Radio zu teilen. Höre es dir hier an:
www.srf.ch/play/radio/r...
#corals #coralreef
www.srf.ch/play/radio/r...
#corals #coralreef
Korallen trotzen Hitzestress
In einigen Regionen der Welt sind Korallen hitzeresistenter als anderswo. Was ist das Geheimnis dieser Riffe? Zudem: Wir begleiten einen Mars-Rover im Sinkflug. Und: Die Internationale Raumstation ISS...
www.srf.ch
November 4, 2025 at 6:55 AM
Interessierst du dich für Korallenriffe und dafür, wie es ihnen im Klimawandel ergeht? Eine Postdoktorandin in unserem Labor, Fabienne Wiederkehr, wurde kürzlich eingeladen, ihre Einblicke diesbezüglich im Radio zu teilen. Höre es dir hier an:
www.srf.ch/play/radio/r...
#corals #coralreef
www.srf.ch/play/radio/r...
#corals #coralreef
🚨New preprint from the lab🚨 We present a transcriptomic, marker gene-based growth classifier that predicts the growth states of bacterial strains from different phyla cultivated in diverse conditions.
#MicroSky #MicroEcoEvo #MicroEco #Microbiology
www.biorxiv.org/content/10.1...
#MicroSky #MicroEcoEvo #MicroEco #Microbiology
www.biorxiv.org/content/10.1...
Transcriptomic profiles of single-copy marker genes enable predicting bacterial growth states in microbial communities
Studying microbial community dynamics is fundamental to better understand ecosystem stability, resilience and environmental change. Community composition changes with the growth of individual members,...
www.biorxiv.org
September 13, 2025 at 8:55 AM
🚨New preprint from the lab🚨 We present a transcriptomic, marker gene-based growth classifier that predicts the growth states of bacterial strains from different phyla cultivated in diverse conditions.
#MicroSky #MicroEcoEvo #MicroEco #Microbiology
www.biorxiv.org/content/10.1...
#MicroSky #MicroEcoEvo #MicroEco #Microbiology
www.biorxiv.org/content/10.1...
🚨Check out our latest preprint on a new approach to assess and monitor #biodiversity globally, applicable across vast ecological scales from holobionts to cross-ecosystems🚨
#MicroSky #MicroEcoEvo #conservation
www.biorxiv.org/content/10.1...
#MicroSky #MicroEcoEvo #conservation
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 g...
www.biorxiv.org
September 13, 2025 at 8:46 AM
🚨Check out our latest preprint on a new approach to assess and monitor #biodiversity globally, applicable across vast ecological scales from holobionts to cross-ecosystems🚨
#MicroSky #MicroEcoEvo #conservation
www.biorxiv.org/content/10.1...
#MicroSky #MicroEcoEvo #conservation
www.biorxiv.org/content/10.1...
Reposted by Microbiome Research Lab, ETH Zürich
🎙️📷 We spoke with #BlueRemediomics partner
Martin Alessandrini from @fondationtaraocean.bsky.social
who focuses on ocean advocacy and international cooperation.
Watch the video with Martin below!
👉 Read the interview here: blueremediomics.eu/the-blue-bio...
Martin Alessandrini from @fondationtaraocean.bsky.social
who focuses on ocean advocacy and international cooperation.
Watch the video with Martin below!
👉 Read the interview here: blueremediomics.eu/the-blue-bio...
September 10, 2025 at 11:19 AM
🎙️📷 We spoke with #BlueRemediomics partner
Martin Alessandrini from @fondationtaraocean.bsky.social
who focuses on ocean advocacy and international cooperation.
Watch the video with Martin below!
👉 Read the interview here: blueremediomics.eu/the-blue-bio...
Martin Alessandrini from @fondationtaraocean.bsky.social
who focuses on ocean advocacy and international cooperation.
Watch the video with Martin below!
👉 Read the interview here: blueremediomics.eu/the-blue-bio...
🚨New preprint from the lab 🚨
We demonstrate the effectiveness and applicability of assessing tree-of-life scale biodiversity across ecological scales using a single pair of PCR primers! The JEDI marker can serve to greatly enhance current biodiv. assessments
www.biorxiv.org/content/10.1...
We demonstrate the effectiveness and applicability of assessing tree-of-life scale biodiversity across ecological scales using a single pair of PCR primers! The JEDI marker can serve to greatly enhance current biodiv. assessments
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 g...
www.biorxiv.org
August 29, 2025 at 5:57 AM
🚨New preprint from the lab 🚨
We demonstrate the effectiveness and applicability of assessing tree-of-life scale biodiversity across ecological scales using a single pair of PCR primers! The JEDI marker can serve to greatly enhance current biodiv. assessments
www.biorxiv.org/content/10.1...
We demonstrate the effectiveness and applicability of assessing tree-of-life scale biodiversity across ecological scales using a single pair of PCR primers! The JEDI marker can serve to greatly enhance current biodiv. assessments
www.biorxiv.org/content/10.1...
Great to see the latest contribution from some of our team is out -
Extensive data mining uncovers novel diversity among members of the rare biosphere within the Thermoplasmatota
microbiomejournal.biomedcentral.com/articles/10....
Extensive data mining uncovers novel diversity among members of the rare biosphere within the Thermoplasmatota
microbiomejournal.biomedcentral.com/articles/10....
Extensive data mining uncovers novel diversity among members of the rare biosphere within the Thermoplasmatota - Microbiome
Background Rare species, especially of the marine sedimentary biosphere, have long been overlooked owing to the complexity of sediment microbial communities, their sporadic temporal and patchy spatial...
microbiomejournal.biomedcentral.com
July 21, 2025 at 12:54 PM
Great to see the latest contribution from some of our team is out -
Extensive data mining uncovers novel diversity among members of the rare biosphere within the Thermoplasmatota
microbiomejournal.biomedcentral.com/articles/10....
Extensive data mining uncovers novel diversity among members of the rare biosphere within the Thermoplasmatota
microbiomejournal.biomedcentral.com/articles/10....
It has been a long process but we are very excited to finally have our own #aquarium up and running and happy to see the newest members of the lab are settling in nicely 🐠🪸
July 21, 2025 at 12:46 PM
It has been a long process but we are very excited to finally have our own #aquarium up and running and happy to see the newest members of the lab are settling in nicely 🐠🪸
🚨Latest work from our lab is out!🚨
Led by our recently graduated PhD candidate Fabienne Wiederkehr - this study investigates the impact of host-level #biodiversity and habitat complexity on #coral reef-associated #microbiome dynamics - academic.oup.com/ismecommun/a...
Led by our recently graduated PhD candidate Fabienne Wiederkehr - this study investigates the impact of host-level #biodiversity and habitat complexity on #coral reef-associated #microbiome dynamics - academic.oup.com/ismecommun/a...
Host-level biodiversity shapes the dynamics and networks within the coral reef microbiome
Abstract. Coral reefs face severe threats from human activity, resulting in drastic biodiversity loss. Despite the urgency of safeguarding these ecosystems
academic.oup.com
June 13, 2025 at 5:46 AM
🚨Latest work from our lab is out!🚨
Led by our recently graduated PhD candidate Fabienne Wiederkehr - this study investigates the impact of host-level #biodiversity and habitat complexity on #coral reef-associated #microbiome dynamics - academic.oup.com/ismecommun/a...
Led by our recently graduated PhD candidate Fabienne Wiederkehr - this study investigates the impact of host-level #biodiversity and habitat complexity on #coral reef-associated #microbiome dynamics - academic.oup.com/ismecommun/a...
Reposted by Microbiome Research Lab, ETH Zürich
Excited to announce that our study on the impact of host-level #biodiversity and habitat complexity on shaping #coral reef-associated #microbiome dynamics has been accepted in ISME Communications - @isme-microbes.bsky.social @microbiomeresearch.bsky.social
academic.oup.com/ismecommun/a...
academic.oup.com/ismecommun/a...
Host-level biodiversity shapes the dynamics and networks within the coral reef microbiome
Abstract. Coral reefs face severe threats from human activity, resulting in drastic biodiversity loss. Despite the urgency of safeguarding these ecosystems
academic.oup.com
June 13, 2025 at 5:40 AM
Excited to announce that our study on the impact of host-level #biodiversity and habitat complexity on shaping #coral reef-associated #microbiome dynamics has been accepted in ISME Communications - @isme-microbes.bsky.social @microbiomeresearch.bsky.social
academic.oup.com/ismecommun/a...
academic.oup.com/ismecommun/a...
Reposted by Microbiome Research Lab, ETH Zürich
The Arctic is threatened by global heating and pollution: @taraoceans-science.bsky.social polar station will both lock into ice and float on water to support researchers in understanding these threats. TREC's Thomas Haize attended the vessel's inauguration in Lorient and shared these great pics!
April 30, 2025 at 12:21 PM
The Arctic is threatened by global heating and pollution: @taraoceans-science.bsky.social polar station will both lock into ice and float on water to support researchers in understanding these threats. TREC's Thomas Haize attended the vessel's inauguration in Lorient and shared these great pics!