Davide Ciccarese
@davideciccarese.bsky.social
Junior lecturer @ UNIL | Postdoc @ MIT | PhD @ ETH. Synthetic ecology & Microbial Community Assembly. Author of 7 books, winner of two book prize.
Reposted by Davide Ciccarese
Don't miss out on our free virtual symposium (Dec. 12th) focused on microbial metabolites and their effects on the host.
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Join @isbscience.org on December 12 for a Virtual Microbiome Symposium highlighting new discoveries about how gut-derived metabolites affect neural, immune, and endocrine systems. Open to microbiome-curious researchers and practitioners everywhere. isbscience.org/events/2025-...
2025 ISB Virtual Microbiome Symposium - Institute for Systems Biology (ISB)
The gut’s microbial ecosystem produces diverse metabolites that actively shape neural, immune, and endocrine function. Join leading researchers on December 12 as they share new discoveries into these ...
isbscience.org
November 18, 2025 at 11:25 PM
Don't miss out on our free virtual symposium (Dec. 12th) focused on microbial metabolites and their effects on the host.
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Sponsors: @amiposts.bsky.social, Pendulum, & Liv (@zymoresearch.bsky.social)
Registrants will receive free memberships to Applied Microbiology International.
Details below 👇
Reposted by Davide Ciccarese
#microsky #mevosky @spp2389.bsky.social
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
October 28, 2025 at 8:43 AM
#microsky #mevosky @spp2389.bsky.social
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
A PhD position is available in my lab to work on:
Emergence and self-organisation of bacterial metabolism in consortia of cross-feeding bacteria.
Please RT
Deadline: 12.11.25
More infos 👇
shorturl.at/rAKAT
Reposted by Davide Ciccarese
Learn more about recent advances in anaerobic #microbiology at EMBO Practical Course "Breathless Microbes: Life With No Oxygen" in Nijmegen, Netherlands, 6–10 July 2026. 🧪
Deadline: 15 April 2026
meetings.embo.org/event/26-bre...
#EMBObreathless #EMBOevents #MicroSky #biotechnology #biochemistry
Deadline: 15 April 2026
meetings.embo.org/event/26-bre...
#EMBObreathless #EMBOevents #MicroSky #biotechnology #biochemistry
Breathless Microbes: Life With No Oxygen
Recent advances in anaerobic microbiology have driven significant progress in biotechnology, environmental microbiology, and biochemistry. Anaerobes play key roles in sustainable biotechnological pro…
meetings.embo.org
October 25, 2025 at 4:32 AM
Learn more about recent advances in anaerobic #microbiology at EMBO Practical Course "Breathless Microbes: Life With No Oxygen" in Nijmegen, Netherlands, 6–10 July 2026. 🧪
Deadline: 15 April 2026
meetings.embo.org/event/26-bre...
#EMBObreathless #EMBOevents #MicroSky #biotechnology #biochemistry
Deadline: 15 April 2026
meetings.embo.org/event/26-bre...
#EMBObreathless #EMBOevents #MicroSky #biotechnology #biochemistry
Reposted by Davide Ciccarese
Postdoc vacancy: Microbial dormancy in the cryosphere
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
October 21, 2025 at 3:48 PM
Postdoc vacancy: Microbial dormancy in the cryosphere
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
@erc.europa.eu #ERC_SIESTA
📢 PLEASE RT
🧬 Single cell microbial activity measurements, flow cytometry, cell sorting, omics, ecological interpretation
☀️ Marseille, France
‼️ Apply ASAP & before 7 Nov
Link: emploi.cnrs.fr/Offres/CDD/U...
Reposted by Davide Ciccarese
New paper with my (amazing) friend and mentor @jrpenades.bsky.social
Really looking forward to see what plasmid aficionados think of this one!!
With @asantoslopez.bsky.social @wfigueroac3.bsky.social Akshay Sabins and others
www.cell.com/cell-reports...
Really looking forward to see what plasmid aficionados think of this one!!
With @asantoslopez.bsky.social @wfigueroac3.bsky.social Akshay Sabins and others
www.cell.com/cell-reports...
Non-conjugative plasmids limit their mobility to persist in nature
Sabnis et al. explain why non-conjugative plasmids move at a low rate in nature. While
increased mobility can easily evolve by incorporating phage DNA into plasmids, this
is disadvantageous because it...
www.cell.com
October 22, 2025 at 1:12 PM
New paper with my (amazing) friend and mentor @jrpenades.bsky.social
Really looking forward to see what plasmid aficionados think of this one!!
With @asantoslopez.bsky.social @wfigueroac3.bsky.social Akshay Sabins and others
www.cell.com/cell-reports...
Really looking forward to see what plasmid aficionados think of this one!!
With @asantoslopez.bsky.social @wfigueroac3.bsky.social Akshay Sabins and others
www.cell.com/cell-reports...
Excellent work by Estelle Pignon and @yschaerli.bsky.social! A great overview of how synthetic bacterial communities can be used to uncover the rules governing spatial organization.
Deciphering microbial spatial organization: insights from synthetic and engineered communities url: academic.oup.com/ismecommun/a...
Deciphering microbial spatial organization: insights from synthetic and engineered communities
Abstract. Microbial communities are frequently organized into complex spatial structures, shaped by intrinsic cellular traits, interactions between communi
academic.oup.com
October 25, 2025 at 2:48 PM
Excellent work by Estelle Pignon and @yschaerli.bsky.social! A great overview of how synthetic bacterial communities can be used to uncover the rules governing spatial organization.
Reposted by Davide Ciccarese
Two postdoc positions with @ajfedorec.bsky.social: one computational and one wetlab, for a 5 year grant on synthetic microbial communities
Research Fellow in Computational Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
Research Fellow in Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
#PostDoc
Research Fellow in Computational Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
Research Fellow in Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
#PostDoc
UCL – University College London
UCL is consistently ranked as one of the top ten universities in the world (QS World University Rankings 2010-2022) and is No.2 in the UK for research power (Research Excellence Framework 2021).
www.ucl.ac.uk
September 30, 2025 at 12:54 PM
Two postdoc positions with @ajfedorec.bsky.social: one computational and one wetlab, for a 5 year grant on synthetic microbial communities
Research Fellow in Computational Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
Research Fellow in Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
#PostDoc
Research Fellow in Computational Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
Research Fellow in Synthetic Biology
www.ucl.ac.uk/work-at-ucl/...
#PostDoc
Reposted by Davide Ciccarese
Cool PNAS paper by @jordivangestel.bsky.social and colleagues
Contributed by Carol Gross
[reviewed by @polzlab.bsky.social and @wcratcliff.bsky.social]
Bacillus subtilis in defense mode: Switch-like adaptations to protistan predation
www.pnas.org/doi/10.1073/...
Contributed by Carol Gross
[reviewed by @polzlab.bsky.social and @wcratcliff.bsky.social]
Bacillus subtilis in defense mode: Switch-like adaptations to protistan predation
www.pnas.org/doi/10.1073/...
September 25, 2025 at 6:29 PM
Cool PNAS paper by @jordivangestel.bsky.social and colleagues
Contributed by Carol Gross
[reviewed by @polzlab.bsky.social and @wcratcliff.bsky.social]
Bacillus subtilis in defense mode: Switch-like adaptations to protistan predation
www.pnas.org/doi/10.1073/...
Contributed by Carol Gross
[reviewed by @polzlab.bsky.social and @wcratcliff.bsky.social]
Bacillus subtilis in defense mode: Switch-like adaptations to protistan predation
www.pnas.org/doi/10.1073/...
Reposted by Davide Ciccarese
Cell Symposia: Host-microbiome dynamics
May 10–12, 2026 | Bruges, Belgium
by @cp-immunity.bsky.social @cp-cellhostmicrobe.bsky.social and @cp-trendsmicrobiol.bsky.social
www.cell-symposia.com/microbiome-2...
May 10–12, 2026 | Bruges, Belgium
by @cp-immunity.bsky.social @cp-cellhostmicrobe.bsky.social and @cp-trendsmicrobiol.bsky.social
www.cell-symposia.com/microbiome-2...
August 14, 2025 at 2:08 PM
Cell Symposia: Host-microbiome dynamics
May 10–12, 2026 | Bruges, Belgium
by @cp-immunity.bsky.social @cp-cellhostmicrobe.bsky.social and @cp-trendsmicrobiol.bsky.social
www.cell-symposia.com/microbiome-2...
May 10–12, 2026 | Bruges, Belgium
by @cp-immunity.bsky.social @cp-cellhostmicrobe.bsky.social and @cp-trendsmicrobiol.bsky.social
www.cell-symposia.com/microbiome-2...
Reposted by Davide Ciccarese
I am excited to announce that the position of a senior postdoc (3 +3 years) in the field of theoretical biology is available in my group.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
116 FB 5 Research Assistant (m/f/d) field of Theoretical Ecology and Evolution or Computational Biology: Uni Osnabrück
shorturl.at
August 8, 2025 at 10:09 AM
I am excited to announce that the position of a senior postdoc (3 +3 years) in the field of theoretical biology is available in my group.
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
The position provides the opportunity to closely interact with experimentalists and develop own research projects.
Please RT.
Details 👇:
shorturl.at/iiiOv
Reposted by Davide Ciccarese
We are also hiring a 4-year postdoc to study the dynamics and evolution of mobile genetic elements in the C-fixing Icelandic host-spring microbiomes
Join our exciting multidisciplinary team funded by @ukri.org BBSRC sLoLa
www.jobs.manchester.ac.uk/Job/JobDetai...
Join our exciting multidisciplinary team funded by @ukri.org BBSRC sLoLa
www.jobs.manchester.ac.uk/Job/JobDetai...
August 13, 2025 at 10:41 AM
We are also hiring a 4-year postdoc to study the dynamics and evolution of mobile genetic elements in the C-fixing Icelandic host-spring microbiomes
Join our exciting multidisciplinary team funded by @ukri.org BBSRC sLoLa
www.jobs.manchester.ac.uk/Job/JobDetai...
Join our exciting multidisciplinary team funded by @ukri.org BBSRC sLoLa
www.jobs.manchester.ac.uk/Job/JobDetai...
Applying ecological principles to microbiome engineering www.nature.com/articles/s41...
Applying ecological principles to microbiome engineering - Nature Microbiology
This Perspective discusses the application of ecological principles of macro-ecosystems to microbiome engineering. The authors propose research priorities necessary to facilitate the application of th...
www.nature.com
August 13, 2025 at 1:16 PM
Applying ecological principles to microbiome engineering www.nature.com/articles/s41...
Reposted by Davide Ciccarese
We are looking for a new @thembauk.bsky.social Anne Warner Research Fellow (5 year post) to develop an independent research group in the area of cell and molecular biology of marine organisms here in #Plymouth 🔬🦠🧫🧬 mymba.mba.ac.uk/job-listing....
July 22, 2025 at 3:01 PM
We are looking for a new @thembauk.bsky.social Anne Warner Research Fellow (5 year post) to develop an independent research group in the area of cell and molecular biology of marine organisms here in #Plymouth 🔬🦠🧫🧬 mymba.mba.ac.uk/job-listing....
Reposted by Davide Ciccarese
Here's our new broad review on the extended mobility of plasmids, about all mechanisms driving and limiting their transfer. From conjugation to conduction, phage-plasmids to hitchers, molecular to evolutionary dynamics, ecology to biotech. The state of affairs. 1/9 academic.oup.com/nar/article/...
July 23, 2025 at 7:35 AM
Here's our new broad review on the extended mobility of plasmids, about all mechanisms driving and limiting their transfer. From conjugation to conduction, phage-plasmids to hitchers, molecular to evolutionary dynamics, ecology to biotech. The state of affairs. 1/9 academic.oup.com/nar/article/...
Reposted by Davide Ciccarese
New paper in @nature.com! With @kiseokmicro.bsky.social , Siqi Liu, Kyle Crocker, Jojo Wang, Mikhail Tikhonov & Madhav Mani — a massive dataset and simple model reveal a few conserved regimes that capture how soil microbiome metabolism responds to perturbations. www.nature.com/articles/s41...
July 17, 2025 at 6:36 AM
New paper in @nature.com! With @kiseokmicro.bsky.social , Siqi Liu, Kyle Crocker, Jojo Wang, Mikhail Tikhonov & Madhav Mani — a massive dataset and simple model reveal a few conserved regimes that capture how soil microbiome metabolism responds to perturbations. www.nature.com/articles/s41...
Reposted by Davide Ciccarese
Out in @natbiotech.nature.com: Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. Profiles of 700,000 metagenomes at sandpiper.qut.edu.au. A 🧵
July 16, 2025 at 9:59 PM
Out in @natbiotech.nature.com: Metagenome taxonomy profilers usually ignore unknown species. SingleM is an accurate profiler which doesn't, even detecting phyla with no MAGs. Profiles of 700,000 metagenomes at sandpiper.qut.edu.au. A 🧵
Reposted by Davide Ciccarese
1/27 We have a new paper out! Turns out that snowflake yeast have been hiding a secret from us - they've evolved a (very!) crude circulatory system. Not with blood vessels or a heart, but through spontaneous fluid flows powered by their metabolism. 🧪🔬
www.science.org/doi/full/10....
www.science.org/doi/full/10....
June 24, 2025 at 4:52 PM
1/27 We have a new paper out! Turns out that snowflake yeast have been hiding a secret from us - they've evolved a (very!) crude circulatory system. Not with blood vessels or a heart, but through spontaneous fluid flows powered by their metabolism. 🧪🔬
www.science.org/doi/full/10....
www.science.org/doi/full/10....
These microscopy images are stunning. “Cellular anatomy of arbuscular mycorrhizal fungi” www.cell.com/current-biol... a study led by @rachaelcargill.bsky.social.
June 11, 2025 at 9:10 AM
These microscopy images are stunning. “Cellular anatomy of arbuscular mycorrhizal fungi” www.cell.com/current-biol... a study led by @rachaelcargill.bsky.social.
Reposted by Davide Ciccarese
Not all persister bacteria are dormant! 🦠
Single-cell imaging of over a million #EColi shows that many antibiotic-resistant persisters were actively growing before drug exposure. Persistence appears to be more dynamic than once thought.
buff.ly/04T4L1k
Single-cell imaging of over a million #EColi shows that many antibiotic-resistant persisters were actively growing before drug exposure. Persistence appears to be more dynamic than once thought.
buff.ly/04T4L1k
June 6, 2025 at 8:21 AM
Not all persister bacteria are dormant! 🦠
Single-cell imaging of over a million #EColi shows that many antibiotic-resistant persisters were actively growing before drug exposure. Persistence appears to be more dynamic than once thought.
buff.ly/04T4L1k
Single-cell imaging of over a million #EColi shows that many antibiotic-resistant persisters were actively growing before drug exposure. Persistence appears to be more dynamic than once thought.
buff.ly/04T4L1k
Reposted by Davide Ciccarese
Amazing chance to work with CONTRAST project & TREC expedition coastal sediment samples to map chemical contaminants and how they shape microbial life over time. Based at Ifremer, Nantes in Chemical Contamination of Marine Ecosystems unit www.hellowork.com/fr-fr/emploi... #Postdoc #MicrobialEcology
Offre Emploi CDD Post-Doctoral Position In Microbial Ecology Ecotoxicology M F Nantes (44) - Recrutement par Ifremer | Hellowork
Decouvrez l'offre d'Emploi Post-Doctoral Position In Microbial Ecology Ecotoxicology M F Nantes (44) en CDD pour Ifremer. Ifremer recrute actuellement ✓ Postulez dès maintenant ✓ Candidature Simple & ...
www.hellowork.com
June 5, 2025 at 2:04 PM
Amazing chance to work with CONTRAST project & TREC expedition coastal sediment samples to map chemical contaminants and how they shape microbial life over time. Based at Ifremer, Nantes in Chemical Contamination of Marine Ecosystems unit www.hellowork.com/fr-fr/emploi... #Postdoc #MicrobialEcology
I fell in love with Philip Ball through Critical Mass. But How Life Works goes even further, with elegance, he explains the very essence of life and how evolution has shaped all living things. With ingenuity and no fear, he ventures into some of the most advanced ideas out there to explain life.
May 24, 2025 at 5:06 PM
I fell in love with Philip Ball through Critical Mass. But How Life Works goes even further, with elegance, he explains the very essence of life and how evolution has shaped all living things. With ingenuity and no fear, he ventures into some of the most advanced ideas out there to explain life.
Reposted by Davide Ciccarese
Very good opportunity for theoretical / comp neuroscientists at ICTP
ictp.it/opportunity/...
2+2 yrs independent postdoc fellowship
ICTP is a supportive unique international institution
Trieste offers great collaborations in neurosc and a great quality of life
Move here!
ictp.it/opportunity/...
2+2 yrs independent postdoc fellowship
ICTP is a supportive unique international institution
Trieste offers great collaborations in neurosc and a great quality of life
Move here!
May 23, 2025 at 9:14 AM
Very good opportunity for theoretical / comp neuroscientists at ICTP
ictp.it/opportunity/...
2+2 yrs independent postdoc fellowship
ICTP is a supportive unique international institution
Trieste offers great collaborations in neurosc and a great quality of life
Move here!
ictp.it/opportunity/...
2+2 yrs independent postdoc fellowship
ICTP is a supportive unique international institution
Trieste offers great collaborations in neurosc and a great quality of life
Move here!
Reposted by Davide Ciccarese
🧪🔬🦠🧫🌍
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
Absolute quantification of prokaryotes in the microbiome by 16S rRNA qPCR or ddPCR - Nature Protocols
This protocol enables rigorous and reproducible quantification of prokaryotic concentration in stool samples by 16S rRNA qPCR or ddPCR.
www.nature.com
May 22, 2025 at 5:08 PM
🧪🔬🦠🧫🌍
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
This is the kind of paper we should all be waiting for!
Because sadly we still don't have reliable methods to count bacterial abundance from microbiomes.
(I haven't read it yet, but I love the intention already)
www.nature.com/articles/s41...
Reposted by Davide Ciccarese
In a Sea of Microbes, Eddy Events Trigger Diatom Export in the Sargasso Sea academic.oup.com/ismecommun/a... #jcampubs
May 19, 2025 at 1:00 PM
In a Sea of Microbes, Eddy Events Trigger Diatom Export in the Sargasso Sea academic.oup.com/ismecommun/a... #jcampubs
Reposted by Davide Ciccarese
