Sonja Lehtinen
@sonjalehtinen.bsky.social
Bacterial ecology, evolution and epidemiology | Mathematical and statistical modelling | Genomics | AMR. Assistant professor at the University of Lausanne. https://wp.unil.ch/evolutionaryepidemiology
Pinned
Quantifying the effects of antibiotic resistance and within-host competition on strain fitness in Streptococcus pneumoniae
Competition significantly influences bacterial population dynamics, particularly in how strains interact within and between hosts. This study shows that within-host competition in Streptococcus pneumo...
journals.plos.org
New(ish!) paper on how within-host competition and antibiotic resistance shape the fitness of Streptococcus pneumoniae serotypes, out in August in Plos Biology. journals.plos.org/plosbiology/...
Reposted by Sonja Lehtinen
🚨 Excited to share our new paper is out! 🎉
We show how interactions within gut microbiomes allow certain antibiotic-resistant E. coli strains to persist even without antibiotics, helping explain how resistance is maintained in the human gut.
Now published in @natcomms.nature.com rdcu.be/eOf63
We show how interactions within gut microbiomes allow certain antibiotic-resistant E. coli strains to persist even without antibiotics, helping explain how resistance is maintained in the human gut.
Now published in @natcomms.nature.com rdcu.be/eOf63
Multi-layered ecological interactions determine growth of clinical antibiotic-resistant strains within human microbiomes
Nature Communications - The role of ecological factors in modulating the spread of antibiotic-resistance bacteria in the gut remains unclear. Here, the authors use anaerobic microcosms to study the...
rdcu.be
November 7, 2025 at 9:15 AM
🚨 Excited to share our new paper is out! 🎉
We show how interactions within gut microbiomes allow certain antibiotic-resistant E. coli strains to persist even without antibiotics, helping explain how resistance is maintained in the human gut.
Now published in @natcomms.nature.com rdcu.be/eOf63
We show how interactions within gut microbiomes allow certain antibiotic-resistant E. coli strains to persist even without antibiotics, helping explain how resistance is maintained in the human gut.
Now published in @natcomms.nature.com rdcu.be/eOf63
Reposted by Sonja Lehtinen
Save the date!
𝗦𝘄𝗶𝘀𝘀 𝗠𝗶𝗰𝗿𝗼𝗯𝗶𝗼𝗺𝗲𝘀 𝗙𝗼𝗿𝘂𝗺 𝟮𝟬𝟮𝟲
The NCCR Microbiomes presents the third edition of the #Swiss #Microbiomes #Forum
🗓️ Thursday, Feb 5th 2026
🕑 14h00
📍 EPFL Rolex Learning Center, Lausanne
🎟️ Free to attend, but registration is required.
🔗 nccr-microbiomes.ch/tech-transfe...
𝗦𝘄𝗶𝘀𝘀 𝗠𝗶𝗰𝗿𝗼𝗯𝗶𝗼𝗺𝗲𝘀 𝗙𝗼𝗿𝘂𝗺 𝟮𝟬𝟮𝟲
The NCCR Microbiomes presents the third edition of the #Swiss #Microbiomes #Forum
🗓️ Thursday, Feb 5th 2026
🕑 14h00
📍 EPFL Rolex Learning Center, Lausanne
🎟️ Free to attend, but registration is required.
🔗 nccr-microbiomes.ch/tech-transfe...
Third edition - 2026 - NCCR
nccr-microbiomes.ch
November 6, 2025 at 9:10 AM
Save the date!
𝗦𝘄𝗶𝘀𝘀 𝗠𝗶𝗰𝗿𝗼𝗯𝗶𝗼𝗺𝗲𝘀 𝗙𝗼𝗿𝘂𝗺 𝟮𝟬𝟮𝟲
The NCCR Microbiomes presents the third edition of the #Swiss #Microbiomes #Forum
🗓️ Thursday, Feb 5th 2026
🕑 14h00
📍 EPFL Rolex Learning Center, Lausanne
🎟️ Free to attend, but registration is required.
🔗 nccr-microbiomes.ch/tech-transfe...
𝗦𝘄𝗶𝘀𝘀 𝗠𝗶𝗰𝗿𝗼𝗯𝗶𝗼𝗺𝗲𝘀 𝗙𝗼𝗿𝘂𝗺 𝟮𝟬𝟮𝟲
The NCCR Microbiomes presents the third edition of the #Swiss #Microbiomes #Forum
🗓️ Thursday, Feb 5th 2026
🕑 14h00
📍 EPFL Rolex Learning Center, Lausanne
🎟️ Free to attend, but registration is required.
🔗 nccr-microbiomes.ch/tech-transfe...
Reposted by Sonja Lehtinen
The University of Bern seeks a Professor in Plant Population Ecology (Tenure-Track or Open Rank) to develop a research program and teach. Applications due by 23.01.2026. Details: https://www.ips.unibe.ch/questionnaire/ #job
Professor in Plant Population Ecology (80-100%), Tenure-Track Assistant Professor or Open Rank
www.ips.unibe.ch
November 4, 2025 at 12:50 PM
The University of Bern seeks a Professor in Plant Population Ecology (Tenure-Track or Open Rank) to develop a research program and teach. Applications due by 23.01.2026. Details: https://www.ips.unibe.ch/questionnaire/ #job
New(ish!) paper on how within-host competition and antibiotic resistance shape the fitness of Streptococcus pneumoniae serotypes, out in August in Plos Biology. journals.plos.org/plosbiology/...
Quantifying the effects of antibiotic resistance and within-host competition on strain fitness in Streptococcus pneumoniae
Competition significantly influences bacterial population dynamics, particularly in how strains interact within and between hosts. This study shows that within-host competition in Streptococcus pneumo...
journals.plos.org
October 31, 2025 at 3:05 PM
New(ish!) paper on how within-host competition and antibiotic resistance shape the fitness of Streptococcus pneumoniae serotypes, out in August in Plos Biology. journals.plos.org/plosbiology/...
Reposted by Sonja Lehtinen
Please spread the word! 10 days left to apply for this #sciencejobs as Assistant Professor Tenure Track in Quantitative Cell Biology 👩🔬
@izb-unibern.bsky.social @unibe.ch! ohws.prospective.ch/public/v1/jo...
#QueerInSTEM #DisabledInSTEM #BlackInSTEM #WomenInSTEM #CarersInSTEM #AcademicSky #HigherED
@izb-unibern.bsky.social @unibe.ch! ohws.prospective.ch/public/v1/jo...
#QueerInSTEM #DisabledInSTEM #BlackInSTEM #WomenInSTEM #CarersInSTEM #AcademicSky #HigherED
Uni Bern: Assistant Professor with tenure-track for Quantitative Cell Biology
Start date of employment: anticipated for August 2027
ohws.prospective.ch
October 7, 2025 at 11:17 AM
Please spread the word! 10 days left to apply for this #sciencejobs as Assistant Professor Tenure Track in Quantitative Cell Biology 👩🔬
@izb-unibern.bsky.social @unibe.ch! ohws.prospective.ch/public/v1/jo...
#QueerInSTEM #DisabledInSTEM #BlackInSTEM #WomenInSTEM #CarersInSTEM #AcademicSky #HigherED
@izb-unibern.bsky.social @unibe.ch! ohws.prospective.ch/public/v1/jo...
#QueerInSTEM #DisabledInSTEM #BlackInSTEM #WomenInSTEM #CarersInSTEM #AcademicSky #HigherED
Reposted by Sonja Lehtinen
EXCITING NEWS!! We're searching for a new professor colleague at the Biozentrum🇨🇭. Ideal candidates are exploring novel biological questions with structure, biophysics, or high-resolution imaging. 🧪 🧶🧬 🔬
The call closes Nov 3. Please get in touch if you would like more information. Come join us! 👩🔬🤓
The call closes Nov 3. Please get in touch if you would like more information. Come join us! 👩🔬🤓
September 30, 2025 at 9:52 AM
EXCITING NEWS!! We're searching for a new professor colleague at the Biozentrum🇨🇭. Ideal candidates are exploring novel biological questions with structure, biophysics, or high-resolution imaging. 🧪 🧶🧬 🔬
The call closes Nov 3. Please get in touch if you would like more information. Come join us! 👩🔬🤓
The call closes Nov 3. Please get in touch if you would like more information. Come join us! 👩🔬🤓
This sounds like a super cool project!
New ERC funded computational postdoc position in my lab! We are looking for someone who will study the genomics of bacterial evolution using samples from experimental evolution and clinical trials. Lots of opportunities for interesting and fun collaboration!
my.corehr.com/pls/uoxrecru...
my.corehr.com/pls/uoxrecru...
Job Details
my.corehr.com
September 25, 2025 at 2:54 PM
This sounds like a super cool project!
Reposted by Sonja Lehtinen
The EMBL PhD programme is open until 13th October (entry ~Sep 2026):
www.embl.org/about/info/e...
We have three positions in microbial genomics at EMBL-EBI, including one in my group. Please do apply, or if you know anyone that would be interested pass on to them
www.embl.org/about/info/e...
We have three positions in microbial genomics at EMBL-EBI, including one in my group. Please do apply, or if you know anyone that would be interested pass on to them
EMBL International PhD Programme – Unique in the world and waiting for you!
www.embl.org
September 17, 2025 at 3:49 PM
The EMBL PhD programme is open until 13th October (entry ~Sep 2026):
www.embl.org/about/info/e...
We have three positions in microbial genomics at EMBL-EBI, including one in my group. Please do apply, or if you know anyone that would be interested pass on to them
www.embl.org/about/info/e...
We have three positions in microbial genomics at EMBL-EBI, including one in my group. Please do apply, or if you know anyone that would be interested pass on to them
Reposted by Sonja Lehtinen
The next online version of our "Working with Bacterial Genomes" course is now open for registration. We aim to provide you with comprehensive training in analysing bacterial genomes covering everything from QC to clustering plasmids. Sign up here: www.training.cam.ac.uk/bioinformati...
Research Informatics - Working with Bacterial Genomes (ONLINE LIVE TRAINING) - Mon 27 Oct 2025
www.training.cam.ac.uk
September 8, 2025 at 2:01 PM
The next online version of our "Working with Bacterial Genomes" course is now open for registration. We aim to provide you with comprehensive training in analysing bacterial genomes covering everything from QC to clustering plasmids. Sign up here: www.training.cam.ac.uk/bioinformati...
Reposted by Sonja Lehtinen
Assistant Prof post in bacterial genomics @unibirmingham.bsky.social Come and join us!!
@imibirmingham.bsky.social
www.jobs.ac.uk/job/DOO184/a...
@imibirmingham.bsky.social
www.jobs.ac.uk/job/DOO184/a...
Assistant Professor (Research and Education) in Bacterial Genomics at University of Birmingham
Looking for a new job opportunity in academia? Check out this job opening for a Assistant Professor (Research and Education) in Bacterial Genomics on jobs.ac.uk!
www.jobs.ac.uk
September 4, 2025 at 8:22 AM
Assistant Prof post in bacterial genomics @unibirmingham.bsky.social Come and join us!!
@imibirmingham.bsky.social
www.jobs.ac.uk/job/DOO184/a...
@imibirmingham.bsky.social
www.jobs.ac.uk/job/DOO184/a...
Reposted by Sonja Lehtinen
A new 4 year PostDoc position in our lab! Modeling + experiments to explore dynamics of carbon fixing hot-spring microbiomes. Part of an exciting multidisciplinary team with Sophie Nixon, @brockhurstlab.bsky.social & others
Please share & get in touch if interested!
tinyurl.com/e7j7bha3
Please share & get in touch if interested!
tinyurl.com/e7j7bha3
Research Associate in Microbiome Ecology:Oxford Road
www.jobs.manchester.ac.uk
August 12, 2025 at 2:59 PM
A new 4 year PostDoc position in our lab! Modeling + experiments to explore dynamics of carbon fixing hot-spring microbiomes. Part of an exciting multidisciplinary team with Sophie Nixon, @brockhurstlab.bsky.social & others
Please share & get in touch if interested!
tinyurl.com/e7j7bha3
Please share & get in touch if interested!
tinyurl.com/e7j7bha3
Reposted by Sonja Lehtinen
Lausanne Comp Bio Symposium 2025 (cbiosymposium.unil.ch)
🗓 Abstract deadline 30 June (𝟑 𝐝𝐚𝐲𝐬 𝐭𝐨 𝐠𝐨!!!)
🎤 Oral presentation notifications: 7 July
✅ Early Bird registration deadline: 11 July
💰 Registration fee for non-PI: 150 CHF
🗓 Abstract deadline 30 June (𝟑 𝐝𝐚𝐲𝐬 𝐭𝐨 𝐠𝐨!!!)
🎤 Oral presentation notifications: 7 July
✅ Early Bird registration deadline: 11 July
💰 Registration fee for non-PI: 150 CHF
June 27, 2025 at 10:00 AM
Lausanne Comp Bio Symposium 2025 (cbiosymposium.unil.ch)
🗓 Abstract deadline 30 June (𝟑 𝐝𝐚𝐲𝐬 𝐭𝐨 𝐠𝐨!!!)
🎤 Oral presentation notifications: 7 July
✅ Early Bird registration deadline: 11 July
💰 Registration fee for non-PI: 150 CHF
🗓 Abstract deadline 30 June (𝟑 𝐝𝐚𝐲𝐬 𝐭𝐨 𝐠𝐨!!!)
🎤 Oral presentation notifications: 7 July
✅ Early Bird registration deadline: 11 July
💰 Registration fee for non-PI: 150 CHF
Reposted by Sonja Lehtinen
Great job opportunity at The Center for Integrative Genomics, Lausanne University, Switzerland unil.ch/cig/en/home....
For a tenure-track Assistant Professor position. More details for how to apply are here nature.com/naturecareer...
For a tenure-track Assistant Professor position. More details for how to apply are here nature.com/naturecareer...
June 16, 2025 at 4:18 PM
Great job opportunity at The Center for Integrative Genomics, Lausanne University, Switzerland unil.ch/cig/en/home....
For a tenure-track Assistant Professor position. More details for how to apply are here nature.com/naturecareer...
For a tenure-track Assistant Professor position. More details for how to apply are here nature.com/naturecareer...
Reposted by Sonja Lehtinen
New postdoc positions with a number of exciting epidemic modelling projects opening in our Unit at @pasteur.fr in beautiful Paris. Deadline for applications: 26th June.
research.pasteur.fr/en/job/postd...
research.pasteur.fr/en/job/postd...
Postdoctoral positions in epidemic mathematical/statistical modelling - Research
Job description We are recruiting postdocs to contribute to research projects in the Mathematical Modelling of Infectious Diseases Unit, at Institut Pasteur in Paris. The candidates will be expected t...
research.pasteur.fr
June 5, 2025 at 5:22 AM
New postdoc positions with a number of exciting epidemic modelling projects opening in our Unit at @pasteur.fr in beautiful Paris. Deadline for applications: 26th June.
research.pasteur.fr/en/job/postd...
research.pasteur.fr/en/job/postd...
One week left to apply - if you like our papers, we'd love to hear from you!
Come work with us! We're looking of postdoc(s) with experience in bacterial genomics and interest in mathematical modelling to work on bacterial ecology and evolution in the context of public health. tinyurl.com/n34vzszu
Opportunités de carrière : Postdoctoral researcher in bacterial genomics (22209)
tinyurl.com
May 23, 2025 at 1:35 PM
One week left to apply - if you like our papers, we'd love to hear from you!
Reposted by Sonja Lehtinen
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 Sonja Lehtinen
Two Postdocs (Lausanne, Switzerland)
Bacterial genomics in the context of evolutionary epidemiology, with potential projects including antibiotic resistance, HGT and plasmid dynamics.
with @sonjalehtinen.bsky.social
at University of...
More details: http://iddjobs.org/jobs/2309
Bacterial genomics in the context of evolutionary epidemiology, with potential projects including antibiotic resistance, HGT and plasmid dynamics.
with @sonjalehtinen.bsky.social
at University of...
More details: http://iddjobs.org/jobs/2309
May 3, 2025 at 8:47 AM
Two Postdocs (Lausanne, Switzerland)
Bacterial genomics in the context of evolutionary epidemiology, with potential projects including antibiotic resistance, HGT and plasmid dynamics.
with @sonjalehtinen.bsky.social
at University of...
More details: http://iddjobs.org/jobs/2309
Bacterial genomics in the context of evolutionary epidemiology, with potential projects including antibiotic resistance, HGT and plasmid dynamics.
with @sonjalehtinen.bsky.social
at University of...
More details: http://iddjobs.org/jobs/2309
Come work with us! We're looking of postdoc(s) with experience in bacterial genomics and interest in mathematical modelling to work on bacterial ecology and evolution in the context of public health. tinyurl.com/n34vzszu
Opportunités de carrière : Postdoctoral researcher in bacterial genomics (22209)
tinyurl.com
April 28, 2025 at 5:54 PM
Come work with us! We're looking of postdoc(s) with experience in bacterial genomics and interest in mathematical modelling to work on bacterial ecology and evolution in the context of public health. tinyurl.com/n34vzszu
Looking for examples of beautiful, controversial or impactful microbial modelling papers - ideally a mixture of the above! It’s for teaching in the context of microbial eco/evo/epi. The modelling should be relatively easy to understand for a master’s student with a biology background.
April 23, 2025 at 2:36 PM
Looking for examples of beautiful, controversial or impactful microbial modelling papers - ideally a mixture of the above! It’s for teaching in the context of microbial eco/evo/epi. The modelling should be relatively easy to understand for a master’s student with a biology background.
Reposted by Sonja Lehtinen
🚨We have a fully funded open PhD position in bacterial synthetic biology available in our lab (www.yschaerli.com) in beautiful Lausanne, Switzerland @dmf-unil.bsky.social @fbm-unil.bsky.social @unil.bsky.social
If you are passionate about #SynBio and #GeneCircuits, apply here: tinyurl.com/mry2xwa5
If you are passionate about #SynBio and #GeneCircuits, apply here: tinyurl.com/mry2xwa5
April 9, 2025 at 8:22 AM
🚨We have a fully funded open PhD position in bacterial synthetic biology available in our lab (www.yschaerli.com) in beautiful Lausanne, Switzerland @dmf-unil.bsky.social @fbm-unil.bsky.social @unil.bsky.social
If you are passionate about #SynBio and #GeneCircuits, apply here: tinyurl.com/mry2xwa5
If you are passionate about #SynBio and #GeneCircuits, apply here: tinyurl.com/mry2xwa5
New paper: long-term trends in antibiotic resistance show signs of stabilisation (thread). journals.plos.org/plospathogen...
The evolution of antibiotic resistance in Europe, 1998–2019
Author summary Antibiotic resistance is an important public health threat: resistant infections are currently associated with 5 million deaths per year globally. This burden may increase further in th...
journals.plos.org
April 7, 2025 at 8:36 AM
New paper: long-term trends in antibiotic resistance show signs of stabilisation (thread). journals.plos.org/plospathogen...
Reposted by Sonja Lehtinen
Being able to data plasmid acquisition, and to see the diversity of plasmids being gained and lost from lineages, was really eye opening! It was a pleasure to contribute my tiny bit to this huge paper and the data has so much more to give! @arredondo.bsky.social @gerrythill.bsky.social et al.
Read ‘Plasmid-driven strategies for clone success in Escherichia coli.’ From @sangerinstitute.bsky.social @uitnorgesarktiske.bsky.social, the University of Oslo, and others, in @naturecomms.bsky.social, here ⤵️
www.nature.com/articles/s41...
www.nature.com/articles/s41...
Plasmid-driven strategies for clone success in Escherichia coli - Nature Communications
Plasmids can encode multiple traits that contribute to the emergence and dissemination of their bacterial hosts. Here the authors use Nanopore long-read technology to sequence the complete genomes of ...
www.nature.com
April 3, 2025 at 11:34 AM
Being able to data plasmid acquisition, and to see the diversity of plasmids being gained and lost from lineages, was really eye opening! It was a pleasure to contribute my tiny bit to this huge paper and the data has so much more to give! @arredondo.bsky.social @gerrythill.bsky.social et al.
Reposted by Sonja Lehtinen
New preprint! 📢 Using a large longitudinal dataset of bacterial carriage we ask:
(A) Does within-host competition between bacterial strains lower their epidemiological fitness?
(B) Does this strain competition affect the fitness of Abx-resistant bugs?
Answer to both = yes. More details here👇
(A) Does within-host competition between bacterial strains lower their epidemiological fitness?
(B) Does this strain competition affect the fitness of Abx-resistant bugs?
Answer to both = yes. More details here👇
Quantifying the effects of antibiotic resistance and within-host competition on strain fitness in Streptococcus pneumoniae https://www.biorxiv.org/content/10.1101/2025.03.09.642042v1
March 31, 2025 at 10:40 AM
New preprint! 📢 Using a large longitudinal dataset of bacterial carriage we ask:
(A) Does within-host competition between bacterial strains lower their epidemiological fitness?
(B) Does this strain competition affect the fitness of Abx-resistant bugs?
Answer to both = yes. More details here👇
(A) Does within-host competition between bacterial strains lower their epidemiological fitness?
(B) Does this strain competition affect the fitness of Abx-resistant bugs?
Answer to both = yes. More details here👇
Reposted by Sonja Lehtinen
I'm very happy to share the last paper from my previous postdoc with the amazing @epcrocha.bsky.social! Thanks to the reviewers for their feedback, which improved our work!
#Plasmids #AMR #HorizontalGeneTransfer #Evolution
#Plasmids #AMR #HorizontalGeneTransfer #Evolution
March 31, 2025 at 9:02 AM
I'm very happy to share the last paper from my previous postdoc with the amazing @epcrocha.bsky.social! Thanks to the reviewers for their feedback, which improved our work!
#Plasmids #AMR #HorizontalGeneTransfer #Evolution
#Plasmids #AMR #HorizontalGeneTransfer #Evolution
Reposted by Sonja Lehtinen
After 6 (healthy) months of hiatus from social media, first post with a brand new conference announcement!! 🔥COMPUTATIONAL BIOLOGY IS EVERYWHERE! Join us in Lausanne for the first international Computational Biology Symposium! 18-19 September 2025 Registrations are OPEN! cbiosymposium.unil.ch
Computational Biology Symposium
cbiosymposium.unil.ch
March 18, 2025 at 1:09 PM
After 6 (healthy) months of hiatus from social media, first post with a brand new conference announcement!! 🔥COMPUTATIONAL BIOLOGY IS EVERYWHERE! Join us in Lausanne for the first international Computational Biology Symposium! 18-19 September 2025 Registrations are OPEN! cbiosymposium.unil.ch