Louis-Marie Bobay
@lbobay.bsky.social
Associate Professor. NC State. Microbial Genomics, Evolution, Bioinformatics.
Reposted by Louis-Marie Bobay
Very happy to see this piece out in @plosbiology.org, on the bacterial immune systems and microbial communities. It was a great team effort with Rafael Custodio, @brockhurstlab.bsky.social , @brownlab.bsky.social, and Edze Westra! 🦠🧫 #phagesky #mevosky
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Bacterial immune systems as causes and consequences of microbiome structure
Bacterial immune systems have evolved in response to diverse molecular "parasites", yet their ecological roles remain poorly understood. This Essay explores how interactions between mobile genetic ele...
journals.plos.org
November 19, 2025 at 6:35 PM
Very happy to see this piece out in @plosbiology.org, on the bacterial immune systems and microbial communities. It was a great team effort with Rafael Custodio, @brockhurstlab.bsky.social , @brownlab.bsky.social, and Edze Westra! 🦠🧫 #phagesky #mevosky
journals.plos.org/plosbiology/...
journals.plos.org/plosbiology/...
Our latest paper is out with @adiop.bsky.social and @gmdouglas.bsky.social. We analyzed the extent of homologous recombination between bacterial species (introgression) and how it affects species borders (it can vary a lot depending on the approach used to classify species!). rdcu.be/eQAMf
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy
Nature Communications - It is commonly thought that bacterial species borders tend to be fuzzy, due to frequent exchange of DNA. Here, Diop et al. quantify the patterns of gene flow between core...
rdcu.be
November 18, 2025 at 9:01 PM
Our latest paper is out with @adiop.bsky.social and @gmdouglas.bsky.social. We analyzed the extent of homologous recombination between bacterial species (introgression) and how it affects species borders (it can vary a lot depending on the approach used to classify species!). rdcu.be/eQAMf
Reposted by Louis-Marie Bobay
Mechanistically, incoming ssDNA is a game changer: it promotes attC site folding, triggers integrase expression via SOS, and allows cassette excision without the need for replicative resolution. This suggests both intra- and inter-bacterial shuffling shape integron recombination dynamics. 4/5
November 17, 2025 at 3:44 PM
Mechanistically, incoming ssDNA is a game changer: it promotes attC site folding, triggers integrase expression via SOS, and allows cassette excision without the need for replicative resolution. This suggests both intra- and inter-bacterial shuffling shape integron recombination dynamics. 4/5
Reposted by Louis-Marie Bobay
Omnipresent Allies: The Role of Temperate Phages in Microbial Adaptation Across Ecosystems enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs
Omnipresent Allies: The Role of Temperate Phages in Microbial Adaptation Across Ecosystems
This review synthesises evidence from culture-dependent systems and complex environments, concluding that temperate phages drive microbial adaptation across individual, population and community level...
enviromicro-journals.onlinelibrary.wiley.com
November 17, 2025 at 6:04 PM
Omnipresent Allies: The Role of Temperate Phages in Microbial Adaptation Across Ecosystems enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/... #jcampubs
Reposted by Louis-Marie Bobay
We discovered a universal scaling law linking copy number and plasmid size, which can be used to predict the PCN of your favorite plasmid! 6/7
July 2, 2025 at 10:12 AM
We discovered a universal scaling law linking copy number and plasmid size, which can be used to predict the PCN of your favorite plasmid! 6/7
Reposted by Louis-Marie Bobay
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy www.nature.com/articles/s41... #jcampubs
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy - Nature Communications
It is commonly thought that bacterial species borders tend to be fuzzy, due to frequent exchange of DNA. Here, Diop et al. quantify the patterns of gene flow between core genomes across 50 major bacte...
www.nature.com
November 13, 2025 at 7:40 PM
Introgression impacts the evolution of bacteria, but species borders are rarely fuzzy www.nature.com/articles/s41... #jcampubs
Reposted by Louis-Marie Bobay
Excited to share some new work led by grad student Sophie Walton (w/ @petrovadmitri.bsky.social). We used in vitro gut communities to study how natural selection acts on strains of the same species as they compete within larger communities. Check out Sophie's thread below for details!
Super excited that the bulk of my PhD work is now preprinted! Here we used whole-community competition, or coalescence, experiments to quantify selection acting on genetically diverged strains within larger communities. (1/n)
www.biorxiv.org/content/10.1...
www.biorxiv.org/content/10.1...
www.biorxiv.org
November 12, 2025 at 3:43 AM
Excited to share some new work led by grad student Sophie Walton (w/ @petrovadmitri.bsky.social). We used in vitro gut communities to study how natural selection acts on strains of the same species as they compete within larger communities. Check out Sophie's thread below for details!
Reposted by Louis-Marie Bobay
The Department of Biology at @eastcarolinauniv.bsky.social seeks to fill a tenure-track faculty at the Assistant Professor level with expertise in evolutionary Biology! Come join us!
ecu.peopleadmin.com/postings/89839
ecu.peopleadmin.com/postings/89839
Assistant Professor
The Department of Biology at East Carolina University (http://www.ecu.edu) seeks to fill a tenure-track faculty position (9-month appointment) at the Assistant Professor rank with expertise in evoluti...
ecu.peopleadmin.com
November 3, 2025 at 8:25 PM
The Department of Biology at @eastcarolinauniv.bsky.social seeks to fill a tenure-track faculty at the Assistant Professor level with expertise in evolutionary Biology! Come join us!
ecu.peopleadmin.com/postings/89839
ecu.peopleadmin.com/postings/89839
After defunding science, he is now attacking the colleges and departments of Interior Design
sure, you might not be able to eat or go to the doctor, but check out how nice Trump's new marble shitter is
October 31, 2025 at 8:29 PM
After defunding science, he is now attacking the colleges and departments of Interior Design
Reposted by Louis-Marie Bobay
📣 PhD Scholarship Opportunity for International Students!
Are you looking to do a PhD in soil microbial and viral ecology?
✍️ Get in touch now!!
✅ Requirements: Masters degree, Distinguished CV, Highly motivated
⏳ Application deadline: November 24
www.univ-lyon1.fr/recherche/fo...
Are you looking to do a PhD in soil microbial and viral ecology?
✍️ Get in touch now!!
✅ Requirements: Masters degree, Distinguished CV, Highly motivated
⏳ Application deadline: November 24
www.univ-lyon1.fr/recherche/fo...
APPEL A PROJET
www.univ-lyon1.fr
October 21, 2025 at 5:36 PM
📣 PhD Scholarship Opportunity for International Students!
Are you looking to do a PhD in soil microbial and viral ecology?
✍️ Get in touch now!!
✅ Requirements: Masters degree, Distinguished CV, Highly motivated
⏳ Application deadline: November 24
www.univ-lyon1.fr/recherche/fo...
Are you looking to do a PhD in soil microbial and viral ecology?
✍️ Get in touch now!!
✅ Requirements: Masters degree, Distinguished CV, Highly motivated
⏳ Application deadline: November 24
www.univ-lyon1.fr/recherche/fo...
Reposted by Louis-Marie Bobay
The Johri Lab has an open postdoc position. Please send me an email, if interested. Start date is flexible. Please do share! Thank you in advance.
October 28, 2025 at 9:31 PM
The Johri Lab has an open postdoc position. Please send me an email, if interested. Start date is flexible. Please do share! Thank you in advance.
Reposted by Louis-Marie Bobay
In the meantime, we've been collecting a list of these at tinyurl.com/mag-collecti.... Feel free to add more you find.
See also GlobDB from @daanspeth.bsky.social which incorporates some of these into a new MAG collection arxiv.org/abs/2506.11896
See also GlobDB from @daanspeth.bsky.social which incorporates some of these into a new MAG collection arxiv.org/abs/2506.11896
Public MAG datasets not available at NCBI or ENA
Some metagenome assembled genome (MAG) datasets are not available in the standard locations (NCBI / ENA / etc) for a variety of reasons. Here you can contribute new ones you come across. To be recorde...
tinyurl.com
October 24, 2025 at 8:41 AM
In the meantime, we've been collecting a list of these at tinyurl.com/mag-collecti.... Feel free to add more you find.
See also GlobDB from @daanspeth.bsky.social which incorporates some of these into a new MAG collection arxiv.org/abs/2506.11896
See also GlobDB from @daanspeth.bsky.social which incorporates some of these into a new MAG collection arxiv.org/abs/2506.11896
Reposted by Louis-Marie Bobay
Come join us in Knoxville!
The Dept. of Microbiology 🧫🦠 at the University of Tennessee is hiring 2 Assistant Professors (tenure track, 9-month appt.).
Microbial Drivers of Chronic Disease: apply.interfolio.com/173153Quantitative Microbe-Plant-Environment Interactions: apply.interfolio.com/173345
The Dept. of Microbiology 🧫🦠 at the University of Tennessee is hiring 2 Assistant Professors (tenure track, 9-month appt.).
Microbial Drivers of Chronic Disease: apply.interfolio.com/173153Quantitative Microbe-Plant-Environment Interactions: apply.interfolio.com/173345
October 24, 2025 at 12:18 PM
Come join us in Knoxville!
The Dept. of Microbiology 🧫🦠 at the University of Tennessee is hiring 2 Assistant Professors (tenure track, 9-month appt.).
Microbial Drivers of Chronic Disease: apply.interfolio.com/173153Quantitative Microbe-Plant-Environment Interactions: apply.interfolio.com/173345
The Dept. of Microbiology 🧫🦠 at the University of Tennessee is hiring 2 Assistant Professors (tenure track, 9-month appt.).
Microbial Drivers of Chronic Disease: apply.interfolio.com/173153Quantitative Microbe-Plant-Environment Interactions: apply.interfolio.com/173345
Reposted by Louis-Marie Bobay
For population genetics and evolutionary biology folks in the Bay Area: the next BAPG will be hosted by Stanford CEHG and the Petrov lab at Stanford on 12/6.
Registration is free but required. The deadline for talk submission is Nov. 16. Hope to see you soon! Pls RT!
docs.google.com/forms/d/e/1F...
Registration is free but required. The deadline for talk submission is Nov. 16. Hope to see you soon! Pls RT!
docs.google.com/forms/d/e/1F...
docs.google.com
October 20, 2025 at 10:42 PM
For population genetics and evolutionary biology folks in the Bay Area: the next BAPG will be hosted by Stanford CEHG and the Petrov lab at Stanford on 12/6.
Registration is free but required. The deadline for talk submission is Nov. 16. Hope to see you soon! Pls RT!
docs.google.com/forms/d/e/1F...
Registration is free but required. The deadline for talk submission is Nov. 16. Hope to see you soon! Pls RT!
docs.google.com/forms/d/e/1F...
Reposted by Louis-Marie Bobay
Come join us in beautiful Britanny, France in May 2026 for a workshop that I am organizing with @lucievirevolte.bsky.social and @psudmant.bsky.social on Rapid host adaptations to infections:
sites.google.com/berkeley.edu...
sites.google.com/berkeley.edu...
October 23, 2025 at 1:20 PM
Come join us in beautiful Britanny, France in May 2026 for a workshop that I am organizing with @lucievirevolte.bsky.social and @psudmant.bsky.social on Rapid host adaptations to infections:
sites.google.com/berkeley.edu...
sites.google.com/berkeley.edu...
Reposted by Louis-Marie Bobay
Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes - peercommunityjournal.org/articles/10....
EnVhogDB: an extended view of the viral protein families on Earth through a vast collection of HMM profiles
peercommunityjournal.org
October 18, 2025 at 7:58 AM
Now published: EnVhogDB, a large database of viral protein family HMM profiles to help functional annotation of new phage genomes - peercommunityjournal.org/articles/10....
Reposted by Louis-Marie Bobay
#microsky #mevosky The UNC Chapel Hill Biology Department is hiring 2 Teaching Assistant/Associate Professors with expertise from any area of biology. Individuals with expertise in microbiology are particularly encouraged to apply. Read more and apply at unc.peopleadmin.com/postings/307...
Two (2) Open Rank Teaching Faculty
The Department of Biology at the University of North Carolina at Chapel Hill seeks applicants for two (2) Teaching Faculty positions to be effective July 1, 2026. These positions will be fixed-term 9-...
unc.peopleadmin.com
October 14, 2025 at 1:44 PM
#microsky #mevosky The UNC Chapel Hill Biology Department is hiring 2 Teaching Assistant/Associate Professors with expertise from any area of biology. Individuals with expertise in microbiology are particularly encouraged to apply. Read more and apply at unc.peopleadmin.com/postings/307...
Reposted by Louis-Marie Bobay
NSF’s doors will be closed at 1:30 pm today. While you may be able to submit things, there will be no staff to process anything. In fact it is illegal for us to even open our work computers or email during a shutdown. A very few rotators may be able to communicate, so check out of office responses.
Navigating A Government Shutdown: One-Stop Resource Page
As of 12:01 AM on October 1, Donald Trump and Republicans in Congress have shut down the government.
raskin.house.gov
October 1, 2025 at 5:56 AM
NSF’s doors will be closed at 1:30 pm today. While you may be able to submit things, there will be no staff to process anything. In fact it is illegal for us to even open our work computers or email during a shutdown. A very few rotators may be able to communicate, so check out of office responses.
Reposted by Louis-Marie Bobay
Our lab is hiring!!
We are looking for a research assistant who will be involved with our experimental evolution studies on how stress affects population dynamics in E. coli.
Great opportunity for recent grads!
E-mail for more info and apply here:
ecsr.fa.us2.oraclecloud.com/hcmUI/Candid...
We are looking for a research assistant who will be involved with our experimental evolution studies on how stress affects population dynamics in E. coli.
Great opportunity for recent grads!
E-mail for more info and apply here:
ecsr.fa.us2.oraclecloud.com/hcmUI/Candid...
September 29, 2025 at 2:11 PM
Our lab is hiring!!
We are looking for a research assistant who will be involved with our experimental evolution studies on how stress affects population dynamics in E. coli.
Great opportunity for recent grads!
E-mail for more info and apply here:
ecsr.fa.us2.oraclecloud.com/hcmUI/Candid...
We are looking for a research assistant who will be involved with our experimental evolution studies on how stress affects population dynamics in E. coli.
Great opportunity for recent grads!
E-mail for more info and apply here:
ecsr.fa.us2.oraclecloud.com/hcmUI/Candid...
Reposted by Louis-Marie Bobay
Tenure-track Assistant Professor position in Bioinformatics in the Department of Biology at the University of San Francisco
usfca.wd5.myworkdayjobs.com/en-US/USF_Fu...
usfca.wd5.myworkdayjobs.com/en-US/USF_Fu...
Assistant Professor, Tenure-Track, Department of Biology, University of San Francisco
Job Title: Assistant Professor, Tenure-Track, Department of Biology, University of San Francisco Job Summary: The Department of Biology at the University of San Francisco invites applications for a fu...
usfca.wd5.myworkdayjobs.com
September 27, 2025 at 11:55 AM
Tenure-track Assistant Professor position in Bioinformatics in the Department of Biology at the University of San Francisco
usfca.wd5.myworkdayjobs.com/en-US/USF_Fu...
usfca.wd5.myworkdayjobs.com/en-US/USF_Fu...
Reposted by Louis-Marie Bobay
We are hiring a postdoc in bacterial genomics and evolution.
research.pasteur.fr/wp-content/u...
research.pasteur.fr/wp-content/u...
research.pasteur.fr
September 19, 2025 at 3:23 PM
We are hiring a postdoc in bacterial genomics and evolution.
research.pasteur.fr/wp-content/u...
research.pasteur.fr/wp-content/u...
Reposted by Louis-Marie Bobay
Such a delight to share our work on the evolution of a cheese rind fungus in @currentbiology.bsky.social.
This is the fantastic PhD work of @nicolasleonlouw.bsky.social and resulted from amazing collaborations, a wedding proposal(!), an undergrad course, & more!
🧵
www.cell.com/current-biol...
This is the fantastic PhD work of @nicolasleonlouw.bsky.social and resulted from amazing collaborations, a wedding proposal(!), an undergrad course, & more!
🧵
www.cell.com/current-biol...
Long-term monitoring of a North American cheese cave reveals mechanisms and consequences of fungal adaptation
Using a unique longitudinal sampling approach, Louw et al. demonstrate how a cheese-associated
Penicillium population has adapted in an artisan cheese production facility in Vermont,
USA. Adaptation i...
www.cell.com
September 16, 2025 at 3:56 PM
Such a delight to share our work on the evolution of a cheese rind fungus in @currentbiology.bsky.social.
This is the fantastic PhD work of @nicolasleonlouw.bsky.social and resulted from amazing collaborations, a wedding proposal(!), an undergrad course, & more!
🧵
www.cell.com/current-biol...
This is the fantastic PhD work of @nicolasleonlouw.bsky.social and resulted from amazing collaborations, a wedding proposal(!), an undergrad course, & more!
🧵
www.cell.com/current-biol...
Reposted by Louis-Marie Bobay
Willing to join us @pasteur.fr for a PhD for a project on how interactions between mobile genetic elements shape bacterial adaptation? Subject to be tailored to candidates with keen interest in evolution, genomics, computational biology, microbiology. Check www.pasteur.fr/en/education...
September 8, 2025 at 8:56 AM
Willing to join us @pasteur.fr for a PhD for a project on how interactions between mobile genetic elements shape bacterial adaptation? Subject to be tailored to candidates with keen interest in evolution, genomics, computational biology, microbiology. Check www.pasteur.fr/en/education...
Reposted by Louis-Marie Bobay
Very happy to see this one out: doi.org/10.1093/molbev/msaf192
Here, we assessed the contribution of natural transformation to the acquisition of novel genes. See preprint thread. @molbioevol.bsky.social #microsky #evobio
Here, we assessed the contribution of natural transformation to the acquisition of novel genes. See preprint thread. @molbioevol.bsky.social #microsky #evobio
August 27, 2025 at 1:37 PM
Very happy to see this one out: doi.org/10.1093/molbev/msaf192
Here, we assessed the contribution of natural transformation to the acquisition of novel genes. See preprint thread. @molbioevol.bsky.social #microsky #evobio
Here, we assessed the contribution of natural transformation to the acquisition of novel genes. See preprint thread. @molbioevol.bsky.social #microsky #evobio
Reposted by Louis-Marie Bobay
@swstkm.bsky.social & @martinlercher.bsky.social evaluate HGT inference methods, showing that those analyzing gene family presence/absence patterns across species trees outperform approaches based on gene tree-species tree reconciliation.
🔗 doi.org/10.1093/molbev/msaf166
#evobio #molbio #HGT
🔗 doi.org/10.1093/molbev/msaf166
#evobio #molbio #HGT
Horizontal Gene Transfer Inference: Gene Presence–Absence Outperforms Gene Trees
Abstract. Horizontal gene transfer is a fundamental driver of prokaryotic evolution, facilitating the acquisition of novel traits and adaptation to new env
doi.org
July 31, 2025 at 1:19 PM
@swstkm.bsky.social & @martinlercher.bsky.social evaluate HGT inference methods, showing that those analyzing gene family presence/absence patterns across species trees outperform approaches based on gene tree-species tree reconciliation.
🔗 doi.org/10.1093/molbev/msaf166
#evobio #molbio #HGT
🔗 doi.org/10.1093/molbev/msaf166
#evobio #molbio #HGT