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Nanami Kubota

@nanamikubota.bsky.social
771 followers 635 following 34 posts

Postdoc in the Turner Lab at Yale University. Phage diversity, evolution, and competition. Donnelley Postdoctoral Associate. New Yorker, first-gen US immigrant, & cat lady. she/her 🔗 nanamikubota.com

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Reposted by Nanami Kubota
Daria Van Tyne @dariavantyne.bsky.social · 07/10/2026
Check out our new P3 promo video. Teamwork makes the dream work! @idpittstop.bsky.social @pittdeptofmed.bsky.social @pitt-pmi.bsky.social
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Megan Dennis @mydennis.bsky.social · 29/09/2026
We are recruiting at the assistant professor level ~ Ideal candidates have expertise in genomics and/or biochemistry, applying emerging experimental, computational, AI-driven methods to answer mechanistic questions in human health. Please share! First review 10/30. recruit.ucdavis.edu/JPF07832
recruit.ucdavis.edu
Assistant Professor- Biochemistry and Molecular Medicine
University of California, Davis is hiring. Apply now!
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Daria Van Tyne @dariavantyne.bsky.social · 22/09/2026
My lab at Pitt is looking for a Laboratory Technician to help our research and phage therapy efforts. Please share and apply! cfopitt.taleo.net/careersectio...
cfopitt.taleo.net
Laboratory Technician
Click the link provided to see the complete job description.
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Noah Houpt @noahhoupt.bsky.social · 22/09/2026
*PLEASE RE-POST* Applications for the trainee-focussed GRS immediately preceding this meeting are also now open! We will begin accepting applicants on *January 15th, 2027*. We will expedite our review for applicants requiring Visas, so please submit ASAP. www.grc.org/microbial-po...
grc.org
2027 Microbial Population Biology (GRS) Seminar GRC
The 2027 Gordon Research Seminar on Microbial Population Biology (GRS) will be held in Andover, New Hampshire. Apply today to reserve your spot.
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Dmitri Petrov @petrovadmitri.bsky.social · 17/09/2026
We are searching for an Assistant Professor in Evolutionary Biology! Looking for colleagues asking fundamental questions relating to evolutionary processes and drivers of evolutionary patterns. If you think it is you, please do apply! And please repost. facultypositions.stanford.edu/jobs/assista...
facultypositions.stanford.edu
Assistant Professor in Evolutionary Biology - Stanford University, California, United States
The Department of Biology at Stanford University seeks applicants for a tenure-track Assistant Professor in Evolutionary Biology. A successful candidate will conduct research that asks fundamental que...
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Will Ratcliff @wcratcliff.bsky.social · 15/09/2026
1/17 Submissions are now open for the 2027 Microbial Population Biology GRC! We expect this meeting to be extraordinarily oversubscribed. If you want to come, time is of the essence--apply ASAP! June 27–July 2 • Andover, NH www.grc.org/microbial-po...
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Asher Leeks @asherleeks.bsky.social · 16/09/2026
Come work with @viromehunter.bsky.social and myself at UBC! We have a postdoctoral position available for someone with an interest in bioinformatics and genomics, using sociovirology to understand disease dynamics in plant viruses. Advert: ppvlab.sites.olt.ubc.ca/files/2026/0...
ppvlab.sites.olt.ubc.ca
Browser Verification | UBC Cybersecurity
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Jessica Metcalf @jessmetcalf.bsky.social · 15/09/2026
Apply to join Princeton EEB as an Assistant Prof: apply.interfolio.com/193474
apply.interfolio.com
Apply - Interfolio {{$ctrl.$state.data.pageTitle}} - Apply - Interfolio
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Patrick R. Secor @prsecor.bsky.social · 02/09/2026
This job ad is now live! Please share or apply here: jobs.montana.edu/postings/52780 Screening of applicants begins Sept 15, 2026 #MicroSky #PhageSky #ScienceJobs
jobs.montana.edu
Postdoctoral Researcher - Lyme Disease Bacteriophage Biology
The Secor Lab seeks a postdoctoral researcher to investigate bacteriophage biology in the Lyme disease spirochete Borrelia burgdorferi. The successful candidate will help define how phiBB-1 controls h...
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Noah Houpt @noahhoupt.bsky.social · 25/08/2026
Thrilled to see this project officially published in ISMEJ! We showed that filamentous prophages frequently acquired repressor mutations causing hyperactivity which, in turn, drove the evolution of phage resistance with pleiotropic consequences. academic.oup.com/ismej/advanc...
academic.oup.com
Mutations in filamentous bacteriophages spark eco-evolutionary feedbacks in Pseudomonas aeruginosa
Abstract. Microbial populations strongly shape their environment, which can re-route adaptation toward organism-generated fitness optima. However, the cond
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Nanami Kubota @nanamikubota.bsky.social · 24/08/2026
Excited to start my postdoc in the @paulturnerlab.bsky.social next week! And thank you to the Yale Institute for Biospheric Studies for awarding me the Donnelley fellowship, which will fund me for the next two years.
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Patrick R. Secor @prsecor.bsky.social · 21/08/2026
I’ll soon be #Hiring a postdoc to join the Secor Lab at Montana State University. This NIH-funded position will investigate phage biology in Lyme disease spirochetes. The official ad will be available soon. Please share with anyone who might be interested! #MicroSky #PhageSky 🔬🦠🧪🧫
An engorged tick with fluorescent bacteria in its midgut
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Pitt Department of Immunology @pitt-immunology.bsky.social · 07/08/2026
Know a college sophomore/junior in Pittsburgh who's interested in their first research opportunity? The Microbiology & Immunology Depts. Scholars program is for them! 4 semesters of hands-on research, mentorship & more. Apply by Sept. 2: www.pmi.pitt.edu/research/mid... @pitt-pmi.bsky.social
MIDS graduates holding their certificates and their mentors stand together in a group
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George O'Toole (he/him/his) @geiselbiofilm.bsky.social · 30/06/2026
Pls share: U of Washington has an opening for a tenure-track faculty position at the rank of Assistant Professor. This position is expected to specialize in molecular virology or bacteriology. Here is a link: microbiology.washington.edu/index.php/ne...
microbiology.washington.edu
Micro is Hiring! | UW Microbiology
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Amy Zamora @amycrobes.bsky.social · 25/06/2026
We're excited to share our work on how prophages influence the evolution of resistance against DNA-damaging antibiotics! This has been a fun project with @sianowen.bsky.social, @baym.lol, @theshreyaspai.bsky.social, @kepatitis-c.bsky.social, & @fernpizza.bsky.social biorxiv.org/content/10.6... 1/
biorxiv.org
SOS-mediated prophage induction constrains resistance evolution to DNA-damaging antibiotics
Most naturally occurring bacteria are lysogens, encoding one or more temperate phages (prophages) integrated into their genome. As prophages are induced by the bacterial SOS response, DNA-damaging ant...
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Vaughn Cooper @vscooper.micropopbio.org · 28/05/2026
In celebration of good friends and collaborators Erin Gloag @sirmicrobe.bsky.social, Dan Wozniak and @nanamikubota.bsky.social, here's a cool new study about rapid P. aeruginosa adaptation in wounds, with some hidden phage phun as bonus. journals.asm.org/doi/10.1128/...
journals.asm.org
Pseudomonas aeruginosa biofilm-deficient mutants undergo parallel evolution during chronic infection | Journal of Bacteriology
We demonstrate that in a porcine full-thickness thermal injury wound model, a Pseudomonas aeruginosa mutant deficient in biofilm formation undergoes adaptive evolution by acquiring mutations that alter the outer membrane, either type IV pili (T4P) or lipopolysaccharide (LPS) mutations, that restores the deficient biofilm phenotype. We also observe a striking degree of mutational parallelism, at both the biosynthetic pathway and gene level, indicating the strong selective pressures experienced by these pathways during chronic wound infection.
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Richard Lenski @relenski.bsky.social · 11/05/2026
New book "A Primer for Experimental Evolution" with coauthors Michael Rose, Margarida Matos, and Joe Graves. www.worldscientific.com/worldscibook... A compact primer for students and colleagues interested in planning and designing experiments to address questions in evolutionary biology.
worldscientific.com
A Primer for Experimental Evolution
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Asher Leeks @asherleeks.bsky.social · 28/04/2026
We're recruiting! We're looking for two graduate students to join us at UBC in Vancouver. Fully funded and open to global applicants, with flexible start-date. Topics include theory, bioinformatics, and microbiology. More details: asherleeks.com/apply #socialviruses #evosky #virosky 🧪
Leeks Lab is recruiting. We study social evolution in viruses. We're recruiting for two fully funded PhD or MSc positions, starting from September 2026. Evolutionary theory / experimental microbiology / viral bioinformatics. Experience optional / enthusiasm essential. asherleeks.com/apply
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Tami Lieberman @contaminatedsci.bsky.social · 27/04/2026
Get your applications in today or tomorrow if you're interested!
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Asher Leeks @asherleeks.bsky.social · 14/04/2026
The Social Lives of Viruses is coming to Vancouver, Canada, from 4th-8th August 2026! This is a free meeting dedicated to all aspects of virus-virus interactions & evolution. To apply: socialviruses.zoology.ubc.ca @sociovirology.bsky.social #socialviruses #evosky #lovevirology #virosky
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Paul Rainey @paulbrainey.bsky.social · 09/04/2026
Multiple fully funded PhD/postdoc positions available: experimental evolution of tumour suppression, egalitarian & fraternal ETIs, jumbo phage ecology & genetics. Related EoIs welcome. Email CV/statement of motivation written in own words. Open until filled. Grateful for reposting 🙏
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Daria Van Tyne @dariavantyne.bsky.social · 08/04/2026
My lab at Pitt is looking for a Research Scientist to help us make phage therapy for patients with antibiotic-resistant infections. Please share and apply! cfopitt.taleo.net/careersectio...
cfopitt.taleo.net
Research Scientist
Click the link provided to see the complete job description.
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Daria Van Tyne @dariavantyne.bsky.social · 17/03/2026
Two new studies from us using culture-enriched metagenomics to study populations (not just clones!) of some of our favorite superbugs collected from infected patients in the hospital 🧵
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Mike Blazanin @mikeblazanin.bsky.social · 25/02/2026
Postdoc position on phage-bacteria coevolution available in the @aburmeister.bsky.social lab at University of Wisconsin - Milwaukee #phage #evosky #MicroSky #VirEvol 🦠 🔬 #microbiology arburmeister.weebly.com/join-the-lab...
Ad for Postdoctoral Scientist Position in Burmeister Lab on Bacteria-Phage Coevolution. Full document available here: https://arburmeister.weebly.com/uploads/1/9/9/9/19990727/burmeister_lab_postdoc_position_2026.pdf
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Siân Owen @sianowen.bsky.social · 23/02/2026
We’re hiring a Microscopy Core Director at the Wadsworth Center! It's a state position (job stability & PENSION!) in a uniquely academic, research-driven environment 😎 Please share 🙏 statejobs.ny.gov/public/vacan...
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Cathy Hernandez @cathyhernandez.bsky.social · 20/02/2026
Excited to share a preprint of work from my postdoc with @paulturnerlab.bsky.social exploring how prophages can impact host thermal ecology and evolution. www.biorxiv.org/content/10.6...
biorxiv.org
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Becca Satterwhite @satterwhite.bsky.social · 18/02/2026
My PhD work with the inimitable Joy Bergelson looking at local adaptation in a super-cool generalist pathogen that nucleates ice and decimates your favorite crop plant 🌱 👾 🧬 Thrilled to see this out (& reminded by @vscooper.micropopbio.org to celebrate each win)! link.springer.com/article/10.1...
link.springer.com
Adaptation without Dominance in Pseudomonas syringae Pathovars - Microbial Ecology
Understanding local adaptation of phytopathogens has significant practical and economic implications. The opportunistic pathogen Pseudomonas syringae exemplifies this challenge, causing regular epidem...
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Michael Baym @baym.lol · 06/02/2026
If you have an interest in mixing computation and experiments to understand microbial evolution (for example antibiotic resistance) and you think you might be a good fit for a postdoc in my lab, reach out. If it seems it might be a fit I’m happy to help you frame it as AI for Biology per this call
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Noah Houpt @noahhoupt.bsky.social · 23/01/2026
Interested in eco-evolutionary feedbacks? Microbial experimental evolution? Pleiotropy? Filamentous phages?? Check out our latest preprint, now up on BioRxiv! biorxiv.org/content/10.6... For a quick summary, peep the thread below...🧵 (1/10)
biorxiv.org
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Patrick R. Secor @prsecor.bsky.social · 05/01/2026
Now published in PLoS Pathogens! #microsky #phagesky journals.plos.org/plospathogen...
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Patrick R. Secor @prsecor.bsky.social · 16/12/2025
Looking for a paid summer research experience? Apply to MSU’s Extreme Biofilms REU and work on cutting-edge biofilm science in extreme environments. No prior research experience needed. #MicroSky #PhageSky
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Vaughn Cooper @vscooper.micropopbio.org · 09/12/2025
Congratulations Nanami on your PhD thesis and defense, a tour de force! Deepest thanks for leading our lab into the wonders of phage biology 🧪 🧬🦠
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Nanami Kubota @nanamikubota.bsky.social · 08/12/2025
Happy to announce that I successfully defended my PhD thesis today! Thank you those who attended in person and virtually.
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Zandrea Ambrose, Ph.D. 🦠🧬🧪🧫 @zandrea.bsky.social · 08/12/2025
Excellent defense by @nanamikubota.bsky.social ! And I’m proud to see her love of integrating viruses even when working in a bacteria lab. 😉
Nanami’s description of herself
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Nanami Kubota @nanamikubota.bsky.social · 04/12/2025
A wonderful commentary by @asherleeks.bsky.social and @sociovirology.bsky.social on our recent work with P. aeruginosa filamentous cheater miniphages! @vscooper.micropopbio.org @shellyscrib.bsky.social
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Pitt Program in Microbiology & Immunology @pitt-pmi.bsky.social · 03/12/2025
Congratulations to @nanamikubota.bsky.social in the @vscooper.micropopbio.org lab on her upcoming thesis defense! 👏
Nanami Kubota's defense will be held on Monday, December 8, 2025 and is titled "Filamentous prophage as drivers of rapid bacterial and phage evolution."
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Everyone's least favorite lab mate @kepatitis-c.bsky.social · 20/11/2025
What is the best strategy to win any contest? Eliminate your opponents of course. Recently, my friend @fernpizza.bsky.social showed how plasmids compete intracellularly (check out his paper published in Science today!). With @baym.lol, we now know they can fight. www.biorxiv.org/content/10.1...
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Michael Baym @baym.lol · 20/11/2025
Hot off the press! Our latest paper led by @fernpizza.bsky.social, understanding how plasmids evolve inside cells. These small, self-replicating DNA circles live inside bacteria and carry antibiotic resistance genes, but also compete with one another to replicate. 1/ www.science.org/doi/10.1126/...
science.org
Intracellular competition shapes plasmid population dynamics
From populations of multicellular organisms to selfish genetic elements, conflicts between levels of biological organization are central to evolution. Plasmids are extrachromosomal, self-replicating g...
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Nanami Kubota @nanamikubota.bsky.social · 04/11/2025
I will be defending on Dec 8th at 1pm Eastern Time! I will be sharing both published and new work. If filamentous phages, Pseudomonas aeruginosa, evolution, and active lysogeny sound cool: It is hybrid, and the zoom link info can be found on the webpage. 🔗 calendar.pitt.edu/event/filame...
calendar.pitt.edu
Filamentous Prophage as Drivers of Rapid Bacterial and Phage Evolution
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Fab Spagnolo @fabspagnolo.bsky.social · 27/10/2025
I am so excited to have this published today detailing a new system for growing biofilms and observing the resulting populations (stress on the plural!) in chemostats! A chemostat-based model for growing bacterial biofilms | Microbiology Spectrum journals.asm.org/doi/10.1128/...
journals.asm.org
A chemostat-based model for growing bacterial biofilms | Microbiology Spectrum
Biofilms are the predominant way that bacteria live in natural environments and are characterized by three emergent properties: ubiquity, resilience, and impact. They can be found across all environme...
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Paul Rainey @paulbrainey.bsky.social · 28/10/2025
@prczhaoyansong.bsky.social’s deep dive into the dark matter of compost communities is now out 🎉 Genomic islands hijack jumbo phages—whose capsids enable transfer of large tracts of DNA—shedding new light on the scale & scope of phage-mediated gene flow 😎 www.pnas.org/doi/10.1073/...
pnas.org
Jumbo phage–mediated transduction of genomic islands | PNAS
Bacteria acquire new genes by horizontal gene transfer, typically mediated by mobile genetic elements (MGEs). While plasmids, bacteriophages, and c...
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Markus Deserno @markusdeserno.bsky.social · 26/09/2025
I am super excited to announce that we have a tenure-track faculty position in biophysics open in the Department of Physics at Carnegie Mellon! 🧪 Interfolio link: apply.interfolio.com/174360 PLEASE, share widely across the blue skies! Let me briefly explain what we're looking for: 1/10
Tenure-track Position in Biophysics at Carnegie Mellon University, Department of Physics

Location: Pittsburgh, PA
Open Date: Sep 19, 2025

Description
The Department of Physics at Carnegie Mellon University invites applications for a tenure-track faculty position in biophysics. The appointment is intended to be at the Assistant Professor level, but exceptional candidates at a higher level may also be considered. We seek outstanding candidates with a strong record in cellular and subcellular biophysics. Topics of particular interest include, but are not limited to, uncovering how key characteristics of living systems arise from the interplay between supramolecular cellular structures, how the emergent cellular circuitry defines goals and enables robust decision making, and how metabolic resources are allocated. This encompasses understanding of how information is learned, stored, transduced, and processed across subcellular structures. Applicants with theoretical, data science, or experimental backgrounds within biological physics are encouraged to apply. The ideal candidate will strengthen and extend research programs of current biophysics faculty in the Department of Physics and collaborate with broader life science activities across many departments at CMU and the wider Pittsburgh area.

More details on Interfolio: https://apply.interfolio.com/174360
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Ben Larson @blarson.bsky.social · 22/10/2025
Two tenure-track faculty positions open in our department: 1) Microbial Ecology and Evolution careers.rpi.edu/en-us/job/49... 2) Cellular Neuroscience careers.rpi.edu/en-us/job/49... Join our collaborative, interdisciplinary community, which has proved to be a fantastic place to start a lab!
careers.rpi.edu
Details - Assistant Professor, Microbial Ecology - RPI Jobs
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Alfonso Santos Lopez @asantoslopez.bsky.social · 22/10/2025
Do plasmids really move around that much? Well, maybe not always Thrilled to have contributed to this story with two of my favourite microbiologists: @jrpenades.bsky.social & @sanmillan.bsky.social This great work was led by Akshay Sabnis & @wfigueroac3.bsky.social www.cell.com/cell-reports...
cell.com
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...
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Martin Turcotte @exp-evoeco.bsky.social · 20/10/2025
#PhD Position: Interested in the evolutionary and ecological impacts of whole genome duplication? Join Dr. Tia-Lynn Ashman @drtialynn.bsky.social and I at the U. of Pittsburgh, to test what drives the competitive outcomes between diploids and #polyploids Details: shorturl.at/nQ8UW
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Nanami Kubota @nanamikubota.bsky.social · 15/10/2025
Excited to see our recent paper get covered by Pitt media!
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Cathy Hernandez @cathyhernandez.bsky.social · 08/10/2025
Very happy to share that I will be starting as an Assistant Professor in the department of Biological Sciences at the University of South Carolina in January! My group will be working on environmental phage ecology and evolution, and I am recruiting for the upcoming year (more info below).
A graphic advertising phage ecology and evolution research at the University of South Carolina, showing a central image of a tide pool flanked by a photo of an agar plate containing diverse microbes and a TEM image of a virus particle.
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Vaughn Cooper @vscooper.micropopbio.org · 02/10/2025
DYK most P. aeruginosa carry filamentous phage(s) that don't need to kill the cell to reproduce? We 👉🏻@nanamikubota.bsky.social show that these Pf phages can go ROGUE. "Filamentous cheater phages drive bacterial and phage populations to lower fitness" 🔗 authors.elsevier.com/c/1lt5I3QW8S...
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Nanami Kubota @nanamikubota.bsky.social · 02/10/2025
Published in Current Biology! P. aeruginosa can use its filamentous phage to inhibit competitors but high phage production is susceptible to cheater miniphage invasion. Subsequent phage tragedy of the commons can lower bacteria and phage fitness. Link: authors.elsevier.com/c/1lt5I3QW8S...
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Vaughn Cooper @vscooper.micropopbio.org · 23/09/2025
🚨 Microbiologists! We are recruiting Assistant / Associate Professors in 3 collaborative areas of our U. Pittsburgh School of Medicine. 1) MMG (my dept): fundamental research in med micro 2) Peds ID / I4Kids institute 3) Center for Vaccine Research 🔗 to all 3 w/info: www.linkedin.com/posts/vaughn...
linkedin.com
Faculty Professor Associate - Full-Time | Vaughn Cooper
We are recruiting Faculty microbiologists in three (3) different, complementary, and collaborative areas at the University of Pittsburgh associated with the School of Medicine. 1) Fundamental researc...
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