Jana Huisman
@jhuisman.bsky.social
📤 980
📥 356
📝 27
HFSP Postdoctoral Fellow at MIT | Mobile genetic elements and microbial communities
pinned post!
Have you ever wondered what increasing environmental stress will do to microbial communities? In our new preprint,
@martinadalbello.bsky.social
, Jeff Gore and I studied the impact of salinity on microbial community composition and function. 🧵 (1/5)
www.biorxiv.org/content/10.1...
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Microbial communities demonstrate robustness in stressful environments due to predictable composition shifts
Environmental stress reduces species growth rates, but its impact on the function of microbial communities is less clear. Here, we experimentally demonstrate that increasing salinity stress shifts com...
https://www.biorxiv.org/content/10.1101/2025.08.21.667681v1
7 months ago
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Teresa M. Coque
7 days ago
We are pleased to share our last article
rdcu.be/fabhM
. It offers the most comprehensive analysis so far of Ab+non-Ab resistance genes in human gut microbiome, using an Indigenous population (low industrialization, chronic Hg exposure from gold mining) 6/6👇
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The antimicrobial gut resistome of the Wayampi reveals a shared background of antibiotic and metal resistance genes with industrialized populations, underscoring the “robust-yet-fragile” architecture ...
https://rdcu.be/fabhM
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Jana Huisman
Darren Dahly
15 days ago
Every day is a good day for sharing one of the most useful papers about research data ever written. PLEASE get your people to understand and follow this advice.
www.tandfonline.com/doi/full/10....
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Rachel Gregor
15 days ago
Coming this August 3-5 to a hub near you (Switzerland, USA, Canada, Mexico, UK, Ukraine, or virtual only)!
#Microbiome
#MicroSky
add a skeleton here at some point
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Jana Huisman
Charles Mullon
24 days ago
With
@saramitri.bsky.social
,
@sonjalehtinen.bsky.social
and L. Lehmann we’ve launched the UNIL Center for Theory in Ecology and Evolution
@unil.bsky.social
🇨🇭 To kick things off, we’re offering short visiting fellowships for theorists in ecology & evolution. Apply & pls RP 😀
tinyurl.com/2wem36zz
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Unil center for theory in ecology and evolution (UCTEE) - FBM Unil
Page Unil Center for Theory in Ecology and Evolution of site Faculty of Biology and Medicine hosted by the University of Lausanne
https://www.unil.ch/fbm/en/home/menuinst/recherche/reseaux/uctee.html
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Lilly Cummins
about 1 month ago
I’ve spent a lot of time over the past two years thinking about genome evolution and how recent research revealing complex gene-gene interactions has complicated traditional ‘gene-centric’ genomic approaches to evolution. So here is a review that consolidates these thoughts!
rdcu.be/e6pHY
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Epistasis and co-adaptation in bacterial genome evolution
Nature Reviews Genetics - Bacterial genome evolution is shaped by epistasis, which can constrain or promote specific evolutionary paths. The authors review how integrating the effects of epistatic...
https://rdcu.be/e6pHY
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Life Sciences Switzerland (LS2)
about 1 month ago
Register for Theory across Biology 2026: 12 June, Bern. One-day meeting on mathematical & theoretical approaches in biology with chalk talks and flip-chart sessions. Ideal for theorists, modelers, and interdisciplinary biologists. Abstracts by: 10 May 2026 Register by: 24 May 2026:
buff.ly/svAZ8NF
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Jana Huisman
Carolyn Bertozzi
about 1 month ago
Fascinating discovery by team
@stanfordbiosci.bsky.social
www.cell.com/cell/abstrac...
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Nutrient competition predicts gut microbiome restructuring under drug perturbations
Systematic profiling of 707 drugs on their impact on stool-derived microbial communities shows that nutrient competition explains and predicts species shifts under drug treatment and that post-drug re...
https://www.cell.com/cell/abstract/S0092-8674(25)01243-7
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Michael Brockhurst
about 1 month ago
How does treatment induced antibiotic resistance happen in real-world infections? We analysed 25k Pseudomonas isolates from 180 patients in a clinical trial to find out! TLDR: The ecological and evolutionary paths are surprisingly diverse & complex even in patients receiving identical treatment…
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Craig MacLean
about 1 month ago
New pre-print with
@wtmatlock.bsky.social
!!!
www.biorxiv.org/content/10.6...
What shapes the distribution of plasmids across bacteria? Our paper shows that conjugative plasmids actually have a very narrow distribution compared to mobilizable plasmids. Conjugative systems restrict plasmid transfer!
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https://www.biorxiv.org/content/10.64898/2026.02.19.706745v1.full.pdf+html
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Jana Huisman
Yonatan Grad
2 months ago
Now published: our work using phylodynamics from surveillance data to quantify and experimentally validate the fitness impact of antibiotic resistance determinants & how this changes with patterns of antibiotic use:
www.nature.com/articles/s41...
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Wolfgang Huber
3 months ago
Apply for the Ascona workshop "Statistical and AI methods for multi-modal multi-scale modeling of biological systems", 28 Jun-3 Jul 2026 on Monte Verità, Lago Maggiore at the foot of the Swiss Alps.
ascona2026.sciencesconf.org
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Jana Huisman
Carl Zimmer
3 months ago
Lizards have evolved their own version of rock-paper-scissors. Here's my story on the genetics behind nature's games. Gift link:
nyti.ms/493KGMI
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Jana Huisman
Waggoner Lab
4 months ago
Recombination between strains fuels pervasive adaptive evolution among human gut commensal bacteria, and strongly implicate host diet and lifestyle as critical selection pressures
@nature.com
@nanditagarud.bsky.social
www.nature.com/articles/s41...
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Jana Huisman
Richard Lenski
4 months ago
The 2026 Guarda Summer Course in Evolutionary Biology is now accepting applications. Amazing place, amazing course, amazing opportunity for early grad students.
tb.ethz.ch/education/gu...
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Summer school:<br> Evolutionary Biology in Guarda
Information about the annual summer school Evolutionary Biology in Guarda
https://tb.ethz.ch/education/guarda.html
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Snorre Sulheim
4 months ago
Do you think transporters in E. coli contribute to metabolite release? No? Explore the effect of 66 different transporter knockout mutations on the exometabolome dynamics of ~300 metabolites yourself:
keio.unil.ch
Teaser: Increased proline in ΔputP
#microsky
#MEvoSky
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Jana Huisman
Sara Mitri
4 months ago
New preprint from our lab
www.biorxiv.org/content/10.1...
! Andrea Dos Santos and Clément Vulin combine experiments and models showing how adding glucose can strengthen negative interactions between microbial species. This can be used in tandem with antibiotic treatment to inhibit pathogens!
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Rob Edwards
4 months ago
Long read Metagenomics,
#phage
and
#prophage
in the gut by Ami Bhatt's group. Beautiful data showing changes in phages over two years
#phagesky
www.nature.com/articles/s41...
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Long-read metagenomics reveals phage dynamics in the human gut microbiome - Nature
Complex prophage integration dynamics, including low-level induction, cross-family host range and transposase-mediated mobilization, challenge existing paradigms and deepen our understanding of phage–...
https://www.nature.com/articles/s41586-025-09786-2
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Jana Huisman
H. B. Beryl Rappaport
4 months ago
So happy to announce our new preprint, “A geothermal amoeba sets a new upper temperature limit for eukaryotes.” We cultured a novel amoeba from Lassen Volcanic NP (CA, USA) that divides at 63°C (145°F) 🔥 - a new record for euk growth!
#protistsonsky
🧵
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Aaron Ragsdale
4 months ago
Wisconsin Evolution is accepting applications for our Seminar Series' Early Career Scientist Award. Come share your evolution research and visit UW-Madison's evolution community. Open to grad students and postdocs (<5 yrs post PhD) from outside UW-Madison. Apply by Dec 15th here:
shorturl.at/4a4O6
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Early Career Scientist Awards 2026
Application to the UW-Madison Evolution Seminar Series - Early Career Scientist Awards.
https://urldefense.com/v3/__https://forms.gle/XUfKVvmsqNC4tAAo9__;!!Mak6IKo!PMlydX51GvgAXaKaMmgFG3gtBS61lwBD7hNWvCz9fQ2sIOOTg4b0RONGdiQm3PkMl112As2RqIP43umxhFzXSKfL456KCs8OOo3t6Q$
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Jana Huisman
Harris Wang
5 months ago
📢 Our Dept. of Systems Biology at Columbia University has an open tenure-track Assistant Professor position in the broad area of quantitative biology. Come join our awesome department in NYC! Please circulate.
apply.interfolio.com/177622
Suggested deadline: 12/15/2025.
@columbiasysbio.bsky.social
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Jana Huisman
Aylwyn Scally
5 months ago
Come and join us here in Cambridge! Applications open for a new faculty position, for a researcher in computational and/or theoretical biology, based jointly in Genetics and Mathematics. Happy to answer questions about research, teaching and working here.
www.cam.ac.uk/jobs/faculty...
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Faculty Position in Computational Biology
Applications are invited for an Assistant/ Associate Professorship in Computational Biology to commence on 1 April 2026 or shortly thereafter. This is a joint post between the Department of Applied
https://www.cam.ac.uk/jobs/faculty-position-in-computational-biology-le47769
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Ákos T Kovács
5 months ago
Strain displacement in microbiomes via ecological competition Cool
@natmicrobiol.nature.com
publication by
@erikbakkeren.bsky.social
@vit-pi.bsky.social
@meganleeny.bsky.social
@microscape.bsky.social
& Kevin Foster
www.nature.com/articles/s41...
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Strain displacement in microbiomes via ecological competition - Nature Microbiology
Mathematical modelling and experimental tests reveal principles that govern displacement of a resident strain by an invader in microbial communities.
https://www.nature.com/articles/s41564-025-02162-w
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Jana Huisman
Ricardo Leon-Sampedro
5 months ago
🚨 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
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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...
https://rdcu.be/eOf63
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Jana Huisman
Antonio Camargo
5 months ago
🚨New preprint out! We present a foundational genomic resource of human gut microbiome viruses. It delivers high-quality, deeply curated data spanning taxonomy, predicted hosts, structures, and functions, providing a reference for gut virome research. (1/8)
www.biorxiv.org/content/10.1...
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Tami Lieberman
5 months ago
If you're looking for a faculty position at the intersection of ecology and computing (both broadly defined), please apply to this joint search between the CEE Department and the College of Computing at MIT:
cee.mit.edu/people/share...
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Faculty Position in the Department of Civil and Environmental Engineering and the Schwarzman College of Computing - cee.mit.edu
The Department of Civil and Environmental Engineering (CEE), together with the Schwarzman College of Computing (SCC) at the Massachusetts Institute of Technology (MIT) in Cambridge MA, seeks candidate...
https://cee.mit.edu/people/shared-faculty-search/
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Jana Huisman
Frédérique Le Roux
6 months ago
Phages evolve fast, or do they? In oysters, some stay identical for years. With >1,200 phages & 600 Vibrio genomes, we reveal long-term stability and new mobile elements. Proud of this collaborative work across our teams (Roscoff-UdeM and
@epcrocha.bsky.social
www.biorxiv.org/cgi/content/...
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Ecological constraints foster both extreme viral-host lineage stability and mobile element diversity in a marine community
Phages are typically viewed as very rapidly evolving biological entities. Little is known, however, about whether and how phages can establish long-term genetic stability. We addressed this eco-evolut...
https://www.biorxiv.org/cgi/content/short/2025.10.10.681744v1
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Jana Huisman
MEEhubs
6 months ago
We’re back! ✨ The next
#MeeHubs26
is coming with 7 hubs across the globe and incredible lineups at each. Can’t wait to share more soon!
meehubs.org
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Home
https://meehubs.org
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Jana Huisman
Maddy Seale
6 months ago
Wonderful to see this beautiful image on the cover of Science this week highlighting a paper that uses high resolution imaging to show the spatial patterns of bacterial attraction to glutamine from roots. Paper here:
www.science.org/doi/10.1126/...
Perspective here:
www.science.org/doi/10.1126/...
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Michael Baym
6 months ago
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Jana Huisman
Zamin Iqbal
6 months ago
Delighted to see our paper studying the evolution of plasmids over the last 100 years, now out! Years of work by Adrian Cazares, also Nick Thomson
@sangerinstitute.bsky.social
- this version much improved over the preprint. Final version should be open access, apols. Thread 1/n
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Agathe couturier
7 months ago
Exclusion systems, far from slowing down plasmid spread, are in fact essential to preserve host cell viability and thereby ensure the successful dissemination of conjugative plasmids and antibiotic resistance genes.
@nfrk92.bsky.social
@narjournal.bsky.social
academic.oup.com/nar/article/...
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Exclusion systems preserve host cell homeostasis and fitness, ensuring successful dissemination of conjugative plasmids and associated resistance genes
Abstract. Plasmid conjugation is a major driver of antibiotic resistance dissemination in bacteria. In addition to genes required for transfer and maintena
https://academic.oup.com/nar/article/53/17/gkaf898/8252029?utm_source=advanceaccess&utm_campaign=nar&utm_medium=email
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Jana Huisman
Benjamin Wolfe
7 months ago
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...
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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...
https://www.cell.com/current-biology/fulltext/S0960-9822%2825%2901119-4
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ISME - International Society for Microbial Ecology
7 months ago
✈️ Calling all grad students & postdocs in microbial ecology! Want to work, train, or collaborate abroad? ISME’s Scholar Mobility Fund can help you get there. 📅 Apply by 1 October 🌍 Open to applicants worldwide (esp. outside NA & Europe!) Details:
isme-microbes.org/isme-scholar...
#MicrobialEcology
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Jana Huisman
José R Penadés
7 months ago
Thrilled to share our two latest papers with the
@tcostalab.bsky.social
lab! In the first, we uncover a new mechanism of satellite transfer: cf-PICIs hijack tails from diverse phages to spread across species.
@imperialcollegeldn.bsky.social
www.cell.com/cell/fulltex...
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Chimeric infective particles expand species boundaries in phage-inducible chromosomal island mobilization
Capsid-forming PICIs (cf-PICIs) produce their own capsids and exploit phage tails from unrelated species to transfer their DNA across bacterial hosts. This tail piracy enables broad dissemination and ...
https://www.cell.com/cell/fulltext/S0092-8674%2825%2900974-2
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Jana Huisman
Jeffrey Perkel (he/him)
7 months ago
Mammoths in Mexico! A fascinating read by
@rpocisv.bsky.social
@science.org
on the discovery and analysis of a massive Pleistocene fossil trove beneath an airport in Mexico City. 🧬 🦣 🇲🇽
www.science.org/content/arti...
🧪
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Mammoths in Mexico? Huge bone trove reveals giant beasts thrived in warmth, too
Fossils found while building airport contain first mammoth DNA from tropical location
https://www.science.org/content/article/mammoths-mexico-huge-bone-trove-reveals-giant-beasts-thrived-warmth-too
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Jana Huisman
Microbiology Society
8 months ago
We are recruiting for an Editor to join the Journal of Medical Microbiology (JMM)! We’re looking for Editors with some previous editorial experience to handle JMM’s One Health - Emerging, Zoonotic and Environmental Disease section. Find out more and apply here:
microb.io/4lnPPBU
🦠
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Journal of Medical Microbiology Editor for One Health - Emerging, Zoonotic and Environmental Diseases: Call for expressions of interest
12 August 2025
https://microb.io/4lnPPBU
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Jana Huisman
Will Smith
7 months ago
Does your lab perform killing assays? TL;DR: we’ve identified a problem that can bias the outcome of killing assays, making antagonism look stronger than it really is. Adding a simple extra step can mitigate this bias!  Out now at
#MicrobioJ
www.microbiologyresearch.org/content/jour...
1/n
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Type VI secretion system activity at lethal antibiotic concentrations leads to overestimation of weapon potency
Competition assays are a mainstay of modern microbiology, offering a simple and cost-effective means to quantify microbe–microbe interactions in vitro. Here, we demonstrate a key weakness of this meth...
https://www.microbiologyresearch.org/content/journal/micro/10.1099/mic.0.001600
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Jana Huisman
Julian Catchen
7 months ago
Our EEB department at the University of Illinois at Urbana-Champaign is hiring an assistant professor in evo-devo. See
go.illinois.edu/EEBAsstProf
for details. Please share!
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Have you ever wondered what increasing environmental stress will do to microbial communities? In our new preprint,
@martinadalbello.bsky.social
, Jeff Gore and I studied the impact of salinity on microbial community composition and function. 🧵 (1/5)
www.biorxiv.org/content/10.1...
loading . . .
Microbial communities demonstrate robustness in stressful environments due to predictable composition shifts
Environmental stress reduces species growth rates, but its impact on the function of microbial communities is less clear. Here, we experimentally demonstrate that increasing salinity stress shifts com...
https://www.biorxiv.org/content/10.1101/2025.08.21.667681v1
7 months ago
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Our paper on the transmission dynamics of Noro- and Enterovirus during the COVID-19 pandemic just came out:
www.sciencedirect.com/science/arti...
We measured wastewater viral loads, estimated Re and assessed the impact of non-pharmaceutical interventions on the transmission of these pathogens.
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Transmission dynamics of Norovirus GII and Enterovirus in Switzerland during the COVID-19 pandemic (2021–2022) as evidenced in wastewater
Noroviruses and enteroviruses are major causes of endemic gastrointestinal disease associated with substantial disease burden. However, viral gastroen…
https://www.sciencedirect.com/science/article/pii/S1755436525000398?via%3Dihub
7 months ago
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Jana Huisman
C. Brandon Ogbunu
8 months ago
Biologist folk (especially in evolutionary biology and/or ecology, but it don’t matter): Can you give me your favorite examples of trade offs in biology? Organism or system don’t matter. Primary literature or reviews preferred.
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Tami Lieberman
8 months ago
We are on the lookout for postdocs for two different projects at the intersection of ecology, evolution, and the human microbiome. See thread for more information and reach out!
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Nandita Garud
8 months ago
I am seeking a postdoc for my group at UCLA. We work at the intersection of population genetics x microbiome (
garud.eeb.ucla.edu
). If interested, please message me!
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Garud Lab
https://garud.eeb.ucla.edu
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PLOS Biology
9 months ago
Mutations generate variation, critical for
#evolution
, but
#MutationBias
restricts the choice of mutation type.
@deepaagashe.bsky.social
&co use
#Ecoli
strains with different mutation biases to show that changing an old bias should yield more beneficial mutations
@plosbiology.org
🧪
plos.io/46LjCRt
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Jesse Shapiro
9 months ago
One of my favourite serendipitous results from the lab came about because we were long-read sequencing bacterial: Vibrio cholerae, which is "supposed to" have TWO circular chromosomes (3 + 1 million base pairs) often has just ONE fused chromosome (4 Mbp).
www.nature.com/articles/s41...
(1/n)
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Prevalent chromosome fusion in Vibrio cholerae O1 - Nature Communications
The pathogenic bacterium Vibrio cholerae typically has two circular chromosomes. Here, Cuénod et al. analyse 467 clinical isolates and identify several independent chromosome fusion events that are li...
https://www.nature.com/articles/s41467-025-60699-0
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Rogier Braakman
10 months ago
‼️I'm looking for a postdoc‼️ Come join effort in using metagenomes to quantify microbial catabolic potential and carbon substrate availability at the ecosystem level. We seek to understand evolutionary forces shaping the carbon cycle. Part of
ccomp-stc.org
careers.peopleclick.com/careerscp/cl...
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Postdoctoral Associate
MIT - Postdoctoral Associate - Cambridge MA 02139
https://careers.peopleclick.com/careerscp/client_mit/external/jobDetails/jobDetail.html?jobPostId=32476&localeCode=en-us
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Sarah Cobey
9 months ago
Sang Woo (Daniel) Park and I are excited to share a new preprint, "Susceptible host dynamics explain pathogen resilience to perturbations" [1/8]
www.biorxiv.org/content/10.1...
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Harvard_MCB
10 months ago
Octopuses Use Microbial Signals to Guide Complex Behaviors 🧠🧪
#AcademicSky
#higherEd
www.mcb.harvard.edu/department/n...
@nbellono.bsky.social
@rachellegaudet.bsky.social
@naoshigeuchida.bsky.social
@neurovenki.bsky.social
@dulaclab.bsky.social
@harvardbrainsci.bsky.social
@cellpress.bsky.social
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Octopuses Use Microbial Signals to Guide Complex Behaviors - Harvard University - Department of Molecular & Cellular Biology
A new study published in Cell from the lab of MCB faculty member Nick Bellono reveals that octopuses detect microbial cues on surfaces to distinguish prey and eggs […]
https://www.mcb.harvard.edu/department/news/octopuses-use-microbial-signals-to-guide-complex-behaviors/
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Jana Huisman
Microbiology Society
10 months ago
The abstract submission deadline for Understanding and predicting microbial evolutionary dynamics 2025 is soon approaching! Make sure to submit by 23:59 BST on 7 July 2025.
microb.io/Abstracts
#MicroEvo25
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Jana Huisman
Jan-Willem Veening
10 months ago
New tenure track assistant professor position in molecular microbiology in our department
@dmf-unil.bsky.social
@unil.bsky.social
! We are casting a wide net for an experimental molecular microbiologist. Apply here:
wwwfbm.unil.ch/releve/appli...
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DMF: Tenure Track Assistant Professor towards Associate Professor in Molecular Microbiology - Site des postulations FBM
https://wwwfbm.unil.ch/releve/application/announce/show/133
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