Theoretical Biophysics

Plasticity in climate change responses Recent research has shown that climate change can both induce and modulate the expression of plastic traits but our understanding of the role of phenotypic plasticity as an adaptive response to clima...

Plasticity in climate change responses - just published in Biological Reviews

What in the role of phenotypic plasticity as an adaptive response to climate change?

Looking at mechanisms from the subcellular to the community and ecosystem levels.

With Stollewerk, @davidboukal.bsky.social, et al.

Adapted from Fig. 1 from Kadiyala et al 2025.

Introducing five concepts from dynamical systems to decode developmental regulatory mechanisms, have a read! @perez-carrasco.bsky.social‬ @roederlab.bsky.social @mpipz.bsky.social This effort started in a morphogenesis meeting @kitp-ucsb.bsky.social‬ in 2023. journals.biologists.com/dev/article/...

Genetic “expiry-date” circuits control lifespan of synthetic scavenger bacteria for safe bioremediation Abstract. Synthetic biology enabled the systematic engineering of bacteria for diverse applications, but their deployment in open environments raises conce

Genetic “expiry-date” circuits control lifespan of synthetic scavenger bacteria for safe bioremediation doi.org/10.1093/nar/...

The what, when, where, and why of wrinkly morphology in biofilms Wrinkling is a striking emergent behavior that occurs in microbial biofilms across many species. The phenomenon originates from an intricate interplay between e

The what, when, where, and why of wrinkly morphology in biofilms

-in Biophysics Rev

pubs.aip.org/aip/bpr/arti...

Time-resolved experiments are powerful and information rich, but are difficult to integrate with MD simulations

Carl and Simone developed a version of Bayesian-Maximum Entropy reweighting that generates time-dependent priors from low-dim representations of MD sims

www.biorxiv.org/content/10.1...

Babu, N. K., Sreepadmanabh, M., Dutta, S., & Bhattacharjee, T. (2024). Interplay of geometry and mechanics in epithelial wound healing. Physical Review E, 110(5), 054411. #EpithelialMechanics doi.org/10.1103/Phys...

A Fitness Entropy Compensation effect set the trade-off between growth and gene expression in cell populations
doi.org/10.1101/2025...

Krishna, S., Gopinath, A., & Bhattacharjee, S. M. (2022). Ordering and topological defects in social wasps' nests. Scientific reports, 12(1), 12901. #EpithelialMechanics www.nature.com/articles/s41...

Maroudas-Sacks, Y., Garion, L., Shani-Zerbib, L., Livshits, A., Braun, E., & Keren, K. (2021). Topological defects in the nematic order of actin fibres as organization centres of Hydra morphogenesis. Nature Physics, 17(2), Article 2. #EpithelialMechanics www.nature.com/articles/s41...

BugSigDB FROM SCRATCH: LEARNING HOW TO CURATE MICROBIOME STUDIES Hello again 👋 it’s been five weeks of my Outreachy internship with Bioconductor. I’m enjoying working with the Microbiome Study Curation project – BugSigDB, so much that I’m…

BugSigDB-ing from Scratch
by Anne-Marie Sharp

#outreachy @bioconductor.bsky.social

annemariesharp.wordpress.com/2025/07/07/b...

One last chance, course is not fully subscribed yet!

#biophysics #patchclamp #TIRF

Guillamat, P., Blanch-Mercader, C., Pernollet, G., Kruse, K., & Roux, A. (2022). Integer topological defects organize stresses driving tissue morphogenesis. Nature materials, 21(5), 588–597. #EpithelialMechanics www.nature.com/articles/s41...

training.institut-curie.org/courses/mult...

Can using synthetic approaches to build biology help teach us the design principles of how embryos build themselves? 👷‍♀️🔧

If this is a question that interests you, come and share your thoughts at this Royal Society Workshop on Generative Biology

royalsociety.org/science-even...

Microbial communities: Energetics and dynamics across space and time

Microbial Communities enthusiasts, don't miss this conference in Chicago (27/09)

Microbial Communities: Energetics and Dynamics Across Space and Time

with focus on the energetics and spatio-temporal
dynamics of microbial communities! Deadline 11/07

www.nitmb.org/microbial-co...

Beautiful new review paper in preprint bridging microbial ecology and classic ecology led by Maggie Vogel, @olimeacock.bsky.social and @annasophieweiss.bsky.social, also by @juliensluneau.bsky.social and @lambdapp.bsky.social from our lab (not me :)) ecoevorxiv.org/repository/v...

How a Biofilm’s Strange Shape Emerges From Cellular Geometry | Quanta Magazine Micro decisions can have macro consequences. A soft matter physicist reveals how interactions within simple cellular collectives can lead to emergent physical traits.

www.quantamagazine.org/how-a-biofil...

Seminar Physique des cellules et cancer

Wednesday, July 2nd 2025 14:30 am

Centre de recherche - Paris Amphithéâtre Constant-Burg

Virgile Viasnoff, CNRS, IBDM, Marseille

«Biofunctionalized 3D scafolds to guide the development et spatial organisation of Cardiac and liver organoids from hIPSCs»

Novel Research in Biological Artificial Intelligence Expressions of interest and nominations for a Max Planck Director to lead research in the field of Biological Artificial Intelligence.

Novel Research in Biological Artificial Intelligence: Expressions of interest and nominations for a Max Planck Director to lead research in the field of Biological Artificial Intelligence @mpi-cbg.de and @csbdresden.bsky.social. More information: www.mpi-cbg.de/news-outreac...

Sketch of membrane-enclosed compartment with particles on its surface, which interact with an adjacent structure

🧵 🧪 1/ Hi! I’m excited to share our latest work, now on arXiv:

Repulsive particle interactions at cellular interfaces enable selective information processing (arxiv.org/abs/2506.14739)

Where we explore how the physical properties of living systems can help cells process spatial information.

Thank to Prof. Kunihiko Kaneko (Niels Bohr Institute, Univ Copenhagen, Denmark) for sharing it!

Theoretical Biology of the Cell Cambridge Core - Biological Physics and Soft Matter Physics - Theoretical Biology of the Cell

Just out from Cambridge University Press: Theoretical Biology of the Cell by Takagi, Furusawa, Sawai & Kaneko. Covers theoretical tools for life dynamics, stochasticity & information, for cellular response, adaptation, morphogenesis, origin of life & more

www.cambridge.org/core/books/t...

Bacteria poison and eat their neighbors Bacteria leverage a secretion system to kill and scavenge nutrients from nearby competitors

It’s a bacterium-eats-bacterium world…

www.science.org/doi/10.1126/...

📣Join us for the DEVELOPMENTAL BIOLOGY COURSE @institutcurie.bsky.social @sorbonne-universite.fr
We have fantastic speakers and registration is free!
training.institut-curie.org/courses/deve...
@karinayaniv.bsky.social @doetschlab.bsky.social @eileen-furlong.bsky.social @jesseveenvliet.bsky.social

How can we build a general theory of mutualistic communities? After five years, we finally completed a new Neutral Theory of Cooperation that is fully solved analytically and displays remarkable properties @jordipinero.bsky.social @artemyte.bsky.social @manlius.bsky.social arxiv.org/abs/2506.09737

🚨 Tomorrow, Friday 13/06 at 15:30 EU time, Katja Taute (Uni Leipzig) will present the talk

Bacterial navigation in complex environments

at the Population Dynamics Seminars.

Info and subscription sites.google.com/view/popdyn/

In Vivo Multicellular Feedback Control in Synthetic Microbial Consortia In this paper, we present a biomolecular control architecture able to guarantee stable and precise regulation of gene expression. Specifically, we engineer a microbial consortium comprising a cellular population, named controllers, that is tasked to regulate the expression of a gene in a second population, termed targets. Traditional biomolecular control strategies, while effective, are predominantly confined to single-cell applications, limiting their complexity and adaptability due to factors such as competition for limited cell resources and incompatible chemical reactions. Our approach overcomes these limitations by employing a distributed multicellular feedback loop between two strains of Escherichia coli, allowing for division of labor across the consortium. In vivo experiments demonstrate that this control system maintains precise and robust gene expression in the target population, even amid variations in consortium composition. Our study fills a critical gap in synthetic biology and paves the way for more complex and reliable applications in the field.

In Vivo Multicellular Feedback Control in Synthetic Microbial Consortia
pubs.acs.org/doi/10.1021/...

🚨 Next Friday 13/06 at 15:30 EU time, Katja Taute (Uni Leipzig) will present the talk

Bacterial navigation in complex environments

at the Population Dynamics Seminars. Info and subscription sites.google.com/view/popdyn/

Biophysical seminar
Friday 13 June 2025, 1:30pm, at IBENS, Favard room. 

hybrid form with live streaming via Zoom (link on demand)

Martina Dal Bello (Yale University).

Nutrient Availability Shapes the Diversity and Stability of Microbial Communities

www.phys.ens.fr/biophysics_s...

We have three exciting talks lined up for the Fourth Young Biophysicists Meeting. See you all soon on the coming Monday (June 2) at 11am!

Mark your calendar🗓️: shorturl.at/choBf
Find out moreℹ️: shorturl.at/4oKNe