Jesus Miro-Bueno

Great to see this one out. I agree it was challenging but watching it unfold was definitely exciting. The team worked brilliantly, truly thankful!

Dynamics of genetic circuits in Pseudomonas protegens Genetic circuit engineering enables new cellular functions, yet most circuits are developed in the model host Escherichia coli, limiting their availab…

Latest paper out! This piece was a challenge: logic, predictability, decidability, non-model organisms, design... Kudos to @juanricomol.bsky.social & Pablo Japón #syntheticbiology #synbio #biocomputation (I'll post more on this next week) www.sciencedirect.com/science/arti...

New tech adventure: co-founded Newton Biotwins together with @mirobueno.bsky.social. We're building #DigitalTwins for the lab — starting with a flow cytometry twin. Turning #biology into an information science! newtonbiotwins.com/en/home_en/

New paper out!📢 Exploring the computing power of microbes that shapes the environment.

In this short review we talk about the "complexity gap", the distance between bottom-up genetic circuits and microbial information processes. Key questions to improve #biocomputation.

🔗 doi.org/10.1016/j.mi...

Exploring the computing power of microbes that shapes the environment Microbes process input information into output responses through diverse genetic and metabolic mechanisms, effectively making them physical systems th…

Bacteria do compute and can be reprogrammed for new capacities—but not exactly by following Turing’s rules. Evolution, context dependence, and the soft-matter nature of living hardware redefine what computation means in biology. From @angelgm.bsky.social Lab 👉🏻 www.sciencedirect.com/science/arti...

Side story: NAND gates where one input deals directly with growth control, and it is the actual physical body doing the computation. This is our initial approach to morphological computing in living cells. #biocomputation #alife

Our new strain KT-TTX is truly fascinating. Feedback welcome!

Preprint of our work tuning bacterial growth, something that changes context for genetic circuits and therefore, their behaviour. Very interesting observations from both experimental results and a model describing it in this piece of work with @mirobueno.bsky.social and @angelgm.bsky.social! :)

Growth control as a central regulator for tuning the cellular context The cellular context interacts with genetic circuits, decisively defining their performance. However, contextual dependencies (the interplay between the host and the circuit) are often difficult to en...

Preprint out! By controlling growth, via RNAP, we control the entire cellular machinery, and tune the cellular context into distinct, stable states. See how NOT gates behave! Kudos to @angeles-hg.bsky.social and @mirobueno.bsky.social

🔗https://www.biorxiv.org/content/10.64898/2025.12.19.695408v1

Volume 15 Issue 5 | Interface Focus | The Royal Society Themed issues covering cross-disciplinary research at the interface between the physical life and social sciences.

My first cover royalsocietypublishing.org/rsfs/issue/1.... This issue contains the article of my database of prebiotic chemistry, at chemorigins.bact.wisc.edu

Our #ALIFE2025 paper is out! 🎉 We show that even when two circuits produce the same output, their evolutionary potential can differ greatly. #Evolution at the smallest scale.

“Parameter Evolvability in Gene Expression Models Drives Phenotypic Adaptation”
🔗 direct.mit.edu/isal/proceed...

If you are at the Emerging Applications of Microbes conference in Leuven, go to poster #24: Engineering growth control to modulate circuit host dependencies, by @angeles-hg.bsky.social. This is a brilliant story about growth rates vs. genetic circuit function. And, of course, noise! #synbio

The 2025 Retreat of the Biocomputation Lab (in wonderful Chinchón, Madrid) comes to an end. Three days of fantastic discussions, with new (and revisited) goals ahead. What a brilliant team!

Good news everyone! Our new paper in OUP SynBio is out: Construction of a syntrophic Pseudomonas putida consortium with reciprocal substrate processing url: academic.oup.com/synbio/artic...
Many thanks to Barbora and our collaborators @mirobueno.bsky.social and @angelgm.bsky.social

Construction of a syntrophic Pseudomonas putida consortium with reciprocal substrate processing Abstract. Synthetic microbial consortia can leverage their expanded enzymatic reach to tackle biotechnological challenges too complex for single strains, s

Very happy to see the final version published of our collaboration with Pavel Dvorak's lab! 🦠🧬

doi.org/10.1093/synb...

Brilliant news here! Our manuscript on evolvability was accepted for presentation at @alife2025.bsky.social. So there is a new item in the Lab's conference agenda: #ALIFE Kyoto! More on this coming soon...

El grupo de Angel Goñi lidera un proyecto "Proof of Concept" @erc.europa.eu para desarrollar gemelos digitales pioneros y analizar en profundidad el comportamiento de células vivas
Más info: www.cnb.csic.es/proyecto-de-...
@angelgm.bsky.social
@csic.es
@sommalliance.bsky.social

💡El #CSIC lidera dos proyectos de innovación europeos para prevenir la sismicidad y analizar en profundidad células vivas

👩‍💻Las iniciativas buscan gestionar los riesgos sísmicos de la actividad geoenergética y desarrollar gemelos digitales pioneros

➡️ https://tinyurl.com/d2m5ffzk

The NEWTON project got funded, let's go! #DigitalTwins on their way...

Standardized Quorum Sensing Tools for Gram-Negative Bacteria Engineering synthetic consortia to perform distributed functions requires robust quorum sensing (QS) systems to facilitate communication between cells. However, the current QS toolbox lacks standardized implementations, which are particularly valuable for use in bacteria beyond the model species Escherichia coli. We developed a set of three QS systems encompassing both sender and receiver modules, constructed using backbones from the SEVA (Standard European Vector Architecture) plasmid collection. This increases versatility, allowing plasmid features like the origin of replication or antibiotic marker to be easily swapped. The systems were characterized using the synthetic biology chassis Pseudomonas putida. We first tested individual modules, then combined sender and receiver modules in the same host, and finally assessed the performance across separate cells to evaluate consortia dynamics. Alongside the QS set, we provide mathematical models and rate parameters to support the design efforts. Together, these tools advance the engineering of robust and predictable multicellular functions.

Just out! Want to use quorum sensing (QS) for cell–cell communication? Check this out — you might find it useful! Kudos to Paula Múgica 👏

Standardized Quorum Sensing Tools for Gram-Negative Bacteria | @pubs.acs.org @acs.org #SyntheticBiology @sevaplasmids.bsky.social pubs.acs.org/doi/10.1021/...

Digital logic doesn't always fit living matter. Here, two suggestions for handling biological information:

1) Random Pulse Computing (von Neumann's old idea)—check the output robustness (left pic)

2) Probabilistic bits, enabling invertible logic (right pic)

🔗 doi.org/10.1103/Phys...

Just published!: "Genetic designs for stochastic and probabilistic biocomputing".

We explore moving beyond binary logic in #SynBio and #Biocomputation using random pulses and p-bits—embracing biological noise to design robust, invertible genetic circuits in cells.

journals.aps.org/pre/abstract...

Why cellular computations challenge our design principles.

We write about computational theory, information, living cells, complexity, computers, evolution... I really enjoyed writing this piece on #biocomputation. Kudos to Lewis & Bruno. www.sciencedirect.com/science/arti...

⚛️💻El ordenador cuántico del BSC @quantumspain.bsky.social estará a disposición de la comunidad investigadora, empresas y organismos públicos

✨Conoced➕sobre el 1r ordenador cuántico de España desarrollado con tecnología 100% europea

🔘 Interactivo: bsc.es/interactivo_...
🔘 PDF: bsc.es/cuantico_pdf

Next on the Lab's conference agenda: The Gordon Conference #GRC on Quantum Biology. Jesús Miró-Bueno @mirobueno.bsky.social will present our work on probabilistic biocomputation. www.grc.org/quantum-biol...

On 14 February, we’re hosting the Artificial Intelligence in Biology Workshop at #CNB_CSIC with an exceptional line-up of speakers.

The opening talk will be given by @hsalis.bsky.social (Biological Engineering, Penn State University).

@angelgm.bsky.social

Sign up & more info👇
bit.ly/AIinBiology

Looking forward to this timely workshop on #AI in #Biology at @cnb-csic.bsky.social (Feb 14)! Excited to hear from experts like @hsalis.bsky.social , @alfonsovalencia.bsky.social , @noeliaferruz.bsky.social , @pablocarb.bsky.social , and others. (Note: Won’t be streamed.) 🧬🤖 #Science #synbio

Massive upgrade to our preprint "Reprogramming genetic circuits using space": mathematical modeling, time-based experiments, new functions, more supplementary material... We're thrilled about this work and hope you enjoy it! www.biorxiv.org/content/10.1...

A SynBio-enabled (metabolic) love story 😍 Nothing is better for a lasting and efficent relationship than making partners depend on each other 👇

Building a syntrophic Pseudomonas putida consortium with reciprocal substrate processing of lignocellulosic disaccharides Synthetic microbial consortia can leverage their expanded enzymatic reach to tackle biotechnological challenges too complex for single strains, such as lignocellulose valorisation. The benefit of meta...

Great work by Pavel Dvorak's team, with our collaboration. Engineer stability in microbial consortia via reciprocal substrate processing. www.biorxiv.org/content/10.1...

Building a syntrophic Pseudomonas putida consortium with reciprocal substrate processing of lignocellulosic disaccharides Synthetic microbial consortia can leverage their expanded enzymatic reach to tackle biotechnological challenges too complex for single strains, such as lignocellulose valorisation. The benefit of meta...

Thrilled to be part of this work! 👇

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