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Alvaro Sanchez

@asanchezlab.bsky.social
1.2K followers 1.1K following 114 posts

CSIC Professor and Principal Investigator of the Quantitative Biology group at IBFG in Salamanca. Previously at Yale EEB, CNB-CSIC. Our group works on building predictive models of biological teams. More information at www.sanchezlaboratory.weebly.com

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Reposted by Alvaro Sanchez
Systems Ecology @systems-ecology.bsky.social · 28/09/2026
What is the future of systems ecology in a rapidly changing world? In a new editorial, Deborah M. Gordon argues for studying ecological systems in transformation—and for extending systems thinking across biological scales. Read in Systems Ecology: doi.org/10.67837/2194
doi.org
The future of systems ecology | Systems Ecology
Question: What is the future of systems ecology in a rapidly changing world?
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Reposted by Alvaro Sanchez
Ricard Solé @ricardsole.bsky.social · 22/09/2026
We are very happy to announce the launch of Systems Ecology @systems-ecology.bsky.social, a new independent, diamond open-access journal dedicated to advancing systems-level understanding in ecology. systems-ecology.org/index.php/se Check the Founding editorial! systems-ecology.org/index.php/se...
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Systems Ecology @systems-ecology.bsky.social · 21/09/2026
🌱 Systems Ecology is now live! A new independent, researcher-run, diamond OA journal for ecological research through systems science. Free to read. Free to publish. No APCs. We are now open for submissions: systems-ecology.org Please help spread the word!
systems-ecology.org
Systems Ecology
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Willem van Schaik @wvschaik.bsky.social · 20/09/2026
Brilliant paper by the labs of @epcrocha.bsky.social @jrpenades.bsky.social 'Mobile genetic elements drive a plasmid fusion and deletion lifecycle shaping evolution and antimicrobial resistance' www.nature.com/articles/s41...
nature.com
Mobile genetic elements drive a plasmid fusion and deletion lifecycle shaping evolution and antimicrobial resistance - Nature Communications
Plasmids drive bacterial adaptation, but how their diversity arises has remained unclear. Here, they show that in Staphylococcus aureus, mobile genetic elements repeatedly fuse and delete plasmids, re...
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Guim Aguadé-Gorgorió @guimaguade.bsky.social · 18/09/2026
This looks promising! "...free to read and free to publish, with no subscription barriers for readers and no article processing charges for authors. The journal is run by researchers, for researchers, with the goal of advancing ecology through systems thinking."
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Purushottam Dixit @pdixit.bsky.social · 15/09/2026
1/ Our new paper is out in PRX Life. Physicists' often treat microbiomes as disordered systems with coexistence in very high-dimensional niche spaces. We asked whether empirical data supports this picture, and found the data point somewhere else: journals.aps.org/prxlife/abst...
journals.aps.org
Low-Dimensional Coexistence in Complex Microbial Ecosystems
Analysis of nearly 200 human gut microbiome datasets shows that microbial coexistence is governed by a few effective ecological dimensions, rather than the high-dimensional niches assumed by prevailing theory.
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Alvaro Sanchez @asanchezlab.bsky.social · 21/08/2026
New preprint from the lab: The Latent Simplicity of Microbial Ecological Interactions www.biorxiv.org/content/10.6... We're excited about this one. We find that high-order microbial interactions often obey simple linear laws making microbial communities far more predictable than one might expect
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Pablo Catalán @the100footpole.bsky.social · 03/09/2026
New review out! Should be a fun read for quantitative people interested in antimicrobial resistance. Hopefully :P www.sciencedirect.com/science/arti...
sciencedirect.com
From cells to populations: multi-scale quantitative approaches to antimicrobial resistance
Antimicrobial resistance (AMR) is a critical global health challenge that is increasingly being addressed through quantitative and systems-level appro…
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Filipa Trigo da Roza @filipatr.bsky.social · 03/09/2026
It’s out! 🥹🎉 We’re so incredibly happy and proud to see this work out in the world. And once again, a huge thank you to the great mastermind @jaescudero.bsky.social and all the co-authors; this wouldn’t have been possible without you! doi.org/10.1038/s415... @natmicrobiol.nature.com
doi.org
High-throughput recovery of integron cassettes for gene discovery screens - Nature Microbiology
Integron insertion sites engineered into counterselection markers allow large-scale and high-throughput capture of integron-encoded genes from genetically tractable bacteria or DNA samples.
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Alvaro Sanchez @asanchezlab.bsky.social · 21/08/2026
We thus find that community function is predictable not because interactions are absent or weak, but because interactions at different orders are not independent, they're linked by simple linear relationships. What looks like significant intxn complexity can hide a strikingly simple organization.
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Alvaro Sanchez @asanchezlab.bsky.social · 21/08/2026
New preprint from the lab: The Latent Simplicity of Microbial Ecological Interactions www.biorxiv.org/content/10.6... We're excited about this one. We find that high-order microbial interactions often obey simple linear laws making microbial communities far more predictable than one might expect
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Alvaro Sanchez @asanchezlab.bsky.social · 21/08/2026
New preprint from the lab: The Latent Simplicity of Microbial Ecological Interactions www.biorxiv.org/content/10.6... We're excited about this one. We find that high-order microbial interactions often obey simple linear laws making microbial communities far more predictable than one might expect
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Alvaro Sanchez @asanchezlab.bsky.social · 21/08/2026
New preprint from the lab: The Latent Simplicity of Microbial Ecological Interactions www.biorxiv.org/content/10.6... We're excited about this one. We find that high-order microbial interactions often obey simple linear laws, making microbial communities far more predictable than one might expect.
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bioRxivpreprint @biorxivpreprint.bsky.social · 30/07/2026
The latent simplicity of microbial ecological interactions www.biorxiv.org/content/10.64898/20…
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Alvaro Sanchez @asanchezlab.bsky.social · 01/07/2026
New preprint from our lab Statistical learning of bacterial growth in combinatorially constructed environments, led by brilliant PhD student Andrea Arrabal. www.biorxiv.org/content/10.6... We systematically study nutrient-nutrient interactions in bacterial growth under carbon-limiting conditions.
biorxiv.org
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Alvaro Sanchez @asanchezlab.bsky.social · 01/07/2026
New preprint from our lab Statistical learning of bacterial growth in combinatorially constructed environments, led by brilliant PhD student Andrea Arrabal. www.biorxiv.org/content/10.6... We systematically study nutrient-nutrient interactions in bacterial growth under carbon-limiting conditions.
biorxiv.org
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SeppeKuehnLab @seppekuehnlab.bsky.social · 29/06/2026
New paper out today in Nature Microbiology: "Epistatic interactions inform rational design of synthetic microbial communities for bioremediation." 🧵https://www.nature.com/articles/s41564-026-02386-4 @kiseokmicro.bsky.social @nitmb.bsky.social
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Leonora Bittleston @leonorabit.bsky.social · 16/06/2026
Can we use ecological principles to increase coexistence in synthetic bacterial communities? Our new paper is now out in @isme-microbes.bsky.social: "Environmental complexity shapes maintenance of bacterial diversity through context-dependent interactions among niche axes" doi.org/10.1093/isme...
academic.oup.com
Environmental complexity shapes maintenance of bacterial diversity through context-dependent interactions among niche axes
Abstract. Microbial communities are often more species-rich than predicted from classical ecological models. The high levels of coexistence observed in nat
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Sara Mitri @saramitri.bsky.social · 16/06/2026
Eye-opening work by @olimeacock.bsky.social (former postdoc, now PI in Sheffield). He presents an exact mapping from steady-state consumer-resource to generalized Lotka-Volterra models, revealing that cross-feeding can lead to competition for other limiting resources. Feedback pls!
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Alvaro Sanchez @asanchezlab.bsky.social · 09/06/2026
While the world prepares for the World Cup, the prettiest city in Europe is going nuts about our football team playing the promotion playoff to the 2nd division in Spain. Vamos Mi Zamora! eldiadezamora.es/art/70948/la...
eldiadezamora.es
La mística del Ruta de la Plata conduce al Zamora CF a la fase final por el ascenso
Los rojiblancos marcaron dos goles, el último, de penalti, ejecutado por Ramos, en el minuto 97, y controlaron al Villarreal en la prórroga. Ahora solo queda el Sabadell para evitar el ascenso a Segunda División
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Theory of Living Matter Group @tlmcambridge.bsky.social · 03/06/2026
🚨Online Seminar NEXT WEEK- 10.06.26 | 16:00 UK Alvaro Sanchez: "The latent simplicity of microbial ecological interactions" Please share & to attend online please register to our 📧: lists.cam.ac.uk/sympa/subscr...
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Daniel Gorelick @danielgorelick.bsky.social · 03/06/2026
Paying peer reviewers works. Expanded Fast & Fair experiment @biologyopen.bsky.social: • 5.5 vs 37.7 working days to decision with reviews • ~3 vs ~9 reviewer invitations per manuscript • no reduction in editor-assessed review quality • similar acceptance rates www.biorxiv.org/content/10.6...
Scatter plot showing that Fast & Fair peer review reached first decision with reviews much faster than conventional peer review: mean 5.5 versus 37.7 working days. Most Fast & Fair manuscripts met the 7-working-day target, while conventional manuscripts were slower and more variable, up to 116 working days.
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Will Shoemaker @shoestrapped.bsky.social · 28/05/2026
Now published! This was fun to write, thanks to @asanchezlab.bsky.social for the invitation. Feedback welcome as macroecology will be a core component of the forthcoming SOMA (Scales Of Microbial Architectonics) Laboratoire @ Genoscope enviromicro-journals.onlinelibrary.wiley.com/doi/10.1111/...
enviromicro-journals.onlinelibrary.wiley.com
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Oliver Meacock @olimeacock.bsky.social · 25/05/2026
Delighted to see this out in its final form! doi.org/10.1093/isme... We established a discussion group focussed on the history of community ecology and how it informs our understanding of microbiota. This review distils those discussions to provide a guide for microbiologists entering the field
doi.org
A microbiologist’s field guide to community ecology
Abstract. Many microbiological outcomes are shaped by the determinants of community composition, including the factors that allow pathogens to invade healt
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Bruno Dias @brunodias.dev · 25/05/2026
One of the many sources cited in the new papal encyclical is... Gandalf
213. The twentieth-century Catholic author J.R.R. Tolkien, in the words of a protagonist in one of his novels, described our responsibility in this way: “It is not our part to master all the tides of the world, but to do what is in us for the succour of those years wherein we are set, uprooting the evil in the fields that we know, so that those who live after may have clean earth to till.”
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Alvaro Sanchez @asanchezlab.bsky.social · 25/05/2026
Very nice experimental study from Jessica Purswani's lab. Full factorial design of microbial consortia where multiple plant growth-promoting functions were measured. doi.org/10.1111/1751...
doi.org
BSocial Tool Deciphers Highly Functional Plant Growth‐Promoting Bacterial Consortia
The use of the online tool BSocial can be used to decipher microbial social behaviour and select highly functional plant growth-promoting consortia. Positive correlations are observed between species...
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Ákos T Kovács @evolvedbiofilm.bsky.social · 20/05/2026
Phages communicate across species to shape microbial ecosystems -in @cellcellpress.bsky.social by Francisca Gallego-del-Sol, @danielsin909.bsky.social, and Cora Chmielowska et al from @albertomarina.bsky.social, José Penadés www.cell.com/cell/fulltex... #PhageSky #Bacillus #AimP
cell.com
Phages communicate across species to shape microbial ecosystems
Gallego-del-Sol et al. show that arbitrium-coding phages can sense non-cognate peptide signals from other phages to regulate lysis-lysogeny decisions. This crosstalk affects lysis-lysogeny outcomes of...
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Alvaro Sanchez @asanchezlab.bsky.social · 20/05/2026
The version of record of our revised preprint is finally out today. In it, we introduce a fast and reliable methdology for the full factorial design of microbial communities, i.e. constructing every monoculture, pair, trio, four-member,... n-member co-culture of N strains. doi.org/10.7554/eLif...
doi.org
Full factorial construction of synthetic microbial communities
A rapid, inexpensive, and easy to implement experimental protocol enables the construction of combinatorially complete sets of microbial consortia.
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Alvaro Sanchez @asanchezlab.bsky.social · 20/05/2026
Interesting new preprint by @seppekuehnlab.bsky.social that provides a mechanistic basis for the emergence of global epistasis in microbial community function landscapes
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Mizrahi Lab @mizrahilab.bsky.social · 26/04/2026
"Tell me who your friends are, and I’ll tell you who you are." It turns out, microbes follow the same rule! Very proud to share our lab's new paper in @natmicrobiol.nature.com showing that bacteria don't just respond to their environment, they respond to each other. www.nature.com/articles/s41...
nature.com
Community context reshapes microbial proteomes and reduces functional overlap - Nature Microbiology
Biotic interactions modulate protein abundance, reducing functional redundancy and increasing productivity in complex bacterial communities.
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Alvaro Sanchez @asanchezlab.bsky.social · 11/04/2026
Interesting new preprint from Giulia Ghedini's lab comparing trait-based and population-based predictability in phytoplankton communities: Fant et al, Ecological predictability emerges at the population level in phytoplankton communities www.biorxiv.org/content/10.6...
biorxiv.org
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Matthias C. Rillig @mrillig.bsky.social · 10/04/2026
Moran et al. in Science Emergent predictability in microbial ecosystems www.science.org/doi/10.1126/...
science.org
Emergent predictability in microbial ecosystems
A long-standing hypothesis of microbial ecology is that simple patterns might persist despite community complexity or even emerge because of it. However, the concept of “emergent simplicity” remains partly intuitive. Here, we defined emergent ...
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Sergey Kryazhimskiy @skryazhi.bsky.social · 10/04/2026
It looks like there will be an open postdoc position in my lab soon. I'll be looking for someone with substantial wet-lab experience in microbiology / microbial ecology / evolution / physiology. If everything goes well, an ad will be coming. But if you know someone, ask them to reach out already.
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Guim Aguadé-Gorgorió @guimaguade.bsky.social · 07/04/2026
Microbial communities can harbor many species that do not coexist in pairs, yet can coexist in the full community. Here we provide the mathematical foundations of emergent coexistence, and explain why it can't be predicted from pairwise tests journals.plos.org/ploscompbiol...
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Filipa Trigo da Roza @filipatr.bsky.social · 20/03/2026
New preprint alert!!! 🚀🤓 We are very happy to finally share this with the world — the result of seven years of work and a new tool to study integrons and discover new functions encoded in these bacterial platforms. If you want to know more, here is a thread 🧵 www.biorxiv.org/content/10.6...
biorxiv.org
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José R Penadés @jrpenades.bsky.social · 31/03/2026
This paper started as an idea @albertomarina.bsky.social had many years ago… which of course means he was right all along 😄. Some of us just needed a few years (and a lot of experiments) to catch up. Grateful (and slightly humbled) to be part of this. Thanks Alberto! www.cell.com/cell/fulltex...
cell.com
Phages communicate across species to shape microbial ecosystems
Gallego-del-Sol et al. show that arbitrium-coding phages can sense non-cognate peptide signals from other phages to regulate lysis-lysogeny decisions. This crosstalk affects lysis-lysogeny outcomes of...
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Teresa M. Coque @tmcoque.bsky.social · 26/03/2026
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👇
rdcu.be
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 ...
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Jorge Sastre Domínguez @jorgesastred.bsky.social · 13/03/2026
Glad to see our latest work out in Nature Microbiology!! Extremely grateful to everyone involved in the project. Check it out!! 👇🏻👇🏻
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Alvaro San Millan @sanmillan.bsky.social · 13/03/2026
Final version of our last paper is out! www.nature.com/articles/s41...
nature.com
Plasmids promote antimicrobial resistance through insertion sequence-mediated gene inactivation - Nature Microbiology
Inactivation of chromosomal genes through plasmid-encoded IS elements is an extended mechanism of antimicrobial resistance evolution in bacteria.
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bioRxiv Evolutionary Biology @biorxiv-evobio.bsky.social · 13/03/2026
From genes to collective modes: biological constraints shape metabolic evolution www.biorxiv.org/content/10.64898/20…
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IRNASA-CSIC @irnasa.bsky.social · 10/03/2026
📢¡Atención! El #IRNASA-CSIC busca incorporar un/a Técnico/a de Internacionalización y Gestión de Proyectos Europeos. 🗓️Hasta el 23 de marzo. 🔗Más info: www.irnasa.csic.es/nuevo-puesto...
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Alberto HCA @albertohca.bsky.social · 10/03/2026
Excited to share our latest work! 📝 We measured the fitness effect of 136 AMR genes and found that many are neutral or even beneficial without selection. 🤯🧬 Oxygen availability can flip their fitness and our stochastic model indicates that oxygen fluctuations help maintain them. Learn more 👇🏼
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Sara Mitri @saramitri.bsky.social · 09/03/2026
This! 👇
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Alvaro Sanchez @asanchezlab.bsky.social · 09/03/2026
New preprint on the limits of detecting higher-order interactions in microbial communities. www.biorxiv.org/content/10.6... We find that the dominance of additive and pairwise interactions on community function may not reflect biological simplicity, but fundamental limits of statistical detection.
biorxiv.org
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Ricardo León-Sampedro @rleonsampedro.bsky.social · 05/02/2026
New #BehindThePaper for our latest paper in @natcomms.nature.com (rdcu.be/e2qMK) Secret Invasion: Strain Fate Across Microbiomes Cover illustration by Helena Klein (@illuzation.bsky.social). communities.springernature.com/posts/secret...
communities.springernature.com
Secret Invasion: Strain Fate Across Microbiomes
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Paul Turner Lab @paulturnerlab.bsky.social · 05/02/2026
How does population density affect evolutionary trajectory? Microbes construct their own niche which in turn reshapes their evolution. Preprint drop from grad student @noahhoupt.bsky.social whose evolution experiments featured blue/white colonies, 1000 generations, a lab move, and much more!
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Dmitri Petrov @petrovadmitri.bsky.social · 29/01/2026
Registration is open for the inaugural GRC conference in the Function of Evolving Systems. Aug 9-14, 2026, Waterville Valley. Truly stellar speaker lineup. Student/postdoc fellowships are available! Please come join us! www.grc.org/function-of-... @joybergelson.bsky.social
grc.org
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Jerónimo Rodríguez-Beltrán @jerorb.bsky.social · 27/01/2026
New paper out in @pnas.org, and it made the cover! 👁️ We represent plasmids as circles and mutations as dots, resembling an eye, because in this paper we literally 𝑤𝑎𝑡𝑐ℎ plasmids evolve. ‼️Check Paula’s 🧵 and the paper👇 𝗣𝗹𝗮𝘀𝗺𝗶𝗱 𝗺𝘂𝘁𝗮𝘁𝗶𝗼𝗻 𝗿𝗮𝘁𝗲𝘀 𝘀𝗰𝗮𝗹𝗲 𝘄𝗶𝘁𝗵 𝗰𝗼𝗽𝘆 𝗻𝘂𝗺𝗯𝗲𝗿 www.pnas.org/doi/10.1073/...
Cover of PNAS in which we show plasmids as colourful concentric circles, with dots scattered. The image kind of resembles an eye, although it’s visibly a plot.
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Alvaro Sanchez @asanchezlab.bsky.social · 29/01/2026
Very interesting theoretical paper on BEF and species interactions, presenting an elegant partitioning of species effects on ecosystem function. www.biorxiv.org/content/10.1...
biorxiv.org
Beyond biomass: how interactions shape species’ role for ecosystem functioning
Assessing the functional role of species in a changing world is critical for effectively preserving ecosystems. Intuitively, this role should relate to how the loss of a species ultimately impacts a function. We introduce the notion of a species dynamic contribution, which takes into account biotic interactions as they develop in the community. Contrary to the static contribution —a measure of what a species directly does— the dynamic contribution captures what the presence of the species causes. Using both model simulations and empirical data from a ciliate microcosm experiment, we demonstrate that dynamic and static contributions of species are generically unrelated. Our novel characterization of species’ functional contributions reveals that, due to biotic interactions, rare species that do not possess unique functional traits are just as likely as any other species to play an important role for ecosystem functioning. ### Competing Interest Statement The authors have declared no competing interest.
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Rafael Pinilla-Redondo (Rafa) @rafomics.bsky.social · 24/01/2026
@jakob-tr.bsky.social @jrpenades.bsky.social et al. 🔥! www.science.org/doi/10.1126/...
science.org
Bacteriophages mobilize bacterial defense systems via lateral transduction
Bacteriophages and PICIs spread bacterial defenses via lateral transduction, shaping microbial immunity and pathogen evolution.
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