Publications

see also my Google Scholar profile

In press / published

Estrela S, Long JZ & Huang KC (2025) How nutrient starvation impacts the gut microbiome. Nat Microbiol   doi.org/10.1038/s41564-025-02139-9 [pdf]

Shi H, Newton DP, Nguyen TH, Estrela S, Sanchez J, Tu M, Ho P-Y,  Zeng Q, DeFelice B, Sonnenburg J, Huang KC (2025) Nutrient competition predicts gut microbiome restructuring under drug perturbations  
​Cell doi.org/10.1016/j.cell.2025.10.038
​Aranda-Díaz A, Willis L, Nguyen TH, Ho P-Y, Vila J, Thomsen T, Chavez T,  Yan R, Yu FB, Neff N, Sanchez A, Estrela S, and Huang KC (2025) Assembly of stool-derived bacterial communities follows “early-bird” resource utilization dynamics  Cell Systems 
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Chang C-Y, Bajic D, Vila JCC, Estrela S, Sanchez A (2023) Emergent coexistence in multispecies microbial communities Science 381, 343-348. doi:10.1126/science.adg0727
Venturelli OS, Wang HH, Estrela S, Huang KC, Ledesma-Amaro R, Fedorec AJH, Stecher B, Lawson CE, Zarrinpar A, Guo CJ, Soyer OS (2023) What is the key challenge in engineering microbiomes? Cell Systems 14(2):85-90. doi: 10.1016/j.cels.2023.01.002
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Estrela S, Vila JCC, Lu N, Bajic D, Rebolleda-Gomez M, Chang CY, Goldford JE, Sanchez-Gorostiaga A, and Sanchez A (2021) Functional attractors in microbial community assembly Cell Systems 13(1):29-42.e7 doi: 10.1016/j.cels.2021.09.011 [pdf]

Dutton CL, Subalusky AL, Sanchez A, Estrela S, Lu N, Hamilton SK, Njoroge L, Rosi EJ and Post DM (2021)
The meta-gut: Hippo inputs lead to community coalescence of animal and environmental microbiomes. Scientific Reports 11, 23117
Estrela S*, Sanchez-Gorostiaga A*, Vila J* & Sanchez A (2021) Nutrient dominance governs the assembly of microbial communities in mixed nutrient environments eLife 10:e65948

Estrela S*, Sanchez A* & Rebolleda-Gomez M* (2021) Multi-replicated enrichment communities as a model system in microbial ecology Frontiers in Microbiology doi: 10.3389/fmicb.2021.657467
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Chang C-Y*, Vila J*, Bender J, Li R, Mankowski MC, Bassette M, Borden J, Golfier S, Sanchez PG, Waymack R, Zhu X, Diaz-Colunga J, Estrela S, Rebolleda-Gomez M & Sanchez A (2021) Engineering complex communities by directed evolution Nature Ecology & Evolution doi.org/10.1038/s41559-021-01457-5
Rodrigues AMM*, Estrela S* and Brown SP (2021) Community lifespan, niche expansion and the evolution of interspecific cooperation Journal of Evolutionary Biology 34: 352– 363 [pdf]
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Sanchez A, Vila J, Chang C-Y, Diaz-Colunga J, Estrela S and Rebolleda-Gomez M (2021) Directed evolution of microbial communities Annual Review of Biophysics 6:50:323-341 doi:10.1146/annurev-biophys-101220-072829

Estrela S*, Libby E*, Van Cleve J*, Débarre F, Deforet M, Harcombe WR, Peña J, Brown SP and Hochberg ME (2019) Environmentally mediated social dilemmas Trends in Ecology & Evolution 34 (1), 6-18 [pdf]
Goldford J*, Lu N*, Bajic D, Estrela S, Tikhonov M, Sanchez-Gorostiaga A, Segre D, Mehta P, and Sanchez A (2018) Emergent simplicity in microbial community assembly Science 361:469-74 [pdf]

Estrela S and Brown SP (2018) Community interactions and spatial structure shape selection on antibiotic resistant lineages PLoS Computational Biology 14(6): e1006179.
Estrela S, Kerr B, and Morris JJ (2016) Transitions in individuality through symbiosis Current Opinion in Microbiology 31: 191–198 [pdf]

Estrela S, Morris JJ, and Kerr B (2015) Private benefits and metabolic conflicts shape the emergence of microbial interdependencies Environmental Microbiology 18: 1415-1427 [pdf]

Estrela S, Whiteley M, and Brown SP (2015) The demographic determinants of human microbiome health. Trends in Microbiology  23(3): 134-141 [Open Access]

Estrela S and Brown SP (2013) Metabolic and demographic feedbacks shape the emergent spatial structure and function of microbial communities PLoS Computational Biology 9(12): e1003398.

Estrela S, Trisos CH, and Brown SP (2012) From metabolism to ecology: cross-feeding interactions shape the balance between polymicrobial conflict and mutualism The American Naturalist 180: 566-576 [Open Access]

Eswarappa SM, Estrela S, and Brown SP (2012) Within-host dynamics of multi-species infections: facilitation, competition and virulence PLoS ONE 7(6): e38730.

​Garrido F, Estrela S, Alves C, Sanchez-Perez GF, Sillero A, and Pajares MA (2011) Refolding and characterization of methionine adenosyltransferase from Euglena gracilis Protein Expr. Purif. 79(1): 128-136.

Estrela S and Gudelj I (2010) Evolution of cooperative cross-feeding could be less challenging than originally thought PLoS ONE 5(11): e14121

Preprints

Vila JCC, Goldford J, Estrela S, Bajic D, Sanchez-Gorostiaga A, Damian-Serrano A, Lu N, Marsland III R, Rebolleda-Gomez M, Mehta P,  Sanchez A (2023) Metabolic similarity and the predictability of microbial community assembly bioRxiv doi.org/10.1101/2023.10.25.564019
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Estrela S, Diaz-Colunga J, Vila JCC, Sanchez-Gorostiaga A, and Sanchez A (2022) Diversity begets diversity under microbial niche construction bioRxiv doi.org/10.1101/2022.02.13.480281