Publications

For a full list see below or go to Google Scholar, Research Gate, Orcid
Pre-prints are here or on Arxiv and Biorxiv

Highlights

Preprints

S. Golmohammadi, M. Zarei, J. Grilli
The effect of demographic stochasticity on predatory-prey oscillations
2024 - arXiv

W.R. Shoemaker, A. Sanchez, J. Grilli
Macroecological laws in experimental microbial systems
2023 - bioRxiv

L. Fant, I. Macocco, J. Grilli
Eco-evolutionary dynamics lead to functionally robust and redundant communities
2021 - bioRxiv

M. Adorisio, J. Grilli, S. Suweis, S. Azaele, J.R. Banavar, and A. Maritan
Spatial maximum entropy modeling from presence/absence tropical forest data
2014 - arXiv

Full List

[50] W.R. Shoemaker, J. Grilli
Investigating macroecological patterns in coarse-grained microbial communities using the stochastic logistic model of growth
eLife, 12:RP89650. 2024
bioRxiv - -

[49] E. Omodei, J. Grilli, M. Marsili, G. Sanguinetti
Quantitative Human Ecology: Data, Models and Challenges for Sustainability
Quantitative Sustainability: Interdisciplinary Research for Sustainable Development Goals [book chapter], . 2024
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[48] S. Pompei, E. Bella, J.S. Weitz, J. Grilli, M. Cosentino Lagomarsino
Metacommunity structure preserves genome diversity in the presence of gene-specific selective sweeps under moderate rates of horizontal gene transfer
Plos Computational Biology, 19 (10), e1011532. 2023
bioRxiv - -

[47] M. Sireci, M.A. Muñoz, and J. Grilli
Environmental fluctuations explain the universal decay of species-abundance correlations with phylogenetic distance
Proceedings of the National Academy of Sciences, 120 (37) e2217144120. 2023
bioRxiv - - -

[46] A. Mazzolini, J. Grilli
Universality of evolutionary trajectories under arbitrary forms of self-limitation and competition
Physical Review E, 108, 034406. 2023
bioRxiv - -

[45] L. Fant, O. Mazzarisi, E. Panizon, J. Grilli
Stable cooperation emerges in stochastic multiplicative growth
Physical Review E, 108, L012401. 2023
arXiv - - -

[44] J. Grilli
Keystone intransitive loops
Proceedings of the National Academy of Sciences, 120 (17) e2304170120 [commentary]. 2023
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[43] I. Macocco, A. Glielmo, J. Grilli, A. Laio
Intrinsic dimension estimation for discrete metrics
Physical Review Letters, 130, 067401. 2023
arXiv - - -

[42] R.E. Szabo, S. Pontrelli, J. Grilli, J.A. Schwartzman, S. Pollak, U. Sauer, O.X. Cordero
Historical contingencies and phage induction diversify bacterioplankton communities at the microscale
Proceedings of the National Academy of Sciences, 119 (30) e2117748119. 2022
bioRxiv - - -

[41] M. Cosentino Lagomarsino, G. Pacifico, V. Firmano, E. Bella, P. Benzoni, J. Grilli, F. Bassetti, F. Capuani, P. Cicuta, and M. Gherardi
Remote teaching data-driven physical modeling through a COVID-19 data challenge
European Journal of Physics, . 2022
arXiv - -

[40] L. Calabrese, J. Grilli, M. Osella, C.P. Kempes, M. Cosentino Lagomarsino, L. Ciandrini
Protein degradation sets the fraction of active ribosomes at vanishing growth
Plos Computational Biology, 18(5): e1010059. 2022
bioRxiv - - -

[39] S. Zaoli, J. Grilli
The stochastic logistic model with correlated carrying capacities reproduces beta-diversity metrics of microbial communities
Plos Computational Biology, 18(4):e1010043. 2022
bioRxiv - - -

[38] F. Buke, J. Grilli, M. Cosentino Lagomarsino, G. Bokinsky, S.J. Tans
ppGpp is a bacterial cell size regulator
Current Biology, 32(4):870-877. 2022
bioRxiv - - -

[37] F. de Castro, S.M. Adl, S. Allesina, R.D. Bardgett, T. Bolger, J.J. Dalzell, M. Emmerson, T. Fleming, D. Garlaschelli, J. Grilli, S.E. Hannula, F. de Vries, Z. Lindo, A.G. Maule, M. Öpik, M.C. Rillig, S.D. Veresoglou, D.H. Wall, T. Caruso
Local stability properties of complex, species-rich soil food webs with functional block structure
Ecology and Evolution, 00:1–12 (2021). 2021
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[36] S. Zaoli, J. Grilli
A macroecological description of alternative stable states reproduces intra-and inter-host variability of gut microbiome
Science Advances, 7 (43), eabj2882. 2021
bioRxiv - - -

[35] L. Descheemaeker, J. Grilli, S. de Buyl
Heavy-tailed abundance distributions from stochastic Lotka-Volterra models
Physical Review E, 104, 034404. 2021
bioRxiv - - -

[34] M. Panlilio, J. Grilli, G. Tallarico, I. Iuliani, B. Sclavi, P. Cicuta, M. Cosentino Lagomarsino
Threshold accumulation of a constitutive protein explains E. coli cell division behavior in nutrient upshifts
Proceedings of the National Academy of Sciences, 118 (18) e2016391118. 2021
bioRxiv - - -

[33] J. Grilli
Macroecological laws describe variation and diversity in microbial communities
Nature Communications, 11, 4743. 2020
bioRxiv - - -

[32] K. Jovic, J. Grilli, M.G. Sterken, J.A.G. Riksen, B.L. Snoek, S. Allesina, J.E. Kammenga
Transcriptome dynamics predict thermotolerance in Caenorhabditis elegans
BMC Biology, 17, 102. 2019
bioRxiv - - -

[31] C. Tu, S. Suweis, J. Grilli, M. Formentin, and A. Maritan
Reconciling cooperation, biodiversity and stability in complex ecological communities
Scientific Reports, 9, 5580. 2019
arXiv - - -

[30] G. Micali, J. Grilli, M. Osella, and M. Cosentino Lagomarsino
Concurrent processes set E. coli cell division
Science Advances, 4, eaau3324. 2018
bioRxiv - - -

[29] G. Micali, J. Grilli, J. Marchi, M. Osella, and M. Cosentino Lagomarsino
Dissecting the control mechanisms for DNA replication and cell division in E. coli
Cell Reports, 25,3:761-771.E4. 2018
bioRxiv - - - -

[28] J.N. Pruitt, A. Berdahl, C. Riehl, N. Pinter-Wollman, H.V. Moeller, E.G. Pringle, L.M. Aplin, E.J.H. Robinson, J. Grilli, P. Yeh, V.M. Savage, M.H. Price, J. Garland, I.C. Gilby, M. C. Crofoot, G.N. Doering, and E.A. Hobson
Social tipping points in animal societies
Proceedings of the Royal Society B, 285:20181282. 2018
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[27] T. Gibbs, J. Grilli, T. Rogers, and S. Allesina
The effect of population abundances on the stability of large random ecosystems
Physical Review E, 98, 022410. 2018
arXiv - - - -

[26] C. Cadart, S. Monnier, J. Grilli, P.J. Sáez, N. Srivastava, R. Attia, E. Terriac, B. Baum, M. Cosentino Lagomarsino, and M. Piel
Size control in mammalian cells involves modulation of both growth rate and cell cycle duration
Nature Communications, 9:3275. 2018
bioRxiv - - -

[25] J. Grilli, C. Cadart, G. Micali, M. Osella, and M. Cosentino Lagomarsino
The empirical fluctuation pattern of E. coli division control
Frontiers in Microbiology, 9, 1541. 2018
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[24] A. Mazzolini, J. Grilli, E. De Lazzari, M. Osella, M. Cosentino Lagomarsino, and M. Gherardi
Zipf and Heaps laws from dependency structures in component systems
Physical Review E, 98, 012315. 2018
arXiv - - - -

[23] C.A. Serván, J.A. Capitán, J. Grilli, K.E. Morrison, and S. Allesina
Coexistence of many species in random ecosystems
Nature Ecology & Evolution, 2, 1237–1242. 2018
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[22] K. Jovic, M.G. Sterken, J. Grilli, R.P.J. Bevers, M. Rodriguez, J.A.G. Riksen, S. Allesina, J.E. Kammenga, and B.L. Snoek
Temporal dynamics of gene expression in heat-stressed Caenorhabditis elegans
Plos One, 2(12), e0189445. 2017
bioRxiv - - - -

[21] J. Grilli, G. Barabás, M.J. Michalska-Smith, and S. Allesina
Higher-order interactions stabilize dynamics in competitive network models
Nature, 548, 210–213. 2017
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[20] J. Grilli and S. Allesina
Last name analysis of mobility, gender imbalance, and nepotism across academic systems
Proceedings of the National Academy of Sciences, 114(29):7600-7605. 2017
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[19] C. Tu, J. Grilli, F. Schuessler, and S. Suweis
Collapse of resilience patterns in generalized Lotka-Volterra dynamics and beyond
Physical Review E, 95, 062307. 2017
arXiv - - - -

[18] E. De Lazzari, J. Grilli, S. Maslov, and M. Cosentino Lagomarsino
Family-specific scaling laws in bacterial genomes
Nucleic Acids Research, 45(13):7615-7622. 2017
arXiv - - - -

[17] J. Grilli, M. Osella, A.S. Kennard, and M. Cosentino Lagomarsino
Relevant parameters in models of cell division control
Physical Review E, 95, 032411. 2017
arXiv - - - -

[16] J. Grilli, M. Adorisio, S. Suweis, G. Barabás, J.R. Banavar, S. Allesina, and A. Maritan
Feasibility and coexistence of large ecological communities
Nature Communications, 8:14389. 2017
arXiv - - - -

[15] S. Azaele, S. Suweis, J. Grilli, I. Volkov, J.R. Banavar, and A. Maritan
Statistical mechanics of ecological systems: neutral theory and beyond
Review of Modern Physics, 88, 035003. 2016
arXiv - - -

[14] J. Grilli, T. Rogers, and S. Allesina
Modularity and stability in ecological communities
Nature Communications, 7:12031. 2016
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[13] J. Hidalgo, J. Grilli, S. Suweis, A. Maritan, and M.A. Muñoz
Cooperation, competition and the emergence of criticality in communities of adaptive systems
Journal of Statistical Mechanics: Theory and Experiment, 2016(3):033203. 2016
arXiv - - -

[12] A.S. Kennard, M. Osella, A. Javer, J. Grilli, P. Nghe, S. Tans, P. Cicuta, and M. Cosentino Lagomarsino
Individuality and universality in the growth-division laws of single E. coli cells
Physical Review E, 93, 012408. 2016
arXiv - - - -

[11] S. Suweis, J. Grilli, J.R. Banavar, S. Allesina, and A. Maritan
Effect of localization on the stability of mutualistic ecological networks
Nature Communications, 6:10179. 2015
bioRxiv - - - -

[10] S. Allesina, J. Grilli, G. Barabás, S. Tang, J. Aljadeff, and A. Maritan
Predicting the stability of large structured food webs
Nature Communications, 6:7842. 2015
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[9] J. Grilli, G. Barabás, and S. Allesina
Metapopulation persistence in random fragmented landscapes
Plos Computational Biology, 11(5):e1004251. 2015
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[8] J. Hidalgo, J. Grilli, S. Suweis, M.A. Muñoz, J.R. Banavar, and A. Maritan
Information-based fitness and the emergence of criticality in living systems
Proceedings of the National Academy of Sciences, 111(28):10095-10100. 2014
arXiv - - - -

[7] J. Grilli, M. Romano, F. Bassetti, and M. Cosentino Lagomarsino
Cross-species gene-family fluctuations reveal the dynamics of horizontal transfers
Nucleic Acids Research, 42(11):6850-6860. 2014
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[6] S. Suweis, J. Grilli, and A. Maritan
Disentangling the effect of hybrid interactions and of the constant effort hypothesis on ecological community stability
Oikos, 123(5):525-532. 2014
arXiv - - -

[5] J. Grilli, S. Suweis, and A. Maritan
Growth or reproduction: emergence of an evolutionary optimal strategy
Journal of Statistical Mechanics: Theory and Experiment, 2013(10):P10020. 2013
arXiv - - -

[4] J. Grilli, S. Azaele, J.R. Banavar, and A. Maritan
Absence of detailed balance in ecology
Europhysics Letters, 100:38002. 2012
arXiv - - -

[3] J. Grilli, S. Azaele, J.R. Banavar, and A. Maritan
Spatial aggregation and the species-area relationship across scales
Journal of Theoretical Biology, 313:87-97. 2012
arXiv - - - -

[2] L. Grassi, J. Grilli, and M. Cosentino Lagomarsino
Large-scale dynamics of horizontal transfers
Mobile Genetics Elements, 2(3):163-167. 2012
arXiv - - - -

[1] J. Grilli, B. Bassetti, S. Maslov, and M. Cosentino Lagomarsino
Joint scaling laws in functional and evolutionary categories in prokaryotic genomes
Nucleic Acids Research, 40(2):530-540. 2012
arXiv - - - -