Rainey, P. B.; Hochberg, M. E.: Could humans and AI become a new evolutionary individual? Proceedings of the National Academy of Sciences of the United States of America 122 (37), e2509122122 (2025)

Timmis, K.; Williams, P.; Karahan, Z. C.; López‐García, P.; Rainey, P.; Chavarria, M.; Greening, C.; Steward, K.; Hallsworth, J. E.; Pereira, C. S. et al.; Giraldo, R.; Verstraete, W.; Jonjić, S.; Ramos, J. L.; Nunes, O.; Ventosa, A.; Armstrong, R.; Sessitsch, A.; Ron, E.; Wang, H.: Journals operating predatory practices are systematically eroding the science ethos: agate and code strategy to minimise their operating space and restore research best practice. Microbial Biotechnology 18 (6), e70180 (2025)

Barnett, M.; Meister, L.; Rainey, P. B.: Experimental evolution of evolvability. Science 387 (6736), eadr2756 (2025)

Farr, A. D.; Vasileiou, C.; Lind, P. A.; Rainey, P. B.: An extreme mutational hotspot in nlpD depends on transcriptional induction of rpoS. PLOS Genetics 21 (1), e1011572 (2025)

Parab, L.; Romeyer Dherbey, J.; Rivera, N.; Schwarz, M.; Gallie, J.; Bertels, F.: Chloramphenicol and gentamicin reduce the evolution of resistance to phage ΦX174 by suppressing a subset of E. coli LPS mutants. PLOS Biology 23 (1), e3002952 (2025)

Ngan, W. Y.; Parab, L. S.; Bertels, F.; Gallie, J.: A more significant role for insertion sequences in large-scale rearrangements in bacterial genomes. mBio 16 (1), e03052-24 (2024)

Bourrat, P.; Takacs, P.; Doulcier, G.; Nitschke, M. C.; Black, A. J.; Hammerschmidt, K.; Rainey, P. B.: Individuality through ecology: Rethinking the evolution of complex life from an externalist perspective. PLOS Biology 14, e70661 (2024)

Rodríguez-Sánchez, G.; Pelayo, R. C.; Soriano, P. J.; Knight, T. M.: Intraspecific variation in pollination ecology due to altitudinal environmental heterogeneity. Ecology and Evolution 14 (6), e11553 (2024)

Colombi, E.; Bertels, F.; Doulcier, G.; McConnell, E.; Pichugina, T.; Sohn, K. H.; Straub, C.; McCann, H.; Rainey, P. B.: Rapid dissemination of host-metabolism-manipulating transposon-like entities via integrative and conjugative elements. PNAS 121 (11), e2309263121 (2024)

Fortmann, I.; Dammann, M.-T.; Humberg, A.; Kraft, H.; Herz, A.; Hanke, K.; Faust, K.; Ricklefs, I.; Zemlin, M.; Liese, J. et al.; Engels, G.; Härtel, C.; Fortmann-Grote, C.; Kopp, M. V.; Brinkmann, F.; Herting, E.; Göpel, W.; Stichtenoth, G.: Respiratory syncytial virus prophylaxis with palivizumab is not associated with improved lung function in infants of very low birth weight at early school age. CHEST Pulmonary 2 (1), 100026 (2024)

Hernandez-Beltran, J. C. R.; Rodríguez-Beltrán, J.; Aguilar-Luviano, O. B.; Velez-Santiago, J.; Mondragón-Palomino, O.; Maclean, R. C.; Fuentes-Hernández, A.; San Millán, A.; Peña-Miller, R.: Plasmid-mediated phenotypic noise leads to transient antibiotic resistance in bacteria. Nature Communications 15, 2610 (2024)

Moreno Fenoll, C.; Ardré, M.; Rainey, P. B.: Polar accumulation of pyoverdin facilitates rapid exit from stationary phase. microLife 5, uqae001 (2024)

Romeyer Dherbey, J.; Bertels, F.: The untapped potential of phage model systems as therapeutic agents. Virus Evolution 10 (1), veae007 (2024)

Zhao, X.; Ruelens, P.; Farr, A. D.; de Visser, J. A. G. M.; Baraban, L.: Population dynamics of cross-protection against β-lactam antibiotics in droplet microreactors. Frontiers in Microbiology 14, 1294790 (2023)

Gokhale, C. S.; Frean, M.; Rainey, P. B.: Eco-evolutionary logic of mutualisms. Dynamic Games and Applications 13, S. 1066 - 1087 (2023)

Romeyer Dherbey, J.; Parab, L.; Gallie, J.; Bertels, F.: Stepwise evolution of E. coli C and ΦX174 reveals unexpected Lipopolysaccharide (LPS) diversity. Molecular Biology and Evolution 40 (7), msad154 (2023)

Farr, A. D.; Pesce, D.; Das, S. G.; Zwart, M. P.; de Visser, J. A. G. M.: The fitness of beta-lactamase mutants depends nonlinearly on resistance level at sublethal antibiotic concentrations. mBio 14 (3), e00098-23 (2023)

Geyrhofer, L.; Ruelens, P.; Farr, A. D.; Pesce, D.; de Visser, J. A. G. M.; Brenner, N.: Minimal surviving inoculum in collective antibiotic resistance. mBio 14 (2), e02456-22 (2023)

Rainey, P. B.: Major evolutionary transitions in individuality between humans and AI. Philosophical Transactions of the Royal Society of London, Series B: Biological Sciences 378 (1872), 20210408 (2023)

Colizzi, E. S.; van Dijk, B.; Merks, R. M. H.; Rozen, D. E.; Vroomans, R. M. A.: Evolution of genome fragility enables microbial division of labor. Molecular Systems Biology 19 (3), e11353 (2023)