Hamilton WD. The genetical evolution of social behaviour. I & II J Theor Biol. 1964;7:1–52.

Article
CAS
Google Scholar

Axelrod R, Hamilton WD. The evolution of cooperation. Science. 1981;211:1390–6.

Article
CAS
Google Scholar

Griffin AS, West SA, Buckling A. Cooperation and competition in pathogenic bacteria. Nature. 2004;430:1024–7.

Article
CAS
Google Scholar

West SA, Griffin AS, Gardner A. Evolutionary explanations for cooperation. Curr Biol. 2007;17:R661–72.

Article
CAS
Google Scholar

Hardin G. The tragedy of the commons. Science. 1968;162:1243–8.

Article
CAS
Google Scholar

West SA, Griffin AS, Gardner A. Social semantics: altruism, cooperation, mutualism, strong reciprocity and group selection. J Evol Biol. 2007;20:415–32.

Article
CAS
Google Scholar

Bernard A, André JB, Bredeche N. To cooperate or not to cooperate: why behavioural mechanisms matter. PLoS Comput Biol. 2016;12:e1004886.

Article
Google Scholar

Nowak MA, Sigmund K. A strategy of win-stay, lose-shift that outperforms tit-for-tat in the Prisoner’s Dilemma game. Nature. 1993;364:56–8.

Article
CAS
Google Scholar

Press WH, Dyson FJ. Iterated Prisoner’s Dilemma contains strategies that dominate any evolutionary opponent. Proc Natl Acad Sci U S A. 2012;109:10409–13.

Article
CAS
Google Scholar

Hilbe C, Wu B, Traulsen A, Nowak MA. Cooperation and control in multiplayer social dilemmas. Proc Natl Acad Sci U S A. 2014;111:16425–30.

Article
CAS
Google Scholar

Rainey PB, Rainey K. Evolution of cooperation and conflict in experimental bacterial populations. Nature. 2003;425:72–4.

Article
CAS
Google Scholar

Gore J, Youk H, Van Oudenaarden A. Snowdrift game dynamics and facultative cheating in yeast. Nature. 2009;459:253–6.

Article
CAS
Google Scholar

Frey E. Evolutionary game theory: theoretical concepts and applications to microbial communities. Physica A. 2010;389:4265–98.

Article
CAS
Google Scholar

Smith J, Van Dyken JD, Zee PCA. Generalization of Hamilton’s rule for the evolution of microbial cooperation. Science. 2010;328:1700–3.

Article
CAS
Google Scholar

Cavaliere M, Feng S, Soyer OS, Jiménez JI. Cooperation in microbial communities and their biotechnological applications. Environ Microbiol. 2017;19:2949–63.

Article
Google Scholar

Diggle SP, Griffin AS, Campbell GS, West SA. Cooperation and conflict in quorum-sensing bacterial populations. Nature. 2007;450:411–4.

Article
CAS
Google Scholar

Asfahl KL, Schuster M. Social interactions in bacterial cell-cell signaling. FEMS Microbiol Rev. 2017;41:92–107.

Article
CAS
Google Scholar

Williams P, Cámara M. Quorum sensing and environmental adaptation in *Pseudomonas aeruginosa*: a tale of regulatory networks and multifunctional signal molecules. Curr Opin Microbiol. 2009;12:182–91.

Article
CAS
Google Scholar

Sandoz KM, Mitzimberg SM, Schuster M. Social cheating in *Pseudomonas aeruginosa* quorum sensing. Proc Natl Acad Sci U S A. 2007;104:15876–81.

Article
CAS
Google Scholar

Xavier JB, Kim W, Foster KR. A molecular mechanism that stabilizes cooperative secretions in *Pseudomonas aeruginosa*. Mol Microbiol. 2011;79:166–79.

Article
CAS
Google Scholar

Wilder CN, Diggle SP, Schuster M. Cooperation and cheating in *Pseudomonas aeruginosa*: the roles of the *las*, *rhl* and *pqs* quorum-sensing systems. ISME J. 2011;5:1332–3143.

Article
CAS
Google Scholar

Dandekar AA, Chugani S, Greenberg EP. Bacterial quorum sensing and metabolic incentives to cooperate. Science. 2012;338:264–6.

Article
CAS
Google Scholar

Wang M, Schaefer AL, Dandekar AA, Greenberg EP. Quorum sensing and policing of *Pseudomonas aeruginosa* social cheaters. Proc Natl Acad Sci U S A. 2015;112:2187–91.

Article
CAS
Google Scholar

Chen X, Sasaki T, Perc M. Evolution of public cooperation in a monitored society with implicated punishment and within-group enforcement. Sci Rep. 2015;5:17050.

Article
CAS
Google Scholar

Liu L, Chen X, Szolnoki A. Competitions between prosocial exclusions and punishments in finite populations. Sci Rep. 2017;7:46634.

Article
CAS
Google Scholar

Adami C, Schossau J, Hintze A. Evolution and stability of altruist strategies in microbial games. Phys Rev E Stat Nonlinear Soft Matter Phys. 2012;85:011914.

Article
Google Scholar

Balasubramanian D, Schneper L, Kumari H, Mathee K. A dynamic and intricate regulatory network determines *Pseudomonas aeruginosa* virulence. Nucleic Acids Res. 2013;41:1–20.

Article
CAS
Google Scholar

Soberón-Chávez G, Aguirre-Ramírez M, Ordóñez L. Is *Pseudomonas aeruginosa* only “sensing quorum”? Crit Rev Microbiol. 2005;31:171–82.

Article
Google Scholar

Mulcahy LR, Burns JL, Lory S, Lewis K. Emergence of *Pseudomonas aeruginosa* strains producing high levels of persister cells in patients with cystic fibrosis. J Bacteriol. 2010;192:6191–9.

Article
CAS
Google Scholar

York A. Bacterial physiology: an inside job on metabolism. Nat Rev Microbiol. 2017;15:383.

Article
CAS
Google Scholar

Fuqua WC, Winans SC, Greenberg EP. Quorum sensing in bacteria: the LuxR-LuxI family of cell density-responsive transcriptional regulators. J Bacteriol. 1994;176:269–75.

Article
CAS
Google Scholar

Schuster M, Lostroh CP, Ogi T, Greenberg EP. Identification, timing, and signal specificity of *Pseudomonas aeruginosa* quorum-controlled genes: a transcriptome analysis. J Bacteriol. 2003;185:2066–79.

Article
CAS
Google Scholar

Duan K, Surette MG. Environmental regulation of *Pseudomonas aeruginosa* PAO1 las and Rhl quorum-sensing systems. J Bacteriol. 2007;189:4827–36.

Article
CAS
Google Scholar

Zhao K, Zhou X, Li W, Zhang X, Yue B. Nutrient reduction induced stringent responses promote bacterial quorum-sensing divergence for population fitness. Sci Rep. 2016;6:34925.

Article
CAS
Google Scholar

MacLean RC, Fuentes-Hernandez A, Greig D, Hurst LD, Gudelj I. A mixture of “cheats” and “co-operators” can enable maximal group benefit. PLoS Biol. 2010;8:e1000486.

Article
Google Scholar

Smith DR, Chapman MR. Economical evolution: microbes reduce the synthetic cost of extracellular proteins. MBio. 2010;1:e00131–10.

PubMed
PubMed Central
Google Scholar

Even-Tov E, Bendori SO, Valastyan J, Ke X, Pollak S, Bareia T, et al. Social evolution selects for redundancy in bacterial quorum sensing. PLoS Biol. 2016;14:e1002386.

Article
Google Scholar

Darch SE, West SA, Winzer K, Diggle SP. Density-dependent fitness benefits in quorum-sensing bacterial populations. Proc Natl Acad Sci U S A. 2012;109:8259–63.

Article
CAS
Google Scholar

Mellbye B, Schuster M. Physiological framework for the regulation of quorum sensing-dependent public goods in *Pseudomonas aeruginosa*. J Bacteriol. 2014;196:1155–64.

Article
Google Scholar

Anetzberger C, Pirch T, Jung K. Heterogeneity in quorum sensing-regulated bioluminescence of *Vibrio harveyi*. Mol Microbiol. 2009;73:267–77.

Article
CAS
Google Scholar

Garmyn D, Gal L, Briandet R, Guilbaud M, Lemaître JP, Hartmann A, et al. Evidence of autoinduction heterogeneity via expression of the Agr system of *Listeria monocytogenes* at the single-cell level. Appl Environ Microbiol. 2011;77:6286–9.

Article
CAS
Google Scholar

Bruger EL, Waters CM. Bacterial quorum sensing stabilizes cooperation by optimizing growth strategies. Appl Environ Microbiol. 2016;82:6498–506.

Article
CAS
Google Scholar

Pessi G, Haas D. Transcriptional control of the hydrogen cyanide biosynthetic genes *hcnABC* by the anaerobic regulator ANR and the quorum-sensing regulators LasR and RhlR in *Pseudomonas aeruginosa*. J Bacteriol. 2000;182:6940–9.

Article
CAS
Google Scholar

Latifi A, Foglino M, Tanaka K, Williams P, Lazdunski A. A hierarchical quorum-sensing cascade in *Pseudomonas aeruginosa* links the transcriptional activators LasR and RhIR (VsmR) to expression of the stationary-phase sigma factor RpoS. Mol Microbiol. 1996;21:1137–46.

Article
CAS
Google Scholar

Köhler T, Buckling A, van Delden C. Cooperation and virulence of clinical *Pseudomonas aeruginosa* populations. Proc Natl Acad Sci U S A. 2009;106:6339–44.

Article
Google Scholar

Xavier JB. Sociomicrobiology and pathogenic bacteria. Microbiol Spectr. 2016; 4: VMBF–0019–2015.

Heurlier K, De’nervaud V, Haenni M, Guy L, Krishnapillai V, Haas D. Quorum-sensing-negative (*lasR*) mutants of *Pseudomonas aeruginosa* avoid cell lysis and death. J Bacteriol. 2005;187:4875–83.

de Kievit T, Seed PC, Nezezon J, Passador L, Iglewski BH. RsaL, a novel repressor of virulence gene expression in *Pseudomonas aeruginosa*. J Bacteriol. 1999;181:2175–84.

PubMed
PubMed Central
Google Scholar

Rampioni G, et al. RsaL provides quorum sensing homeostasis and functions as a global regulator of gene expression in *Pseudomonas aeruginosa*. Mol Microbiol. 2007;66:1557–65.

Article
CAS
Google Scholar

Chugani SA, Whiteley M, Lee KM, D'Argenio D, Manoil C, Greenberg EP. QscR, a modulator of quorum-sensing signal synthesis and virulence in *Pseudomonas aeruginosa*. Proc Natl Acad Sci U S A. 2001;98:2752–7.

Article
CAS
Google Scholar

Heurlier K, Dénervaud V, Pessi G, Reimmann C, Haas D. Negative control of quorum sensing by RpoN (sigma54) in *Pseudomonas aeruginosa* PAO1. J Bacteriol. 2003;185:2227–35.

Article
CAS
Google Scholar

Eldar A. Social conflict drives the evolutionary divergence of quorum sensing. Proc Natl Acad Sci U S A. 2011;108:13635–40.

Article
CAS
Google Scholar

Kerr B, Riley MA, Feldman MW, Bohannan BJ. Local dispersal promotes biodiversity in a real-life game of rock-paper-scissors. Nature. 2002;418:171–4.

Article
CAS
Google Scholar

Kelsic ED, Zhao J, Vetsigian K, Kishony R. Counteraction of antibiotic production and degradation stabilizes microbial communities. Nature. 2015;521:516–9.

Article
CAS
Google Scholar

Harcombe WR, Riehl WJ, Dukovski I, Granger BR, Betts A, Lang AH, et al. Metabolic resource allocation in individual microbes determines ecosystem interactions and spatial dynamics. Cell Rep. 2014;7:1104–15.

Article
CAS
Google Scholar

Chen C, Liu S, Shi XQ, Chaté H, Wu Y. Weak synchronization and large-scale collective oscillation in dense bacterial suspensions. Nature. 2017;542:210–4.

Article
CAS
Google Scholar

Liu J, Martinez-Corral R, Prindle A, Lee DD, Larkin J, Gabalda-Sagarra M, et al. Coupling between distant biofilms and emergence of nutrient time-sharing. Science. 2017;356:638–42.

Article
CAS
Google Scholar

Rustagi D, Engel S, Kosfeld M. Conditional cooperation and costly monitoring explain success in forest commons management. Science. 2010;330:961–5.

Article
CAS
Google Scholar

Perc M, Szolnoki A. Coevolutionary games—a mini review. BioSystems. 2010;99:109–25.

Article
Google Scholar

Szolnoki A, Antonioni A, Ma T, Perc M. Binary birth-death dynamics and the expansion of cooperation by means of self-organized growth. EPL-Europhys Lett. 2014;105:4.

Article
Google Scholar

Perc M. Phase transitions in models of human cooperation. Phys Lett A. 2016;380:2803–8.

Article
CAS
Google Scholar

Perc M, Jordan JJ, Rand DG, Wang Z, Boccaletti S, Szolnoki A. Statistical physics of human cooperation. Phys Rep. 2017;687:1–51.

Article
Google Scholar

Filloux A, Ramos JL. *Pseudomonas* methods and protocols. Methods Mol Biol. 2014;1149:135–69.

Article
Google Scholar

Langmead B, Salzberg S. Fast gapped-read alignment with Bowtie 2. Nat Methods. 2012;9:357–9.

Article
CAS
Google Scholar

Li H, Handsaker B, Wysoker A, Fennell T, Ruan J, Homer N, et al. The sequence alignment/map (SAM) format and SAMtools. Bioinformatics. 2009;25:2078–9.

Article
Google Scholar

Koboldt DC, Zhang Q, Larson DE, Shen D, McLellan MD, Lin L, et al. VarScan 2: somatic mutation and copy number alteration discovery in cancer by exome sequencing. Genome Res. 2012;22:568–76.

Article
CAS
Google Scholar

Deng X, Weerapana E, Ulanovskaya O, Sun F, Liang H, Ji Q, et al. Proteome-wide quantification and characterization of oxidation-sensitive cysteines in pathogenic bacteria. Cell Host Microbe. 2013;13:358–70.

Article
CAS
Google Scholar

Zhao K, Liu L, Chen X, Huang T, Du L, Lin J et al. Genome comparison of PA1 and PA6. Available from: https://www.ncbi.nlm.nih.gov/bioproject/PRJNA407264