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\n  \n 2023\n \n \n (4)\n \n \n
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\n \n\n \n \n \n \n \n Evolutionary dynamics in a varying environment: Continuous versus discrete noise.\n \n \n \n\n\n \n Taitelbaum, A.; West, R.; Mobilia, M.; and Assaf, M.\n\n\n \n\n\n\n Phys. Rev. Res., 5(2): L022004. 2023.\n \n\n\n\n
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@article{taitelbaum2023evolutionary,\n    title={Evolutionary dynamics in a varying environment: Continuous versus discrete noise},\n    author={Taitelbaum, Ami and West, Robert and Mobilia, Mauro and Assaf, Michael},\n    journal={Phys. Rev. Res.},\n    volume={5},\n    number={2},\n    pages={L022004},\n    year={2023},\n    doi = {10.1103/PhysRevResearch.5.L022004},\n}\n\n
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\n \n\n \n \n \n \n \n Coupled Environmental and Demographic Fluctuations Shape the Evolution of Cooperative Antimicrobial Resistance.\n \n \n \n\n\n \n Hernández-Navarro, L; Asker, M; Rucklidge, A. M; and Mobilia, M\n\n\n \n\n\n\n bioRxiv, (2023.07.06.547929). 2023.\n \n\n\n\n
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@article{LARM23,\n    title={Coupled Environmental and Demographic Fluctuations Shape the Evolution of Cooperative Antimicrobial Resistance},\n    author={Hern\\'andez-Navarro, L and Asker, M and Rucklidge, A. M and Mobilia, M},\n    journal={bioRxiv},\n    volume={},\n    number={2023.07.06.547929},\n    pages={},\n    year={2023},\n    doi={10.1101/2023.07.06.547929},\n}\n \n\n
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\n \n\n \n \n \n \n \n \n Reproductive variance can drive behavioral dynamics.\n \n \n \n \n\n\n \n Wang, G.; Su, Q.; Wang, L.; and Plotkin, J.\n\n\n \n\n\n\n Proc. Natl Acad. Sci. USA, 120: e216218120. 2023.\n \n\n\n\n
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@article{Plotkin23,\n    title={Reproductive variance can drive behavioral dynamics},\n    author={Wang, G. and    Su, Q. and Wang, L. and Plotkin, J.B.},\n    journal={Proc. Natl Acad. Sci. USA},\n    volume={120},\n    pages={e216218120},\n    year={2023},\n    URL = {https://doi.org/10.1073/pnas.2216218120},\n}\n\n
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\n \n\n \n \n \n \n \n Coexistence of competing microbial strains under twofold environmental variability and demographic fluctuations.\n \n \n \n\n\n \n Asker, M; Hernández-Navarro, L; Rucklidge, A.; and Mobilia, M\n\n\n \n\n\n\n e-print: arXiv, 2307.06314. 2023.\n \n\n\n\n
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@article{AHNRM23,\n    title={Coexistence of competing microbial strains under twofold environmental variability and demographic fluctuations},\n    author={Asker, M and Hern\\'andez-Navarro, L and Rucklidge, AM and Mobilia, M},\n    journal={e-print: arXiv},\n    volume={2307.06314},\n    number={},\n    pages={},\n    year={2023},\n    publisher={}\n}\n\n
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\n  \n 2022\n \n \n (2)\n \n \n
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\n \n\n \n \n \n \n \n Quantitative Characteristics of Stabilizing and Equalizing Mechanisms.\n \n \n \n\n\n \n West, R.; and Shnerb, N.\n\n\n \n\n\n\n Am. Nat., 88: E160. 2022.\n \n\n\n\n
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@article{West22,\n    title={Quantitative Characteristics of Stabilizing and Equalizing Mechanisms},\n    author={West, R. and Shnerb, N.~M.},\n    journal={Am. Nat.},\n    volume={88},\n    pages={E160},\n    year={2022},\n    doi = {10.1086/720665},\n}\n\n\n
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\n \n\n \n \n \n \n \n Fixation and fluctuations in two-species cooperation.\n \n \n \n\n\n \n Piñero, J; Redner, S; and Solé, R\n\n\n \n\n\n\n Journal of Physics: Complexity, 3(1): 015011. 2022.\n \n\n\n\n
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@article{pinero2022fixation,\n  title={Fixation and fluctuations in two-species cooperation},\n  author={Pi{\\~n}ero, J and Redner, S and Sol{\\'e}, R},\n  journal={Journal of Physics: Complexity},\n  volume={3},\n  number={1},\n  pages={015011},\n  year={2022},\n  publisher={IOP Publishing}\n}\n\n
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\n  \n 2021\n \n \n (8)\n \n \n
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\n \n\n \n \n \n \n \n Exclusion of the fittest predicts microbial community diversity in fluctuating environments.\n \n \n \n\n\n \n Shibasaki, S.; Mobilia, M.; and Mitri, S.\n\n\n \n\n\n\n J. R. Soc. Interface, 18(183): 20210613. 2021.\n \n\n\n\n
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@article{shibasaki_exclusion_2021,\n    title = {Exclusion of the fittest predicts microbial community diversity in fluctuating environments},\n    volume = {18},\n    number = {183},\n    year = {2021},\n    journal = {J. R. Soc. Interface},\n    author = {Shibasaki, Shota and Mobilia, Mauro and Mitri, Sara},\n    pages = {20210613},\n    doi = {10.1098/rsif.2021.0613},\n}\n\n\n
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\n \n\n \n \n \n \n \n Species coexistence and temporal environmental fluctuations: a quantitative comparison between stochastic and seasonal variations.\n \n \n \n\n\n \n Meyer, I.; Steinmetz, B.; and Shnerb, N. M.\n\n\n \n\n\n\n bioRxiv, (2021.04.20.440706). 2021.\n \n\n\n\n
\n\n\n\n \n\n \n \n doi\n  \n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{meyer_species_2021,\n    title = {Species coexistence and temporal environmental fluctuations: a quantitative comparison between stochastic and seasonal variations},\n    author = {Meyer, Immanuel and Steinmetz, Bnaya and Shnerb, Nadav M.},\n    year = {2021},\n    journal = {bioRxiv},\n    number = {2021.04.20.440706},\n    doi = {10.1101/2021.04.20.440706},\n}\n\n
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\n \n\n \n \n \n \n \n Fluctuating environments maintain genetic diversity through neutral fitness effects and balancing selection.\n \n \n \n\n\n \n Abdul-Rahman, F.; Tranchina, D.; and Gresham, D.\n\n\n \n\n\n\n Mol. Biol. Evol., 38: msab173. 2021.\n \n\n\n\n
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@article{Abdul21,\n    title={Fluctuating environments maintain genetic diversity through neutral fitness effects and balancing selection},\n    author={Abdul-Rahman, F. and Tranchina, D. and Gresham, D.},\n    journal={Mol. Biol. Evol.},\n    volume={38},\n    pages={msab173},\n    year={2021},\n    doi = {10.1093/molbev/msab173}\n}\n\n
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\n \n\n \n \n \n \n \n Ecology and evolution of antimicrobial resistance in bacterial communities.\n \n \n \n\n\n \n Bottery, M.; Pitchford, J.; and Friman, V.\n\n\n \n\n\n\n ISME Journal, 15(4): 939–948. 2021.\n \n\n\n\n
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@article{bottery2021ecology,\n  title={Ecology and evolution of antimicrobial resistance in bacterial communities},\n  author={Bottery, MJ and Pitchford, JW and Friman, VP},\n  journal={ISME Journal},\n  volume={15},\n  number={4},\n  pages={939--948},\n  year={2021},\n  publisher={Nature Publishing Group UK London}\n}\n\n
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\n \n\n \n \n \n \n \n Environmental fluctuations and their effects on microbial communities, populations and individuals.\n \n \n \n\n\n \n Nguyen, J; Lara-Gutiérrez, J; and Stocker, R\n\n\n \n\n\n\n FEMS Microbiol. Rev., 45: fuaa068. 2021.\n \n\n\n\n
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@article{nguyen2021,\n  title={Environmental fluctuations and their effects on microbial communities, populations and individuals},\n  author={Nguyen, J and Lara-Gutiérrez, J and  Stocker, R},\n  journal={FEMS Microbiol. Rev.},\n  volume={45},\n  number={},\n  pages={fuaa068},\n  year={2021},\n  publisher={Oxford Academic}\n}\n\n
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\n \n\n \n \n \n \n \n Tracking bacterial lineages in complex and dynamic environments with applications for growth control and persistence.\n \n \n \n\n\n \n Bakshi, S; Leoncini, E; Baker, C; Cañas-Duarte, S.; Okumus, B; and Paulsson, J\n\n\n \n\n\n\n Nature Microbiology, 6(6): 783–791. 2021.\n \n\n\n\n
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@article{bakshi2021tracking,\n  title={Tracking bacterial lineages in complex and dynamic environments with applications for growth control and persistence},\n  author={Bakshi, S and Leoncini, E and Baker, C and Ca{\\~n}as-Duarte, SJ and Okumus, B and Paulsson, J},\n  journal={Nature Microbiology},\n  volume={6},\n  number={6},\n  pages={783--791},\n  year={2021},\n  publisher={Nature Publishing Group UK London}\n}\n\n
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\n \n\n \n \n \n \n \n Bacterial persisters are a stochastically formed subpopulation of low-energy cells.\n \n \n \n\n\n \n Manuse, S; Shan, Y; Canas-Duarte, S.; Bakshi, S; Sun, W.; Mori, H; Paulsson, J; and Lewis, K\n\n\n \n\n\n\n PLoS Biology, 19(4): e3001194. 2021.\n \n\n\n\n
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@article{manuse2021bacterial,\n  title={Bacterial persisters are a stochastically formed subpopulation of low-energy cells},\n  author={Manuse, S and Shan, Y and Canas-Duarte, SJ and Bakshi, S and Sun, WS and Mori, H and Paulsson, J and Lewis, K},\n  journal={PLoS Biology},\n  volume={19},\n  number={4},\n  pages={e3001194},\n  year={2021},\n  publisher={Public Library of Science San Francisco, CA USA}\n}\n\n
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\n \n\n \n \n \n \n \n Roadmap on biology in time varying environments.\n \n \n \n\n\n \n Murugan, A; Husain, K; and Rust ıt et al., M.\n\n\n \n\n\n\n Phys. Biol., 18: 041502. 2021.\n \n\n\n\n
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@article{Murugan21,\n    title={Roadmap on biology in time varying environments},\n    author={Murugan, A and Husain, K and Rust {\\it et al.}, MJ },\n    journal={Phys. Biol.},\n    volume={18},\n    pages={041502},\n    year={2021},\n}\n\n
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\n  \n 2020\n \n \n (9)\n \n \n
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\n \n\n \n \n \n \n \n Fixation properties of rock-paper-scissors games in fluctuating populations.\n \n \n \n\n\n \n West, R.; and Mobilia, M.\n\n\n \n\n\n\n J. Theor. Biol., 491: 110135. 2020.\n \n\n\n\n
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@article{west2020,\n    title={Fixation properties of rock-paper-scissors games in fluctuating populations},\n    author={West, R. and Mobilia, M.},\n    journal={J. Theor. Biol.},\n    volume={491},\n    pages={110135},\n    year={2020},\n    doi = {10.1016/j.jtbi.2019.110135},\n}\n\n
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\n \n\n \n \n \n \n \n Phenotypic memory drives population growth and extinction risk in a noisy environment.\n \n \n \n\n\n \n Rescan, M.; Grulois, D.; Ortega-Aboud, E.; and Chevin, L.\n\n\n \n\n\n\n Nat. Ecol. Evol., 4(2): 193–201. 2020.\n \n\n\n\n
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@article{rescan_phenotypic_2020,\n    title = {Phenotypic memory drives population growth and extinction risk in a noisy environment},\n    volume = {4},\n    number = {2},\n    journal = {Nat. Ecol. Evol.},\n    author = {Rescan, Marie and Grulois, Daphné and Ortega-Aboud, Enrique and Chevin, Luis-Miguel},\n    year = {2020},\n    pages = {193--201},\n    doi = {10.1038/s41559-019-1089-6},\n}\n\n
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\n \n\n \n \n \n \n \n Evolutionary dynamics in fluctuating environment.\n \n \n \n\n\n \n Meyer, I.; and Shnerb, N. M.\n\n\n \n\n\n\n Phys. Rev. Res., 2(2): 023308. 2020.\n \n\n\n\n
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@article{meyer_evolutionary_2020,\n    title = {Evolutionary dynamics in fluctuating environment},\n    volume = {2},\n    number = {2},\n    journal = {Phys. Rev. Res.},\n    author = {Meyer, Immanuel and Shnerb, Nadav M.},\n    year = {2020},\n    pages = {023308},\n    doi = {10.1103/PhysRevResearch.2.023308},\n}\n\n
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\n \n\n \n \n \n \n \n Macroecological laws describe variation and diversity in microbial communities.\n \n \n \n\n\n \n Grilli, J.\n\n\n \n\n\n\n Nat. Commun., 11: 4743. 2020.\n \n\n\n\n
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@article{Grilli20,\n    title={Macroecological laws describe variation and diversity in microbial communities},\n    author={Grilli, J.},\n    journal={Nat. Commun.},\n    volume={11},\n    pages={4743},\n    year={2020},\n    doi = {10.1038/s41467-020-18529-y},\n}\n\n
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\n \n\n \n \n \n \n \n \n Gut Microbiome Toxicity: Connecting the Environment and Gut Microbiome-Associated Diseases.\n \n \n \n \n\n\n \n Tu, P.; Chi, L.; Bodnar, W.; Zhang, Z.; Gao, B.; Bian, X.; Stewart, J.; Fry, R.; and Lu, K.\n\n\n \n\n\n\n Toxics, 8: 19. 2020.\n \n\n\n\n
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@article{Tu20,\n    title={Gut Microbiome Toxicity: Connecting the Environment and Gut Microbiome-Associated Diseases},\n    author={Tu, P. and Chi, L. and Bodnar, W. and Zhang, Z. and Gao, B. and Bian, X. and Stewart, J. and Fry, R. and Lu, K. },\n    journal={Toxics},\n    volume={8},\n    pages={19},\n    year={2020},\n    URL={https://doi.org/10.3390/toxics8010019},\n}\n\n\n
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\n \n\n \n \n \n \n \n Population dynamics in a changing environment: random versus periodic switching.\n \n \n \n\n\n \n Taitelbaum, A; West, R; Assaf, M; and Mobilia, M\n\n\n \n\n\n\n Phys. Rev. Lett., 125(4): 048105. 2020.\n \n\n\n\n
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@article{taitelbaum2020population,\n  title={Population dynamics in a changing environment: random versus periodic switching},\n  author={Taitelbaum, A and West, R and Assaf, M and Mobilia, M},\n  journal={Phys. Rev. Lett.},\n  volume={125},\n  number={4},\n  pages={048105},\n  year={2020},\n  publisher={APS}\n}\n\n
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\n \n\n \n \n \n \n \n Dynamics of bacterial populations under the feast-famine cycles.\n \n \n \n\n\n \n Himeoka, Y; and Mitarai, N\n\n\n \n\n\n\n Phys. Rev. Research, 2: 013372. 2020.\n \n\n\n\n
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@article{Himeoka19,\n  title={Dynamics of bacterial populations under the feast-famine cycles},\n  author={Himeoka, Y and Mitarai, N},\n  journal={Phys.~Rev.~Research},\n    volume={2},\n  number={},\n  pages={013372},\n  year={2020},\n  publisher={APS},\nhowpublished = {\\url{https://doi.org/10.1103/PhysRevResearch.2.013372}}\n}\n\n
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\n \n\n \n \n \n \n \n Evolutionary games with environmental feedbacks.\n \n \n \n\n\n \n Tilman, A.; Plotkin, J.; and Akcay, E\n\n\n \n\n\n\n Nat. Commun., 11: 915. 2020.\n \n\n\n\n
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@article{Tilman20,\n    title={Evolutionary games with environmental feedbacks},\n    author={Tilman, AR and    Plotkin, JB and Akcay, E},\n    journal={Nat. Commun.},\n    volume={11},\n    pages={915},\n    year={2020},\n}\n\n\n
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\n \n\n \n \n \n \n \n Resist or perish: fate of a microbial population subjected to a periodic presence of antimicrobial.\n \n \n \n\n\n \n Marrec, L; and Bitbol, A.\n\n\n \n\n\n\n PLoS Computational Biology, 16(4): e1007798. 2020.\n \n\n\n\n
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@article{marrec2020resist,\n  title={Resist or perish: fate of a microbial population subjected to a periodic presence of antimicrobial},\n  author={Marrec, L and Bitbol, A-F},\n  journal={PLoS Computational Biology},\n  volume={16},\n  number={4},\n  pages={e1007798},\n  year={2020},\n  publisher={Public Library of Science San Francisco, CA USA}\n}\n\n
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\n  \n 2019\n \n \n (3)\n \n \n
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\n \n\n \n \n \n \n \n Antimicrobial Resistance: Implications and Costs.\n \n \n \n\n\n \n Dadgostar, P.\n\n\n \n\n\n\n Infect. Drug Resist., 12: 3903–3910. 2019.\n \n\n\n\n
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@article{dadgostar_antimicrobial_2019,\n    title = {Antimicrobial {Resistance}: {Implications} and {Costs}},\n    volume = {12},\n    journal = {Infect. Drug Resist.},\n    author = {Dadgostar, Porooshat},\n    year = {2019},\n    pages = {3903--3910},\n    doi = {10.2147/IDR.S234610},\n}\n\n
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\n \n\n \n \n \n \n \n An expanded modern coexistence theory for empirical applications.\n \n \n \n\n\n \n Ellner, S.; Snyder, R.; Adler, P.; and Hooker, G\n\n\n \n\n\n\n Ecol. Lett., 22: 3. 2019.\n \n\n\n\n
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@article{Ellner19,\n  title={An expanded modern coexistence theory for empirical applications},\n  author={Ellner, SP and Snyder, RE and Adler, PB and Hooker, G},\n  journal={Ecol. Lett.},\n    volume={22},\n  number={},\n  pages={3},\n  year={2019},\n  publisher={},\nhowpublished = {\\url{https://onlinelibrary.wiley.com/doi/abs/10.1111/ele.13159}}\n}\n\n\n
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\n \n\n \n \n \n \n \n Bridging the holistic-reductionist divide in microbial ecology.\n \n \n \n\n\n \n Tecon, R; Mitri, S; Ciccarese, D; Or, D; van der Meer, J.; and Johnson, D.\n\n\n \n\n\n\n MSystems, 4(1): e00265–18. 2019.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{tecon2019bridging,\n  title={Bridging the holistic-reductionist divide in microbial ecology},\n  author={Tecon, R and Mitri, S and Ciccarese, D and Or, D and van der Meer, JR and Johnson, DR},\n  journal={MSystems},\n  volume={4},\n  number={1},\n  pages={e00265--18},\n  year={2019},\n  publisher={Am Soc Microbiol}\n}\n\n
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\n  \n 2018\n \n \n (9)\n \n \n
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\n \n\n \n \n \n \n \n Eco-evolutionary dynamics of a population with randomly switching carrying capacity.\n \n \n \n\n\n \n Wienand, K.; Frey, E.; and Mobilia, M.\n\n\n \n\n\n\n J. R. Soc. Interface, 15(145): 20180343. 2018.\n \n\n\n\n
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@article{wienand_eco-evolutionary_2018,\n    title = {Eco-evolutionary dynamics of a population with randomly switching carrying capacity},\n    volume = {15},\n    number = {145},\n    journal = {J. R. Soc. Interface},\n    author = {Wienand, Karl and Frey, Erwin and Mobilia, Mauro},\n    year = {2018},\n    pages = {20180343},\n    doi = {10.1098/rsif.2018.0343},\n}\n\n
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\n \n\n \n \n \n \n \n Fixation and absorption in a fluctuating environment.\n \n \n \n\n\n \n Danino, M.; and Shnerb, N. M.\n\n\n \n\n\n\n J. Theor. Biol., 441: 84–92. 2018.\n \n\n\n\n
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@article{danino_fixation_2018,\n    title = {Fixation and absorption in a fluctuating environment},\n    volume = {441},\n    journal = {J. Theor. Biol.},\n    author = {Danino, Matan and Shnerb, Nadav M.},\n    year = {2018},\n    pages = {84--92},\n    doi = {10.1016/j.jtbi.2018.01.004},\n}\n\n
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\n \n\n \n \n \n \n \n \n Stability of two-species communities: Drift, environmental stochasticity, storage effect and selection.\n \n \n \n \n\n\n \n Danino, M.; Kessler, D. A.; and Shnerb, N. M.\n\n\n \n\n\n\n Theor. Popul. Biol., 119: 57–71. 2018.\n \n\n\n\n
\n\n\n\n \n \n \"StabilityPaper\n  \n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{danino_stability_2018,\n    title = {Stability of two-species communities: {Drift}, environmental stochasticity, storage effect and selection.},\n    volume = {119},\n    journal = {Theor. Popul. Biol.},\n    author = {Danino, Matan and Kessler, David A. and Shnerb, Nadav M.},\n    year = {2018},\n    pages = {57--71},\n    URL = {https://doi.org/10.1016/j.tpb.2017.11.003},\n}\n\n
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\n \n\n \n \n \n \n \n Quantifying the impact of a periodic presence of antimicrobial on resistance evolution in a homogeneous microbial population of fixed size.\n \n \n \n\n\n \n Marrec, L.; and Bitbol, A.\n\n\n \n\n\n\n J. Theor. Biol., 457: 190–198. 2018.\n \n\n\n\n
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@article{marrec_quantifying_2018,\n    title = {Quantifying the impact of a periodic presence of antimicrobial on resistance evolution in a homogeneous microbial population of fixed size},\n    volume = {457},\n    journal = {J. Theor. Biol.},\n    author = {Marrec, Loïc and Bitbol, Anne-Florence},\n    year = {2018},\n    pages = {190--198},\n    doi = {10.1016/j.jtbi.2018.08.040},\n}\n\n
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\n \n\n \n \n \n \n \n Chesson’s coexistence theory.\n \n \n \n\n\n \n Barabás, G.; D'Andrea, R.; and Stump, S.\n\n\n \n\n\n\n Ecol. Monogr., 88: 1. 2018.\n \n\n\n\n
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@article{Barabas18,\n    title={Chesson’s coexistence theory},\n    author={Barab\\'as, G. and D'Andrea, R. and Stump, S.M.},\n    journal={Ecol. Monogr.},\n    volume={88},\n    pages={1},\n    year={2018},\n    doi = {10.1002/ecm.1302},\n}\n\n
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\n \n\n \n \n \n \n \n Stochastic population dynamics in spatially extended predator-prey systems.\n \n \n \n\n\n \n Dobramysl, U.; Mobilia, M.; Pleimling, M.; and Täuber, U.\n\n\n \n\n\n\n J. Phys. A: Math. Theor., 51: 063001. 2018.\n \n\n\n\n
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@article{Dobra18,\n    title={Stochastic population dynamics in spatially extended predator-prey systems},\n    author={Dobramysl, U. and Mobilia, M. and Pleimling, M.     and T\\"auber, U.~C.},\n    journal={J. Phys. A: Math. Theor.},\n    volume={51},\n    pages={063001},\n    year={2018},\n    doi = {10.1088/1751-8121/aa95c7},\n}\n\n\n
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\n \n\n \n \n \n \n \n Frequency- and Amplitude-Dependent Microbial Population Dynamics during Cycles of Feast and Famine.\n \n \n \n\n\n \n Merritt, J; and Kuehn, S\n\n\n \n\n\n\n Phys. Rev. Lett., 121: 098101. 2018.\n \n\n\n\n
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@article{Merritt18,\n  title={Frequency- and Amplitude-Dependent Microbial Population Dynamics during Cycles of Feast and Famine},\n  author={Merritt, J and Kuehn, S},\n  journal={Phys.~Rev.~Lett.},\n    volume={121},\n  number={},\n  pages={098101},\n  year={2018},\n  publisher={APS},\nhowpublished = {\\url{https://link.aps.org/doi/10.1103/PhysRevLett.121.098101}}\n}\n\n
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\n \n\n \n \n \n \n \n Antibiotic-induced population fluctuations and stochastic clearance of bacteria.\n \n \n \n\n\n \n Coates, J; Park, B.; Le, D; Şimşek, E; Chaudhry, W; and Kim, M\n\n\n \n\n\n\n eLife, 7: e32976. 2018.\n \n\n\n\n
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@article{Coates18,\n  title={Antibiotic-induced population fluctuations and stochastic clearance of bacteria},\n  author={Coates, J and  Park, BR and Le, D and Şimşek, E and Chaudhry, W and Kim, M},\n  journal={eLife},\n    volume={7},\n  number={},\n  pages={e32976},\n  year={2018},\n  publisher={},\nhowpublished = {\\url{}}\n}\n\n
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\n \n\n \n \n \n \n \n Metabolic theory and the temperature-size rule explain the temperature dependence of population carrying capacity.\n \n \n \n\n\n \n Bernhardt, J.; Sunday, J.; and O’Connor, M.\n\n\n \n\n\n\n The American Naturalist, 192(6): 687–697. 2018.\n \n\n\n\n
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@article{bernhardt2018metabolic,\n  title={Metabolic theory and the temperature-size rule explain the temperature dependence of population carrying capacity},\n  author={Bernhardt, JR and Sunday, JM and O’Connor, MI},\n  journal={The American Naturalist},\n  volume={192},\n  number={6},\n  pages={687--697},\n  year={2018},\n  publisher={University of Chicago Press Chicago, IL}\n}\n\n
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\n  \n 2017\n \n \n (7)\n \n \n
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\n \n\n \n \n \n \n \n Evolution of a Fluctuating Population in a Randomly Switching Environment.\n \n \n \n\n\n \n Wienand, K.; Frey, E.; and Mobilia, M.\n\n\n \n\n\n\n Phys. Rev. Lett., 119(15): 158301. 2017.\n \n\n\n\n
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@article{wienand_evolution_2017,\n    title = {Evolution of a {Fluctuating} {Population} in a {Randomly} {Switching} {Environment}},\n    volume = {119},\n    number = {15},\n    journal = {Phys. Rev. Lett.},\n    author = {Wienand, Karl and Frey, Erwin and Mobilia, Mauro},\n    year = {2017},\n    pages = {158301},\n    doi = {10.1103/PhysRevLett.119.158301},\n}\n\n\n
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\n \n\n \n \n \n \n \n Resonant activation of population extinctions.\n \n \n \n\n\n \n Spalding, C.; Doering, C.; and Flierl, G.\n\n\n \n\n\n\n Phys. Rev. E, 96: 042411. 2017.\n \n\n\n\n
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@article{Spalding17,\n    title={Resonant activation of population extinctions},\n    author={Spalding, C. and Doering, C.R. and Flierl, G.R.},\n    journal={Phys. Rev. E},\n    volume={96},\n    pages={042411},\n    year={2017},\n    publisher={APS},\n    doi = {10.1103/PhysRevE.96.042411},\n}\n\n\n
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\n \n\n \n \n \n \n \n \n Persistence and reversal of plasmid-mediated antibiotic resistance.\n \n \n \n \n\n\n \n Lopatkin, A.; Meredith, H.; Srimani, J.; Pfeiffer, C.; Durrett, R.; and You, L.\n\n\n \n\n\n\n Nat. Commun., 8: 1689. 2017.\n \n\n\n\n
\n\n\n\n \n \n \"PersistencePaper\n  \n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{Lopatkin17,\n    title={Persistence and reversal of plasmid-mediated antibiotic resistance},\n    author={Lopatkin, A.J. and Meredith, H.R. and    Srimani, J.K. and Pfeiffer, C. and Durrett, R. and You, L.},\n    journal={Nat. Commun.},\n    volume={8},\n    pages={1689},\n    year={2017},\n    URL={https://doi.org/10.1038/s41467-017-01532-1},\n}\n\n\n\n
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\n \n\n \n \n \n \n \n Bet Hedging against Demographic Fluctuations.\n \n \n \n\n\n \n Xue, B.; and Leibler, S.\n\n\n \n\n\n\n Phys. Rev. Lett., 119: 108103. 2017.\n \n\n\n\n
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@article{Xue17,\n    title={Bet Hedging against Demographic Fluctuations},\n    author={Xue, B.~K. and    Leibler, S.},\n    journal={Phys.~Rev.~Lett.},\n    volume={119},\n    pages={108103},\n    year={2017},\n    doi = {10.1103/PhysRevLett.119.108103},\n}\n\n\n
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\n \n\n \n \n \n \n \n Fitness costs of plasmids: a limit to plasmid transmission.\n \n \n \n\n\n \n San Millan, A; and Maclean, R.\n\n\n \n\n\n\n Microbiology Spectrum, 5(5): 5–5. 2017.\n \n\n\n\n
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@article{sanmillan2017fitness,\n  title={Fitness costs of plasmids: a limit to plasmid transmission},\n  author={San Millan, A and Maclean, RC},\n  journal={Microbiology Spectrum},\n  volume={5},\n  number={5},\n  pages={5--5},\n  year={2017},\n  publisher={Am Soc Microbiol}\n}\n\n
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\n \n\n \n \n \n \n \n WKB theory of large deviations in stochastic populations.\n \n \n \n\n\n \n Assaf, M; and Meerson, B\n\n\n \n\n\n\n J. Phys. A: Math. Theor. , 50: 263001. 2017.\n \n\n\n\n
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@article{assaf2017,\n  title={WKB theory of large deviations in stochastic populations},\n  author={Assaf, M and Meerson, B},\n  journal={J. Phys. A: Math. Theor. },\n  volume={50},\n  number={},\n  pages={263001},\n  year={2017},\n  publisher={IoP}\n}\n\n
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\n \n\n \n \n \n \n \n Species coexistence in a neutral dynamics with environmental noise.\n \n \n \n\n\n \n Hidalgo, J; Suweis, S; and Maritan, A\n\n\n \n\n\n\n Journal of theoretical biology, 413: 1–10. 2017.\n \n\n\n\n
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@article{hidalgo2017species,\n  title={Species coexistence in a neutral dynamics with environmental noise},\n  author={Hidalgo, J and Suweis, S and Maritan, A},\n  journal={Journal of theoretical biology},\n  volume={413},\n  pages={1--10},\n  year={2017},\n  publisher={Elsevier}\n}\n\n\n
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\n  \n 2016\n \n \n (8)\n \n \n
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\n \n\n \n \n \n \n \n The effect of environmental stochasticity on species richness in neutral communities.\n \n \n \n\n\n \n Danino, M.; Shnerb, N. M.; Azaele, S.; Kunin, W. E.; and Kessler, D. A.\n\n\n \n\n\n\n J. Theor. Biol., 409: 155–164. 2016.\n \n\n\n\n
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@article{danino_effect_2016,\n    title = {The effect of environmental stochasticity on species richness in neutral communities},\n    volume = {409},\n    journal = {J. Theor. Biol.},\n    author = {Danino, Matan and Shnerb, Nadav M. and Azaele, Sandro and Kunin, William E. and Kessler, David A.},\n    year = {2016},\n    pages = {155--164},\n    doi = {10.1016/j.jtbi.2016.08.029},\n}\n\n
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\n \n\n \n \n \n \n \n \n Tackling drug-resistant infections globally: final report and recommendations.\n \n \n \n \n\n\n \n O'Neill, J.\n\n\n \n\n\n\n Technical Report Government of the United Kingdom, 2016.\n \n\n\n\n
\n\n\n\n \n \n \"TacklingPaper\n  \n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@techreport{oneill_tackling_2016,\n    type = {Report},\n    title = {Tackling drug-resistant infections globally: final report and recommendations},\n    language = {English},\n    institution = {Government of the United Kingdom},\n    author = {O'Neill, Jim},\n    year = {2016},\n    URL = {https://apo.org.au/node/63983},\n}\n\n\n\n
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\n \n\n \n \n \n \n \n The initial state of the human gut microbiome determines its reshaping by antibiotics.\n \n \n \n\n\n \n Raymond ıt et al., F.\n\n\n \n\n\n\n ISME Journal, 10: 707. 2016.\n \n\n\n\n
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@article{Raymond16,\n    title={The initial state of the human gut microbiome determines its reshaping by antibiotics},\n    author={Raymond {\\it et al.}, F.},\n    journal={ISME Journal},\n    volume={10},\n    pages={707},\n    year={2016},\n    doi={10.1038/ismej.2015.148},\n}\n\n\n
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\n \n\n \n \n \n \n \n Eco-evolutionary dynamics of social dilemmas.\n \n \n \n\n\n \n Gokhale, C.; and Hauert, C\n\n\n \n\n\n\n Theor. Popul. Biol., 111: 28. 2016.\n \n\n\n\n
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@article{Gokhale16,\n    title={Eco-evolutionary dynamics of social dilemmas},\n    author={Gokhale, C.~S. and Hauert, C},\n    journal={Theor. Popul. Biol.},\n    volume={111},\n    pages={28},\n    year={2016},\n    doi={10.1016/j.tpb.2016.05.005},\n}\n\n\n
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\n \n\n \n \n \n \n \n The Ecology and Evolution of Microbial Competition.\n \n \n \n\n\n \n Ghoul, M.; and Mitri, S.\n\n\n \n\n\n\n Trends Microbiol., 24(10): 833-845. 2016.\n \n\n\n\n
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@article{Mitri16,\n    title = {The Ecology and Evolution of Microbial Competition},\n    journal = {Trends Microbiol.},\n    volume = {24},\n    number = {10},\n    pages = {833-845},\n    year = {2016},\n    author = {Ghoul, M. and Mitri, S.},\n    doi = {10.1016/j.tim.2016.06.011},\n}\n\n
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@article{Kussell16,\n    title={Complex Interplay of Physiology and Selection in the Emergence of Antibiotic Resistance},\n    author={Lin, W.-H. and Kussell, E.},\n    journal={Curr. Biol.},\n    volume={26},\n    pages={1486},\n    year={2016},\n    doi = {10.1016/j.cub.2016.04.015},\n}\n\n\n
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@article{bottery2016selective,\n  title={Selective conditions for a multidrug resistance plasmid depend on the sociality of antibiotic resistance},\n  author={Bottery, MJ and Wood, AJ and Brockhurst, MA},\n  journal={Antimicrobial Agents and Chemotherapy},\n  volume={60},\n  number={4},\n  pages={2524--2527},\n  year={2016},\n  publisher={Am Soc Microbiol}\n}\n\n
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\n \n\n \n \n \n \n \n Feedback between population and evolutionary dynamics determines the fate of social microbial populations.\n \n \n \n\n\n \n Sanchez, A; and Gore, J\n\n\n \n\n\n\n PLoS Biology, 11(4): e1001547. 2013.\n \n\n\n\n
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@article{sanchez2013feedback,\n  title={Feedback between population and evolutionary dynamics determines the fate of social microbial populations},\n  author={Sanchez, A and Gore, J},\n  journal={PLoS Biology},\n  volume={11},\n  number={4},\n  pages={e1001547},\n  year={2013},\n  publisher={Public Library of Science San Francisco, USA}\n}\n\n
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\n \n\n \n \n \n \n \n The intermediate disturbance hypothesis should be abandoned.\n \n \n \n\n\n \n Fox, J.\n\n\n \n\n\n\n Trends in Ecology & Evolution, 28: 86. 2013.\n \n\n\n\n
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@article{Fox13,\n  title={The intermediate disturbance hypothesis should be abandoned},\n  author={Fox, JW},\n  journal={Trends in Ecology \\& Evolution},\n    volume={28},\n  number={},\n  pages={86},\n  year={2013},\n  publisher={Elsevier},\nhowpublished = {\\url{https://linkinghub.elsevier.com/retrieve/pii/S0169534712002091}}\n}\n\n
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\n \n\n \n \n \n \n \n Role of efflux pumps in the antibiotic resistance of bacteria embedded in a biofilm.\n \n \n \n\n\n \n Soto, S.\n\n\n \n\n\n\n Virulence, 4(3): 223–229. 2013.\n \n\n\n\n
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@article{soto2013role,\n  title={Role of efflux pumps in the antibiotic resistance of bacteria embedded in a biofilm},\n  author={Soto, SM},\n  journal={Virulence},\n  volume={4},\n  number={3},\n  pages={223--229},\n  year={2013},\n  publisher={Taylor \\& Francis}\n}\n\n
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\n  \n 2012\n \n \n (6)\n \n \n
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\n \n\n \n \n \n \n \n Growth dynamics and the evolution of cooperation in microbial populations.\n \n \n \n\n\n \n Cremer, J.; Melbinger, A.; and Frey, E.\n\n\n \n\n\n\n Sci. Rep., 2(1): 281. 2012.\n \n\n\n\n
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@article{cremer_growth_2012,\n    title = {Growth dynamics and the evolution of cooperation in microbial populations},\n    volume = {2},\n    number = {1},\n    journal = {Sci. Rep.},\n    author = {Cremer, Jonas and Melbinger, Anna and Frey, Erwin},\n    year = {2012},\n    pages = {281},\n    doi = {10.1038/srep00281},\n}\n\n
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\n \n\n \n \n \n \n \n Selection of resistance at lethal and non-lethal antibiotic concentrations.\n \n \n \n\n\n \n Hughes, D; and Andersson, D.\n\n\n \n\n\n\n Current Opinion in Microbiology, 15(5): 555–560. 2012.\n \n\n\n\n
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@article{hughes2012selection,\n  title={Selection of resistance at lethal and non-lethal antibiotic concentrations},\n  author={Hughes, D and Andersson, DI},\n  journal={Current Opinion in Microbiology},\n  volume={15},\n  number={5},\n  pages={555--560},\n  year={2012},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Polymicrobial interactions: impact on pathogenesis and human disease.\n \n \n \n\n\n \n Peters, B.; Jabra-Rizk, M.; O'May, G.; Costerton, J.; and Shirtliff, M.\n\n\n \n\n\n\n Clinical microbiology reviews, 25(1): 193–213. 2012.\n \n\n\n\n
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@article{peters2012polymicrobial,\n  title={Polymicrobial interactions: impact on pathogenesis and human disease},\n  author={Peters, BM and Jabra-Rizk, MA and O'May, GA and Costerton, JW and Shirtliff, ME},\n  journal={Clinical microbiology reviews},\n  volume={25},\n  number={1},\n  pages={193--213},\n  year={2012},\n  publisher={Am Soc Microbiol}\n}\n\n
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\n \n\n \n \n \n \n \n Fundamentals of microbial community resistance and resilience.\n \n \n \n\n\n \n Shade, A; Peter, H; Allison, S; Baho, D; Berga, M; Buergmann, H; Huber, D; Langenheder, S; Lennon, J; Martiny, J; Matulich, K; Schmidt, T; and H, J.\n\n\n \n\n\n\n Frontiers in Microbiology, 3(417): 1–15. 2012.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{shade2012,\n  title={Fundamentals of microbial community resistance and resilience},\n  author={Shade, A and Peter, H and Allison, S and Baho, D and Berga, M and Buergmann, H and Huber, D and Langenheder, S and Lennon, J and Martiny, J and Matulich, K and Schmidt, T and H, Jo},\n  journal={Frontiers in Microbiology},\n  volume={3},\n  number={417},\n  pages={1--15},\n  year={2012},\n  publisher={}\n}\n\n\n
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\n \n\n \n \n \n \n \n Stochastic and deterministic assembly processes in subsurface microbial communities.\n \n \n \n\n\n \n Stegen, J.; Lin, X; Konopka, A.; and Fredrickson, J.\n\n\n \n\n\n\n ISME Journal, 6: 1653–1664. 2012.\n \n\n\n\n
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@article{stegen2012,\n  title={Stochastic and deterministic assembly processes in subsurface microbial communities},\n  author={Stegen, JC and Lin, X and Konopka, AE and Fredrickson, JK},\n  journal={ISME Journal},\n  volume={6},\n  number={},\n  pages={1653--1664},\n  year={2012},\n  publisher={}\n}\n\n
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\n \n\n \n \n \n \n \n Optimality and robustness in quorum sensing (QS)-mediated regulation of a costly public good enzyme.\n \n \n \n\n\n \n Pai, A; Tanouchi, Y; and You, L\n\n\n \n\n\n\n Proceedings of the National Academy of Sciences, 109(48): 19810–19815. 2012.\n \n\n\n\n
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@article{pai2012optimality,\n  title={Optimality and robustness in quorum sensing (QS)-mediated regulation of a costly public good enzyme},\n  author={Pai, A and Tanouchi, Y and You, L},\n  journal={Proceedings of the National Academy of Sciences},\n  volume={109},\n  number={48},\n  pages={19810--19815},\n  year={2012},\n  publisher={National Acad Sciences}\n}\n\n
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\n  \n 2011\n \n \n (9)\n \n \n
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\n \n\n \n \n \n \n \n Markov Chains in Genetics.\n \n \n \n\n\n \n Pinsky, M. A; and Karlin, S.\n\n\n \n\n\n\n Elsevier, 2011.\n \n\n\n\n
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@book{Pinsky2011-px,\n    title     = "Markov Chains in Genetics",\n    booktitle = "An Introduction to Stochastic Modeling",\n    author    = "Pinsky, Mark A and Karlin, Samuel",\n    publisher = "Elsevier",\n    year        =    2011\n}\n\n \n
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\n \n\n \n \n \n \n \n Moving pictures of the human microbiome.\n \n \n \n\n\n \n Caporaso, J. G.; Lauber, C. L.; Costello, E. K.; Berg-Lyons, D.; Gonzalez, A.; Stombaugh, J.; Knights, D.; Gajer, P.; Ravel, J.; Fierer, N.; Gordon, J. I.; and Knight, R.\n\n\n \n\n\n\n Genome Biol., 12: R50. 2011.\n \n\n\n\n
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@article{caporaso_moving_2011,\n    title = {Moving pictures of the human microbiome},\n    volume = {12},\n    journal = {Genome Biol.},\n    author = {Caporaso, J. Gregory and Lauber, Christian L. and Costello, Elizabeth K. and Berg-Lyons, Donna and Gonzalez, Antonio and Stombaugh, Jesse and Knights, Dan and Gajer, Pawel and Ravel, Jacques and Fierer, Noah and Gordon, Jeffrey I. and Knight, Rob},\n    year = {2011},\n    pages = {R50},\n    doi = {10.1186/gb-2011-12-5-r50},\n}\n\n
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\n \n\n \n \n \n \n \n Noise-induced Phenomena in the Environmental Sciences.\n \n \n \n\n\n \n Ridolfi, L.; D'Odorico, P.; and Laio, F.\n\n\n \n\n\n\n Cambridge University Press, Cambridge, U.K., 2011.\n \n\n\n\n
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@book{Ridolfi2011,\n    title={Noise-induced Phenomena in the Environmental Sciences},\n    author={Ridolfi, L. and D'Odorico, P. and Laio, F.},\n    year={2011},\n    publisher={Cambridge University Press, Cambridge, U.K.}\n}\n\n\n
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\n \n\n \n \n \n \n \n Evolutionary and population dynamics: a coupled approach.\n \n \n \n\n\n \n Cremer, J; Meilbinger, A; and Frey, E\n\n\n \n\n\n\n Phys. Rev. E, 84: 051921. 2011.\n \n\n\n\n
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@article{Cremer11,\n  title={Evolutionary and population dynamics: a coupled approach},\n  author={Cremer, J and Meilbinger, A and Frey, E},\n  journal={Phys. Rev. E},\n    volume={84},\n  number={},\n  pages={051921},\n  year={2011},\n  publisher={APS},\nhowpublished = {\\url{https://doi.org/10.1103/PhysRevE.84.051921}}\n}\n\n
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\n \n\n \n \n \n \n \n How frequency and intensity shape diversity-disturbance relationships.\n \n \n \n\n\n \n Miller, A.; Roxburgh, S.; and Shea, K\n\n\n \n\n\n\n Proc. Natl. Acad. Sci. USA, 108: 5643. 2011.\n \n\n\n\n
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@article{Miller11,\n  title={How frequency and intensity shape diversity-disturbance relationships},\n  author={Miller, AD and  Roxburgh, SH  and Shea, K},\n  journal={Proc. Natl. Acad. Sci. USA},\n    volume={108},\n  number={},\n  pages={5643},\n  year={2011},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1073/pnas.1018594108}}\n}\n\n
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\n \n\n \n \n \n \n \n Coexistence in the two-dimensional May-Leonard model with random rates.\n \n \n \n\n\n \n He, Q; Mobilia, M; and Täuber, U.\n\n\n \n\n\n\n Eur. Phys. J. B , 82: 97–105. 2011.\n \n\n\n\n
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@article{he2011,\n  title={Coexistence in the two-dimensional {M}ay-{L}eonard model with random rates},\n  author={He, Q and Mobilia, M and T\\"auber, UC},\n  journal={Eur. Phys. J. B },\n  volume={82},\n  number={},\n  pages={97–105},\n  year={2011},\n  publisher={Springer}\n}\n\n
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\n \n\n \n \n \n \n \n De novo acquisition of resistance to three antibiotics by Escherichia coli.\n \n \n \n\n\n \n van der Horst, M.; Schuurmans, J.; Smid, M.; Koenders, B.; and ter Kuile, B.\n\n\n \n\n\n\n Microbial Drug Resistance, 17(2): 141–147. 2011.\n \n\n\n\n
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@article{van2011novo,\n  title={De novo acquisition of resistance to three antibiotics by Escherichia coli},\n  author={van der Horst, MA and Schuurmans, JM and Smid, MC and Koenders, BB and ter Kuile, BH},\n  journal={Microbial Drug Resistance},\n  volume={17},\n  number={2},\n  pages={141--147},\n  year={2011},\n  publisher={Mary Ann Liebert, Inc. 140 Huguenot Street, 3rd Floor New Rochelle, NY 10801 USA}\n}\n\n
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\n \n\n \n \n \n \n \n Fixation of a deleterious allele under mutation pressure and finite selection intensity.\n \n \n \n\n\n \n Assaf, M; and Mobilia, M\n\n\n \n\n\n\n J. Theor. Biol., 275: 93. 2011.\n \n\n\n\n
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@article{AM11,\n  title={Fixation of a deleterious allele under mutation pressure and finite selection intensity},\n  author={Assaf, M and Mobilia, M},\n  journal={J. Theor. Biol.},\n  volume={275},\n  number={},\n  pages={93},\n  year={2011},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n On the fixation process of a beneficial mutation in a variable environment.\n \n \n \n\n\n \n Uecker, H; and Hermisson, J\n\n\n \n\n\n\n Genetics, 188(4): 915–930. 2011.\n \n\n\n\n
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@article{uecker2011fixation,\n  title={On the fixation process of a beneficial mutation in a variable environment},\n  author={Uecker, H and Hermisson, J},\n  journal={Genetics},\n  volume={188},\n  number={4},\n  pages={915--930},\n  year={2011},\n  publisher={Oxford University Press}\n}\n\n
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\n  \n 2010\n \n \n (7)\n \n \n
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\n \n\n \n \n \n \n \n Cooperation and Hamilton's rule in a simple synthetic microbial system.\n \n \n \n\n\n \n Chuang, J. S; Rivoire, O.; and Leibler, S.\n\n\n \n\n\n\n Mol. Syst. Biol., 6(1): 398. 2010.\n \n\n\n\n
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@article{chuang_cooperation_2010,\n    title = {Cooperation and {Hamilton}'s rule in a simple synthetic microbial system},\n    volume = {6},\n    number = {1},\n    journal = {Mol. Syst. Biol.},\n    author = {Chuang, John S and Rivoire, Olivier and Leibler, Stanislas},\n    year = {2010},\n    pages = {398},\n    doi = {10.1038/msb.2010.57},\n}\n\n
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\n \n\n \n \n \n \n \n Evolutionary game theory in growing populations.\n \n \n \n\n\n \n Melbinger, A.; Cremer, J.; and Frey, E.\n\n\n \n\n\n\n Phys. Rev. Lett., 105(17): 178101. 2010.\n \n\n\n\n
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@article{melbinger_evolutionary_2010,\n    title = {Evolutionary game theory in growing populations.},\n    volume = {105},\n    number = {17},\n    journal = {Phys. Rev. Lett.},\n    author = {Melbinger, Anna and Cremer, Jonas and Frey, Erwin},\n    year = {2010},\n    pages = {178101},\n    doi = {10.1103/physrevlett.105.178101},\n}\n\n
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\n \n\n \n \n \n \n \n Fixation in Evolutionary Games under Non-Vanishing Selection.\n \n \n \n\n\n \n Mobilia, M.; and Assaf, M.\n\n\n \n\n\n\n EPL, 91: 10002. 2010.\n \n\n\n\n
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@article{MA10,\n    title={Fixation in Evolutionary Games under Non-Vanishing Selection},\n    author={Mobilia, M. and Assaf, M.},\n    journal={EPL},\n    volume={91},\n    pages={10002},\n    year={2010},\n    publisher={IoP},\n    doi = {10.1209/0295-5075/91/10002},\n}\n\n\n
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\n \n\n \n \n \n \n \n Spatial rock-paper-scissors models with inhomogeneous reaction rates.\n \n \n \n\n\n \n He, Q.; Mobilia, M; and Täuber, U.\n\n\n \n\n\n\n Phys. Rev. E, 82: 051909. 2010.\n \n\n\n\n
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@article{He10,\n    title={Spatial rock-paper-scissors models with inhomogeneous reaction rates},\n    author={He, Q. and    Mobilia, M and T\\"auber, U.~C.},\n    journal={Phys. Rev. E},\n    volume={82},\n    pages={051909},\n    year={2010},\n    doi = {10.1103/PhysRevE.82.051909},\n}\n\n
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\n \n\n \n \n \n \n \n Large Fluctuations and Fixation in Evolutionary Games.\n \n \n \n\n\n \n Assaf, M; and Mobilia, M\n\n\n \n\n\n\n J. Stat. Mech., P09009. 2010.\n \n\n\n\n
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@article{AM10,\n  title={Large Fluctuations and Fixation in Evolutionary Games},\n  author={Assaf, M and Mobilia, M},\n  journal={J. Stat. Mech.},\n  volume={P09009},\n  number={},\n  pages={},\n  year={2010},\n  publisher={IoP}\n}\n\n
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\n \n\n \n \n \n \n \n Switching and growth for microbial populations in catastrophic responsive environments.\n \n \n \n\n\n \n Visco, P; Allen, R.; Majumdar, S.; and Evans, M.\n\n\n \n\n\n\n Biophysical Journal, 98(7): 1099–1108. 2010.\n \n\n\n\n
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@article{visco2010switching,\n  title={Switching and growth for microbial populations in catastrophic responsive environments},\n  author={Visco, P and Allen, RJ and Majumdar, SN and Evans, MR},\n  journal={Biophysical Journal},\n  volume={98},\n  number={7},\n  pages={1099--1108},\n  year={2010},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Exact results for the evolution of stochastic switching in variable asymmetric environments.\n \n \n \n\n\n \n Gaál, B; Pitchford, J.; and Wood, A.\n\n\n \n\n\n\n Genetics, 184(4): 1113–1119. 2010.\n \n\n\n\n
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@article{gaal2010exact,\n  title={Exact results for the evolution of stochastic switching in variable asymmetric environments},\n  author={Ga{\\'a}l, B and Pitchford, JW and Wood, AJ},\n  journal={Genetics},\n  volume={184},\n  number={4},\n  pages={1113--1119},\n  year={2010},\n  publisher={Oxford University Press}\n}\n\n
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\n  \n 2009\n \n \n (10)\n \n \n
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\n \n\n \n \n \n \n \n Simpson's Paradox in a Synthetic Microbial System.\n \n \n \n\n\n \n Chuang, J. S.; Rivoire, O.; and Leibler, S.\n\n\n \n\n\n\n Science, 323(5911): 272–275. 2009.\n \n\n\n\n
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@article{chuang_simpsons_2009,\n    title = {Simpson's {Paradox} in a {Synthetic} {Microbial} {System}},\n    volume = {323},\n    number = {5911},\n    journal = {Science},\n    author = {Chuang, John S. and Rivoire, Olivier and Leibler, Stanislas},\n    year = {2009},\n    pages = {272--275},\n    doi = {10.1126/science.1166739},\n}\n\n
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\n \n\n \n \n \n \n \n The edge of neutral evolution in social dilemmas.\n \n \n \n\n\n \n Cremer, J.; Reichenbach, T.; and Frey, E.\n\n\n \n\n\n\n New J. Phys., 11(9). 2009.\n \n\n\n\n
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@article{cremer_edge_2009,\n    title = {The edge of neutral evolution in social dilemmas},\n    volume = {11},\n    number = {9},\n    journal = {New J. Phys.},\n    author = {Cremer, Jonas and Reichenbach, Tobias and Frey, Erwin},\n    year = {2009},\n    doi = {10.1088/1367-2630/11/9/093029},\n}\n\n
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\n \n\n \n \n \n \n \n Microbial Toxins: Current Research and Future Trends.\n \n \n \n\n\n \n Proft, T.\n\n\n \n\n\n\n Caister Academic Press, 2009.\n \n\n\n\n
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@book{proft2009microbial,\n    title={Microbial Toxins: Current Research and Future Trends},\n    author={Proft, T.},\n    year={2009},\n    publisher={Caister Academic Press}\n}\n\n
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@article{Pennisi09,\n    title={What Determines Species Diversity?},\n    author={Pennisi, E.},\n    journal={Science},\n    volume={309},\n    pages={90},\n    year={2009},\n    doi={10.1126/science.309.5731.90},\n}\n\n\n
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\n \n\n \n \n \n \n \n Stochastic evolutionary game dynamics.\n \n \n \n\n\n \n Traulsen, A; and Hauert, C\n\n\n \n\n\n\n Reviews of Nonlinear Dynamics and Complexity, 2: 25–61. 2009.\n \n\n\n\n
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@article{traulsen2009stochastic,\n  title={Stochastic evolutionary game dynamics},\n  author={Traulsen, A and Hauert, C},\n  journal={Reviews of Nonlinear Dynamics and Complexity},\n  volume={2},\n  pages={25--61},\n  year={2009},\n  publisher={Wiley Online Library}\n}\n\n
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\n \n\n \n \n \n \n \n Adaptation rates of lytic viruses depend critically on whether host cells survive the bottleneck.\n \n \n \n\n\n \n Patwa, Z; and Wahl, L.\n\n\n \n\n\n\n Evolution, 64: 1166. 2009.\n \n\n\n\n
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@article{Patwa09,\n  title={Adaptation rates of lytic viruses depend critically on whether host cells survive the bottleneck},\n  author={Patwa, Z and Wahl, LM},\n  journal={Evolution},\n    volume={64},\n  number={},\n  pages={1166},\n  year={2009},\n  publisher={Oxford academic},\nhowpublished = {\\url{https://doi.org/10.1111/j.1558-5646.2009.00887.x}}\n}\n\n\n
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\n \n\n \n \n \n \n \n Eco-evolutionary dynamics.\n \n \n \n\n\n \n Pelletier, F; Garant, D; and Hendry, H.\n\n\n \n\n\n\n Phil. Trans. R. Soc. B, 364: 1483. 2009.\n \n\n\n\n
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@article{Pelletier09,\n  title={Eco-evolutionary dynamics},\n  author={Pelletier, F and Garant, D and Hendry, HP},\n  journal={Phil. Trans. R. Soc. B},\n    volume={364},\n  number={},\n  pages={1483},\n  year={2009},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1098/rstb.2009.0027}}\n}\n\n\n
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\n \n\n \n \n \n \n \n The role of beta-lactamase-producing-bacteria in mixed infections.\n \n \n \n\n\n \n Brook, I\n\n\n \n\n\n\n BMC Infectious Diseases, 9: 1–4. 2009.\n \n\n\n\n
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@article{brook2009role,\n  title={The role of beta-lactamase-producing-bacteria in mixed infections},\n  author={Brook, I},\n  journal={BMC Infectious Diseases},\n  volume={9},\n  pages={1--4},\n  year={2009},\n  publisher={Springer}\n}\n\n
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\n \n\n \n \n \n \n \n Beta-lactams and beta-lactamase-inhibitors in current-or potential-clinical practice: a comprehensive update.\n \n \n \n\n\n \n Shahid, M; Sobia, F; Singh, A; Malik, A; Khan, H.; Jonas, D; and Hawkey, P.\n\n\n \n\n\n\n Critical reviews in microbiology, 35(2): 81–108. 2009.\n \n\n\n\n
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@article{shahid2009beta,\n  title={Beta-lactams and beta-lactamase-inhibitors in current-or potential-clinical practice: a comprehensive update},\n  author={Shahid, M and Sobia, F and Singh, A and Malik, A and Khan, HM and Jonas, D and Hawkey, PM},\n  journal={Critical reviews in microbiology},\n  volume={35},\n  number={2},\n  pages={81--108},\n  year={2009},\n  publisher={Taylor \\& Francis}\n}\n\n
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\n \n\n \n \n \n \n \n An Introduction to Population Genetics Theory.\n \n \n \n\n\n \n Crow, J.; and Kimura, M\n\n\n \n\n\n\n Blackburn Press, Caldwell, NJ, USA., 2009.\n \n\n\n\n
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@book{Kimura,\n    title={An Introduction to Population Genetics Theory},\n    author={Crow, JFF and Kimura, M},\n    year={2009},\n    publisher={Blackburn Press, Caldwell, NJ, USA.}\n}\n\n
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\n  \n 2008\n \n \n (4)\n \n \n
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\n \n\n \n \n \n \n \n \n Stochastic evolutionary game dynamics.\n \n \n \n \n\n\n \n Traulsen, A.; and Hauert, C.\n\n\n \n\n\n\n arXiv, (0811.3538). 2008.\n \n\n\n\n
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@article{traulsen_stochastic_2008,\n    title = {Stochastic evolutionary game dynamics},\n    author = {Traulsen, Arne and Hauert, Christoph},\n    year = {2008},\n    journal = {arXiv},\n    number = {0811.3538},\n    URL = {https://doi.org/10.48550/arXiv.0811.3538},\n}\n\n
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\n \n\n \n \n \n \n \n Species synchrony and its drivers: Neutral and nonneutral community dynamics in fluctuating environments.\n \n \n \n\n\n \n Loreau, M.; and de Mazancourt, C.\n\n\n \n\n\n\n Am. Nat., 172: E48. 2008.\n \n\n\n\n
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@article{Loreau08,\n    title={Species synchrony and its drivers: Neutral and nonneutral community dynamics in fluctuating environments},\n    author={Loreau, M. and    de Mazancourt, C.},\n    journal={Am.~Nat.},\n    volume={172},\n    pages={E48},\n    year={2008},\n    doi = {10.1086/589746},\n}\n\n
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\n \n\n \n \n \n \n \n Stochastic switching as a survival strategy in fluctuating environment.\n \n \n \n\n\n \n Acar, M; Mettetal, J; and van Oudenaarden, A\n\n\n \n\n\n\n Nat. Genet., 40: 471-475. 2008.\n \n\n\n\n
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@article{acar2008,\n  title={Stochastic switching as a survival strategy in fluctuating environment},\n  author={Acar, M and Mettetal, J and van Oudenaarden, A},\n  journal={Nat. Genet.},\n  volume={40},\n  number={},\n  pages={471-475},\n  year={2008},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n The fixation probability of beneficial mutations.\n \n \n \n\n\n \n Patwa, Z; and Wahl, L.\n\n\n \n\n\n\n Journal of The Royal Society Interface, 5(28): 1279–1289. 2008.\n \n\n\n\n
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@article{patwa2008fixation,\n  title={The fixation probability of beneficial mutations},\n  author={Patwa, Z and Wahl, LM},\n  journal={Journal of The Royal Society Interface},\n  volume={5},\n  number={28},\n  pages={1279--1289},\n  year={2008},\n  publisher={The Royal Society London}\n}\n\n
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\n  \n 2007\n \n \n (9)\n \n \n
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\n \n\n \n \n \n \n \n Stochastic models of evolution in genetics, ecology and linguistics.\n \n \n \n\n\n \n Blythe, R. A.; and McKane, A. J.\n\n\n \n\n\n\n J. Stat. Mech: Theory Exp., 2007(07): P07018–P07018. 2007.\n \n\n\n\n
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@article{blythe_stochastic_2007,\n    title = {Stochastic models of evolution in genetics, ecology and linguistics},\n    volume = {2007},\n    number = {07},\n    journal = {J. Stat. Mech: Theory Exp.},\n    author = {Blythe, R. A. and McKane, A. J.},\n    year = {2007},\n    pages = {P07018--P07018},\n    doi = {10.1088/1742-5468/2007/07/P07018},\n}\n\n
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\n \n\n \n \n \n \n \n A modified next reaction method for simulating chemical systems with time dependent propensities and delays.\n \n \n \n\n\n \n Anderson, D. F.\n\n\n \n\n\n\n J. Chem. Phys., 127(21): 214107. 2007.\n \n\n\n\n
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@article{anderson_modified_2007,\n    title = {A modified next reaction method for simulating chemical systems with time dependent propensities and delays},\n    volume = {127},\n    number = {21},\n    journal = {J. Chem. Phys.},\n    author = {Anderson, David F.},\n    year = {2007},\n    pages = {214107},\n    doi = {10.1063/1.2799998},\n}\n\n
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\n \n\n \n \n \n \n \n Cooperation Peaks at Intermediate Disturbance.\n \n \n \n\n\n \n Brockhurst, M. A.; Buckling, A.; and Gardner, A.\n\n\n \n\n\n\n Curr. Biol., 17(9): 761–765. 2007.\n \n\n\n\n
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@article{brockhurst_cooperation_2007,\n    title = {Cooperation {Peaks} at {Intermediate} {Disturbance}},\n    volume = {17},\n    number = {9},\n    journal = {Curr. Biol.},\n    author = {Brockhurst, Michael A. and Buckling, Angus and Gardner, Andy},\n    year = {2007},\n    pages = {761--765},\n    doi = {10.1016/j.cub.2007.02.057}\n}\n\n
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\n \n\n \n \n \n \n \n Population Bottlenecks Promote Cooperation in Bacterial Biofilms.\n \n \n \n\n\n \n Brockhurst, M.\n\n\n \n\n\n\n PLoS One, 2: e634. 2007.\n \n\n\n\n
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@article{Brockhurst07b,\n  title={Population Bottlenecks Promote Cooperation in Bacterial Biofilms},\n  author={Brockhurst, MA},\n  journal={PLoS One},\n    volume={2},\n  number={},\n  pages={e634},\n  year={2007},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1371/journal.pone.0000634 }}\n}\n\n
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\n \n\n \n \n \n \n \n The biological cost of antibiotic resistance.\n \n \n \n\n\n \n Andersson, D.; Patin, S.; Nilsson, A.; and Kugelberg, E\n\n\n \n\n\n\n Enzyme-Mediated Resistance to Antibiotics: Mechanisms, Dissemination, and Prospects for Inhibition,339–348. 2007.\n \n\n\n\n
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@article{andersson2007biological,\n  title={The biological cost of antibiotic resistance},\n  author={Andersson, DI and Patin, SM and Nilsson, AI and Kugelberg, E},\n  journal={Enzyme-Mediated Resistance to Antibiotics: Mechanisms, Dissemination, and Prospects for Inhibition},\n  pages={339--348},\n  year={2007},\n  publisher={Wiley Online Library}\n}\n\n
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\n \n\n \n \n \n \n \n Cavitary disease and quantitative sputum bacillary load in cases of pulmonary tuberculosis.\n \n \n \n\n\n \n Palaci, M; Dietze, R; Hadad, D.; Ribeiro, F.; Peres, R.; Vinhas, S.; Maciel, E.; do Valle Dettoni, V; Horter, L; Boom, W.; JL Johnson, undefined; and Eisenach, K.\n\n\n \n\n\n\n Journal of Clinical Microbiology, 45(12): 4064–4066. 2007.\n \n\n\n\n
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@article{palaci2007cavitary,\n  title={Cavitary disease and quantitative sputum bacillary load in cases of pulmonary tuberculosis},\n  author={Palaci, M and Dietze, R and Hadad, DJ and Ribeiro, FKC and Peres, RL and Vinhas, SA and Maciel, ELN and do Valle Dettoni, V and Horter, L and Boom, WH and JL Johnson, and KD Eisenach},\n  journal={Journal of Clinical Microbiology},\n  volume={45},\n  number={12},\n  pages={4064--4066},\n  year={2007},\n  publisher={Am Soc Microbiol}\n}\n\n
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\n \n\n \n \n \n \n \n Mobility promotes and jeopardizes biodiversity in rock–paper–scissors games.\n \n \n \n\n\n \n Reichenbach, T; Mobilia, M; and Frey, E\n\n\n \n\n\n\n Nature, 448: 1046–1049. 2007.\n \n\n\n\n
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@article{reich2007,\n  title={Mobility promotes and jeopardizes biodiversity in rock–paper–scissors games},\n  author={Reichenbach, T and Mobilia, M and Frey, E},\n  journal={Nature},\n  volume={448},\n  number={},\n  pages={1046–1049},\n  year={2007},\n  publisher={Nature Publishing Group}\n}\n\n
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\n \n\n \n \n \n \n \n Efflux pumps as antimicrobial resistance mechanisms.\n \n \n \n\n\n \n Poole, K\n\n\n \n\n\n\n Annals of medicine, 39(3): 162–176. 2007.\n \n\n\n\n
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@article{poole2007efflux,\n  title={Efflux pumps as antimicrobial resistance mechanisms},\n  author={Poole, K},\n  journal={Annals of medicine},\n  volume={39},\n  number={3},\n  pages={162--176},\n  year={2007},\n  publisher={Taylor \\& Francis}\n}\n\n
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\n \n\n \n \n \n \n \n Fixation in haploid populations exhibiting density dependence I: the non-neutral case.\n \n \n \n\n\n \n Parsons, T.; and Quince, C\n\n\n \n\n\n\n Theoretical population biology, 72(1): 121–135. 2007.\n \n\n\n\n
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@article{parsons2007fixation,\n  title={Fixation in haploid populations exhibiting density dependence I: the non-neutral case},\n  author={Parsons, TL and Quince, C},\n  journal={Theoretical population biology},\n  volume={72},\n  number={1},\n  pages={121--135},\n  year={2007},\n  publisher={Elsevier}\n}\n\n
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\n  \n 2006\n \n \n (6)\n \n \n
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\n \n\n \n \n \n \n \n Fixation of Strategies for an Evolutionary Game in Finite Populations.\n \n \n \n\n\n \n Antal, T.; and Scheuring, I.\n\n\n \n\n\n\n Bull. Math. Biol., 68(8): 1923–1944. 2006.\n \n\n\n\n
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@article{antal_fixation_2006,\n    title = {Fixation of {Strategies} for an {Evolutionary} {Game} in {Finite} {Populations}},\n    volume = {68},\n    language = {English},\n    number = {8},\n    journal = {Bull. Math. Biol.},\n    author = {Antal, Tibor and Scheuring, István},\n    year = {2006},\n    pages = {1923--1944},\n    doi = {10.1007/s11538-006-9061-4},\n}\n\n
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\n \n\n \n \n \n \n \n Evolutionary Dynamics.\n \n \n \n\n\n \n Nowak, M.\n\n\n \n\n\n\n Belknap Press, Cambridge, MA, USA, 2006.\n \n\n\n\n
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@book{Nowak,\n    title={Evolutionary Dynamics},\n    author={Nowak, M.A.},\n    year={2006},\n    publisher={Belknap Press, Cambridge, MA, USA}\n}\n\n
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\n \n\n \n \n \n \n \n Dichotomous Markov noise: exact results for out-of-equilibrium systems.\n \n \n \n\n\n \n Bena, I\n\n\n \n\n\n\n Int. J. Mod. Phys. B, 20: 2825. 2006.\n \n\n\n\n
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@article{Bena2006,\n  title={Dichotomous Markov noise: exact results for out-of-equilibrium systems},\n  author={Bena, I},\n  journal={Int. J. Mod. Phys. B},\n  volume={20},\n  number={},\n  pages={2825},\n  year={2006},\n  publisher={World Scientific},\nhowpublished = {\\url{https://www.worldscientific.com/doi/abs/10.1142/S0217979206034881}}\n}\n\n
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\n \n\n \n \n \n \n \n Noise-Induced Transitions.\n \n \n \n\n\n \n Horsthemke, W; and Lefever, R\n\n\n \n\n\n\n Springer, Berlin, 2006.\n \n\n\n\n
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@book{HL06,\n  title={Noise-Induced Transitions},\n  author={Horsthemke, W and Lefever, R},\n  year={2006},\n  publisher={Springer, Berlin}\n}\n\n\n
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\n \n\n \n \n \n \n \n Bacterial Small-Molecule Signaling Pathways.\n \n \n \n\n\n \n Camilli, A; and Bassler, B.\n\n\n \n\n\n\n Science, 311(5764): 1113. 2006.\n \n\n\n\n
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@article{Camilli06,\n  title={Bacterial Small-Molecule Signaling Pathways},\n  author={Camilli, A and Bassler, BL},\n  journal={Science},\n    volume={311},\n  number={5764},\n  pages={1113},\n  year={2006},\n  publisher={},\nhowpublished = {\\url{https://www.science.org/doi/10.1126/science.1121357}}\n}\n\n
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\n \n\n \n \n \n \n \n Probability of fixation under weak selection: a branching process unifying approach.\n \n \n \n\n\n \n Lambert, A\n\n\n \n\n\n\n Theoretical population biology, 69(4): 419–441. 2006.\n \n\n\n\n
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@article{lambert2006probability,\n  title={Probability of fixation under weak selection: a branching process unifying approach},\n  author={Lambert, A},\n  journal={Theoretical population biology},\n  volume={69},\n  number={4},\n  pages={419--441},\n  year={2006},\n  publisher={Elsevier}\n}\n\n
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\n  \n 2005\n \n \n (6)\n \n \n
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\n \n\n \n \n \n \n \n Bacterial Persistence: A Model of Survival in Changing Environments.\n \n \n \n\n\n \n Kussell, E.; Kishony, R.; Balaban, N. Q; and Leibler, S.\n\n\n \n\n\n\n Genetics, 169(4): 1807. 2005.\n \n\n\n\n
\n\n\n\n \n\n \n \n doi\n  \n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{Kussell05b,\n    author = {Kussell, Edo and Kishony, Roy and Balaban, Nathalie Q and Leibler, Stanislas},\n    title = "{Bacterial Persistence: A Model of Survival in Changing Environments}",\n    journal = {Genetics},\n    volume = {169},\n    number = {4},\n    pages = {1807},\n    year = {2005},\n    doi = {10.1534/genetics.104.035352},\n}\n\n
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\n \n\n \n \n \n \n \n Effects of Biodiversity on Ecosystem Functioning: A Consensus of Current Knowledge.\n \n \n \n\n\n \n Hooper, D. U.; Chapin III, F. S.; Ewel, J. J.; Hector, A.; Inchausti, P.; Lavorel, S.; Lawton, J. H.; Lodge, D. M.; Loreau, M.; Naeem, S.; Schmid, B.; Setälä, H.; Symstad, A. J.; Vandermeer, J.; and Wardle, D. A.\n\n\n \n\n\n\n Ecol. Monogr., 75(1): 3–35. 2005.\n \n\n\n\n
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@article{hooper_effects_2005,\n    title = {Effects of {Biodiversity} on {Ecosystem} {Functioning}: {A} {Consensus} of {Current} {Knowledge}},\n    volume = {75},\n    language = {en},\n    number = {1},\n    journal = {Ecol. Monogr.},\n    author = {Hooper, D. U. and Chapin III, F. S. and Ewel, J. J. and Hector, A. and Inchausti, P. and Lavorel, S. and Lawton, J. H. and Lodge, D. M. and Loreau, M. and Naeem, S. and Schmid, B. and Setälä, H. and Symstad, A. J. and Vandermeer, J. and Wardle, D. A.},\n    year = {2005},\n    pages = {3--35},\n    doi = {10.1890/04-0922},\n}\n\n
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\n \n\n \n \n \n \n \n Survival strategies of infectious biofilms.\n \n \n \n\n\n \n Fux, C. A.; Costerton, J. W.; Stewart, P. S.; and Stoodley, P.\n\n\n \n\n\n\n Trends Microbiol., 13(1): 34–40. 2005.\n \n\n\n\n
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@article{fux_survival_2005,\n    title = {Survival strategies of infectious biofilms},\n    volume = {13},\n    number = {1},\n    journal = {Trends Microbiol.},\n    author = {Fux, C. A. and Costerton, J. W. and Stewart, P. S. and Stoodley, P.},\n    year = {2005},\n    pages = {34--40},\n    doi = {10.1016/j.tim.2004.11.010},\n}\n\n
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\n \n\n \n \n \n \n \n Phenotypic diversity, population growth, and information in fluctuating environments.\n \n \n \n\n\n \n Kussell, E.; and Leibler, S.\n\n\n \n\n\n\n Science, 309: 2075. 2005.\n \n\n\n\n
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@article{Kussel05,\n    title={Phenotypic diversity, population growth, and information in fluctuating environments},\n    author={Kussell, E. and Leibler, S.},\n    journal={Science},\n    volume={309},\n    pages={2075},\n    year={2005},\n    doi = {10.1126/science.1114383},\n}\n\n\n
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\n \n\n \n \n \n \n \n Coevolutionary dynamics: from finite to infinite populations.\n \n \n \n\n\n \n Traulsen, A; Claussen, J.; and Hauert, C\n\n\n \n\n\n\n Phys. Rev. Lett., 95(23): 238701. 2005.\n \n\n\n\n
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@article{traulsen2005coevolutionary,\n  title={Coevolutionary dynamics: from finite to infinite populations},\n  author={Traulsen, A and Claussen, JC and Hauert, C},\n  journal={Phys. Rev. Lett.},\n  volume={95},\n  number={23},\n  pages={238701},\n  year={2005},\n  publisher={APS}\n}\n\n
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\n \n\n \n \n \n \n \n Bacterial resistance to antibiotics: enzymatic degradation and modification.\n \n \n \n\n\n \n Wright, G.\n\n\n \n\n\n\n Adv. Drug Deliv. Rev., 57: 1451. 2005.\n \n\n\n\n
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@article{Wright05,\n  title={Bacterial resistance to antibiotics: enzymatic degradation and modification},\n  author={Wright, GD},\n  journal={Adv. Drug Deliv. Rev.},\n    volume={57},\n  number={},\n  pages={1451},\n  year={2005},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1016/j.addr.2005.04.002}}\n}\n\n
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\n  \n 2004\n \n \n (5)\n \n \n
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\n \n\n \n \n \n \n \n \n Bacterial Persistence as a Phenotypic Switch.\n \n \n \n \n\n\n \n Balaban, N. Q.; Merrin, J.; Chait, R.; Kowalik, L.; and Leibler, S.\n\n\n \n\n\n\n Science, 305(5690): 1622–1625. 2004.\n \n\n\n\n
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@article{balaban_bacterial_2004,\n    title = {Bacterial {Persistence} as a {Phenotypic} {Switch}},\n    volume = {305},\n    number = {5690},\n    journal = {Science},\n    author = {Balaban, Nathalie Q. and Merrin, Jack and Chait, Remy and Kowalik, Lukasz and Leibler, Stanislas},\n    year = {2004},\n    pages = {1622--1625},\n    URL = {https://doi.org/10.1126/science.1099390},\n}\n\n\n
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\n \n\n \n \n \n \n \n Clinical Relevance of Bacteriostatic versus Bactericidal Mechanisms of Action in the Treatment of Gram-Positive Bacterial Infections.\n \n \n \n\n\n \n Pankey, G. A.; and Sabath, L. D.\n\n\n \n\n\n\n Clin. Infect. Dis., 38(6): 864–870. 2004.\n \n\n\n\n
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@article{pankey_clinical_2004,\n    title = {Clinical {Relevance} of {Bacteriostatic} versus {Bactericidal} {Mechanisms} of {Action} in the {Treatment} of {Gram}-{Positive} {Bacterial} {Infections}},\n    volume = {38},\n    number = {6},\n    journal = {Clin. Infect. Dis.},\n    author = {Pankey, G. A. and Sabath, L. D.},\n    year = {2004},\n    pages = {864--870},\n    doi = {10.1086/381972},\n}\n\n
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\n \n\n \n \n \n \n \n Mathematical Population Genetics.\n \n \n \n\n\n \n Ewens, W. J.\n\n\n \n\n\n\n Springer, New York, USA, 2004.\n \n\n\n\n
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@book{Ewens,\n    title={Mathematical Population Genetics},\n    author={Ewens, W. J.},\n    year={2004},\n    publisher={Springer, New York, USA}\n}\n\n\n
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\n \n\n \n \n \n \n \n β-Lactamase-producing bacteria in mixed infections.\n \n \n \n\n\n \n Brook, I\n\n\n \n\n\n\n Clinical Microbiology and Infection, 10(9): 777–784. 2004.\n \n\n\n\n
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@article{brook2004beta,\n  title={\\beta-Lactamase-producing bacteria in mixed infections},\n  author={Brook, I},\n  journal={Clinical Microbiology and Infection},\n  volume={10},\n  number={9},\n  pages={777--784},\n  year={2004},\n  publisher={Elsevier}\n}\n\n
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\n \n\n \n \n \n \n \n Stochastic gene expression in fluctuating environments.\n \n \n \n\n\n \n Thattai, M; and van Oudenaarden, A\n\n\n \n\n\n\n Genetics, 167(1): 523–530. 2004.\n \n\n\n\n
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@article{thattai2004stochastic,\n  title={Stochastic gene expression in fluctuating environments},\n  author={Thattai, M and van Oudenaarden, A},\n  journal={Genetics},\n  volume={167},\n  number={1},\n  pages={523--530},\n  year={2004},\n  publisher={Oxford University Press}\n}\n\n
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\n  \n 2003\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n The Impact of Antimicrobial Resistance on Health and Economic Outcomes.\n \n \n \n\n\n \n Eliopoulos, G. M.; Cosgrove, S. E.; and Carmeli, Y.\n\n\n \n\n\n\n Clin. Infect. Dis., 36(11): 1433–1437. 2003.\n \n\n\n\n
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@article{eliopoulos_impact_2003,\n    title = {The {Impact} of {Antimicrobial} {Resistance} on {Health} and {Economic} {Outcomes}},\n    volume = {36},\n    number = {11},\n    journal = {Clin. Infect. Dis.},\n    author = {Eliopoulos, George M. and Cosgrove, Sara E. and Carmeli, Yehuda},\n    year = {2003},\n    pages = {1433--1437},\n    doi = {10.1086/375081},\n}\n\n
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\n  \n 2002\n \n \n (2)\n \n \n
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\n \n\n \n \n \n \n \n Handbook of Stochastic Methods.\n \n \n \n\n\n \n Gardiner, C. W\n\n\n \n\n\n\n Springer, USA, 2002.\n \n\n\n\n
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@book{Gardiner,\n    title={Handbook of Stochastic Methods},\n    author={Gardiner, C. W},\n    year={2002},\n    publisher={Springer, USA}\n}\n\n\n
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\n \n\n \n \n \n \n \n Evaluating the Impact of Population Bottlenecks in Experimental Evolution.\n \n \n \n\n\n \n Wahl, L.; Gerrish, P.; and Saika-Voivod, I\n\n\n \n\n\n\n Genetics, 162: 961. 2002.\n \n\n\n\n
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@article{Wahl02,\n  title={Evaluating the Impact of Population Bottlenecks in Experimental Evolution},\n  author={Wahl, LM and Gerrish, PJ and Saika-Voivod, I},\n  journal={Genetics},\n    volume={162},\n  number={},\n  pages={961},\n  year={2002},\n  publisher={Oxford academic},\nhowpublished = {\\url{https://doi.org/10.1093/genetics/162.2.961}}\n}\n\n
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\n \n\n \n \n \n \n \n Cooperation in the dark: Signalling and collective action in quorum-sensing bacteria.\n \n \n \n\n\n \n Brown, S.; and Johnstone, R.\n\n\n \n\n\n\n Proc. R. Soc. Lond. B. Biol. Sci. , 268: 961. 2001.\n \n\n\n\n
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@article{Brown01,\n  title={Cooperation in the dark: Signalling and collective action in quorum-sensing bacteria},\n  author={Brown, SP and Johnstone, RA},\n  journal={Proc. R. Soc. Lond. B. Biol. Sci. },\n    volume={268},\n  number={},\n  pages={961},\n  year={2001},\n  publisher={},\nhowpublished = {\\url{http://doi.org/10.1098/rspb.2001.1609}}\n}\n\n
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\n \n\n \n \n \n \n \n Efficient Exact Stochastic Simulation of Chemical Systems with Many Species and Many Channels.\n \n \n \n\n\n \n Gibson, M. A.; and Bruck, J.\n\n\n \n\n\n\n J. Phys. Chem. A, 104(9): 1876–1889. 2000.\n \n\n\n\n
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@article{gibson_efficient_2000,\n    title = {Efficient {Exact} {Stochastic} {Simulation} of {Chemical} {Systems} with {Many} {Species} and {Many} {Channels}},\n    volume = {104},\n    number = {9},\n    journal = {J. Phys. Chem. A},\n    author = {Gibson, Michael A. and Bruck, Jehoshua},\n    year = {2000},\n    pages = {1876--1889},\n    doi = {10.1021/jp993732q},\n}\n\n
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\n \n\n \n \n \n \n \n General theory of competitive coexistence in spatially-varying environments.\n \n \n \n\n\n \n Chesson, P.\n\n\n \n\n\n\n Theor. Popul. Biol., 58: 211. 2000.\n \n\n\n\n
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@article{Chesson00b,\n    title={General theory of competitive coexistence in spatially-varying environments.},\n    author={Chesson, P.},\n    journal={Theor. Popul. Biol.},\n    volume={58},\n    pages={211},\n    year={2000},\n    doi = {10.1006/tpbi.2000.1486},\n}\n\n
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\n \n\n \n \n \n \n \n Mechanisms of Maintenance of Species Diversity.\n \n \n \n\n\n \n Chesson, P\n\n\n \n\n\n\n Annu. Rev. Ecol. Syst., 31: 343. 2000.\n \n\n\n\n
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@article{Chesson00,\n  title={Mechanisms of Maintenance of Species Diversity},\n  author={Chesson, P},\n  journal={Annu. Rev. Ecol. Syst.},\n    volume={31},\n  number={},\n  pages={343},\n  year={2000},\n  publisher={},\nhowpublished = {\\url{http://www.annualreviews.org/doi/10.1146/annurev.ecolsys.31.1.343}}\n}\n\n\n
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\n \n\n \n \n \n \n \n Cycles of famine and feast: The starvation and outgrowth strategies of a marine Vibrio.\n \n \n \n\n\n \n Srinivasan, S; and Kjelleberg, S\n\n\n \n\n\n\n J. Biosci., 23: 501. 1998.\n \n\n\n\n
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@article{Srinivasan98,\n  title={Cycles of famine and feast: The starvation and outgrowth strategies of a marine Vibrio},\n  author={Srinivasan, S and Kjelleberg, S},\n  journal={J. Biosci.},\n    volume={23},\n  number={},\n  pages={501},\n  year={1998},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1007/BF02936144}}\n}\n\n
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\n \n\n \n \n \n \n \n Long-Term Experimental Evolution in Escherichia coli. II. Changes in Life-History Traits During Adaptation to a Seasonal Environment.\n \n \n \n\n\n \n Vasi, F.; Travisano, M.; and Lenski, R. E.\n\n\n \n\n\n\n Am. Nat., 144(3): 432–456. 1994.\n \n\n\n\n
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@article{vasi_long-term_1994,\n    title = {Long-{Term} {Experimental} {Evolution} in {Escherichia} coli. {II}. {Changes} in {Life}-{History} {Traits} {During} {Adaptation} to a {Seasonal} {Environment}},\n    volume = {144},\n    number = {3},\n    journal = {Am. Nat.},\n    author = {Vasi, Farida and Travisano, Michael and Lenski, Richard E.},\n    year = {1994},\n    pages = {432--456},\n    doi = {10.1086/285685},\n}\n\n
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@article{davies1994inactivation,\n  title={Inactivation of antibiotics and the dissemination of resistance genes},\n  author={Davies, J},\n  journal={Science},\n  volume={264},\n  number={5157},\n  pages={375--382},\n  year={1994},\n  publisher={American Association for the Advancement of Science}\n}\n\n
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\n \n\n \n \n \n \n \n Multispecies Competition in Variable Environments.\n \n \n \n\n\n \n Chesson, P\n\n\n \n\n\n\n Th. Pop. Biol., 45: 227. 1994.\n \n\n\n\n
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@article{Chesson94,\n  title={Multispecies Competition in Variable Environments},\n  author={Chesson, P},\n  journal={Th.~Pop.~Biol.},\n    volume={45},\n  number={},\n  pages={227},\n  year={1994},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1006/tpbi.1994.1013}}\n}\n\n
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\n  \n 1992\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n Stochastic Processes in Physics and Chemistry.\n \n \n \n\n\n \n van Kampen, N.\n\n\n \n\n\n\n North-Holland, Amsterdam, 1992.\n \n\n\n\n
\n\n\n\n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@book{VanKampen,\n  title={Stochastic Processes in Physics and Chemistry},\n  author={van Kampen, NG},\n  year={1992},\n  publisher={North-Holland, Amsterdam}\n}\n\n\n
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\n  \n 1984\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n \n Piecewise-Deterministic Markov Processes: A General Class of Non-Diffusion Stochastic Models.\n \n \n \n \n\n\n \n Davis, M. H. A.\n\n\n \n\n\n\n J. R. Stat. Soc. B, 46(3): 353. 1984.\n \n\n\n\n
\n\n\n\n \n \n \"Piecewise-DeterministicPaper\n  \n \n\n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{davis_piecewise-deterministic_1984,\n    title = {Piecewise-{Deterministic} {Markov} {Processes}: {A} {General} {Class} of {Non}-{Diffusion} {Stochastic} {Models}},\n    volume = {46},\n    number = {3},\n    journal = {J. R. Stat. Soc. B},\n    author = {Davis, M. H. A.},\n    year = {1984},\n    pages = {353},\n    URL = {https://www.jstor.org/stable/2345677},\n}\n\n
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\n  \n 1981\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n Environmental Variability Promotes Coexistence in Lottery Competitive Systems.\n \n \n \n\n\n \n Chesson, P.; and Warner, R. R.\n\n\n \n\n\n\n Am. Nat., 117(6): 923–943. 1981.\n \n\n\n\n
\n\n\n\n \n\n \n \n doi\n  \n \n\n \n link\n  \n \n\n bibtex\n \n\n \n\n \n\n \n \n \n \n \n \n \n\n  \n \n \n\n\n\n
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@article{chesson_environmental_1981,\n    title = {Environmental {Variability} {Promotes} {Coexistence} in {Lottery} {Competitive} {Systems}},\n    volume = {117},\n    number = {6},\n    journal = {Am. Nat.},\n    author = {Chesson, Peter and Warner, Robert R.},\n    year = {1981},\n    pages = {923--943},\n    doi = {10.1086/283778},\n}\n\n
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\n  \n 1979\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n Theory of Population Genetics and Evolutionary Ecology: An Introduction.\n \n \n \n\n\n \n Roughgarden, J.\n\n\n \n\n\n\n Macmillan, New York, USA, 1979.\n \n\n\n\n
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@book{Roughgarden,\n    title={Theory of Population Genetics and Evolutionary Ecology: An Introduction},\n    author={Roughgarden, J.},\n    year={1979},\n    publisher={Macmillan, New York, USA}\n}\n\n
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\n  \n 1976\n \n \n (2)\n \n \n
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\n \n\n \n \n \n \n \n A general method for numerically simulating the stochastic time evolution of coupled chemical reactions.\n \n \n \n\n\n \n Gillespie, D.\n\n\n \n\n\n\n J. Comput. Phys., 202: 403. 1976.\n \n\n\n\n
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@article{Gillespie76,\n  title={A general method for numerically simulating the stochastic time evolution of coupled chemical reactions},\n  author={Gillespie, DT},\n  journal={J. Comput. Phys.},\n  volume={202},\n  number={},\n  pages={403},\n  year={1976},\n  publisher={Elsevier},\nhowpublished = {\\url{https://doi.org/10.1016/0021-9991(76)90041-3}}\n}\n\n\n
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\n \n\n \n \n \n \n \n Concentrations of bacteria in cerebrospinal fluid of patients with bacterial meningitis.\n \n \n \n\n\n \n Feldman, W.\n\n\n \n\n\n\n The Journal of Pediatrics, 88(4): 549–552. 1976.\n \n\n\n\n
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@article{feldman1976concentrations,\n  title={Concentrations of bacteria in cerebrospinal fluid of patients with bacterial meningitis},\n  author={Feldman, WE},\n  journal={The Journal of Pediatrics},\n  volume={88},\n  number={4},\n  pages={549--552},\n  year={1976},\n  publisher={Elsevier}\n}\n\n
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\n  \n 1974\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n Temporal fluctuations in selection intensities: Case of small population size.\n \n \n \n\n\n \n Karlin, S.; and Levikson, B.\n\n\n \n\n\n\n Theor. Popul. Biol., 6: 383. 1974.\n \n\n\n\n
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@article{Karlin74,\n    title={Temporal fluctuations in selection intensities: Case of small population size},\n    author={Karlin, S. and    Levikson, B.},\n    journal={Theor. Popul. Biol.},\n    volume={6},\n    pages={383},\n    year={1974},\n    doi = {10.1016/0040-5809(74)90017-3},\n}\n\n
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\n  \n 1973\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n Evidence for the Existence of Three Primary Strategies in Plants and Its Relevance to Ecologicaland Evolutionary Theory.\n \n \n \n\n\n \n Grime, J.\n\n\n \n\n\n\n Am. Nat., 111: 1169. 1973.\n \n\n\n\n
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@article{Grime73,\n  title={Evidence for the Existence of Three Primary Strategies in Plants and Its Relevance to Ecologicaland Evolutionary Theory},\n  author={Grime, JP},\n  journal={Am.~Nat.},\n    volume={111},\n  number={},\n  pages={1169},\n  year={1973},\n  publisher={},\nhowpublished = {\\url{https://doi.org/10.1086/283244}}\n}\n\n
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\n  \n 1962\n \n \n (1)\n \n \n
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\n \n\n \n \n \n \n \n The Statistical Processes of Evolutionary Theory.\n \n \n \n\n\n \n Moran, P.\n\n\n \n\n\n\n Oxford, UK: Clarendon, 1962.\n \n\n\n\n
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@book{Moran,\n  title={The {S}tatistical {P}rocesses of {E}volutionary {T}heory},\n  author={Moran, PAP},\n  year={1962},\n  publisher={Oxford, UK: Clarendon}\n}\n\n
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\n  \n 1956\n \n \n (2)\n \n \n
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\n \n\n \n \n \n \n \n AN EXPERIMENTAL ANALYSIS OF THE CURATIVE ACTION OF PENICILLIN IN ACUTE BACTERIAL INFECTIONS: III. The Efffect of Suppuration upon the Antibacterial Action of the Drug.\n \n \n \n\n\n \n Smith, M.; and Wood Jr, W.\n\n\n \n\n\n\n The Journal of Experimental Medicine, 103(4): 509–522. 1956.\n \n\n\n\n
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@article{smith1956experimental,\n  title={AN EXPERIMENTAL ANALYSIS OF THE CURATIVE ACTION OF PENICILLIN IN ACUTE BACTERIAL INFECTIONS: III. The Efffect of Suppuration upon the Antibacterial Action of the Drug},\n  author={Smith, MR and Wood Jr, WB},\n  journal={The Journal of Experimental Medicine},\n  volume={103},\n  number={4},\n  pages={509--522},\n  year={1956},\n  publisher={Rockefeller University Press}\n}\n\n
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\n \n\n \n \n \n \n \n Dynamic aspects of the pathology and bacteriology of tuberculous lesions.\n \n \n \n\n\n \n Canetti, G\n\n\n \n\n\n\n American Review of Tuberculosis and Pulmonary Diseases, 74(2-2): 13–21. 1956.\n \n\n\n\n
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@article{canetti1956dynamic,\n  title={Dynamic aspects of the pathology and bacteriology of tuberculous lesions},\n  author={Canetti, G},\n  journal={American Review of Tuberculosis and Pulmonary Diseases},\n  volume={74},\n  number={2-2},\n  pages={13--21},\n  year={1956},\n  publisher={National Tuberculosis Association}\n}\n\n
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