Construction of bacteria-eukaryote synthetic mutualism

BioSystems

Volumn 113, Issue 2, 2013, Pages 66-71

  Kubo, Isao ^a   Hosoda, Kazufumi ^a   Suzuki, Shingo ^a   Yamamoto, Kayo ^a   Kihara, Kumiko ^a   Mori, Kotaro ^a   Yomo, Tetsuya ^a,b  

^a OSAKA UNIVERSITY   (Japan)

^b JAPAN SCIENCE AND TECHNOLOGY AGENCY   (Japan)

Author keywords

Bacteria eukaryote mutualism; Establishment; Mutualism; Symbiosis; Synthetic ecology; Syntrophism

Indexed keywords

GLUTAMINE; THIOCTIC ACID;

COLIFORM BACTERIUM; EUKARYOTE; GENETIC ENGINEERING; MUTUALISM; POPULATION DYNAMICS; PROTOZOAN; SYMBIOSIS; VULNERABILITY;

ARTICLE; AUTECOLOGY; BACTERIA EUKARYOTE MUTUALISM; BACTERIAL STRAIN; BACTERIUM CULTURE; COCULTURE; DICTYOSTELIUM DISCOIDEUM; ESCHERICHIA COLI; NONHUMAN; SYMBIOSIS;

AMOEBA (GENUS); BACTERIA (MICROORGANISMS); DICTYOSTELIUM DISCOIDEUM; ESCHERICHIA COLI; EUKARYOTA;

EID: 84879252471     PISSN: 03032647     EISSN: 18728324     Source Type: Journal    
DOI: 10.1016/j.biosystems.2013.05.006     Document Type: Article

References (51)

1. Agapakis C.M., Niederholtmeyer H., Noche R.R., Lieberman T.D., Megason S.G., Way J.C., Silver P.A. Towards a synthetic chloroplast. PLoS ONE 2011, 6:e18877.
2. Althoff D.M., Segraves K.A., Smith C.I., Leebens-Mack J., Pellmyr O. Geographic isolation trumps coevolution as a driver of yucca and yucca moth diversification. Mol. Phylogenet. Evol. 2012, 62:898-906.
3. Backhed F., Ley R.E., Sonnenburg J.L., Peterson D.A., Gordon J.I. Host-bacterial mutualism in the human intestine. Science 2005, 307:1915-1920.
4. Bascompte J., Jordano P., Olesen J.M. Asymmetric coevolutionary networks facilitate biodiversity maintenance. Science 2006, 312:431-433.
5. Begon M., Harper J.L., Townsend C.R. Ecology: Individuals, Populations, and Communities 1996, Blackwell Science, Oxford; Cambridge, MA. 3rd ed.
6. Boucher D.H. The Biology of Mutualism: Ecology and Evolution 1985, Oxford University Press, New York.
7. Boucher D.H., James S., Keeler K.H. The ecology of mutualism. Annu. Rev. Ecol. Syst. 1982, 13:315-347.
8. Cook J.M., Rasplus J.Y. Mutualists with attitude: coevolving fig wasps and figs. Trends Ecol. Evol. 2003, 18:241-248.
9. De Felice M., Levinthal M., Iaccarino M., Guardiola J. Growth-inhibition as a consequence of antagonism between related amino-acids - effect of valine in Escherichia-coli K-12. Microbiol. Rev. 1979, 43:42-58.
10. Douglas A.E. Symbiotic Interactions 1994, Oxford University Press, Oxford, New York.
11. Ferriere R., Bronstein J.L., Rinaldi S., Law R., Gauduchon M. Cheating and the evolutionary stability of mutualisms. Proc. R. Soc. Lond. B: Biol. Sci. 2002, 269:773-780.
12. Fey P., Kowal A.S., Gaudet P., Pilcher K.E., Chisholm R.L. Protocols for growth and development of Dictyostelium discoideum. Nat. Protoc. 2007, 2:1307-1316.
13. Franke J., Kessin R. A defined minimal medium for axenic strains of Dictyostelium discoideum. Proc. Natl. Acad. Sci. U. S. A. 1977, 74:2157-2161.
14. Han S.I., Friehs K., Flaschel E. Improvement of a synthetic medium for Dictyostelium discoideum. Process Biochem. 2004, 39:925-930.
15. Harcombe W. Novel cooperation experimentally evolved between species. Evolution 2010, 64:2166-2172.
16. Hass J.R., Weir M.D., Thomas G.B. University Calculus 2007, Pearson Higher Ed USA, Cranbury, NJ.
17. Hekstra D.R., Leibler S. Contingency and statistical laws in replicate microbial closed ecosystems. Cell 2012, 149:1164-1173.
18. Herre E.A., Knowlton N., Mueller U.G., Rehner S.A. The evolution of mutualisms: exploring the paths between conflict and cooperation. Trends Ecol. Evol. 1999, 14:49-53.
19. Hillesland K.L., Stahl D.A. Rapid evolution of stability and productivity at the origin of a microbial mutualism. Proc. Natl. Acad. Sci. U. S. A. 2010, 107:2124-2129.
20. Hosoda K., Suzuki S., Yamauchi Y., Shiroguchi Y., Kashiwagi A., Ono N., Mori K., Yomo T. Cooperative adaptation to establishment of a synthetic bacterial mutualism. PLoS ONE 2011, 6:e17105.
21. Hosoda K., Yomo T. Designing symbiosis. Bioeng. Bugs 2011, 2:338-341.
22. Jeon K.W. Development of cellular dependence on infective organisms: micrurgical studies in amoebas. Science 1972, 176:1122-1123.
23. Kamino K., Fujimoto K., Sawai S. Collective oscillations in developing cells: insights from simple systems. Dev. Growth Differ. 2011, 53:503-517.
24. Keseler I.M., Collado-Vides J., Santos-Zavaleta A., Peralta-Gil M., Gama-Castro S., Muniz-Rascado L., Bonavides-Martinez C., Paley S., Krummenacker M., Altman T., Kaipa P., Spaulding A., Pacheco J., Latendresse M., Fulcher C., Sarker M., Shearer A.G., Mackie A., Paulsen I., Gunsalus R.P., Karp P.D. EcoCyc: a comprehensive database of Escherichia coli biology. Nucleic Acids Res. 2011, 39:D583-D590.
25. Kihara K., Mori K., Suzuki S., Hosoda K., Yamada A., Matsuyama S., Kashiwagi A., Yomo T. Probabilistic transition from unstable predator-prey interaction to stable coexistence of Dictyostelium discoideum and Escherichia coli. Biosystems 2011, 103:342-347.
26. Kihara K., Mori K., Suzuki S., Ono N., Furusawa C., Yomo T. Global/temporal gene expression analysis of Escherichia coli in the early stages of symbiotic relationship development with the cellular slime mold Dictyostelium discoideum. Biosystems 2009, 96:141-164.
27. Maniatis T., Fritsch E.F., Sambrook J. Molecular Cloning: a Laboratory Manual 1982, Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
28. Matsuyama S., Furusawa C., Todoriki M., Urabe I., Yomo T. Global change in Escherichia coli gene expression in initial stage of symbiosis with Dictyostelium cells. Biosystems 2004, 73:163-171.
29. Maurino V.G., Weber A.P. Engineering photosynthesis in plants and synthetic microorganisms. J. Exp. Bot. 2013, 64:743-751.
30. Mee M.T., Wang H.H. Engineering ecosystems and synthetic ecologies. Mol. Biosyst. 2012, 8:2470-2483.
31. Merckx V., Bidartondo M.I. Breakdown and delayed cospeciation in the arbuscular mycorrhizal mutualism. Proc. R. Soc. B: Biol. Sci. 2008, 275:1029-1035.
32. Momeni B., Chen C.C., Hillesland K.L., Waite A., Shou W. Using artificial systems to explore the ecology and evolution of symbioses. Cell. Mol. Life Sci. 2011, 68:1353-1368.
33. Nakajima T., Sano A., Matsuoka H. Auto-/heterotrophic endosymbiosis evolves in a mature stage of ecosystem development in a microcosm composed of an alga, a bacterium and a ciliate. Biosystems 2009, 96:127-135.
34. Neidhardt F.C., Curtiss R. Escherichia coli and Salmonella: cellular and molecular biology 1996, ASM Press, Washington, DC. 2nd ed.
35. Ramirez S.R., Eltz T., Fujiwara M.K., Gerlach G., Goldman-Huertas B., Tsutsui N.D., Pierce N.E. Asynchronous diversification in a specialized plant-pollinator mutualism. Science 2011, 333:1742-1746.
36. Sachs J.L., Simms E.L. Pathways to mutualism breakdown. Trends Ecol. Evol. 2006, 21:585-592.
37. Sano A., Watanabe M., Nakajima T. Adaptive characteristics of a ciliate Tetrahymena thermophila in endosymbiotic association with a green alga Chlorella vulgaris derived in a long-term microcosm culture. Symbiosis 2009, 47:151-160.
38. Schardl C.L., Craven K.D. Interspecific hybridization in plant-associated fungi and oomycetes: a review. Mol. Ecol. 2003, 12:2861-2873.
39. Segall J.E., Kuspa A., Shaulsky G., Ecke M., Maeda M., Gaskins C., Firtel R.A. A map kinase necessary for receptor-mediated activation of adenylyl-cyclase in Dictyostelium. J. Cell Biol. 1995, 128:405-413.
40. Shendure J., Porreca G.J., Reppas N.B., Lin X., McCutcheon J.P., Rosenbaum A.M., Wang M.D., Zhang K., Mitra R.D., Church G.M. Accurate multiplex polony sequencing of an evolved bacterial genome. Science 2005, 309:1728-1732.
41. Shou W., Ram S., Vilar J.M. Synthetic cooperation in engineered yeast populations. Proc. Natl. Acad. Sci. U. S. A. 2007, 104:1877-1882.
42. Tanouchi Y., Smith R.P., You L. Engineering microbial systems to explore ecological and evolutionary dynamics. Curr. Opin. Biotechnol. 2012, 23:791-797.
43. Tarkka M.T., Sarniguet A., Frey-Klett P. Inter-kingdom encounters: recent advances in molecular bacterium-fungus interactions. Curr. Genet. 2009, 55:233-243.
44. Todoriki M., Oki S., Matsuyama S., Ko-Mitamura E.P., Urabe I., Yomo T. An observation of the initial stage towards a symbiotic relationship. Biosystems 2002, 65:105-112.
45. Todoriki M., Oki S., Matsuyama S.I., Urabe I., Yomo T. Unique colony housing the coexisting Escherichia coli and Dictyostelium discoideum. J. Biol. Phys. 2002, 28:793-797.
46. Tsuchiya H.M., Drake J.F., Jost J.L., Fredrickson A.G. Predator-prey interactions of Dictyostelium discoideum and Escherichia coli in continuous culture. J. Bacteriol. 1972, 110:1147-1153.
47. Walk A., Callahan J., Srisawangvong P., Leuschner J., Samaroo D., Cassilly D., Snyder M.L. Lipopolysaccharide enhances bactericidal activity in Dictyostelium discoideum cells. Dev. Comp. Immunol. 2011, 35:850-856.
48. Weber W., Daoud-El Baba M., Fussenegger M. Synthetic ecosystems based on airborne inter- and intrakingdom communication. Proc. Natl. Acad. Sci. U. S. A. 2007, 104:10435-10440.
49. Wintermute E.H., Silver P.A. Dynamics in the mixed microbial concourse. Genes Dev. 2010, 24:2603-2614.
50. Wintermute E.H., Silver P.A. Emergent cooperation in microbial metabolism. Mol. Syst. Biol. 2010, 6:1-7.
51. Yamada A., Matsuyama S., Todoriki M., Kashiwagi A., Urabe I., Yomo T. Phenotypic plasticity of Escherichia coli at initial stage of symbiosis with Dictyostelium discoideum. Biosystems 2008, 92:1-9.