Computing with bacterial constituents, cells and populations: From bioputing to bactoputing

Theory in Biosciences

Volumn 130, Issue 3, 2011, Pages 211-228

  Norris, Vic ^a,b   Zemirline, Abdallah ^a,c   Amar, Patrick ^a,d   Audinot, Jean Nicolas ^e   Ballet, Pascal ^a,c   Ben Jacob, Eshel ^f   Bernot, Gilles ^a,g   Beslon, Guillaume ^a,h   Cabin, Armelle ^a,b   Fanchon, Eric ^a,i   Giavitto, Jean Louis ^a,j   Glade, Nicolas ^a,i   Greussay, Patrick ^a,k   Grondin, Yohann ^a,b   Foster, James A ^l   Hutzler, Guillaume ^a,j   Jost, Jürgen ^p,q   Kepes, Francois ^a   Michel, Olivier ^a,m   Molina, Franck ^a,n   Signorini, Jacqueline ^a,k   Stano, Pasquale ^o   Thierry, Alain R ^a,n   more..

^a Parc Scientifique de Luminy   (France)

^b UNIVERSITÉ DE ROUEN   (France)

^c UNIVERSITÉ DE BRETAGNE OCCIDENTALE   (France)

^d UFR 919 Laboratoire d'Informatique Pour la Mécanique et les Sciences de l'Ingénieur   (France)

^e LUXEMBOURG INSTITUTE OF SCIENCE AND TECHNOLOGY   (Luxembourg)

^f TEL AVIV UNIVERSITY   (Israel)

^g UNIVERSITY OF NICE SOPHIA ANTIPOLIS   (France)

^h UNIVERSITÉ DE LYON   (France)

ⁱ LABORATOIRE TIMC IMAG   (France)

^j UNIVERSITY OF EVRY   (France)

^k UNIVERSITÉ PARIS 8   (France)

^l UNIVERSITY OF IDAHO   (United States)

^m UNIVERSITÉ PARIS EST CRÉTEIL   (France)

ⁿ CNRS   (France)

^o Enrico Fermi Research Centre   (Italy)

^p MAX PLANCK INSTITUTE FOR MATHEMATICS IN THE SCIENCES   (Germany)

^q SANTA FE INSTITUTE   (United States)

more..

Author keywords

Bacteria; Biological computing; Computer science; Minimal cell; Origin of life; Synthetic biology; Turing

Indexed keywords

BACTERIUM; COMPUTER SYSTEM; CONFERENCE PAPER; CYTOLOGY;

BACTERIA; COMPUTER SYSTEMS;

ALIAS; BACTERIA (MICROORGANISMS);

EID: 80052693996     PISSN: 14317613     EISSN: 16117530     Source Type: Journal    
DOI: 10.1007/s12064-010-0118-4     Document Type: Conference Paper

References (117)

1. ME Aarsman A Piette C Fraipont TM Vinkenvleugel M Nguyen-Disteche, et al. 2005 Maturation of the Escherichia coli divisome occurs in two steps Mol Microbiol 55 1631 1645 15752189 1:CAS:528:DC%2BD2MXivVaksrk%3D
2. A Adamatzky B de Lacy Costello 2002 Collision-free path planning in the Belousov-Zhabotinsky medium assisted by a cellular automaton Naturwissenschaften 89 474 478 12384724 1:CAS:528:DC%2BD38XnvV2ltr4%3D
3. LM Adleman 1994 Molecular computation of solutions to combinatorial problems Science 266 1021 1024 7973651 1:CAS:528:DyaK2MXitFSjs7k%3D
4. P Amar P Ballet G Barlovatz-Meimon A Benecke G Bernot, et al. 2002 Hyperstructures, genome analysis and I-cell Acta Biotheor 50 357 373 12675536
5. Amar P, Bernot G, Norris V (2004) HSIM: a simulation programme to study large assemblies of proteins. J Biol Phys Chem 4:79-84. http://www.lri.fr/~pa/ Hsim/JBPC-04.pdf
6. P Amar G Legent M Thellier C Ripoll G Bernot, et al. 2008 A stochastic automaton shows how enzyme assemblies may contribute to metabolic efficiency BMC Syst Biol 2 27 18366733
7. MR Atkinson MA Savageau JT Myers AJ Ninfa 2003 Development of genetic circuitry exhibiting toggle switch or oscillatory behavior in Escherichia coli Cell 113 597 607 12787501 1:CAS:528:DC%2BD3sXksFehtbk%3D
8. SV Avery 2006 Microbial cell individuality and the underlying sources of heterogeneity Nat Rev Microbiol 4 577 587 16845428 1:CAS:528: DC%2BD28XmvFamtbs%3D
9. M Baker 2005 Better living through microbes Nat Biotechnol 23 645 647 15940227 1:CAS:528:DC%2BD2MXkvVSiurY%3D
10. MD Baker JB Stock 2007 Signal transduction: networks and integrated circuits in bacterial cognition Curr Biol 17 R1021 R1024 18054766 1:CAS:528:DC%2BD2sXhtlyrurjM
11. NQ Balaban J Merrin R Chait L Kowalik S Leibler 2004 Bacterial persistence as a phenotypic switch Science 305 1622 1625 15308767 1:CAS:528:DC%2BD2cXntlGrsro%3D
12. AL Barabasi ZN Oltvai 2004 Network biology: understanding the cell's functional organization Nat Rev Genet 5 101 113 14735121 1:CAS:528: DC%2BD2cXovV2mtg%3D%3D
13. S Basu Y Gerchman CH Collins FH Arnold R Weiss 2005 A synthetic multicellular system for programmed pattern formation Nature 434 1130 1134 15858574 1:CAS:528:DC%2BD2MXjsF2ltLo%3D
14. J Baumgardner K Acker O Adefuye ST Crowley W Deloache, et al. 2009 Solving a Hamiltonian Path Problem with a bacterial computer J Biol Eng 3 11 19630940
15. A Becskei L Serrano 2000 Engineering stability in gene networks by autoregulation Nature 405 590 593 10850721 1:STN:280:DC%2BD3czgs1yqtg%3D%3D
16. Ben-Jacob E, Levine H (2005) Self-engineering capabilities of bacteria. J R Soc Interface. doi: 10.1098/rsif.2005.0089
17. Ben-Jacob E, Shapira Y (2004) Meaning-based natural intelligence vs. information-based artificial intelligence. In: Ben-Nun H (ed) The cradle of creativity. Shaarei Tzedek, Jerusalem
18. E Ben-Jacob I Becker Y Shapira H Levine 2004 Bacterial linguistic communication and social intelligence Trends Microbiol 12 366 372 15276612
19. Y Benenson B Gil U Ben-Dor R Adar E Shapiro 2004 An autonomous molecular computer for logical control of gene expression Nature 429 423 429 15116117 1:CAS:528:DC%2BD2cXkt1OnsL8%3D
20. E Ben-Jacob 2003 Bacterial self-organization: co-enhancement of complexification and adaptability in a dynamic environment Philos Trans A Math Phys Eng Sci 361 1283 1312
21. Bonabeau E, Dorigo M, Theraulaz G (1999) Swarm intelligence. Oxford University Press, Oxford, p 320
22. IR Booth 2002 Stress and the single cell: intrapopulation diversity is a mechanism to ensure survival upon exposure to stress Int J Food Microbiol 78 19 30 12222634
23. D Bray 1990 Intracellular signalling as a parallel distributed process J Theor Biol 143 215 231 2385105 1:CAS:528:DyaK3cXktlKksbc%3D
24. T Bulter SG Lee WW Wong E Fung MR Connor, et al. 2004 Design of artificial cell-cell communication using gene and metabolic networks Proc Natl Acad Sci USA 101 2299 2304 14983004 1:CAS:528:DC%2BD2cXhvVOis7o%3D
25. JE Cabrera DJ Jin 2003 The distribution of RNA polymerase in Escherichia coli is dynamic and sensitive to environmental cues Mol Microbiol 50 1493 1505 14651633 1:CAS:528:DC%2BD3sXhtVShtbzE
26. A Carbone NC Seeman 2002 Circuits and programmable self-assembling DNA structures Proc Natl Acad Sci USA 99 12577 12582 12232051 1:CAS:528: DC%2BD38XnvFGiu7w%3D
27. M Conrad 1995 Scaling of efficiency in programmable and non-programmable systems Biosystems 35 161 166 7488708 1:STN:280:DyaK287htVeiuw%3D%3D
28. S Das UD Lengweiler D Seebach RN Reusch 1997 Proof for a nonproteinaceous calcium-selective channel in Escherichia coli by total synthesis from (R)-3-hydroxybutanoic acid and inorganic phosphate Proc Natl Acad Sci USA 94 9075 9079 9256437 1:CAS:528:DyaK2sXls1Kmu74%3D
29. S Dauphas T Delhaye O Lavastre A Corlu C Guguen-Guillouzo, et al. 2008 Localization and quantitative analysis of antigen-antibody binding on 2D substrate using imaging NanoSIMS Anal Chem 80 5958 5962 18578503 1:CAS:528:DC%2BD1cXnslegs7w%3D
30. VA de Crecy-Lagard J Bellalou R Mutzel P Marliere 2001 Long term adaptation of a microbial population to a permanent metabolic constraint: overcoming thymineless death by experimental evolution of Escherichia coli BMC Biotechnol 1 10 11737878
31. TB Demarse DA Wagenaar AW Blau SM Potter 2001 The neurally controlled Animat: biological brains acting with simulated bodies Auton Robots 11 305 310 18584059
32. PJ Denning DE Comer D Gries MC Mulder A Tucker, et al. 1989 Computing as a discipline Commun ACM 32 9 23
33. RH Doi A Kosugi 2004 Cellulosomes: plant-cell-wall-degrading enzyme complexes Nat Rev Microbiol 4 541 551
34. Edelman G (1987) Neural Darwinism. The theory of neuronal group selection. Basic Books, New York
35. MB Elowitz AJ Levine ED Siggia PS Swain 2002 Stochastic gene expression in a single cell Science 297 1183 1186 12183631 1:CAS:528:DC%2BD38XmsVOht7c%3D
36. GS Engel TR Calhoun EL Read TK Ahn T Mancal, et al. 2007 Evidence for wavelike energy transfer through quantum coherence in photosynthetic systems Nature 446 782 786 17429397 1:CAS:528:DC%2BD2sXktVeqt78%3D
37. WR Farmer JC Liao 2000 Improving lycopene production in Escherichia coli by engineering metabolic control Nat Biotechnol 18 533 537 10802621 1:CAS:528:DC%2BD3cXjsVKjsLg%3D
38. H Fröhlich 1978 Coherent electric vibrations in biological systems and the cancer problem IEEE Trans Microw Theory Tech MTT-S 26 613 617
39. TS Gardner CR Cantor JJ Collins 2000 Construction of a genetic toggle switch in Escherichia coli Nature 403 339 342 10659857 1:CAS:528: DC%2BD3cXns1Crtw%3D%3D
40. Garey MR, Johnson DS (1979) Computers and intractability: a guide to the theory of NP-completeness. Freeman W.H., New York
41. R Gil FJ Silva J Pereto A Moya 2004 Determination of the core of a minimal bacterial gene set Microbiol Mol Biol Rev 68 518 537 15353568 1:CAS:528:DC%2BD2cXosVyhtb4%3D
42. C Grangeasse AJ Cozzone J Deutscher I Mijakovic 2007 Tyrosine phosphorylation: an emerging regulatory device of bacterial physiology Trends Biochem Sci 32 86 94 17208443 1:CAS:528:DC%2BD2sXhs1Snu70%3D
43. LK Grover 1997 Quantum mechanics helps in searching for a needle in a haystack Phys Rev Lett 79 325 328 1:CAS:528:DyaK2sXks1Gkur0%3D
44. JL Guerquin-Kern TD Wu C Quintana A Croisy 2005 Progress in analytical imaging of the cell by dynamic secondary ion mass spectrometry (SIMS microscopy) Biochim Biophys Acta 1724 228 238 15982822 1:CAS:528:DC%2BD2MXntVGjt7o%3D
45. EC Guzman JL Caballero A Jimenez-Sanchez 2002 Ribonucleoside diphosphate reductase is a component of the replication hyperstructure in Escherichia coli Mol Microbiol 43 487 495 11985724 1:CAS:528:DC%2BD38XhtlajsLc%3D
46. Haken H (1983) Synergetics, an introduction: Nonequilibrium phase transitions and self-organization in physics, chemistry and biology. Springer, Berlin
47. M Hashimoto T Ichimura H Mizoguchi K Tanaka K Fujimitsu, et al. 2005 Cell size and nucleoid organization of engineered Escherichia coli cells with a reduced genome Mol Microbiol 55 137 149 15612923 1:CAS:528: DC%2BD2MXotlSrtw%3D%3D
48. A Hunding F Kepes D Lancet A Minsky V Norris, et al. 2006 Compositional complementarity and prebiotic ecology in the origin of life BioEssays 28 399 412 16547956 1:CAS:528:DC%2BD28XktVGrs7c%3D
49. DE Ingber 1998 The architecture of life Sci Am 278 30 39
50. Y Ishihama T Schmidt J Rappsilber M Mann FU Hartl, et al. 2008 Protein abundance profiling of the Escherichia coli cytosol BMC Genomics 9 102 18304323
51. L Janniere D Canceill C Suski S Kanga B Dalmais, et al. 2007 Genetic evidence for a link between glycolysis and DNA replication PLoS ONE 2 e447 17505547
52. Ji S (2009) Molecular theories of the living cell: conceptual foundations molecular mechanisms and applications. Springer, New York
53. J Jost N Bertschinger E Olbrich 2010 Emergence. A dynamical systems approach New Ideas Psychol 28 265 273
54. Kauffman S (1996) At home in the Universe the search for the laws of complexity. Penguin, London, pp 1-321
55. Kelso JAS (2008) Synergies: atoms of brain and behavior. In: Sternad D (ed) A multidisciplinary approach to motor control. Springer, Heidelberg
56. K Kobayashi SD Ehrlich A Albertini G Amati KK Andersen, et al. 2003 Essential Bacillus subtilis genes Proc Natl Acad Sci USA 100 4678 4683 12682299 1:CAS:528:DC%2BD3sXjt12ns7o%3D
57. I Kolodkin-Gal R Hazan A Gaathon S Carmeli H Engelberg-Kulka 2007 A linear pentapeptide is a quorum-sensing factor required for mazEF-mediated cell death in Escherichia coli Science 318 652 655 17962566 1:CAS:528: DC%2BD2sXhtF2rsbfJ
58. Y Kozlovsky I Cohen I Golding E Ben-Jacob 1999 Lubricating bacteria model for branching growth of bacterial colonies Phys Rev E 59 7025 7035 1:CAS:528:DyaK1MXjslSgtbY%3D
59. MT Laub M Goulian 2007 Specificity in two-component signal transduction pathways Annu Rev Genet 41 121 145 18076326 1:CAS:528:DC%2BD1cXns1SjsQ%3D%3D
60. MT Laub HH McAdams T Feldblyum CM Fraser L Shapiro 2000 Global analysis of the genetic network controlling a bacterial cell cycle Science 290 2144 2148 11118148 1:CAS:528:DC%2BD3cXptVyisb4%3D
61. C Lechene F Hillion G McMahon D Benson AM Kleinfeld, et al. 2006 High-resolution quantitative imaging of mammalian and bacterial cells using stable isotope mass spectrometry J Biol 5 20 17010211
62. G Legent A Delaune V Norris A Delcorte D Gibouin, et al. 2008 Method for macromolecular colocalization using atomic recombination in dynamics SIMS J Phys Chem B 112 5534 5546 18399679 1:CAS:528:DC%2BD1cXksVSgsrg%3D
63. S Levin-Zaidman D Frenkiel-Krispin E Shimoni I Sabanay SG Wolf, et al. 2000 Ordered intracellular RecA-DNA assemblies: a potential site of in vivo RecA-mediated activities Proc Natl Acad Sci USA 97 6791 6796 10829063 1:CAS:528:DC%2BD3cXktFaiu70%3D
64. PM Llopis AF Jackson O Sliusarenko I Surovtsev J Heinritz, et al. 2010 Spatial organization of the flow of genetic information in bacteria Nature 466 77 81 1:CAS:528:DC%2BC3cXns1GjtLo%3D
65. D Lopez R Kolter 2010 Functional microdomains in bacterial membranes Genes Dev 24 1893 1902 20713508 1:CAS:528:DC%2BC3cXhtFylu7zL
66. D Lopez H Vlamakis R Kolter 2009 Generation of multiple cell types in Bacillus subtilis FEMS Microbiol Rev 33 152 163 19054118 1:CAS:528: DC%2BD1MXmtlKjsg%3D%3D
67. PL Luisi F Ferri P Stano 2006 Approaches to semi-synthetic minimal cells: a review Naturwissenschaften 93 1 13 16292523 1:CAS:528:DC%2BD28Xnt1Ciuw%3D%3D
68. I Matic F Taddei M Radman 2004 Survival versus maintenance of genetic stability: a conflict of priorities during stress Res Microbiol 155 337 341 15207865 1:CAS:528:DC%2BD2cXltVCqtLc%3D
69. M Matsuhashi AN Pankrushina K Endoh H Watanabe H Ohshima, et al. 1996 Bacillus carboniphilus cells respond to growth-promoting physical signals from cells of homologous and heterologous bacteria J Gen Appl Microbiol 42 315 323 1:CAS:528:DyaK28Xmt1ShtLg%3D
70. M Matsuhashi AN Pankrushina S Takeuchi H Ohshima H Miyoi, et al. 1998 Production of sound waves by bacterial cells and the response of bacterial cells to sound J Gen Appl Microbiol 44 49 55 12501293 1:CAS:528:DyaK1cXjt1Klu7o%3D
71. MB Miller BL Bassler 2001 Quorum sensing in bacteria Annu Rev Microbiol 55 165 199 11544353 1:CAS:528:DC%2BD3MXnslKjt70%3D
72. A Minsky E Shimoni D Frenkiel-Krispin 2002 Stress, order and survival Nat Rev Mol Cell Biol 3 50 60 11823798 1:CAS:528:DC%2BD38XhtFGmsbg%3D
73. F Molina K Skarstad 2004 Replication fork and SeqA focus distributions in Escherichia coli suggest a replication hyperstructure dependent on nucleotide metabolism Mol Microbiol 52 1597 1612 15186411 1:CAS:528:DC%2BD2cXlsVOgu7k%3D
74. AR Mushegian EV Koonin 1996 A minimal gene set for cellular life derived by comparison of complete bacterial genomes Proc Natl Acad Sci USA 93 10268 10273 8816789 1:CAS:528:DyaK28XlslGktb0%3D
75. A Nakabachi A Yamashita H Toh H Ishikawa HE Dunbar, et al. 2006 The 160-kilobase genome of the bacterial endosymbiont carsonella Science 314 267 17038615 1:CAS:528:DC%2BD28XhtV2qu77M
76. V Noireaux A Libchaber 2004 A vesicle bioreactor as a step toward an artificial cell assembly Proc Natl Acad Sci USA 101 17669 17674 15591347 1:CAS:528:DC%2BD2MXjtVShtw%3D%3D
77. V Noireaux R Bar-Ziv J Godefroy H Salman A Libchaber 2005 Toward an artificial cell based on gene expression in vesicles Phys Biol 2 P1 P8 16224117 1:CAS:528:DC%2BD2MXht1Wms7%2FF
78. Norris V (1998a) Bacteria as tools for studies of consciousness. In: Hameroff S, Kaszniak A, Scott A (eds) Toward a science of consciousness II: the second Tucson discussions and debates. MIT Press, Cambridge, pp 397-405
79. V Norris 1998 Modelling E. coli: the concept of competitive coherence Comptes Rendus de l'Academie des Sciences 321 777 787 9809206 1:STN:280:DyaK1M%2Fis1Ogtg%3D%3D
80. V Norris 2005 Poly-(R)-3-hydroxybutyrate and the pioneering work of Rosetta Natoli Reusch Cell Mol Biol (Noisy-le-grand) 51 629 634 1:CAS:528:DC%2BD2MXhtlCitLjI
81. V Norris GJ Hyland 1997 Do bacteria "sing"? Mol Microbiol 24 879 880 9194714 1:CAS:528:DyaK2sXjvFahsr8%3D
82. V Norris MS Madsen 1995 Autocatalytic gene expression occurs via transertion and membrane domain formation and underlies differentiation in bacteria: a model J Mol Biol 253 739 748 7473748 1:CAS:528:DyaK2MXpsFOgsbc%3D
83. V Norris DJ Raine 1998 A fission-fusion origin for life Origins Life Evol Biosph 28 523 537 1:CAS:528:DyaK1cXmtVWnsb0%3D
84. V Norris P Amar G Bernot A Delaune C Derue, et al. 2004 Questions for cell cyclists J Biol Phys Chem 4 124 130 1:CAS:528:DC%2BD2cXhtVGgtL%2FJ
85. V Norris A Cabin A Zemirline 2005 Hypercomplexity Acta Biotheor 53 313 330 16583272
86. Norris V, Janniere L, Amar P (2007) Hypothesis: variations in the rate of DNA replication determine the phenotype of daughter cells. In: Amar P, Képès F, Norris V, Bernot G (eds) EDP sciences. Genopole, Evry, pp 71-81
87. RP Novick E Geisinger 2008 Quorum sensing in Staphylococci Annu Rev Genet 42 541 564 18713030 1:CAS:528:DC%2BD1cXhsFemtbvN
88. T Onoda J Enokizono H Kaya A Oshima P Freestone, et al. 2000 Effects of calcium and calcium chelators on growth and morphology of Escherichia coli L-form NC-7 J Bacteriol 182 1419 1422 10671467 1:CAS:528:DC%2BD3cXhtF2lu7w%3D
89. EM Ozbudak M Thattai HN Lim BI Shraiman A van Oudenaarden 2004 Multistability in the lactose utilization network of Escherichia coli Nature 427 737 740 14973486 1:CAS:528:DC%2BD2cXhtlajsrw%3D
90. Z Palkova 2004 Multicellular microorganisms: laboratory versus nature EMBO Rep 5 470 476 15184977 1:CAS:528:DC%2BD2cXks1Cmu7s%3D
91. R Palmen B Vosman P Buijsman CK Breek KJ Hellingwerf 1993 Physiological characterization of natural transformation in Acinetobacter calcoaceticus J Gen Microbiol 139 295 305 8436948 1:CAS:528:DyaK3sXkt1Cntr8%3D
92. S Park PM Wolanin EA Yuzbashyan H Lin NC Darnton, et al. 2003 Influence of topology on bacterial social interaction Proc Natl Acad Sci USA 100 13910 13915 14623970 1:CAS:528:DC%2BD3sXpsFGisLc%3D
93. S Park PM Wolanin EA Yuzbashyan P Silberzan JB Stock, et al. 2003 Motion to form a quorum Science 301 188 12855801 1:CAS:528:DC%2BD3sXlsFOmtrw%3D
94. JO Pfaffmann M Conrad 2000 Adaptive information processing in microtubule networks Biosystems 55 47 57 10745108 1:CAS:528:DC%2BD3cXitVSrsrg%3D
95. G Posfai G Plunkett III T Feher D Frisch GM Keil, et al. 2006 Emergent properties of reduced-genome Escherichia coli Science 312 1044 1046 16645050 1:CAS:528:DC%2BD28Xks1Wqtbc%3D
96. C Possoz SR Filipe I Grainge DJ Sherratt 2006 Tracking of controlled Escherichia coli replication fork stalling and restart at repressor-bound DNA in vivo EMBO J 25 2596 2604 16724111 1:CAS:528:DC%2BD28XltlGks7w%3D
97. EM Rauch Y Bar-Yam 2004 Theory predicts the uneven distribution of genetic diversity within species Nature 431 449 452 15386012 1:CAS:528:DC%2BD2cXnslemu7o%3D
98. C Ripoll V Norris M Thellier 2004 Ion condensation and signal transduction BioEssays 26 549 557 15112235 1:CAS:528:DC%2BD2cXksFWqsrk%3D
99. E Rocha J Fralick G Vediyappan A Danchin V Norris 2003 A strand-specific model for chromosome segregation in bacteria Mol Microbiol 49 895 903 12890016 1:CAS:528:DC%2BD3sXmslKltL4%3D
100. PW Rothemund N Papadakis E Winfree 2004 Algorithmic self-assembly of DNA Sierpinski triangles PLoS Biol 2 e424 15583715
101. K Sato Y Ito T Yomo K Kaneko 2003 On the relation between fluctuation and response in biological systems Proc Natl Acad Sci USA 100 14086 14090 14615583 1:CAS:528:DC%2BD3sXpsFGit7c%3D
102. RA Siddiqui C Hoischen O Holst I Heinze B Schlott, et al. 2006 The analysis of cell division and cell wall synthesis genes reveals mutationally inactivated ftsQ and mraY in a protoplast-type L-form of Escherichia coli FEMS Microbiol Lett 258 305 311 16640589 1:CAS:528:DC%2BD28XltV2js74%3D
103. G Skretas DW Wood 2005 A bacterial biosensor of endocrine modulators J Mol Biol 349 464 474 15878176 1:CAS:528:DC%2BD2MXkt1aks74%3D
104. JW Szostak DP Bartel PL Luisi 2001 Synthesizing life Nature 409 387 390 11201752 1:CAS:528:DC%2BD3MXmslSjtw%3D%3D
105. M Thellier G Legent P Amar V Norris C Ripoll 2006 Steady-state kinetic behaviour of functioning-dependent structures FEBS J 273 4287 4299 16939622 1:CAS:528:DC%2BD28Xht1yqsrvJ
106. R Thomas 1980 On the relation between the logical structure of systems and their ability to generate multiple steady states or sustained oscillations Ser Synerg 9 180 193
107. T Tolker-Nielsen K Holmstrom L Boe S Molin 1998 Non-genetic population heterogeneity studied by in situ polymerase chain reaction Mol Microbiol 27 1099 1105 9570396 1:CAS:528:DyaK1cXit1ers7c%3D
108. Tsuda S, Zauner K-P, Gunji Y-P (2006) Robot control: from silicon circuitry to cells. In: Ijspeert AJ, Masuzawa T, Kusumoto S (eds) BioADIT 2006. Lecture Notes in Computer Science. Springer, Heidelberg, pp 20-32
109. Van Regenmortel MHV (2004) Emergence in biology. In: Amar P, Comet J-P, Kepes F, Norris V (eds) Modelling and simulation of biological processes in the context of genomics. Genopole, Evry, pp 123-132
110. J Vohradsky JJ Ramsden 2001 Genome resource utilization during prokaryotic development FASEB J 15 2054 2056 11511523 1:CAS:528: DC%2BD3MXntlGrt74%3D
111. ME Wall WS Hlavacek MA Savageau 2004 Design of gene circuits: lessons from bacteria Nat Rev Genet 5 34 42 14708014 1:CAS:528:DC%2BD2cXht1yqtg%3D%3D
112. Q Wang A Suzuki S Mariconda S Porwollik RM Harshey 2005 Sensing wetness: a new role for the bacterial flagellum EMBO J 24 2034 2042 15889148 1:CAS:528:DC%2BD2MXks1Gnu78%3D
113. JD Wang GM Sanders AD Grossman 2007 Nutritional control of elongation of DNA replication by (p)ppGpp Cell 128 865 875 17350574 1:CAS:528: DC%2BD2sXjvVSgu7o%3D
114. L You Cox RSr R Weiss FH Arnold 2004 Programmed population control by cell-cell communication and regulated killing Nature 428 868 871 15064770 1:CAS:528:DC%2BD2cXjt1CrtL8%3D
115. W Yu K Sato M Wakabayashi T Nakaishi EP Ko-Mitamura, et al. 2001 Synthesis of functional protein in liposome J Biosci Bioeng 92 590 593 16233152 1:CAS:528:DC%2BD38XhsFCntr0%3D
116. Zemirline A, Norris V (2007) Non-separability, multiple interactions and hypercomplexity. In: Amar P, Kepes F, Norris V, Bernot G (eds) EDP sciences. Evry, France, pp 99-102
117. MA Zimmer H Szurmant MM Saulmon MA Collins JS Bant, et al. 2002 The role of heterologous receptors in McpB-mediated signalling in Bacillus subtilis chemotaxis Mol Microbiol 45 555 568 12123464 1:CAS:528:DC%2BD38XmtVehsLc%3D