Advertisement

Systematic Design of a Quorum Sensing-Based Biosensor for the Detection of Metal Ions in Escherichia coli

  • Bor-Sen ChenEmail author
Living reference work entry

Abstract

With the recent industrial expansion, heavy metals and other pollutants have increasingly contaminated our living surroundings. The non-degradability of heavy metals may lead to accumulation in food chains, and the resulting toxicity could cause damage in organisms. Hence, detection techniques have gradually received attention. In this study, a quorum sensing (QS)-based amplifier is introduced to improve the detection performance of metal ion biosensing. The design utilizes diffusible signal molecules, which freely pass through the cell membrane into the environment to communicate with others. Bacteria cooperate via the cell-cell communication process, thereby displaying synchronous behavior, even if only a minority of the cells detect the metal ion. In order to facilitate the design, the ability of the engineered biosensor to detect metal ions is described in a steady-state model. The design can be constructed according to user-oriented specifications by selecting adequate components from corresponding libraries, with the help of a genetic algorithm (GA)-based design method. The experimental results validate enhanced efficiency and detection performance of the quorum sensing-based biosensor of metal ions.

References

  1. Achtman M, Suerbaum S (2001) Helicobacter pylori: molecular and cellular biology. Horizon Scientific, WymondhamGoogle Scholar
  2. Alon U (2007) An introduction to systems biology: Design principles of biological circuits. Chapman & Hall/CRC Press, Boca RatonGoogle Scholar
  3. National Technical Information Service (1980) Ambient water quality criteria for copper. National Technical Information Service, Washington, DC/SpringfieldGoogle Scholar
  4. Bondarczuk K, Piotrowska-Seget Z (2013) Molecular basis of active copper resistance mechanisms in gram-negative bacteria. Cell Biol Toxicol 29:397–405CrossRefGoogle Scholar
  5. Borremans B, Hobman JL, Provoost A, Brown NL, van Der Lelie D (2001) Cloning and functional analysis of the PBR lead resistance determinant of Ralstonia metallidurans CH34. J Bacteriol 183:5651–5658CrossRefGoogle Scholar
  6. Brint JM, Ohman DE (1995) Synthesis of multiple exoproducts in Pseudomonas aeruginosa is under the control of RhlR-RhlI, another set of regulators in strain PAO1 with homology to the autoinducer-responsive LuxR-LuxI family. J Bacteriol 177:7155–7163CrossRefGoogle Scholar
  7. Brown NL, Stoyanov JV, Kidd SP, Hobman JL (2003) The MerR family of transcriptional regulators. FEMS Microbiol Rev 27:145–163CrossRefGoogle Scholar
  8. Cameron DE, Bashor CJ, Collins JJ (2014) A brief history of synthetic biology. Nat Rev Microbiol 12:381–390CrossRefGoogle Scholar
  9. Chang YC, Lin CL, Jennawasin T (2013) Design of synthetic genetic oscillators using evolutionary optimization. Evol Bioinform 9:137CrossRefGoogle Scholar
  10. Chen BS, Wang YC (2006) On the attenuation and amplification of molecular noise in genetic regulatory networks. BMC Bioinform 7:52CrossRefGoogle Scholar
  11. Chen B-S, Wang Y-C (2014) Synthetic gene network: modeling, analysis, robust design methods. CRC Press, Boca RatonCrossRefGoogle Scholar
  12. Chen BS, Cheng YM, Lee CH (1995) A genetic approach to mixed H-2/H-infinity optimal pid control. IEEE Control Syst Mag 15:51–60CrossRefGoogle Scholar
  13. Danino T, Mondragon-Palomino O, Tsimring L, Hasty J (2010) A synchronized quorum of genetic clocks. Nature 463:326–330CrossRefGoogle Scholar
  14. Darch SE, West SA, Winzer K, Diggle SP (2012) Density-dependent fitness benefits in quorum-sensing bacterial populations. Proc Natl Acad Sci U S A 109:8259–8263CrossRefGoogle Scholar
  15. Davies MJ (2005) The oxidative environment and protein damage. Biochim Biophys Acta-Protein Proteom 1703:93–109CrossRefGoogle Scholar
  16. Dunlap PV, Kuo A (1992) Cell density-dependent modulation of the Vibrio-fischeri luminescence system in the absence of autoinducer and luxr protein. J Bacteriol 174:2440–2448CrossRefGoogle Scholar
  17. Engebrecht J, Silverman M (1984) Identification of genes and gene-products necessary for bacterial bioluminescence. Proc Natl Acad Sci USA Biol Sci 81:4154–4158CrossRefGoogle Scholar
  18. Franke S, Grass G, Rensing C, Nies DH (2003) Molecular analysis of the copper-transporting efflux system CusCFBA of Escherichia coli. J Bacteriol 185:3804–3812CrossRefGoogle Scholar
  19. Fuqua WC, Winans SC, Greenberg EP (1994) Quorum sensing in bacteria – the luxr-luxi family of cell density-responsive transcriptional regulators. J Bacteriol 176:269–275CrossRefGoogle Scholar
  20. Hanzelka BL, Greenberg EP (1996) Quorum sensing in Vibrio fischeri: evidence that S-adenosylmethionine is the amino acid substrate for autoinducer synthesis. J Bacteriol 178:5291–5294CrossRefGoogle Scholar
  21. Hartwig A (1995) Current aspects in metal genotoxicity. BioMetals 8:3–11CrossRefGoogle Scholar
  22. He J, Chen JP (2014) A comprehensive review on biosorption of heavy metals by algal biomass: materials, performances, chemistry, modeling simulation tools. Bioresour Technol 160:67–78CrossRefGoogle Scholar
  23. Hobman JL, Julian DJ, Brown NL (2012) Cysteine coordination of Pb(II) is involved in the PbrR-dependent activation of the lead-resistance promoter, PpbrA, from Cupriavidus metallidurans CH34. BMC Microbiol 12:109CrossRefGoogle Scholar
  24. Kaplan HB, Greenberg EP (1985) Diffusion of autoinducer is involved in regulation of the Vibrio-fischeri luminescence system. J Bacteriol 163:1210–1214PubMedPubMedCentralGoogle Scholar
  25. Khalil AS, Collins JJ (2010) Synthetic biology: applications come of age. Nat Rev Genet 11:367–379CrossRefGoogle Scholar
  26. Kotula JW, Kerns SJ, Shaket LA, Siraj L, Collins JJ, Way JC et al (2014) Programmable bacteria detect and record an environmental signal in the mammalian gut. Proc Natl Acad Sci U S A 111:4838–4843CrossRefGoogle Scholar
  27. Kyung Hyuk K, Kiri C, Bartley B, Sauro HM (2015) Controlling E. coli gene expression noise. IEEE Trans Biomed Circuits Syst 9(4):497–504CrossRefGoogle Scholar
  28. Lee SM, Grass G, Rensing C, Barrett SR, Yates CJD, Stoyanov JV et al (2002) The PCO proteins are involved in periplasmic copper handling in Escherichia coli. Biochem Biophys Res Commun 295:616–620CrossRefGoogle Scholar
  29. Migaszewski ZM, Galuszka A (2015) The characteristics, occurrence, geochemical behavior of rare earth elements in the environment: a review. Crit Rev Environ Sci Technol 45:429–471CrossRefGoogle Scholar
  30. Miller MB, Bassler BL (2001) Quorum sensing in bacteria. Annu Rev Microbiol 55:165–199CrossRefGoogle Scholar
  31. Mulligan CN, Yong RN, Gibbs BF (2001) Remediation technologies for metal-contaminated soils and groundwater: an evaluation. Eng Geol 60:193–207CrossRefGoogle Scholar
  32. Munson GP, Lam DL, Outten FW, O’Halloran TV (2000) Identification of a copper-responsive two-component system on the chromosome of Escherichia coli K-12. J Bacteriol 182:5864–5871CrossRefGoogle Scholar
  33. Nealson KH, Hastings JW (1979) Bacterial bioluminescence: its control and ecological significance. Microbiol Rev 43:496–518PubMedPubMedCentralGoogle Scholar
  34. Ngah WSW, Hanafiah MAKM (2008) Removal of heavy metal ions from wastewater by chemically modified plant wastes as adsorbents: a review. Bioresour Technol 99:3935–3948CrossRefGoogle Scholar
  35. Passador L, Cook JM, Gambello MJ, Rust L, Iglewski BH (1993) Expression of Pseudomonas aeruginosa virulence genes requires cell-to-cell communication. Science 260:1127–1130CrossRefGoogle Scholar
  36. Pearson JP, Passador L, Iglewski BH, Greenberg EP (1995) A second N-acylhomoserine lactone signal produced by Pseudomonas aeruginosa. Proc Natl Acad Sci U S A 92:1490–1494CrossRefGoogle Scholar
  37. Raha S, Robinson BH (2000) Mitochondria, oxygen free radicals, disease and ageing. Trends Biochem Sci 25:502–508CrossRefGoogle Scholar
  38. Ravikumar S, Ganesh I, Yoo IK, Hong SH (2012) Construction of a bacterial biosensor for zinc and copper and its application to the development of multifunctional heavy metal adsorption bacteria. Process Biochem 47:758–765CrossRefGoogle Scholar
  39. Rezvani-Boroujeni A, Javanbakht M, Karimi M, Shahrjerdi C, Akbari-adergani B (2015) Immoblization of thiol-functionalized nanosilica on the surface of poly(ether sulfone) membranes for the removal of heavy-metal ions from industrial wastewater samples. Ind Eng Chem Res 54:502–513CrossRefGoogle Scholar
  40. Rouch DA, Brown NL (1997) Copper-inducible transcriptional regulation at two promoters in the Escherichia coli copper resistance determinant pco. Microbiology 143:1191–1202CrossRefGoogle Scholar
  41. Ruby EG (1996) Lesson from a cooperative, bacteria-animal association: The Vibrio fischeri- Euprymna scolopes light organ symbiosis. Annu Rev Microbiol 50:591–624CrossRefGoogle Scholar
  42. Ruby EG, Mcfallngai MJ (1992) A squid that glows in the night – development of an animal-bacterial mutualism. J Bacteriol 174:4865–4870CrossRefGoogle Scholar
  43. Ruby EG, Nealson KH (1976) Symbiotic association of Photobacterium fischeri with the marine luminous fish Monocentris japonica; a model of symbiosis based on bacterial studies. Biol Bull 151:574–586CrossRefGoogle Scholar
  44. Silva-Rocha R, de Lorenzo V (2014) Engineering multicellular logic in bacteria with metabolic wires. ACS Synth Biol 3:204–209CrossRefGoogle Scholar
  45. Singha AS, Guleria A (2014) Chemical modification of cellulosic biopolymer and its use in removal of heavy metal ions from wastewater. Int J Biol Macromol 67:409–417CrossRefGoogle Scholar
  46. Sohka T, Heins RA, Phelan RM, Greisler JM, Townsend CA, Ostermeier M (2009) An externally tunable bacterial band-pass filter. Proc Natl Acad Sci USA 106:10135–10140CrossRefGoogle Scholar
  47. Soltani M, Vargas-Garcia CA, Singh A (2015) Conditional moment closure schemes for studying stochastic dynamics of genetic circuits. IEEE Trans Biomed Circuits Syst 9(4):518–526CrossRefGoogle Scholar
  48. Stricker J, Cookson S, Bennett MR, Mather WH, Tsimring LS, Hasty J (2008) A fast, robust and tunable synthetic gene oscillator. Nature 456:516–U39CrossRefGoogle Scholar
  49. Taghavi S, Mergeay M, Nies D, Vanderlelie D (1997) Alcaligenes eutrophus as a model system for bacterial interactions with heavy metals in the environment. Res Microbiol 148:536–551CrossRefGoogle Scholar
  50. Teo JJY, Sung Sik W, Sarpeshkar R (2015) Synthetic biology: a unifying view and review using analog circuits. IEEE Trans Biomed Circuits Syst 9(4):453–474CrossRefGoogle Scholar
  51. Teodosiu C, Wenkert R, Tofan L, Paduraru C (2014) Advances in preconcentration/removal of environmentally relevant heavy metal ions from water and wastewater by sorbents based on polyurethane foam. Rev Chem Eng 30:403–420CrossRefGoogle Scholar
  52. Tetaz TJ, Luke RK (1983) Plasmid-controlled resistance to copper in Escherichia coli. J Bacteriol 154(Jun):1263–1268PubMedPubMedCentralGoogle Scholar
  53. Val DL, Cronan JE (1998) In vivo evidence that S-adenosylmethionine and fatty acid synthesis intermediates are the substrates for the luxi family of autoinducer synthases. J Bacteriol 180:2644–2651PubMedPubMedCentralGoogle Scholar
  54. Wang J, Chen C (2009) Biosorbents for heavy metals removal and their future. Biotechnol Adv 27:195–226CrossRefGoogle Scholar
  55. Wang BJ, Kitney RI, Joly N, Buck M (2011) Engineering modular and orthogonal genetic logic gates for robust digital-like synthetic biology. Nat Commun 2:508CrossRefGoogle Scholar

Copyright information

© Springer Nature Switzerland AG 2019

Authors and Affiliations

  1. 1.Department of Electric EngineeringNational Tsing Hua UniversityHsinchuTaiwan

Section editors and affiliations

  • Shimshon Belkin
    • 1
  • Paul Freemont
    • 2
  1. 1.Institute of Life SciencesThe Hebrew University of JerusalemJerusalemIsrael
  2. 2.Faculty of MedicineImperial CollegeLondonUK

Personalised recommendations