Microbial sensor cell arrays

Current Opinion in Biotechnology

Volumn 23, Issue 1, 2012, Pages 2-8

  Melamed, Sahar ^a   Elad, Tal ^a   Belkin, Shimshon ^a  

^a HEBREW UNIVERSITY OF JERUSALEM   (Israel)

Author keywords

[No Author keywords available]

Indexed keywords

ANALYTICAL TOOL; CELL ARRAY; CELL-PATTERNING; DNA MICRO-ARRAY; HIGH-THROUGHPUT ANALYSIS; INNOVATIVE TECHNOLOGY; LIVE CELL; MATHEMATICAL APPROACH; MICROBIAL SENSOR; SINGLE CELLS; SINGLE PLATFORM; SOLID SURFACE;

BIOASSAY; BIOCHIPS; INNOVATION; SENSOR ARRAYS;

CELLS;

POVIDONE;

ANTIGEN ANTIBODY REACTION; BACTERIAL STRAIN; BINDING SITE; BIOAVAILABILITY; BIOCHIP; BIOENGINEERING; BIOLUMINESCENCE; BIOSENSOR; CELL MEMBRANE PERMEABILITY; CELL VIABILITY; CHEMICAL MODIFICATION; COLORIMETRY; DESICCATION; DNA MICROARRAY; ELECTROCHEMISTRY; ELECTROSPRAY; ENCAPSULATION; ESCHERICHIA COLI; GENE INTERACTION; GENOTOXICITY; MATHEMATICAL ANALYSIS; MICROBIOLOGY; MICROFLUIDICS; MICROORGANISM; MUTAGENICITY; NONHUMAN; PIEZOELECTRICITY; PRIORITY JOURNAL; QUANTITATIVE ANALYSIS; REVIEW; SACCHAROMYCES CEREVISIAE;

BACTERIA; BIOSENSING TECHNIQUES; TISSUE ARRAY ANALYSIS;

EID: 84856442159     PISSN: 09581669     EISSN: 18790429     Source Type: Journal    
DOI: 10.1016/j.copbio.2011.11.024     Document Type: Review

References (59)

1. van der Meer J.R., Belkin S. Where microbiology meets microengineering: design and applications of reporter bacteria. Nat Rev Microbiol 2010, 8:511-522.
2. Belkin S., Smulski D.R., Dadon S., Vollmer A.C., Van Dyk T.K., LaRossa R.A. A panel of stress-responsive luminous bacteria for the detection of selected classes of toxicants. Water Res 1997, 31:3009-3016.
3. Elad T., Benovich E., Magrisso S., Belkin S. Toxicant identification by a luminescent bacterial bioreporter panel: application of pattern classification algorithms. Environ Sci Technol 2008, 42:8486-8491.
4. Jouanneau S., Durand M.-J., Courcoux P., Blusseau T., Thouand G. Improvement of the identification of four heavy metals in environmental samples by using predictive decision tree models coupled with a set of five bioluminescent bacteria. Environ Sci Technol 2011, 45:2925-2931.
5. Smolander O.-P., Ribeiro A.S., Yli-Harja O., Karp M. Identification of β-lactam antibiotics using bioluminescent Escherichia coli and a support vector machine classifier algorithm. Sens Actuators B Chem 2009, 141:604-609.
6. Elad T., Lee J.H., Gu M.B., Belkin S. Microbial cell arrays. Adv Biochem Eng Biotechnol 2010, 117:85-108.
7. Belkin S. Microbial whole-cell sensing systems of environmental pollutants. Curr Opin Microbiol 2003, 6:206-212.
8. de las Heras A., Carreño C.A., Martínez-García E., de Lorenzo V. Engineering input/output nodes in prokaryotic regulatory circuits. FEMS Microbiol Rev 2010, 34:842-865.
9. Tropel D., Bähler A., Globig K., van der Meer J.R. Design of new promoters and of a dual bioreporter based on cross activation by the two regulatory proteins XylR and HbpR. Environ Microbiol 2004, 6:1186-1196.
10. Yagur-Kroll S., Bilic B., Belkin S. Strategies for enhancing bioluminescent bacterial sensor performance by promoter region manipulation. Microb Biotechnol 2009, 3:300-310.
11. Yagur-Kroll S., Belkin S. Upgrading bioluminescent bacterial bioreporter performance by splitting the lux operon. Anal Bioanal Chem 2011, 400:1071-1082.
12. Biran A., Ben Yoav H., Yagur-Kroll S., Pedahzur R., Buchinger S., Shacham-Diamand Y., Reifferscheid G., Belkin S. Microbial genotoxicity bioreporters based on sulA activation. Anal Bioanal Chem 2011, 400:3013-3024.
13. Stocker J., Balluch D., Gsell M., Harms H., Feliciano J., Daunert S., Malik K.A., van der Meer J.R. Development of a set of simple bacterial biosensors for quantitative and rapid measurements of arsenite and arsenate in potable water. Environ Sci Technol 2003, 37:4743-4750.
14. Wackwitz A., Harms H., Chatzinotas A., Breuer U., Vogne C., van der Meer J.R. Internal arsenite bioassay calibration using multiple bioreporter cell lines. Microb Biotechnol 2008, 1:149-157.
15. Garmendia J., de las Heras A., Galvão T.C., de Lorenzo V Tracing explosives in soil with transcriptional regulators of Pseudomonas putida evolved for responding to nitrotoluenes. Microb Biotechnol 2008, 1:236-246.
16. Xu L., Robert L., Ouyang Q., Taddei Fo, Chen Y., Lindner A.B., Baigl D. Microcontact printing of living bacteria arrays with cellular resolution. Nano Lett 2007, 7:2068-2072.
17. Weibel D.B., Lee A., Mayer M., Brady S.F., Bruzewicz D., Yang J., DiLuzio W.R., Clardy J., Whitesides G.M. Bacterial printing press that regenerates its ink: contact-printing bacteria using hydrogel stamps. Langmuir 2005, 21:6436-6442.
18. Ingham C., Bomer J., Sprenkels A., van den Berg A., de Vos W., van Hylckama Vlieg J. High-resolution microcontact printing and transfer of massive arrays of microorganisms on planar and compartmentalized nanoporous aluminium oxide. Lab Chip 2010, 10:1410-1416.
19. Merrin J., Leibler S., Chuang J.S. Printing multistrain bacterial patterns with a piezoelectric inkjet printer. PLoS ONE 2007, 2:e663.
20. Zheng Q., Lu J., Chen H., Huang L., Cai J., Xu Z. Application of inkjet printing technique for biological material delivery and antimicrobial assays. Anal Biochem 2011, 410:171-176.
21. Kim K., Lee B.U., Hwang G.B., Lee J.H., Kim S. Drop-on-demand patterning of bacterial cells using pulsed jet electrospraying. Anal Chem 2010, 82:2109-2112.
22. Melamed S., Ceriotti L., Weigel W., Rossi F., Colpo P., Belkin S. A printed nanolitre-scale bacterial sensor array. Lab Chip 2011, 11:139-146.
23. Choi C.-H., Lee J.-H., Hwang T.-S., Lee C.-S., Kim Y.-G., Yang Y.-H., Huh K.M. Preparation of bacteria microarray using selective patterning of polyelectrolyte multilayer and poly(ethylene glycol)-poly(lactide) diblock copolymer. Macromol Res 2010, 18:254-259.
24. Nyamjav D., Rozhok S., Holz R.C. Immobilization of motile bacterial cells via dip-pen nanolithography. Nanotechnology 2010, 21:235105.
25. Hochbaum A.I., Aizenberg J. Bacteria pattern spontaneously on periodic nanostructure arrays. Nano Lett 2010, 10:3717-3721.
26. Suo Z., Avci R., Yang X., Pascual D.W. Efficient immobilization and patterning of live bacterial cells. Langmuir 2008, 24:4161-4167.
27. Charrier T., Chapeau C., Bendria L., Picart P., Daniel P., Thouand G. A multi-channel bioluminescent bacterial biosensor for the on-line detection of metals and toxicity. Part II: technical development and proof of concept of the biosensor. Anal Bioanal Chem 2011, 400:1061-1070.
28. Charrier T., Durand M.-J., Jouanneau S., Dion M., Pernetti M., Poncelet D., Thouand G. A multi-channel bioluminescent bacterial biosensor for the on-line detection of metals and toxicity. Part I: design and optimization of bioluminescent bacterial strains. Anal Bioanal Chem 2011, 400:1051-1060.
29. Mirsaidov U., Scrimgeour J., Timp W., Beck K., Mir M., Matsudaira P., Timp G. Live cell lithography: using optical tweezers to create synthetic tissue. Lab Chip 2008, 8:2174-2181.
30. Roda A., Cevenini L., Michelini E., Branchini B.R. A portable bioluminescence engineered cell-based biosensor for on-site applications. Biosens Bioelectron 2011, 26:3647-3653.
31. Ahn J.-M., Kim J.H., Kim J.H., Gu M.B. Randomly distributed arrays of optically coded functional microbeads for toxicity screening and monitoring. Lab Chip 2010, 10:2695-2701.
32. Ben-Yoav H., Melamed S., Freeman A., Shacham-Diamand Y., Belkin S. Whole-cell biochips for bio-sensing: integration of live cells and inanimate surfaces. Crit Rev Biotechnol 2011, 10.3109/07388551.2010.532767.
33. García-Alonso J., Fakhrullin R., Paunov V., Shen Z., Hardege J., Pamme N., Haswell S., Greenway G. Microscreening toxicity system based on living magnetic yeast and gradient chips. Anal Bioanal Chem 2011, 400:1009-1013.
34. Gou N., Onnis-Hayden A., Gu A.Z. Mechanistic toxicity assessment of nanomaterials by whole-cell-array stress genes expression analysis. Environ Sci Technol 2010, 44:5964-5970.
35. Zhang X., Wiseman S., Yu H., Liu H., Giesy J.P., Hecker M. Assessing the toxicity of naphthenic acids using a microbial genome wide live cell reporter array system. Environ Sci Technol 2011, 45:1984-1991.
36. Tong A.H.Y., Evangelista M., Parsons A.B., Xu H., Bader G.D., Pagé N., Robinson M., Raghibizadeh S., Hogue C.W.V., Bussey H., et al. Systematic genetic analysis with ordered arrays of yeast deletion mutants. Science 2001, 294:2364-2368.
37. Costanzo M., Baryshnikova A., Bellay J., Kim Y., Spear E.D., Sevier C.S., Ding H., Koh J.L.Y., Toufighi K., Mostafavi S., et al. The genetic landscape of a cell. Science 2010, 327:425-431.
38. Typas A., Nichols R.J., Siegele D.A., Shales M., Collins S., Lim B., Braberg H., Yamamoto N., Takeuchi R., Wanner B.L. A tool-kit for high-throughput, quantitative analyses of genetic interactions in E. coli. Nat Methods 2008, 5:781.
39. Bleackley M.R., Young B.P., Loewen C.J.R., MacGillivray RTA High density array screening to identify the genetic requirements for transition metal tolerance in Saccharomyces cerevisiae. Metallomics 2011, 3:195-205.
40. Mesak L.R., Qi S., Villanueva I., Miao V., Davies J. Staphylococcus aureus promoter-lux reporters for drug discovery. J Antibiot 2010, 63:492-498.
41. Bjerketorp J., Håkansson S., Belkin S., Jansson J.K. Advances in preservation methods: keeping biosensor microorganisms alive and active. Curr Opin Biotechnol 2006, 17:43-49.
42. Kempf B., Bremer E Uptake and synthesis of compatible solutes as microbial stress responses to high-osmolality environments. Arch Microbiol 1998, 170:319-330.
43. Kuppardt A., Chatzinotas A., Breuer U., van der Meer J., Harms H. Optimization of preservation conditions of As (III) bioreporter bacteria. Appl Microbiol Biotechnol 2009, 82:785-792.
44. Date A., Pasini P., Daunert S. Fluorescent and bioluminescent cell-based sensors: strategies for their preservation. Adv Biochem Eng Biotechnol 2010, 117:57-75.
45. Statnikov A., Aliferis C.F., Tsamardinos I., Hardin D., Levy S. A comprehensive evaluation of multicategory classification methods for microarray gene expression cancer diagnosis. Bioinformatics 2005, 21:631-643.
46. Onnis-Hayden A., Weng H., He M., Hansen S., Ilyin V., Lewis K., Gu A.Z. Prokaryotic real-time gene expression profiling for toxicity assessment. Environ Sci Technol 2009, 43:4574-4581.
47. Zaslaver A., Kaplan S., Bren A., Jinich A., Mayo A., Dekel E., Alon U., Itzkovitz S. Invariant distribution of promoter activities in Escherichia coli. PLoS Comput Biol 2009, 5:e1000545.
48. Schmid A., Kortmann H., Dittrich P.S., Blank L.M. Chemical and biological single cell analysis. Curr Opin Biotechnol 2010, 21:12-20.
49. Schmitz C.H.J., Rowat A.C., Koster S., Weitz D.A. Dropspots: a picoliter array in a microfluidic device. Lab Chip 2009, 9:44-49.
50. Shim J-u., Olguin L.F., Whyte G., Scott D., Babtie A., Abell C., Huck W.T.S., Hollfelder F. Simultaneous determination of gene expression and enzymatic activity in individual bacterial cells in microdroplet compartments. J Am Chem Soc 2009, 131:15251-15256.
51. Biran I., Rissin D.M., Ron E.Z., Walt D.R. Optical imaging fiber-based live bacterial cell array biosensor. Anal Biochem 2003, 315:106-113.
52. Park M.C., Hur J.Y., Cho H.S., Park S.-H., Suh K.Y. High-throughput single-cell quantification using simple microwell-based cell docking and programmable time-course live-cell imaging. Lab Chip 2011, 11:79-86.
53. Ryley J., Pereira-Smith O.M. Microfluidics device for single cell gene expression analysis in Saccharomyces cerevisiae. Yeast 2006, 23:1065-1073.
54. Walling M.A., Shepard J.R.E. Cellular heterogeneity and live cell arrays. Chem Soc Rev 2011, 40:4049-4076.
55. Boedicker J.Q., Vincent M.E., Ismagilov R.F. Microfluidic confinement of single cells of bacteria in small volumes initiates high density behavior of quorum sensing and growth and reveals its variability. Angew Chem Int Ed Engl 2009, 48:5908-5911.
56. Walt D.R. Fibre optic microarrays. Chem Soc Rev 2010, 39:38-50.
57. Whitaker R.D., Pember S., Wallace B.C., Brodley C.E., Walt D.R. Single cell time-resolved quorum responses reveal dependence on cell density and configuration. J Biol Chem 2011, 286:21623-21632.
58. Whitaker R.D., Walt D.R. Fiber-based single cell analysis of reporter gene expression in yeast two-hybrid systems. Anal Biochem 2007, 360:63-74.
59. Blake W.J., Balázsi G., Kohanski M.A., Isaacs F.J., Murphy K.F., Kuang Y., Cantor C.R., Walt D.R., Collins J.J. Phenotypic consequences of promoter-mediated transcriptional noise. Mol Cell 2006, 24:853-865.