Potential roles for diatomists in nanotechnology

Journal of Nanoscience and Nanotechnology

Volumn 5, Issue 1, 2005, Pages 35-40

  Gordon, Richard ^a   Parkinson, John ^b  

^a UNIVERSITY OF MANITOBA   (Canada)

^b HOSPITAL FOR SICK CHILDREN   (Canada)

Author keywords

Careers in Science; Diatom Nanotechnology; Diatomist; Silica

Indexed keywords

DIATOM NANOTECHNOLOGY; DIATOMISTS;

GENES; MORPHOLOGY; MUTAGENESIS; SILICA;

NANOTECHNOLOGY;

NANOMATERIAL;

BIOMIMETICS; CHEMISTRY; DIATOM; GENETIC ENGINEERING; INSTRUMENTATION; METHODOLOGY; NANOTECHNOLOGY; PHYSIOLOGY; REVIEW; ULTRASTRUCTURE;

BIOMIMETICS; DIATOMS; GENETIC ENGINEERING; NANOSTRUCTURES; NANOTECHNOLOGY;

EID: 17844409051     PISSN: 15334880     EISSN: None     Source Type: Journal    
DOI: 10.1166/jnn.2005.002     Document Type: Conference Paper

References (109)

1. M. D. Adams, J. M. Kelley, J. D. Gocayne, M. Dubnick, M. H. Polymeropoulos, H. Xiao, C. R. Merril, A. Wu, B. Olde, R. F. Moreno et al., Complementary DNA sequencing: expressed sequence tags and human genome project. Science 252, 1651 (1991).
2. T. Agres, Web Page, Nanotech ethics debated: scientists seek to avoid 'mistakes' of genetic engineering and stem cell research. http://www.biomedcentral.com/news/20031208/04/ (2003).
3. K. E. Apt, P. G. Kroth-Pancic, and A. R. Grossman, Stable nuclear transformation of the diatom Phaeodactylum tricornutum. Mol. Gen. Genet. 252, 572 (1996).
4. A. Blanco, E. Chomski, S. Grabtchak, M. Ibisate, S. John, S. W. Leonard, C. Lopez, F. Meseguer, H. Miguez, J. P. Mondia, G. A. Ozin, O. Toader, and H. M. van Driel, Large-scale synthesis of a silicon photonic crystal with a complete three-dimensional bandgap near 1.5 micrometres. Nature 405, 437 (2000).
5. L. Boddy, M. F. Wilkins, and C. W. Morris, Pattern recognition in flow cytometry. Cytometry 44, 195 (2001).
6. L. L. Brott, R. R. Naik, D. J. Pikas, S. M. Kirkpatrick, D. W. Tomlin, P. W. Whitlock, S. J. Clarson, and M. O. Stone, Ultrafast holographic nanopatterning of biocatalytically formed silica. Nature 413, 291 (2001).
7. N. Chaffey and P. Barlow, The cytoskeleton facilitates a three-dimensional symplasmic continuum in the long-lived ray and axial parenchyma cells of angiosperm trees [+ erratum]. Planta 213, 811 [erratum: 214, 330-331] (2001).
8. C. S. Chen, M. Mrksich, S. Huang, G. M. Whitesides, and D. E. Ingber, Geometric control of cell life and death. Science 276, 1425 (1997).
9. P. Cohen, Natural glass. Why bother laboriously creating intricate, microscopic devices when single-celled organisms can do the job for you? Philip Cohen meets nanotechnology's master craftsmen. New Sci. 181, 26 (2004).
10. B. Cooksey and K. E. Cooksey, Chemical signal-response in diatoms of the genus Amphora. J. Cell Sci. 91, 523 (1988).
11. T. Coradin, O. Durupthy, and J. Livage, Interactions of aminocontaining peptides with sodium silicate and colloidal silica: A biomimetic approach of silicification. Langmuir 18, 2331 (2002).
12. E. J. Cox, Mucilage tube morphology of three tube-dwelling diatoms and its diagnostic value. J. Phycol. 17, 72 (1981).
13. R. W. Drum, Petrifaction of plant tissue in the laboratory. Nature 218, 784 (1968).
14. R. W. Drum and R. Gordon, Star Trek replicators and diatom nanotechnology (invited). TibTech (Trends Biotechnol.) 21, 325 (2003).
15. H. du Buf and M. M. Bayer, Automatic Diatom Identification, World Scientific, Singapore (2002).
16. T. G. Dunahay, E. E. Jarvis, and P. G. Roessler, Genetic transformation of the diatoms Cyclotelta cryptica and Navicula saprophila. J. Phycol. 31, 1004 (1995).
17. C. Emmeche, Web Page, Defining Life, Explaining Emergence. http://www.nbi.dk/~emmeche/cePubl/97e.defLife.v3f.html (1997).
18. K. M. Entwistle, Basic Principles of the Finite Element Method, IOM Communications, London (1999).
19. A. Estes and R. R. Dute, Valve abnormalities in diatom clones maintained in long-term culture. Diatom Res. 9, 249 (1994).
20. A. Falciatore and C. Bowler, Revealing the molecular secrets of marine diatoms. Annu. Rev. Plant Physiol. Plant Mol. Biol. 53, 109 (2002).
21. A. Falciatore, R. Casotti, C. Leblanc, C. Abrescia, and C. Bowler, Transformation of nonselectable reporter genes in marine diatoms. Mar. Biotechnol. 1, 239 (1999).
22. M. M. Ferris, C. L. Stoffel, T. T. Maurer, and K. L. Rowlen, Quantitative intercomparison of transmission electron microscopy, flow cytometry, and epifluorescence microscopy for nanometric particle analysis. Anal. Biochem. 304, 249 (2002).
23. H. Fischer, I. Robl, M. Sumper, and N. Kröger, Targeting and covalent modification of cell wall and membrane proteins heterologously expressed in the diatom Cylindrotheca fusiformis (Bacillariophyceae). J. Phycol. 35, 113 (1999).
24. R. W. Gensemer, R. E. H. Smith, and H. C. Duthie, Comparative effects of pH and aluminum on silica-limited growth and nutrient uptake in Asterionella ralfsii var. americana (Bacillariophyceae). J. Phycol. 29, 36 (1993).
25. R. Gordon, A retaliatory role for algal projectiles, with implications for the mechanochemistry of diatom gliding motility. J. Theor. Biol. 126, 419 (1987).
26. R. Gordon, Computer controlled evolution of diatoms: design for a compustat. Nova Hedwigia 112, 213 (1996).
27. R. Gordon, The Hierarchical Genome and Differentiation Waves: Novel Unification of Development, Genetics and Evolution, World Scientific & Imperial College Press, Singapore & London (1999).
28. R. Gordon, The emergence of emergence: a critique of "Design, observation, Surprise" Riv. Biol. 93, 349 (2000).
29. R. Gordon, Making waves: the paradigms of developmental biology and their impact on artificial life and embryonics. Cybernetics Syst. 32, 443 (2001).
30. R. Gordon and B. D. Aguda, Diatom morphogenesis: natural fractal fabrication of a complex microstructure. In Proceedings of the Annual International Conference of the IEEE Engineering in Medicine and Biology Society, Pan 1/4: Cardiology and Imaging. 4-7 Nov. 1988, New Orleans, LA. USA, edited by G. Harris and C. Walker, Institute of Electrical and Electronics Engineers, New York (1988), Vol. 10, p. 273.
31. R. Gordon, N. K. Björklund, G. G. C. Robinson, and H. J. Kling, Sheared drops and pennate diatoms. Nova Hedwigia 112, 287 (1996).
32. R. Gordon and G. W. Brodland, On square holes in pennate diatoms. Diatom Res. 5, 409 (1990).
33. R. Gordon and R. W. Drum, A capillarity mechanism for diatom gliding locomotion. Proc. Natl. Acad. Sci. U.S.A. 67, 338 (1970).
34. R. Gordon and R. W. Drum, The chemical basis for diatom morphogenesis. Int. Rev. Cytol. 150, 243, 421 (1994).
35. R. E. Green, H. M. Sosik, R. J. Olson, and M. D. DuRand, Flow cytomelric determination of size and complex refractive index for marine particles: comparison with independent and bulk estimates. Appl. Opt. 42, 526 (2003).
36. G. Guetens, K. Van Cauwenberghe, G. De Boeck, R. Maes, U. R. Tjaden, J. Van Der Greef, M. Highley, A. T. Van Oosterom, and E. A. De Bruijn, Nanotechnology in bio/clinical analysis. J. Chromatogr. B 739, 139 (2000).
37. H. Håkansson and V. Chepurnov, A study of variation in valve morphology of the diatom Cydotella meneghiniana in monoclonal cultures: effect of auxospore formation and different salinity conditions. Diatom Res. 14, 251 (1999).
38. C. E. Hamm, R. Merkel, O. Springer, P. Jurkojc, C. Maier, K. Prechtel, and V. Smetacek, Architecture and material properties of diatom shells provide effective mechanical protection. Nature 421, 841 (2003).
39. C. E. Hamm, The evolution of advanced mechanical defenses and potential technological applications of diatom shells. J. Nanosci. Nanotechnol. 5, this issue (2005).
40. P. Harber, J. Dahlgren, W. Bunn, J. Lockey, and G. Chase, Radiographic and spirometric findings in diatomaceous earth workers. J. Occup. Environ. Med. 40, 22 (1998).
41. F. M. Harold, The Way of the Cell: Molecules, Organisms, and the Order of Life, Oxford University Press, New York (2001).
42. M. A. Harper and J. T. Harper, Measurements of diatom adhesion and their relationship with movement. Br. Phycol. Bull. 3, 195 (1967).
43. M. J. Higgins, P. Molino, P. Mulvaney, and R. Wetherbee, The structure and nanomechanical properties of the adhesive mucilage that mediates diatom-substratum adhesion and motility. J. Phycol. 39, 1181 (2003).
44. M. Hildebrand, Web Page, Ambidopsis cell cultures. http://iubio. bio.indiana.edu/cgi-bin/ifetch?netnews+l 11969289419773+F (2000).
45. M. Hildebrand, The prospects of manipulating diatom silica. J. Nanosci. Nanotechnol., this issue (2004).
46. M. Hildebrand, K. Dahlin, and B. E. Volcani, Characterization of a silicon transporter gene family in Cylindrotheca fusiformis: sequences, expression analysis, and identification of homologs in other diatoms. Mol. Gen. Genet. 260, 480 (1998).
47. M. Hildebrand, D. R. Higgins, K. Busser, and B. E. Volcani, Silicon-responsive cDNA clones isolated from the marine diatom Cylindrotheca fusiformis. Gene 132, 213 (1993).
48. M. Hildebrand, B. E. Volcani, W. Gassmann, and J. I. Schroeder, A gene family of silicon transporters. Nature 385, 688 (1997).
49. J. H. Holland, Emergence: From Chaos to Order, Perseus Books, Reading, MA (1998).
50. J. M. Hughes, H. Weill, H. Checkoway, R. N. Jones, M. M. Henry, N. J. Heyer, N. S. Seixas, and P. A. Demers, Radiographic evidence of silicosis risk in the diatomaceous earth industry. Am. J. Respir. Crit. Care Med. 158, 807 (1998).
51. L. M. Johnson, K. D. Hoagland, and M. R. Gretz, Effects of bromide and iodide on stalk secretion in the biofouling diatom Achnanthes longipes (Bacillariophyceae). J. Phycol. 31, 401 (1995).
52. S. Johnson, Emergence, The Connected Lives of Ants, Brains, Cities, and Software, Scribner, New York (2001).
53. L. Kalaugher, Diatomists shell out on nanotechnology. Nanotechnology 14, i [http://nanotechweb.org/articles/feature/2/2/l] (2003).
54. M. A. Karim and A. A. S. Awwal, Optical Computing: An Introduction, Wiley, New York (1992).
55. H. J. Kling, Asterionella formosa Ralfs: the process of rapid size reduction and its possible ecological significance. Diatom Res. 8, 475 (1993).
56. W. H. Kooistra and L. K. Medlin, Evolution of the diatoms (Bacillariophyta). IV. A reconstruction of their age from small subunit rRNA coding regions and the fossil record. Mol. Phylogenet. Evol. 6, 391 (1996).
57. N. Kröger, C. Bergsdorf, and M. Sumper, Frustulins: domain conservation in a protein family associated with diatom cell walls. Eur. J. Biochem. 239, 259 (1996).
58. N. Kröger, R. Deutzmann, C. Bergsdorf, and M. Sumper, Speciesspecific polyamines from diatoms control silica morphology. Proc. Natl. Acad. Sci. U.S.A. 97, 14133 (2000).
59. N. Kröger, R. Deutzmann, and M. Sumper, Silica-precipitating peptides from diatoms - The chemical structure of silaffm-1A from Cylindrotheca fusiformis. J. Biol. Chem. 276, 26 066 (2001).
60. N. Kröger and R. Wetherbee, Pleuralins are involved in theca differentiation in the diatom Cylindrotheca fusiformis Protist. 151, 263 (2000).
61. N. Kröger, R. Deutzmann, and M. Sumper, Polycationic peptides from diatom biosilica that direct silica nanosphere formation. Science 286, 1129 (1999).
62. N. Kröger, G. Lehmann, R. Rachel, and M. Sumper, Characterization of a 200-kDa diatom protein that is specifically associated with a silica-based substructure of the cell wall. Eur. J. Biochem. 250, 99 (1997).
63. L. Li, B. P. Brunk, J. C. Kissinger, D. Pape, K. Tang, R. H. Cole, J. Martin, T. Wylie, M. Dante, S. J. Fogarty, D. K. Howe, P. Liberator, C. Diaz, J. Anderson, M. White, M. E. Jerome, E. A. Johnson, J. A. Radke, C. J. Stoeckert, Jr. R. H. Waterston, S. W. Clifton, D. S. Roos, and L. D. Sibley, Gene discovery in the apicomplexa as revealed by EST sequencing and assembly of a comparative gene database. Genome Res. 13, 443 (2003).
64. C. R. Lowe, Nanobiotechnology: the fabrication and applications of chemical and biological nanostructures. Curr. Opin. Struct. Biol. 10, 428 (2000).
65. M. J. Madou, Fundamentals of Microfabrication: The Science of Miniaturization, 2nd ed., CRC Press, Boca Raton (2002).
66. D. Mange, M. Sipper, A. Stauffer, and G. Tempesti, Toward robust integrated circuits: the embryonics approach. Proceed. IEEE 88, 516 (2000).
67. V. Martin-Jezequel, M. Hildebrand, and M. A. Brzezinski, Silicon metabolism in diatoms: Implications for growth. J. Phycol. 36, 821 (2000).
68. J. P. McCoy, Jr., Basic principles of flow cytometry. Hematol. Oncol. Clin. North Am. 16, 229 (2002).
69. A. Mnyusiwalla, A. S. Daar, and P. A. Singer, 'Mind the gap': science and ethics in nanotechnology. Nanotechnology 14, R9-R13 (2003).
70. A. Montsant, U. Maheswari, P. J. Lopez, and Chris Bowler, Diatomics: toward diatom functional genomics. J. Nanosci. Nanotechnol. this issue (2004).
71. H. J. Morowitz, The Emergence of Everything, How the World Became Complex, Oxford University Press, Oxford (2002).
72. R. R. Naik, L. L. Brott, S. J. Clarson, and M. O. Stone, Silica-precipitating peptides isolated from a combinatorial phage display peptide library. J. Nanosci. Nanotechnol. 2, 95 (2002).
73. F. Noll, M. Sumper, and N. Hampp, Nanostructure of diatom silica surfaces and of biomimetic analogues. Nano Lett. 2, 91 (2002).
74. W. Nultsch, Phototaxis and photokinesis. In Primitive Sensory and Commnication Systems, edited by M. J. Carlile, Academic Press, New York (1975), p. 29.
75. T. W. Okita and B. E. Volcani, Role of silicon in diatom metabolism. IX. Differential synthesis of DNA polymerases and DNA-binding proteins during silicate starvation and recovery in Cylindrotheca fusiformis. Biochim. Biophys. Acta 519, 76 (1978).
76. O. Oku and A. Kamatani, Resting spore formation and phosphorus composition of the marine diatom Chaetoceros pseudocurvisetus under various nutrient conditions. Marine Biol. 123, 393 (1995).
77. J. Parkinson, Y. Brechet, and R. Gordon, Centric diatom morphogenesis: a model based on a DLA algorithm investigating the potential role of microtubules. Biochim. Biophys. Acta 1452, 89 (1999).
78. J. Parkinson and R. Gordon, Beyond micromachining: the potential of diatoms. Trends Biotechnol. (Tibtech) 17, 190 (1999).
79. J. Parkinson, M. Mitreva, N. Hall, M. Blaxter, and J. P. McCarter, 400000 nematode ESTs on the Net. Trends Parasitol. 19, 283 (2003).
80. B. S. Paulsen, A. Haug, and B. Larsen, Structural studies of a carbohydrate-containing polymer present in the mucilage tubes of the diatom. Carbohydr. Res. 66, 103 (1978).
81. E. Pfitzer, Ueber den Bau und die Zelleteilung der Diatomeen. Bot. Z. 27, 774 (1869).
82. M. Potapova and P. Snoeijs, The natural life cycle in wild populations of diatoma Moniliformis (Bacillariophyceae) and its disruption in an aberrant environment. J. Phycol. 33, 924 (1997).
83. R. Rappaport, Cytokinesis in Animal Cells, Cambridge University Press, New York (1996).
84. J. M. Rhodes, Colorectal cancer screening in the UK: Joint Position Statement by the British Society of Gastroenterology, The Royal College of Physicians, and The Association of Coloproctology of Great Britain and Ireland. Gut 46, 746 (2000).
85. M. Rieseberg, C. Kasper, K. F. Reardon, and T. Scheper, Flow cytometry in biotechnology. Appl. Microbiol. Biotechnol. 56, 350 (2001).
86. P. G. Roessler, More tools for diatom molecular biology research. J. Phycol. 36, 259 (2000).
87. K. H. Sandhage, M. B. Dickerson, P. M. Huseman, M. A. Caranna, J. D. Clifton, T. A. Bull, T. J. Heibel, W. R. Overton, and M. E. A. Schoenwaelder, Novel, bioclastic route to self-assembled, 3D, chemically tailored meso/nanostructures: Shape-preserving reactive conversion of biosilica (diatom) microshells. Adv. Mater. 14, 429 (2002).
88. S. Scala and C. Bowler, Molecular insights into the novel aspects of diatom biology. Cell Mol. Life Sci. 58, 1666 (2001).
89. A. M. M. Schmid, Schalenmorphogenese in Diatomeen/Valve morphogenesis in diatoms. In Diatomeen 1, Schalen in Natur Und Technik/Diatoms I, Shells in Nature and Technics, edited by K. Bach and B. Burkhardt, Cramer Verlag, Stuttgart (1984), p. 300.
90. M. J. S. Schultze, The structure of diatom shells, compared with certain siliceous pellicles artificially prepared from fluoride of silicium/Die Structur der Diatomeenschale, verglichen mit gewissen aus Fluorkiesel kuenstlich darstellbaren Kieselhauten. Naturhistorischer Verein Rheinlande Westfalens Verhandlungen 20, l (1863).
91. M. J. S. Schultze, On the structure of the valve in the Diatomacea, as compared with certain siliceous pellicles produced artificially by the decomposition in moist air of fluo-silicic acid gas (fluoride of silicium). Q. J. Microsc. Sci. new series 3, 120 (1863).
92. D. C. Schwanz, Web Page, Microbial Sequence-Ready Maps by Optical Mapping, http://www.ornl.gov/microbialgenomes/2001 awards.html (2001).
93. L. A. Sowards, P. W. Whitlock, L. L. Brott, R. R. Naik, and M. O. Stone, Ordered silica nanostructure created by reaction of tetrahydroxysilane solution with peptide isolated from the diatom C-fusiformis. Abstr. Pap. Am. Chem. Soc. 221, 232-BIOT (2001).
94. F. A. S. Sterrenburg, Studies on the genera Gyrosigma and Pleurosignm. Light microscopical criteria for taxonomy. Diatom Res. 6, 367 (1991).
95. E. F. Stoermer and J. F. Smol, eds., The Diatoms: Applications for the Environmental and Earth Sciences, Koeltz Scientific Books, Königstein (1999).
96. D. Stramski, A. Sciandra, and H. Claustre, Effects of temperature, nitrogen, and light limitation on the optical properties of the marine diatom Thalassiosira pseudonana. Limnol. Oceanogr. 47, 392 (2002).
97. K. Thamatrakoln and M. Hildebrand, Approaches for functional characterization of diatom silicic acid transporters. J. Nanosci. Nanotechnol. this issue (2004).
98. M. A. Tiffany, Diatom auxospore scales and early stages in diatom frustule morphogenesis: their potential for use in nanotechnology. J. Nanosci. Nanotechnol. 5, this issue (2005).
99. W. H. van de Poll, E. G. Vrieling, and W. W. C. Gieskes, Location and expression of frustulins in the pennate diatoms Cylindrotheca fusiformis, Navicula pelliculosa, and Navicula salinarum (Bacillariophyceae). J. Phycol. 35, 1044-1053 (1999).
100. E. G. Vrieling, L. Poort, T. P. M. Beelen, and W. W. C. Gieskes, Growth and silica content of the diatoms Thalassiosira weissflogii and Navicula salinarum at different salinities and enrichments with aluminum. Eur. J. Phycol. 34, 307 (1999).
101. E. G. Vrieling, W. W. C. Gieskes, and T. P. M. Beelen, Silicon deposition in diatoms: control by the pH inside the silicon deposition vesicle. J. Phycol. 35, 548-559 (1999).
102. Y. Wang, Y. Chen, C. Lavin, and M. R. Gretz, Extracellular matrix assembly in diatoms (Bacillariophyceae). IV. Ultrastructure of Achnanthes longpipes and Cymbella cistula as revealed by high-pressure freezing/freeze substitution and cryo-field emission scanning electron microscopy. J. Phycol. 36, 367 (2000).
103. 15N sequence-specific resonance assignment of the PSCD4 domain of diatom cell wall protein pleuralin-1. J. Biomol. NMR 20, 191 (2001).
104. B. Wigglesworth-Cooksey and K. E. Cooksey, Can diatoms sense surfaces? State of our knowledge. Biofouling 5, 227 (1992).
105. W. Ye, S. Mukherjee, and N. C. MacDonald, Optimal shape design of an electrostatic comb drive in microelectromechanical systems. J. MEMS Sys. 7, 16(1998).
106. L. A. Zaslavskaia, J. C. Lippmeier, P. G. Kroth, A. R. Grossman, and K. E. Apt, Transformation of the diatom Phaeodactylum tricornutum (Bacillariophyceae) with a variety of selectable marker and reporter genes. J. Phycol. 36, 379 (2000).
107. C. Zimmer, V. Meas-Yedid, E. Glory, E. Labruyere, N. Guillen, and J.-C. Olivo-Marin, Active contours applied to the shape and motion analysis of amoeba. 4476, 124 (2001).
108. C. Zurzolo and C. Bowler, Exploring bioinorganic pattern formation in diatoms. A story of polarized trafficking. Plant Physiol. 127, 1339 (2001).
109. E. X. Armbrust, J. A. Berges, C. Bowler, B. R. Green, D. Martinez, N. H. Putnam, S. Zhou, A. E. Allen, K. E. Apt, M. Bechner, M. A. Brzezinski, B. K. Chaal, A. Chiovitti, A. K. Davis, M. S. Demarest, J. C. Delter, T. Glavina, D. Goodstein, M. Z. Hadi, U. Hellsten, M. Hildebrand, B. D. Jenkins, J. Jurka, V. V. Kapitonov, N. Kröger, W. W. Lau, T. W. Lane, F. W. Larimer, J. C. Lippmeier, S. Lucas, M. Medina, A. Montsant, M. Obornik, M. S. Parker, B. Palenik, G. J. Pazour, P. M. Richardson, T. A. Rynearson, M. A. Saito, D. C. Schwartz, K. Thamatrakoln, K. Valentin, A. Vardi, F. P. Wilkerson, and D. S. Rokhsar, "The genome of the diatom "Thalassiosira pseudonana: ecology, evolution, and metabolism." Science 306, 79 (2004).