Atomic force microscopy as a tool in nanobiology part I: Imaging and manipulation in cytogenetics

Cancer Genomics and Proteomics

Volumn 1, Issue 1, 2004, Pages 59-70

  Thalhammer, Stefan ^a   Heckl, Wolfgang M ^a  

^a UNIVERSITY OF MUNICH   (Germany)

Author keywords

AFM; High resolution imaging; Metaphase chromosome; Micro and nanodissection; Nanoextraction

Indexed keywords

EID: 17844396411     PISSN: 11096535     EISSN: 17906245     Source Type: Journal    
DOI: None     Document Type: Review

References (70)

1. Binnig G, Quate CF and Rohrer C: Atomic force microscope. Phys Rev Lett 56: 930-933, 1986.
2. Heckl WM: Scanning tunneling microscopy and atomic force microscopy on organic and biomolecules. Thin Solid Films 210/211: 640-647, 1992.
3. Heckl WM and Engel A: Imaging nucleic acids with scanning probe microscopes. In: Visualization of Nucleic Acids, Ed. Morel G, CRC Press, Boca Raton, USA, pp 21-33, 1995.
4. Heckl WM: Scanning the thread of life, DNA under the microscope. In: The Diagnostic Challenge, The Human Genome (Fischer EP and Klose S, eds). Piper, München, 1995, pp 99-145.
5. Heckl WM: Visualization and nanomanipulation of molecules in the scanning tunneling microscope. In: Pioneering Ideas for the Physical and Chemical Sciences (Fleischhacker W and Schönfeld T, eds.). New York, Plenum Publishing Corporation, 1997, pp. 179-191.
6. Thalhammer S, Gobbi P, Falconi M, Mazzotti G and Heckl WM: High resolution analysis of the three-dimensional organization of human metaphase chromosomes. In: Atomic Force Microscopy, Biomedical Methods and Applications (Braga PC and Ricci D, eds.). New York, Humana Press, 2003, pp. 245-254.
7. Thundat T, Allison DP, Warmack RJ and Ferrell TL: Imaging isolated strands of DNA molecules by atomic force microscopy. Ultramicroscopy 42-44: 1101-1106, 1992.
8. Yang J and Shao Z: Effect of probe force on the resolution of atomic force microscopy of DNA. Ultramicroscopy 50: 157-170, 1993.
9. Hansma HG, Vesenka J, Siegerist C, Kelderman G, Morrett H, Sinsheimer RL, Elings V, Bustamante C and Hansma PK: Reproducible imaging and dissection of plasmid DNA under liquid with the atomic force microscope. Science 256: 1180-1183, 1992.
10. Schaper A, Pascual SJP and Jovin TM: The scanning force microscopy of DNA in air and in n-propanol using new spreading agents. FEBS Letters 355: 91-95, 1994.
11. Delain E, Fourcade A, Poulin JC, Barbin A, Coulaud D, Lecam E and Paris E: Comparative observations of biological specimens, especially DNA and filamentous actin molecules in atomic force, tunneling and electron microscopes. Microscopy Microanalysis Microstructures 3: 457-470, 1992.
12. Allen MJ, Lee C, Lee IV JD, Pogany GC, Balooch M, Siekhaus WJ and Balhorn R: Atomic force microscopy of mammalian sperm chromatin. Chromosoma 102: 623-630, 1993.
13. Fritzsche W, Takac L and Henderson E: Application of atomic force microscopy to visualization of DNA, chromatin and chromosomes. Crit Rev Eukaryotic Gene Expression 7: 231-240, 1997.
14. Fritzsche W and Henderson E: Volume determination of human metaphase chromosomes by scanning force microscopy. Scanning Microscopy 10: 1-7, 1996
15. DeGrooth BG and Putman CAJ: High-resolution imaging of chromosome related structures by atomic force microscopy. J Microscopy 168: 239-247, 1992.
16. Rasch P, Wiedemann U, Wienberg J and Heckl WM: Analysis of banded human-chromosomes and in situ hybridization patterns by scanning force microscopy. Proc Natl Acad Sci USA 90: 2509-2511, 1993.
17. Musio A, Mariani T, Frediani C, Sbrana I and Ascoli C: Longitudinal patterns similar to G-banding in intreated human chromosomes: evidence from atomic force microscopy. Chromosoma 103: 225-229, 1994.
18. Tamayo J, Miles M, Thein A and Soothill P: Selective cleaning of the cell debris in human chromosome preparations studied by scanning force microscopy. J Struct Biol 128: 200-210, 1999.
19. Gobbi P, Thalhammer S, Falconi M, Stark R, Heckl WM and Mazzotti G: Correlative high resolution morphological analysis of the three-dimensional organization of human metaphase chromosomes. Scanning 22: 273-281, 2000.
20. Winfield M, McMaster TJ, Karp A and Miles MJ: Atomic force microscopy of plant chromosomes. Chromosome Res 3: 128-131, 1995.
21. Fritzsche W, Schaper A and Jovin TM: Probing chromatin with the scanning force microscope. Chromosoma 103: 231-236, 1994.
22. Tamayo J: Structure of human chromosomes studies by atomic force microscopy. J Struct Biol 141: 198-207, 2003.
23. Wanner G, Formanek H, Martin R and Herrmann RG: High resolution scanning electron microscopy of plant chromosomes. Chromosoma 100: 103-109, 1991.
24. McMaster TJ, Winfield MO, Karp A and Miles MJ: Analysis of cereal chromosomes by atomic force microscopy. Genome 39: 439-444, 1996.
25. Hansma HG, Sinsheimer RL, Groppe J, Bruice TC, Elings V, Gurley G, Bezanilla M, Mastrangelo IA, Hough PV and Hansma PK: Recent advances in atomic force microscopy of DNA. Scanning 15(5): 296-299, 1993.
26. Wang H, sun Y, Li Z, Wang E and Huang B: Imaging chromosome by a lateral force microscope. Anal Sci 16: 1261-1264, 2000.
27. PutmanCAJ, DeGrooth BG, Wiegant J, Raap AK, Van der Werf KO, VanHulst NF and Greve J: Detection of in situ hybridization to human chromosomes with the atomic force microscope. Cytometry 14: 356-361, 1993.
28. Kalle WHJ, Macville MVE, Van de Corput MPC, De Grooth BG, Tanke HJ and Raap AK: Imaging of RNA in situ hybridization by atomic force microscopy. J Microscopy 182: 192-199, 1995.
29. Fritzsche W: Salt-dependent chromosome viscoelasticity characterized by scanning force microscopy-based volume measurements. Microscopy Res Techn 44: 357-362, 1999.
30. Stark R, Thalhammer S, Wienberg J and Heckl WM: The AFM as a tool for chromosomal dissection -the influence of physical parameters. Appl Phys A66: 579-584, 1998.
31. McKay RDG: The mechanism of G and C banding in mammalian metaphase chromosome. Chromosoma 44: 1-14, 1973.
32. Comings DE: Mechanisms of chromosmes banding and implications for chromosome structure. Ann Rev Genet 12: 25-46, 1978.
33. Ambros PF and Sumner AT: Correlation of pachytene chromomeres and metaphase bands of human chromosomes and distinctive properties of telomeric regions. Cytogent Cell Genet 44: 223-228, 1987.
34. Harrison CJ, Britch M, Allen TD and Harris R: Scanning electron microscopy of the G-banded human karyotype. Exp Cell Res 134: 141-153, 1981.
35. Thalhammer S, Köhler U, Stark R and Heckl WM: GTG banding pattern on human metaphase chromosomes revealed by high resolution atomic-force microscopy. J Microscopy 202(3): 464-467, 2001.
36. Yunis JJ and Sanchez O: G-banding and chromosome structure. Chromosoma 44: 15-23, 1973.
37. Heneen WK and Caspersson T: Identification of chromosomes of rye by distribution patterns of DNA. Hereditas 74: 259-272, 1973.
38. Bahr GF and Larsen PM: Structural bands in human chromosomes. Adv Cell Mol Biol 3: 191-212, 1974.
39. McMaster TJ, Hickish T, Min T, Cunningham D and Miles MJ: Application of scanning force microscopy to chromosome analysis. Cancer Genet. Cell Genet 76: 93-95, 1994.
40. Ushiki T, Hoshi O, Iwai K, Kimura E and Shigeno M: The structure of human metaphase chromosomes: its histological perspective and new horizons by atomic force microscopy. Arch Histol Cytol 65(5): 377-390, 2002.
41. Tamayo J: Structure of human chromosomes studies by atomic force microscopy-part II: relationship between structure and cytogenetic bands. J Struct Biol 141: 189-197, 2003.
42. Arrighi FE and Hsu TE: Localization of heterochromatin in human chromosomes. Cytogenetics 10: 81-86, 1971.
43. Sumner AT: A simple technique for demonstrating centromeric heterochromatin. Exp Cell Res 75: 304-306, 1972.
44. Tan E, Iffet F, Ergün MA, Ercan I and Menevse A: C-banding visualized by atomic force microscopy. Scanning 23: 32-35, 2001.
45. Sumner AT and Ross A: Factors affecting preparation of chromosomes for scanning electron microscopy using osmium impregnation. Scanning Microsc (Suppl) 3: 87-97, 1989.
46. Sanchez-Sweatman OH, de Harven EP and Dube ID: Human chromosomes: Evaluation of processing techniques for scanning electron microscopy. Scan Microsc 7: 97-104, 1993.
47. Sumner AT: Problems in preparation of chromosomes for scanning electron microscopy to reveal morphology and to permit immunocytochemistry of sensitive antigens. Scan Microsc 10: 165-176, 1996.
48. Wanner G and Formanek H: Imaging of DNA in human and plant chromosomes by high-resolution scanning electron microscopy. Chromosome Res 3: 368-374, 1995.
49. Hermann R and Müller M: Towards high resolution SEM of biological objects. Arch Histol Cytol 55: 17-25, 1992.
50. Nagatani T, Saito S, Sato M and Yamada M: Development of an ultra high resolution scanning electron microscope by means of a field emission source and in-lens system. Scan Microsc 1: 901-909, 1987.
51. Pawley J: The development of field-emission scanning electron microscopy for imaging biological surfaces. Scanning 19: 324-336, 1997.
52. Rizzoli R, Rizzi E, Falconi M, Galanzi A, Baratta B, Lattanzi G, Vitale M, Manzoli L and Mazzotti G: High resolution detection of uncoated metaphase chromosome by means of field emission scanning electron microscopy. Chromosoma 103: 393-400, 1994.
53. Rizzi E, Falconi M, Baratta B, Manzoli L, Galanzi A, Lattanzi G and Mazzotti G: High-resolution FEISEM detection of DNA centromeric probes in HeLa metaphase chromosomes. J Histochem Cytochem 43: 413-419, 1995.
54. Lattanzi G, Galanzi A, Gobbi P, Falconi M, Matteucci A, Breschi L, Vitale M and Mazzotti G: Ultrastructural aspects of the DNA polymerase a distribution during the cell cycle. J Histochem Cytochem 46: 1435-1442, 1998.
55. Gobbi P, Falconi M, Vitale M, Galanzi A, Artico M, Martelli AM and Mazzotti G: Scanning electron microscopic detection of nuclear structures involved in DNA replication. Arch Histol Cytol 62: 317-326, 1999.
56. Hoh JH, Lal R, John SA, Revel JP and Arnsdorf MF: Atomic force microscopy and dissection of gap junctions. Science 253: 1405-1408, 1991.
57. Henderson E: Imaging and nanodissection of individual supercoiled plasmids by atomic force microscopy. Nucleic Acids Res 20: 445-447, 1992.
58. Vesenka J, Guthold M, Tang CL, Keller D, Delaine E and Bustammante C: Substrate preparation for reliable imaging of DNA molecules with the scanning force microscope. Ultramicroscopy 42-44: 1243-1249, 1992
59. Geissler B, Noll F and Hampp N: Nanodissection and noncontact imaging of plasmid DNA with an atomic force microscope. Scanning 22: 7-11, 2000.
60. Falvo MR, Washburn S, Superfine R, Finch M, Brooks FP, Chi V and Taylor RM: Manipulation of individual viruses: friction and mechanical properties. Biophys J 72: 1396-1403, 1997.
61. Lüdecke, HJ, Senger G, Claussen U and Horsthemke B: Cloning defined regions of the human genome by microdissection of banded chromosomes and enzymatic amplification. Nature 338: 348-350, 1989.
62. Mosher C, Jondle D, Ambrosio L, Vesenka J and Henderson E: Microdissection and measurement of polytene chromosomes using the atomic force microscope. Scan Microsc 8 No 3: 491-497, 1994.
63. Jondle DM, Ambrosio L, Vesenka J and Henderson E: Imaging and manipulating chromosomes with the atomic force microscope. Chromosome Res 3: 239-244, 1995.
64. Thalhammer S, Stark R, Müller S, Wienberg J and Heckl WM: The atomic force microscope as a new microdissecting tool for the generation of genetic probes. J Struct Biol 119(2): 232-237, 1997.
65. Xu XM and Ikai A: Retrieval and amplification of single-copy genomic DNA from a nanometer region of chromosomes: a new and potential application of atomic force microscopy in genomic research. Biochem Biophys Res Commun 248: 744-748, 1998.
66. Iwabuchi S, Mori T, Ogawa K, Sato K, Saito M, Morita Y, Ushiki T and Tamiya E: Atomic force microscope-based dissection of human metaphase chromosomes and high resolutional imaging by carbon nanotube tip. Arch Histol Cytol 65(5): 473-479, 2002.
67. Thalhammer S: PhD, Universität München, ISBN 3-933214-78-5, 2001.
68. Heckl WM:Nanoendoscopy Acta Microscopica 10: 6, 2001.
69. Thalhammer S, Geigl J, Zink A, Meimberg H, Hennemeyer M and Heckl WM: AFM and laser microdissection as tools for life sciences. Acta Microscopica 12, Supplement A: 1-6, 2003.
70. Thalhammer S, Stark R, Schütze K, Wienberg J and Heckl WM: Laser microdissection of metaphase chromosomes and characterization by atomic force microscopy. J Biomed Opt 2(1): 115-119, 1997.