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Biochemistry (Moscow)

, 73:1361 | Cite as

Nanocolonies: Detection, cloning, and analysis of individual molecules

  • H. V. ChetverinaEmail author
  • A. B. Chetverin
Review

Abstract

Nanocolonies (other names molecular colonies or polonies) are formed upon template nanomolecule (DNA or RNA) amplification in immobilized medium with efficient pore size in the nanometer range. This work deals with the principle, invention, development, and diverse nanocolony applications based on their unique abilities to compartmentalize amplification and expression of individual DNA and RNA molecules, including studying reactions between single molecules, digital molecular diagnostics, in vitro gene cloning and expression, as well as identification of the molecular cis-elements including DNA sequencing, analysis of single-nucleotide polymorphism, and alternative splicing investigation.

Key words

molecular colonies polonies RNA recombination RNA self-recombination molecular cloning gene expression molecular diagnostics DNA sequencing single-nucleotide polymorphism alternative splicing fluorescence detection detection in real time 

Abbreviations

AML1-ETO

chimeric sequence consisting of parts of the AML1 and ETO genes

3D-pol)

gene of poliovirus RNA polymerase

FRET

fluorescent (Forster’s) resonance energy transfer

GFP

green fluorescent protein

HBV

hepatitis B virus

HIV

human immune deficiency virus

PCR

polymerase chain reaction

Qβ replicase

RNA-dependent RNA polymerase of Qβ bacteriophages

RCA

rolling circle amplification

RQ RNA

a special class of RNA exponentially amplified by Qβ replicase

RT-PCR

reverse transcription followed by polymerase chain reaction

SNP

single nucleotide polymorphism

Taq DNA polymerase

DNA-dependent DNA polymerase of Thermus aquaticus

Tth DNA polymerase

DNA-dependent DNA polymerase of Thermus thermophilus

References

  1. 1.
    Chetverin, A. B., Chetverina, H. V., and Munishkin, A. V. (1991) J. Mol. Biol., 222, 3–9.PubMedCrossRefGoogle Scholar
  2. 2.
    Chetverin, A. B., and Chetverina, H. V. (1995) The RF Patent No. 2048522.Google Scholar
  3. 3.
    Chetverin, A. B., and Chetverina, H. V. (1998) The RF Patent No. 2114175.Google Scholar
  4. 4.
    Chetverin, A. B., and Chetverina, H. V. (1998) The RF Patent No. 2114915.Google Scholar
  5. 5.
    Chetverin, A. B., and Chetverina, H. V. (1997) US Patent 5,616,478.Google Scholar
  6. 6.
    Chetverin, A. B., and Chetverina, H. V. (1999) US Patent 6,001,568.Google Scholar
  7. 7.
    Chetverin, A. B., and Chetverina, H. V. (1999) US Patent 5,958,698.Google Scholar
  8. 8.
    Chetverina, H. V., and Chetverin, A. B. (1993) Nucleic Acids Res., 21, 2349–2353.PubMedCrossRefGoogle Scholar
  9. 9.
    Chetverin, A. B., Chetverina, H. V., Demidenko, A. A., and Ugarov, V. I. (1997) Cell, 88, 503–513.PubMedCrossRefGoogle Scholar
  10. 10.
    Mitra, R. D., and Church, G. M. (1999) Nucleic Acids Res., 27, e34.PubMedCrossRefGoogle Scholar
  11. 11.
    Koch, R. (1881) Mittheilungen aus dem Kaiserlichen Gesundheitsamte., 1, 1–48.Google Scholar
  12. 12.
    Saiki, R. K., Scharf, S., Faloona, F., Mullis, K. B., Horn, G. T., Erlich, H. A., and Arnheim, N. (1985) Science, 230, 1350–1354.PubMedCrossRefGoogle Scholar
  13. 13.
    Guatelli, J. C., Whitfield, K. M., Kwoh, D. Y., Barringer, K. J., Richman, D. D., and Gingeras, T. R. (1990) Proc. Natl. Acad. Sci. USA, 87, 1874–1878.PubMedCrossRefGoogle Scholar
  14. 14.
    Compton, J. (1991) Nature, 350, 91–92.PubMedCrossRefGoogle Scholar
  15. 15.
    Walker, G. T., Little, M. C., Nadeau, J. G., and Shank, D. D. (1992) Proc. Natl. Acad. Sci. USA, 89, 392–396.PubMedCrossRefGoogle Scholar
  16. 16.
    Wu, D. Y., and Wallace, R. B. (1989) Genomics, 4, 560–569.PubMedCrossRefGoogle Scholar
  17. 17.
    Barany, F. (1991) Proc. Natl. Acad. Sci. USA, 88, 189–193.PubMedCrossRefGoogle Scholar
  18. 18.
    Fire, A., and Xu, S.-Q. (1995) Proc. Natl. Acad. Sci. USA, 92, 4641–4645.PubMedCrossRefGoogle Scholar
  19. 19.
    Chetverin, A. B. (1998) Uspekhi Biol. Khim., 38, 3–75.Google Scholar
  20. 20.
    Chetverin, A. B., and Spirin, A. S. (1995) Progr. Nucleic Acid Res. Mol. Biol., 51, 225–270.CrossRefGoogle Scholar
  21. 21.
    Chetverin, A. B., and Chetverina, H. V. (2007) Mol. Biol. (Moscow), 41, 284–296.Google Scholar
  22. 22.
    Brown, D., and Gold, L. (1995) Biochemistry, 34, 14775–14782.PubMedCrossRefGoogle Scholar
  23. 23.
    Sumper, M., and Luce, R. (1975) Proc. Natl. Acad. Sci. USA, 72, 162–166.PubMedCrossRefGoogle Scholar
  24. 24.
    Biebricher, C. K., Eigen, M., and Luce, R. (1981) J. Mol. Biol., 148, 369–390.PubMedCrossRefGoogle Scholar
  25. 25.
    Biebricher, C. K., Eigen, M., and Luce, R. (1986) Nature, 321, 89–91.PubMedCrossRefGoogle Scholar
  26. 26.
    Biebricher, C. K., Eigen, M., and McCaskil, J. S. (1993) J. Mol. Biol., 231, 175–179.PubMedCrossRefGoogle Scholar
  27. 27.
    Chetverin, A. B. (1996) Mol. Biol. (Moscow), 30, 981–990.Google Scholar
  28. 28.
    Crick, F. H. (1958) Symp. Soc. Exp. Biol., 12, 138–163.PubMedGoogle Scholar
  29. 29.
    McCaskill, J. S., and Bauer, G. J. (1993) Proc. Natl. Acad. Sci. USA, 90, 4191–4195.PubMedCrossRefGoogle Scholar
  30. 30.
    Biebricher, C. K., Eigen, M., and Luce, R. (1981) J. Mol. Biol., 148, 391–410.PubMedCrossRefGoogle Scholar
  31. 31.
    Lizardi, P. M., Guerra, C. E., Lomeli, H., Tussie-Luna, I., and Kramer, F. R. (1988) BioTechnology, 6, 1197–1202.CrossRefGoogle Scholar
  32. 32.
    Paranchych, W. (1975) RNA Phages (Zinder, N. D., ed.) Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York, pp. 85–111.Google Scholar
  33. 33.
    Hirst, G. K. (1962) Cold Spring Harbor Symp. Quant. Biol., 27, 303–309.PubMedGoogle Scholar
  34. 34.
    Ledinko, N. (1963) Virology, 180, 107–119.CrossRefGoogle Scholar
  35. 35.
    Romanova, L. I., Tolskaya, E. A., Kolesnikova, M. S., and Agol, V. I. (1980) FEBS Lett., 118, 109–112.PubMedCrossRefGoogle Scholar
  36. 36.
    King, A. M. Q., McCahon, D., Slade, W. R., and Newman, J. W. I. (1982) Cell, 29, 921–928.PubMedCrossRefGoogle Scholar
  37. 37.
    Tolskaya, E. A., Romanova, L. I., Kolesnikova, M. S., and Agol, V. I. (1983) Virology, 124, 121–132.PubMedCrossRefGoogle Scholar
  38. 38.
    Munishkin, A. V., Voronin, L. A., and Chetverin, A. B. (1988) Nature, 333, 473–475.PubMedCrossRefGoogle Scholar
  39. 39.
    Munishkin, A. V., Voronin, L. A., Ugarov, V. I., Bondareva, L. A., Chetverina, H. V., and Chetverin, A. B. (1991) J. Mol. Biol., 221, 463–472.PubMedCrossRefGoogle Scholar
  40. 40.
    Chetverin, A. B. (1999) Mol. Biol. (Moscow), 33, 985–996.Google Scholar
  41. 41.
    Chetverin, A. B. (1999) FEBS Lett., 460, 1–5.PubMedCrossRefGoogle Scholar
  42. 42.
    Lai, M. M. C. (1992) Microbiol. Rev., 56, 61–79.PubMedGoogle Scholar
  43. 43.
    Kirkegaard, K., and Baltimore, D. (1986) Cell, 47, 433–443.PubMedCrossRefGoogle Scholar
  44. 44.
    Agol, V. I. (1997) Semin. Virol., 8, 77–84.CrossRefGoogle Scholar
  45. 45.
    Diaz, L., and DeStefano, J. J. (1996) Nucleic Acids Res., 24, 3086–3092.PubMedCrossRefGoogle Scholar
  46. 46.
    Chetverina, H. V. (2007) Molecular Colonies: Doctoral dissertation in Biological Sciences [in Russian], Moscow State University, Moscow.Google Scholar
  47. 47.
    Weissmann, C. (1974) FEBS Lett., 40, S10–S18.PubMedCrossRefGoogle Scholar
  48. 48.
    Chetverina, H. V., Demidenko, A. A., Ugarov, V. I., and Chetverin, A. B. (1999) FEBS Lett., 450, 89–94.PubMedCrossRefGoogle Scholar
  49. 49.
    Morozov, I. Yu., Ugarov, V. I., Chetverin, A. B., and Spirin, A. S. (1993) Proc. Natl. Acad. Sci. USA, 90, 9325–9329.PubMedCrossRefGoogle Scholar
  50. 50.
    Gvozdev, V. A. (1993) Mol. Biol. (Moscow), 27, 1205–1217.Google Scholar
  51. 51.
    Pasyukova, E. G., Nuzhdin, S. V., Filatov, D. A., and Gvozdev, V. A. (1999) Mol. Biol. (Moscow), 33, 26–37.Google Scholar
  52. 52.
    Gogvadze, E. V., and Buzdin, A. A. (2005) Mol. Biol. (Moscow), 39, 364–373.Google Scholar
  53. 53.
    Vlasov, V. A., Dymshits, G. M., and Lavrik, O. I. (1998) Mol. Biol. (Moscow), 32, 5–18.Google Scholar
  54. 54.
    Chetverin, A. B. (2004) FEBS Lett., 567, 35–41.PubMedCrossRefGoogle Scholar
  55. 55.
    Herschlag, D., Khosla, M., Tsuchihashi, Z., and Karpel, R. L. (1994) EMBO J., 13, 2913–2924.PubMedGoogle Scholar
  56. 56.
    Coetzee, T., Herschlag, D., and Belfort, M. (1994) Genes Dev., 8, 1575–1588.PubMedCrossRefGoogle Scholar
  57. 57.
    Spirin, A. S. (2002) FEBS Lett., 530, 4–8.PubMedCrossRefGoogle Scholar
  58. 58.
    Spirin, A. S. (2005) Mol. Biol. (Moscow), 39, 550–556.Google Scholar
  59. 59.
    Spirin, A. S. (2005) Paleontol. Zh., 39, 25–32.Google Scholar
  60. 60.
    Gmyl, A. P., Belousov, E. V., Maslova, S. V., Khitrina, E. V., Chetverin, A. B., and Agol, V. I. (1999) J. Virol., 73, 8958–8965.PubMedGoogle Scholar
  61. 61.
    Gmyl, A. P., Korshenko, S. A., Belousov, E. V., Khitrina, E. V., and Agol, V. I. (2003) RNA, 9, 1221–1223.PubMedCrossRefGoogle Scholar
  62. 62.
    Gallei, A., Pankraz, A., Thiel, H.-J., and Becher, P. (2004) J. Virol., 78, 6271–6281.PubMedCrossRefGoogle Scholar
  63. 63.
    Filipowicz, W., Billy, E., Drabikowski, K., and Genschik, P. (1998) Acta Biochim. Pol., 45, 895–906.PubMedGoogle Scholar
  64. 64.
    Tsagris, M., Tabler, M., and Sanger, H. L. (1991) Nucleic Acids Res., 19, 1605–1612.PubMedCrossRefGoogle Scholar
  65. 65.
    Gmyl, A. P., and Agol, V. I. (2005) Mol. Biol. (Moscow), 39, 618–632.Google Scholar
  66. 66.
    Chetverin, A. B., Kopein, D. S., Chetverina, H. V., Demidenko, A. A., and Ugarov, V. I. (2005) J. Biol. Chem., 280, 8748–8755.PubMedCrossRefGoogle Scholar
  67. 67.
    Cooper, P. D., Steiner-Pryor, S., Scotti, P. D., and Delong, D. (1974) J. Gen. Virol., 23, 41–49.CrossRefGoogle Scholar
  68. 68.
    Pierangeli, A., Bucci, M., Forzan, M., Pagnotti, P., Equestre, M., and Perez Bercoff, R. (1999) J. Gen. Virol., 80, 1889–1897.PubMedGoogle Scholar
  69. 69.
    Biebricher, C. K., and Luce, R. (1992) EMBO J., 11, 5129–5135.PubMedGoogle Scholar
  70. 70.
    Ugarov, V. I., Demidenko, A. A., and Chetverin, A. B. (2003) J. Biol. Chem., 278, 44139–44146.PubMedCrossRefGoogle Scholar
  71. 71.
    Miele, E. A., Mills, D. R., and Kramer, F. R. (1983) J. Mol. Biol., 71, 281–295.CrossRefGoogle Scholar
  72. 72.
    Lomeli, H., Tyagi, S., Pritchard, C. G., Lizardi, P. M., and Kramer, F. R. (1989) Clin. Chem., 35, 1826–1831.PubMedGoogle Scholar
  73. 73.
    Tyagi, S., Landegren, U., Tazi, M., Lizardi, P., and Kramer, F. R. (1996) Proc. Natl. Acad. Sci. USA, 93, 5395–5400.PubMedCrossRefGoogle Scholar
  74. 74.
    Axelrod, V. D., Brown, E., Priano, C., and Mills, D. R. (1991) Virology, 184, 595–608.PubMedCrossRefGoogle Scholar
  75. 75.
    Chetverina, H. V., Samatov, T. R., Ugarov, V. I., and Chetverin, A. B. (2002) BioTechniques, 33, 150–156.PubMedGoogle Scholar
  76. 76.
    Chetverin, A. B., and Chetverina, H. V. (2002) Mol. Biol. (Moscow), 36, 320–327.Google Scholar
  77. 77.
    Mitra, R. D., Butty, V. L., Shendure, J., Williams, B. R., Housman, D. E., and Church, G. M. (2003) Proc. Natl. Acad. Sci. USA, 100, 5926–5931.PubMedCrossRefGoogle Scholar
  78. 78.
    Samatov, T. R., Chetverina, H. V., and Chetverin, A. B. (2005) Nucleic Acids Res., 33, e145.PubMedCrossRefGoogle Scholar
  79. 79.
    Caldwell, K. D., Chu, T.-J., and Pitt, W. G. (1992) US Patent 5,112,736.Google Scholar
  80. 80.
    Weiss, R. B., Kimball, A. W., Gesteland, R. F., Ferguson, F. M., Dunn, D. M., Di Sera, L. J., and Cherry, J. L. (1995) US Patent 5,470,710.Google Scholar
  81. 81.
    Guerasimova, A., Ivanov, I., and Lehrach, H. (1999) Nucleic Acids Res., 27, 703–705.PubMedCrossRefGoogle Scholar
  82. 82.
    Guerasimova, A., Nyarsik, L., Girnus, I., Steinfath, M., Wruck, W., Griffiths, H., Herwig, R., Wierling, C., O’Brien, J., Eickhoff, H., Lehrach, H., and Radelof, U. (2001) Biotechniques, 31, 490–495.PubMedGoogle Scholar
  83. 83.
    Andreoli, R., Amin, M., Meyering, M., Chesterson, R., and Ostreicher, E. (2004) US Patent 6,734,012.Google Scholar
  84. 84.
    Chetverina, H. V., Kravchenko, A. V., Falaleeva, M. V., and Chetverin, A. B. (2007) Bioorg. Khim., 33, 456–463.PubMedGoogle Scholar
  85. 85.
    Chetverina, H. V., Chetverin, A. B., and Kravchenko, A. V. (2006) Application for RF Patent No. 2006108053.Google Scholar
  86. 86.
    Miyoshi, H., Kozu, T., Shimizu, K., Enomoto, K., Maseki, N., Kaneko, Y., Kamada, N., and Ohki, M. (1993) EMBO J., 12, 2715–2721.PubMedGoogle Scholar
  87. 87.
    Samatov, T. R., Chetverina, H. V., and Chetverin, A. B. (2006) Analyt. Biochem., 356, 300–302.PubMedCrossRefGoogle Scholar
  88. 88.
    Chetverin, A. B., Samatov, T. R., and Chetverina, H. V. (2007) PCT Publication WO2007111639.Google Scholar
  89. 89.
    Mackay, I. M., Arden, K. E., and Nitsche, A. (2002) Nucleic Acids Res., 30, 1292–1305.PubMedCrossRefGoogle Scholar
  90. 90.
    Wittwer, C. T., Herrmann, M. G., Moss, A. A., and Rasmunssen, R. P. (1997) BioTechniques, 22, 130–138.PubMedGoogle Scholar
  91. 91.
    Bernard, P. S., Ajioka, R. S., Kushner, J. P., and Wittwer, C. T. (1998) Am. J. Pathol., 153, 1055–1061.PubMedGoogle Scholar
  92. 92.
    Chetverin, A. B., Samatov, T. R., and Chetverina, H. V. (2006) Application for RF Patent No. 2006109271.Google Scholar
  93. 93.
    Chetverina, H. V., Falaleeva, M. V., and Chetverin, A. B. (2004) Analyt. Biochem., 334, 376–381.PubMedCrossRefGoogle Scholar
  94. 94.
    Chetverina, H. V., Chetverin, A. B., and Kravchenko, A. V. (2005) Application for RF Patent No. 2005138583.Google Scholar
  95. 95.
    Kravchenko, A. V., Chetverina, H. V., and Chetverin, A. B. (2006) Bioorg. Khim., 32, 609–614.PubMedGoogle Scholar
  96. 96.
    Myers, T. W., and Gelfand, D. H. (1991) Biochemistry, 30, 7661–7666.PubMedCrossRefGoogle Scholar
  97. 97.
    Vogelstein, B., and Kinzler, K. W. (1999) Proc. Natl. Acad. Sci. USA, 96, 9236–9241.PubMedCrossRefGoogle Scholar
  98. 98.
    Chetverina, H. V., and Chetverin, A. B. (2003) Mol. Med., 2, 30–40.Google Scholar
  99. 99.
    Rusinova, A. V., Chetverina, H. V., and Chetverin, A. B. (2005) in Abst. 9th Int. School/Conf. for Young Scientists in Pushchino “Biology Is a Science of XXI Century”, Pushchino, p. 168.Google Scholar
  100. 100.
    Abelev, G. I. (1994) Immunology, 3, 4–9.Google Scholar
  101. 101.
    Falaleeva, M. V., Chetverina, H. V., Kravchenko, A. V., Zabolotneva, Yu. A., Samatov, T. R., Bobrynina, V. O., Maschan, M. A., and Chetverin, A. B. (2006) in Materials of Sci.-Pract. Conf. “Live Systems” within Framework of Federal Sci.-Techn. Program “Research and Applications in Priority Directions of Development in Science and Technology in 2002–2006”, pp. 238–243.Google Scholar
  102. 102.
    Cardullo, R. A., Agrawal, S., Flores, C., Zamecnik, P. C., and Wolf, D. E. (1988) Proc. Natl. Acad. Sci. USA, 85, 8790–8794.PubMedCrossRefGoogle Scholar
  103. 103.
    Klein, D. (2002) Trends Mol. Med., 8, 257–260.PubMedCrossRefGoogle Scholar
  104. 104.
    Saiki, R. K., Gelfand, D. H., Stoffel, S., Scharf, S. J., Higuchi, R., Horn, G. T., Mullis, K. B., and Erlich, H. A. (1988) Science, 239, 487–491.PubMedCrossRefGoogle Scholar
  105. 105.
    Meyerhans, A., Vartanian, J. P., and Wain-Hobson, S. (1990) Nucleic Acids Res., 18, 1687–1691.PubMedCrossRefGoogle Scholar
  106. 106.
    Pääbo, S., Irwin, D. M., and Wilson, A. C. (1990) J. Biol. Chem., 265, 4718–4721.PubMedGoogle Scholar
  107. 107.
    Zaphiropoulos, P. G. (1998) Nucleic Acids Res., 26, 2843–2848.PubMedCrossRefGoogle Scholar
  108. 108.
    Yu, W., Rusterholtz, K. J., Krummel, A. T., and Lehman, N. (2006) Biotechniques, 40, 499–507.PubMedCrossRefGoogle Scholar
  109. 109.
    Jansen, R., and Ledley, F. D. (1990) Nucleic Acids Res., 18, 5153–5156.PubMedCrossRefGoogle Scholar
  110. 110.
    Odelberg, S. J., Weiss, R. B., Hata, A., and White, R. (1995) Nucleic Acids Res., 23, 2049–2057.PubMedCrossRefGoogle Scholar
  111. 111.
    Marton, A., Delbecchi, L., and Bourgaux, P. (1991) Nucleic Acids Res., 19, 2423–2426.PubMedCrossRefGoogle Scholar
  112. 112.
    Adessi, C., Matton, G., Ayala, G., Turcatti, G., Mermod, J. J., Mayer, P., and Kawashima, E. (2000) Nucleic Acids Res., 28, e87.PubMedCrossRefGoogle Scholar
  113. 113.
    Mercier, J. F., and Slater, G. W. (2005) Biophys. J., 89, 32–42.PubMedCrossRefGoogle Scholar
  114. 114.
    Turcatti, G., Romieu, A., Fedurco, M., and Tairi, A. P. (2008) Nucleic Acids Res., 36, e25.PubMedCrossRefGoogle Scholar
  115. 115.
    Fedurco, M., Romieu, A., Williams, S., Lawrence, I., and Turcatti, G. (2006) Nucleic Acids Res., 34, e22.PubMedCrossRefGoogle Scholar
  116. 116.
    Samatov, T. R., Chetverina, H. V., and Chetverin, A. B. (2006) Vestnik Biotekhnol., 2, 45–49.Google Scholar
  117. 117.
    Chetverin, A. B., Samatov, T. R., and Chetverina, H. V. (2008) Cell-Free Protein Synthesis (Spirin, A. S., and Swartz, J. R., eds.) Wiley-VCH, Weinheim, pp. 191–206.Google Scholar
  118. 118.
    Vysotskii, E. S., Markova, S. V., and Frank, L. A. (2006) Mol. Biol. (Moscow), 40, 404–417.Google Scholar
  119. 119.
    Ugarova, N. N., Maloshenok, L. G., Uporov, I. V., and Koksharov, M. I. (2005) Biochemistry (Moscow), 70, 1262–1267.CrossRefGoogle Scholar
  120. 120.
    Zubova, N. N., Bulavina, A. Yu., and Savitskii, A. P. (2003) Uspekhi Biol. Khim., 3, 163–224.Google Scholar
  121. 121.
    Sambrook, J., and Russell, D. W. (2001) Molecular Cloning, 3rd Edn., CSHL Press, Cold Spring Harbor.Google Scholar
  122. 122.
    Roberts, R. W., and Ja, W. W. (1999) Curr. Opin. Struct. Biol., 9, 521–529.PubMedCrossRefGoogle Scholar
  123. 123.
    Verkhusha, V. V., Akovbyan, N. A., Efremenko, E. N., Varfolomeeva, S. D., and Vrzheshch, P. V. (2001) Biochemistry (Moscow), 66, 1342–1351.CrossRefGoogle Scholar
  124. 124.
    Lukyanov, K. A., Matz, M. V., Bogdanova, E. A., Gurskaya, N. G., and Lukyanov, S. A. (1996) Nucleic Acids Res., 24, 2194–2195.PubMedCrossRefGoogle Scholar
  125. 125.
    Chetverin, A. B., and Kramer, F. R. (1994) BioTechnology, 12, 1093–1100.PubMedCrossRefGoogle Scholar
  126. 126.
    Brenner, S., Williams, S. R., Vermaas, E. H., Storck, T., Moon, K., McCollum, C., Mao, J.-I., Luo, S., Kirchner, J. J., Eletr, S., DuBridge, R. B., Burcham, T., and Albrecht, G. (2000) Proc. Natl. Acad. Sci. USA, 97, 1665–1670.PubMedCrossRefGoogle Scholar
  127. 127.
    Tawfik, D. S., and Griffiths, A. D. (1998) Nat. Biotechnol., 16, 652–656.PubMedCrossRefGoogle Scholar
  128. 128.
    Dressman, D., Yan, H., Traverso, G., Kinzler, K. W., and Vogelstein, B. (2003) Proc. Natl. Acad. Sci. USA, 100, 8817–8822.PubMedCrossRefGoogle Scholar
  129. 129.
    Mitra, R. D., Shendure, J., Olejnik, J., Krzymanska-Olejnik, E., and Church, G. M. (2003) Analyt. Biochem., 320, 55–65.PubMedCrossRefGoogle Scholar
  130. 130.
    Shapero, M. H., Leuther, K. K., Nguyen, A., Scott, M., and Jones, K. W. (2001) Genome Res., 11, 1926–1934.PubMedGoogle Scholar
  131. 131.
    Shimkus, M. L., Guaglianone, P., and Herman, T. M. (1986) DNA, 5, 247–255.PubMedCrossRefGoogle Scholar
  132. 132.
    Olejnik, J., Krzymanska-Olejnik, E., and Rothschild, K. J. (1998) Meth. Enzymol., 291, 135–154.PubMedCrossRefGoogle Scholar
  133. 133.
    Welch, M. B., and Burgess, K. (1999) Nucleosides Nucleotides, 18, 197–201.PubMedCrossRefGoogle Scholar
  134. 134.
    Ju, J., Kim, D. H., Bi, L., Meng, Q., Bai, X., Li, Z., Li, X., Marma, M. S., Shi, S., Wu, J., Edwards, J. R., Romu, A., and Turro, N. J. (2006) Proc. Natl. Acad. Sci. USA, 103, 19635–19640.PubMedCrossRefGoogle Scholar
  135. 135.
    Kosobokova, O., Gavrilov, D. N., Khozikov, V., Stepukhovich, A., Tsupryk, A., Pan’kov, S., Somova, O., Abanshin, N., Gudkov, G., Tcherevishnik, M., and Gorfinkel, V. (2007) Electrophoresis, 28, 3890–3900.PubMedCrossRefGoogle Scholar
  136. 136.
    Shendure, J., Porreca, G. J., Reppas, N. B., Lin, X., McCutcheon, J. P., Rosenbaum, A. M., Wang, M. D., Zhang, K., Mitra, R. D., and Church, G. M. (2005) Science, 309, 1728–1732.PubMedCrossRefGoogle Scholar
  137. 137.
    Cai, F., Chen, H., Hicks, C. B., Bartlett, J. A., Zhu, J., and Gao, F. (2007) Nat. Meth., 4, 123–125.CrossRefGoogle Scholar
  138. 138.
    Davidson, S. (2000) Nat. Biotechnol., 18, 1134–1135.PubMedCrossRefGoogle Scholar
  139. 139.
    Daly, M. J., Rioux, J. D., Schaffner, S. F., Hudson, T. J., and Lander, E. S. (2001) Nat. Genet., 29, 229–232.PubMedCrossRefGoogle Scholar
  140. 140.
    Patil, N., Berno, A. J., Hinds, D. A., Barrett, W. A., Doshi, J. M., Hacker, C. R., Kautzer, C. R., Lee, D. H., Marjoribanks, C., McDonough, D. P., Nguyen, B. T., Norris, M. C., Sheehan, J. B., Shen, N., Stern, D., Stokowski, R. P., Thomas, D. J., Trulson, M. O., Vyas, K. R., Frazer, K. A., Fodor, S. P., and Cox, D. R. (2001) Science, 294, 1719–1723.PubMedCrossRefGoogle Scholar
  141. 141.
    Gabriel, S. B., Schaffner, S. F., Nguyen, H., Moore, J. M., Roy, J., Blumenstiel, B., Higgins, J., DeFelice, M., Lochner, A., Faggart, M., Liu-Cordero, S. N., Rotimi, C., Adeyemo, A., Cooper, R., Ward, R., Lander, E. S., Daly, M. J., and Altshuler, D. (2002) Science, 296, 2225–2229.PubMedCrossRefGoogle Scholar
  142. 142.
    Guryev, V., Smits, B. M. G., van de Belt, J., Verheul, M., Hubner, N., and Cuppen, E. (2006) PLoS Genet., 2, e121.PubMedCrossRefGoogle Scholar
  143. 143.
    The International HapMap Consortium (2005) Nature, 437, 1299–1320.CrossRefGoogle Scholar
  144. 144.
    Couzin, J. (2002) Science, 298, 941–942.PubMedCrossRefGoogle Scholar
  145. 145.
    Zhang, K., Zhu, J., Shendure, J., Porreca, G. J., Aach, J. D., Mitra, R. D., and Church, G. M. (2006) Nat. Genet., 38, 382–387.PubMedCrossRefGoogle Scholar
  146. 146.
    Daley, G. Q., van Etten, R. A., and Baltimore, D. (1990) Science, 247, 824–830.PubMedCrossRefGoogle Scholar
  147. 147.
    Hughes, T., Deininger, M., Hochhaus, A., Branford, S., Radich, J., Kaeda, J., Baccarani, M., Cortes, J., Cross, N. C., Druker, B. J., Gabert, J., Grimwade, D., Hehlmann, R., Kamel-Reid, S., Lipton, J. H., Longtine, J., Martinelli, G., Saglio, G., Soverini, S., Stock, W., and Goldman, J. M. (2006) Blood, 108, 28–37.PubMedCrossRefGoogle Scholar
  148. 148.
    Nardi, V., Raz, T., Cao, X., Wu, C. J., Stone, R. M., Cortes, J., Deininger, M. W., Church, G., Zhu, J., and Daley, G. Q. (2008) Oncogene, 27, 775–782.PubMedCrossRefGoogle Scholar
  149. 149.
    Zhou, D., Zhang, R., Fang, R., Cheng, L., Xiao, P., and Lu, Z. (2008) Electrophoresis, 29, 626–633.PubMedCrossRefGoogle Scholar
  150. 150.
    Zhu, J., Shendure, J., Mitra, R. D., and Church, G. M. (2003) Science, 301, 836–838.PubMedCrossRefGoogle Scholar
  151. 151.
    Butz, J. A., Roberts, K. G., and Edwards, J. S. (2004) Biotechnol. Prog., 20, 1836–1839.PubMedCrossRefGoogle Scholar
  152. 152.
    Conrad, C., Zhu, J., Conrad, C., Schoenfeld, D., Fang, Z., Ingelsson, M., Stamm, S., Church, G., and Hyman, B. T. (2007) J. Neurochem., 103, 1228–1236.PubMedCrossRefGoogle Scholar
  153. 153.
    Merritt, J., DiTonno, J. R., Mitra, R. D., Church, G. M., and Edwards, J. S. (2003) Nucleic Acids Res., 31, e84.PubMedCrossRefGoogle Scholar
  154. 154.
    Merritt, J., Butz, J. A., Ogunnaike, B. A., and Edwards, J. S. (2005) Biotechnol. Bioeng., 92, 519–531.PubMedCrossRefGoogle Scholar
  155. 155.
    Butz, J., Wickstrom, E., and Edwards, J. S. (2003) BMC Biotechnol., 3, 11.PubMedCrossRefGoogle Scholar
  156. 156.
    Mikkilineni, V., Mitra, R. D., Merritt, J., DiTonno, J. R., Church, G. M., Ogunnaike, B., and Edwards, J. S. (2004) Biotechnol. Bioeng., 86, 117–124.PubMedCrossRefGoogle Scholar
  157. 157.
    Rieger, C., Poppino, R., Sheridan, R., Moley, K., Mitra, R., and Gottlieb, D. (2007) Nucleic Acids Res., 35, e151.PubMedCrossRefGoogle Scholar
  158. 158.
    Butz, J. A., Yan, H., Mikkilineni, V., and Edwards, J. S. (2004) BMC Genet., 5, 3.PubMedCrossRefGoogle Scholar
  159. 159.
    Haase, A. T., Retzel, E. F., and Staskus, K. A. (1990) Proc. Natl. Acad. Sci. USA, 87, 4971–4975.PubMedCrossRefGoogle Scholar
  160. 160.
    Uhlmann, V., Silva, I., Luttich, K., Picton, S., and O’Leary, J. J. (1998) Mol. Pathol., 51, 119–130.PubMedCrossRefGoogle Scholar
  161. 161.
    Shimizu, Y., Inoue, A., Tomari, Y., Suzuki, T., Yokogawa, T., Nishikawa, K., and Ueda, T. (2001) Nat. Biotechnol., 19, 751–755.PubMedCrossRefGoogle Scholar
  162. 162.
    Gustafsdottir, S. M., Schallmeiner, E., Fredriksson, S., Gullberg, M., Soderberg, O., Jarvius, M., Jarvius, J., Howell, M., and Landegren, U. (2005) Analyt. Biochem., 345, 2–9.PubMedCrossRefGoogle Scholar

Copyright information

© MAIK Nauka 2008

Authors and Affiliations

  1. 1.Institute of Protein ResearchRussian Academy of SciencesPushchino, Moscow RegionRussia

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