Модифицированные олигонуклеотиды, содержащие карбоксильную или альдегидную группу, и получение конъюгатов на их основе тема автореферата и диссертации по химии, 02.00.10 ВАК РФ
Качалова, Анна Владимировна
АВТОР
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кандидата химических наук
УЧЕНАЯ СТЕПЕНЬ
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Москва
МЕСТО ЗАЩИТЫ
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2003
ГОД ЗАЩИТЫ
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02.00.10
КОД ВАК РФ
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1. УСЛОВНЫЕ СОКРАЩЕНИЯ
2. ВВЕДЕНИЕ
3. ОЛИГОНУКЛЕОТИДЫ, СОДЕРЖАЩИЕ РЕАКЦИОННОСПОСОБНЫЕ ЭЛЕКТРОФИЛЬНЫЕ ГРУППИРОВКИ (Литературный обзор)
3.1. Введение
3.2. Синтез олигонуклеотидов, содержащих 5'-концевую карбоксильную или альдегидную группу
3.3. Синтез олигонуклеотидов, содержащих З'-концевую карбоксильную или альдегидную группу
3.4. Синтез олигонуклеотидов, содержащих карбоксильную или альдегидную группу в середине цепи
3.4.1. Олигонуклеотиды, содержащие карбоксильную или альдегидную группу в гетероциклическом основании
3.4.2. Олигонуклеотиды, содержащие карбоксильную или альдегидную группу в составе звена ненукпеотидной природы
3.4.3. Олигонуклеотиды, содержащие альдегидную группу в составе апуринового сайта
3.4.4. Олигонуклеотиды, содержащие карбоксильную или альдегидную группу в 2'-положении углеводного фрагмента
6. ВЫВОДЫ
1. Впервые синтезированы модифицированные олигодезоксирибонуклеотиды, содержащие карбоксильную или альдегидную функции в 2'-положении углеводного фрагмента.
2. Разработаны эффективные схемы синтеза мономерных компонентов автоматического олигонуклеотидного синтеза - амидофосфитных производных А/6-бензоил-9-(2-0-метилоксикарбонилметил-5-0-диметокситритил-р-0-рибо-фуранозил)аденина, 1-(2-0-аллилоксикарбонилметил-5-0-диметокситритил-р-0-рибофуранозил)урацила, 1-(2-0-бензилоксикарбонилметил-5-0-ди-метокситритил-р-0-рибофуранозил)урацила, 1-(2-0-(2,3-дибензоилокси-пропил)-5-0-диметокситритил-р-0-рибофуранозил)урацила.
3. Продемонстрирована высокая реакционная способность электрофильных группировок полученных модифицированных олигодезоксирибонуклеотидов в реакциях с нуклеофильными агентами.
4. Предложен и синтезирован мономерный компонент для введения карбоксильной функции на 5'-конец олигонуклеотидной цепи - 0-[1-метил-3-(2-хлортритилоксикарбонил)пропил]-0'-2-цианэтил-Л/,Л/-диизопропиламидо-фосфит.
5. Разработан эффективный метод твердофазного синтеза олигонуклеотидных конъюгатов, основанный на использовании олигодезоксирибонуклеотидов, содержащих 5-концевую карбоксильную функцию.
1. Д.А. Стеценко, А.А. Арзуманов, В.А. Коршун, М. Дж. Гейт. Пептид-олигонуклеотидные конъюгаты как смысловые агенты нового поколения. Молекулярн. биология, 34, С. 998-1006 (2000)
2. S.L. Beaucage, D.E. Bergstrom, G.D. Glick, R.A. Jones. Current protocols in nucleic acid chemistry. J. Wiley & Sons, Inc.,USA (2000)
3. Oligonucleotides and analogues. A praciical approach. (Ed. F. Eckstein). Oxford University Press, USA (2000)
4. O.M. Гриценко, E.C. Громова. Диальдегидсодержащие нуклеиновые кислоты и их компоненты: синтез, свойства, афинная модификация белков. Успехи химии, 68, С. 267-278 (1999)
5. J.N. Kremsky, J.L. Wooters, J.P. Dougherty, R.E. Meyers, M. Collins, E.L. Brown. Immobilization of DNA via oligonucleotides containing an aldehyde or carboxylic acid group at the 5'-terminus. Nucl. Acids Res., 15, P. 2891-2909 (1987)
6. J. Hovinen, A. Guzaev, A. Azhayev, H. Lonnberg. Novel non-nucleosidic phosphoramidite building blocks for versatile functionalization of oligonucleotides at primary hydroxy groups. J. Chem. Soc. Perkin Trans. 1, 19, P. 2745-2749 (1994)
7. A. Guzaev, M. Manoharan. Conjugation of oligonucleotides via an electrophilic tether: N-chloroacetamidohexyl phosphoramidite reagent. Bioorg. Med. Chem. Lett. 8, P. 3671-3676 (1998)
8. M. Gottikh, U. Asseiine, N.T. Thuong. Synthesis of oligonucleotides containing a carboxyl group at either their 5' and or their 3' end and their subsequent derivatization by an intercalating agent. Tetrahedron Lett., 31, P. 6657-6660 (1990)
9. M.D. Jonklaas, R.R. Kane. The synthesis of 3'- and 5'-iminodiacetic acid derivatives of thymidine and their incorporation into synthetic oligonucleotides. Tetrahedron Lett, 41, P. 4035-4037 (2000)
10. A. Matsuda, M. Inada, H. Nara, E. Ohtsuka, A. Ono. Synthesis and properties of oligonucleotides containing 5-formyl-2'-deoxyuridine. Bioorg. Med. Chem. Lett., 3, P. 2751-2754 (1993)
11. D. Forget, D. Boturyn, E. Defrancq, J. Lhomme, P. Dumy. Highly efficient synthesis of peptide-oligonucleotide conjugates: chemoselective oxime and thiazolidine formation. Chem. Eur. J., 7, P. 3976-3984 (2001)
12. D. Forget, 0. Renaudet, E. Defrancq, P. Dumy. Efficient preparation of carbohydrate-oligonucleotide conjugates (COSs) using oxime bond formation. Tetrahedron Lett, 42, P. 7829-7832 (2001)
13. N. Ollivier, Ch. Olivier, C. Gouyette, T. Huynh-Dinh, H. Gras-Masse, O. Melnyk. Synthesis of oligonucleotide-peptide conjugates using hyarazone chemical iigation. Tetrahedron Lett., 43, P. 997-999 (2002)
14. F. Hausch, A. Jaschke. A novel carboxy-functionalized photocleavable dinucleotide analog for the selection of RNA catalysts. Tetrahedron Lett., 39, P. 6157-61581998)
15. D.J. Yoo, M.M. Greenberg. Synthesis of oligonucleotides containing 3'-alkyl carboxylic acids using universal, photolabile solid phase synthesis supports. J. Org. Chem., 60, P. 3358-3364 (1995)
16. J.D. Kahl, M.M. Greenberg. Solution-phase bioconjugate synthesis using protected oligonucleotides containing З'-alkyl carboxylic acids. J. Org. Chem., 64, P. 507-5101999)
17. T.J. Matray, D.J. Yoo, D.L. McMin, M.M. Greenberg. Synthesis of oligonucleotides containing З'-alkyl carboxylic acids using a palladium labile oligonucleotide solid phase synthesis support. Bioconjugate Chem., 8, P. 99-103 (1997)
18. M.M. Greenberg. Photochemical release of protected oiigonucieotides containing З'-glycolate termini. Tetrahedron, 51, P. 29-38 (1995)
19. D.L. McMinn, M.M. Greenberg. Postsynthetic conjugation of protected oligonucleotides containing З'-alkylamines. J. Am. Chem. Soc., 120, P. 3289-3294 (1998)
20. F. Guibe. Allylic protecting groups and their use in a complex environment. Part II: Allylic protecting groups and their removal through catalytic palladium p-allyl methodology. Tetrahedron, 54, P. 2967-3042 (1998)
21. J. Hovinen, A. Guzaev, A. Azhayev, H. Loennberg. Synthesis of З'-functionalized oligonucleotides on a single solid support. Tetrahedron Lett., 34, P. 8169-8172 (1993)
22. H. Urata, M. Akagi. A convenient synthesis of oligonucleotides with a З'-phosphoglycolate and З'-phosphoglycaldehyde terminus. Tetrahedron Lett., 34, P. 4015-4018 (1993)
23. D. Forget, O. Renaudet, D. Boturyn, E. Defrancq, P. Dumy. 3'-Oligonucleotides conjugation via chemoselective oxime bond formation. Tetrahedron Lett, 42, P. 9171-9174 (2001)
24. P.S. Nelson, M. Kent, S. Muthini. Direct labeling of oligonucleotides employing a novel, non-nucleosidic, 2-aminobutyl-1,3-propanediol backbone. Nucl. Acids Res., 23, P. 6253-6259 (1992)
25. T. Berthod, Y. Petillot, A. Guy, J. Cadet, D. Molko. Synthesis of oligonucleotides containing 5-carboxy-2'-deoxyuridine at defined sites. J. Org. Chem., 61, P. 60756078 (1996)
26. A.C. Bajji, D.R. Davis. Synthesis ana biophysical characterization of tRNA!ys'3 anticodon stem-Loop RNAs containing the mcm5s2u nucleoside. Org. Lett., 2, P. 3865-3868 (2000)
27. H. Vorbruggen, C. Ruh-Ponienz. Synthesis of nucleosides. (Ed. by Leo A. Paquette et al.) J. Wiley & Sons, Inc., USA (2000)
28. H. Sawai, A. Nakamura, S. Sekiguchi, K. Yumoto, M. Endoh, H. Ozaki. Efficient synthesis of new 5-substituted uracil nucleosides useful for linker arm incorporation. J. Chem. Soc., Chem. Commun., P. 1997-1998 (1994)
29. K. Shinozuka, A. Umeda, T. Aoki, H. Sawai. Facile post-synthetic derivatization of oligodeoxyribonucleotide containing 5-methoxycarbonylmethyl-2'-deoxyuridine. Nucleosides Nucleotides, 17, P. 291-230 (1998)
30. A. Ono, T. Okamoto, M. Inada, H. Nara, A. Matsuda. Synthesis and properties of oligonucleotides containing 5-formyl-2'-deoxyuridine. Chem. Pharm. Bull., 42, P. 2231-2237 (1994)
31. R.S. Ranganathan, G.H. Jones, J.G. Moffat. J. Org. Chem., 39, 290 (1974)
32. H. Sugiyama, S. Matsuda, K. Kino, Q.-M. Zhang, S. Yonei, I. Saito. New synthetic method of 5-formyluracil-containing oligonucleotides and their melting behavior. Tetrahedron Lett., 37, P. 9067-9070 (1996)
33. H. Kasai, A. lida, Z. Yamaizumi, S. Nishimura, H. Tanooka. 5-Formyldeoxyuridine: a new type of DNA damage induced by ionizing radiation and its mutagenicity to salmonella strain TA102. Mutation Res., 243, P. 249-253 (1990)
34. N. Karino, Y. Ueno, A. Matsuda. Synthesis and properties of oligonucleotides containing 5-formyl-2'-deoxycytidine: in vitro DNA polymerase reactions on DNA templates containing 5-formyl-2'-deoxycytidine. Nucl. Acids Res., 29, P. 2456-2463 (2001)
35. A. Kittaka, T. Kuze, M. Amano, H. Tanaka, T. Miyasaka, K. Hirose, T. Yoshida, A. Sarai, T. Yasukawa, S. Ishii. Introduction of 6-formylcytidine into a Myb binding sequence. Nucleosides Nucleotides, 18, P. 2769-2784 (1999)
36. E. Trevisiol, A. Renard, E. Defranq, J. Lhomme. The oxyamino-aldehyde coupling reaction: an efficient method for the derivatization of oligonucleotides. Tetrahedron Lett., 38, P. 8687-8690 (1997)
37. A. Laayoun, J.-L. Decout, E. Defranq, J. Lhomme. Hydrolysis of oligonucleotides containing 8-substituted purine nucleosides, a new route for preparing abasic oligodeoxynucleotides. Tetrahedron Lett., 35, P. 4991-4994 (1994)
38. E. Trevisiol, A. Renard, E. Defrancq, J. Lhomme. Fluorescent labelling of oligodeoxyribonucleotides by the oxyamino-aldehyde coupling reaction. Nucleosides Nucleotides Nucleic Acids, 19, P. 1427-1440 (2000)
39. M. Endo, Y. Saga, M. Komiyama. A novel phosphoramidite for the site-selective introduction of functional groups into oligonucleotides via versatile tethers. Tetrahedron Lett., 35, P. 5879-5882 (1994)
40. N. Hebert, P.W. Davis, E.L. DeBaets, O.L. Acevedo. Synthesis of N-substituted hydroxyprolinol phosphoramidites for the preparation of combinatorial libraries. Tetrahedron Lett., 35, P. 9509-9512 (1994)
41. M. Dechamps, E. Sonveaux. Aldehydo-oligonucleotides for bioconjugation. Nucleosides Nucleotides, 17, P. 697-710 (1998)
42. J.-M. Tilquin, M. Dechamps, E. Sonveaux. Incorporation of an aldehyde function in oligonucleotides. Bioconjugate Chem., 12, P. 451-457 (2001)
43. P. Francois, P. Muzzin, M. Dechamps, E. Sonveaux. The incorporation of flexible hydrophobic chains into double-stranded DNA. New J. Chem., 18, P. 649-657 (1994)
44. J.-J. Vasseur, D. Peoc'h, B. Rayner, J.-L. Imbach. Derivatization of oligonucleotides through abasic site formation. Nucleosides Nucleotides, 10, P. 107-117 (1991)
45. J.-J. Vasseur, B. Rayner, J.-L. Imbach, S. Verma, J.A. Mc Closkey, M. Lee, D.K. Chang, J.W. Lown. Structure of the adduct formed between 3-aminocarbazole and the apurinic site oligonucleotide modei d(Tp(Ap)pT). J. Org. Chem., 52, P. 49944998 (1987)
46. J.-J. Vasseur, B. Rayner, J.-L. Imbach. Apurinic DNA reactivity: modelisation of apurinic DNA breakage with phenylhydrazine and formation of a pyrazole adduct. J. Heterocyclic Chem., 25, P. 389-392 (1988)
47. J.R. Bertrand, J.-J. Vasseur, A. Gouyette, B. Rayner, J.-L. Imbach, C. Paoletti, C. Malvy. Mechanism of cleavage of apurinic sites by 9-aminoellipticine. J. Biol. Chem., 264, P. 14172-14178 (198S)
48. D. Proudnikov, A. Mirzabekov. Chemical methods of DNA and RNA fluorescent labeling. Nucl. Acids Res., 24, P. 4535-4542 (1996)
49. D. Boturyn, E. Defrancq, V. Ducros, C. Fontaine, J. Lhomme. Quantative one step derivatization of oligonucleotides by a fluorescent label through abasic site formation. Nucleosides Nucleotides, 16, P. 2069-2077 (1997)
50. J. Arpalahti, R. Kaeppi, J. Hovinen, H. Loennberg, J. Chattopadhyaya. The effect of metal ion complex formation on acidic depurination of 2'-deoxyadenosine and 2'-deoxyguanosine. Tetrahedron, 45, P. 3945-3954 (1989)
51. H. Ozaki, S. Momiyama, K. Yokotsuka, H. Sawai. Post-synthetic functionalization of oligodeoxyribonucleotides at the 2'-position. Tetrahedron Lett., 42, P. 677-680 (2001)
52. J.B.J. Pavey, I.A. O'Neil, R. Cosstick. 4th Cambridge Symposium "Oligonucleotide Chemistry and Biology". 31 August 3 September, Cambridge, UK, P. 71 (1997)
53. A.J. Lawrence, J.B.J. Pavey, I.A. O'Neil, R. Cosstick. Synthesis and properties of 2'-deoxy-2'-a-C-branched nucleosides and nucleotides. J. Org. Chem., 61, P. 92139222 (1996)
54. A. De Mesmaeker, J. Lebreton, P. Hoffman, S.M. Freier. Stereocontrolled synthesis of 2-a-C-branched nucleoside analogues and their incorporation into oligodeoxyribonucleotides. Synlett., P. 677-680 (1993)
55. Т.Н. Kelier, R. Haner. A general method for the synthesis of 2'-0-modified ribonucleosides. Helv. Chim. Acta, 76, P. 884-892 (1993)
56. A.M. Kawasaki, M.D. Casper, T.P. Prakash, S. Manaliii, H. Sasmor, M. Manoharan, P.D. Cook. Synthesis, hydbridization, and nuclease resistance properties of 2'-0-aminooxyethyl modified oligonucleotides. Nucleosides Nucleotides, 18, P. 1419-1420 (1999)
57. A.M. Kawasaki, M.D. Casper, T.P. Prakash, S. Manaliii, H. Sasmor, M. Manoharan, P.D. Cook. Synthesis, hybridization, and nuclease resistance properties of 2'-0-aminooxyethyl (2'-0-A0E) modified oligonucleotides. Tetrahedron Lett., 40, P. 661-664(1999)
58. K. Seio, T. Wada, K. Sakamoto, S. Yokoyama, M. Sekine. Chemical synthesis and properties of conformationally fixed diuridine monophosphates as building blocks of the RNA turn motif. J. Org. Chem., 63, P. 1429-1443 (1998)
59. M. Grotli, M. Douglas, B. Beijer, R.G. Garcia, R. Eritja, B. Sproat. Protection of the guanine residue during synthesis of 2-O-alkyiguanosine derivatives. J. Chem. Soc. Perkin Trans., 1, P. 2779-2788 (1997)
60. T.C. Зацепин, E.A. Романова, T.C. Орецкая. Синтез 2'-0-алкилнуклеозидов. Успехи химии, 71, С. 586-608 (2002)
61. R. Schwesinger, Н. Schlemper. Peralkylierte Polyaminophosphazene extrem starke neutrale Stickstoffbasen. Angew. Chem., 99, P. 1212-1214 (1987)
62. R.A. Jones. Preparation of protected deoxyribonucleotides. // Oligonucleotide synthesis: a practical approach. (Ed. M.J. Gait). Oxford, Washington DC: IRL Press, P. 23-34 (1984)
63. W.T. Markiewicz. Tetraisopropyldisiloxane-1,3-diyl, a group for simultaneous protection of 3'- and 5'-hydroxy functions of nucleosides. J. Chem. Res. Synop. 1979. P. 24-25.
64. Sproat B.S., Lamond A.I. 2'-0-Methyloligoribonucieotides: synthesis and applications. // Oligonucleotides and analogues: a practical approach. (Ed. F. Eckstein). Oxford, New York, Tokyo: IRL Press, P. 49-86 (1991)
65. M. Sekine, T. Hata. Synthesis of short oligoribonucleotides bearing a 3'- or 5'-terminal phosphate by use of 4,4',4"-tris(4,5-dichlorophthalimido)trityl as a new 5'-hydroxyl protecting group. J. Am. Chem. Soc., 108, P. 4581-4586 (1986)
66. M. Grotli, R. Eritja, B. Sproat. Solid-phase synthesis of branched RNA and branched DMA/RNA chimeras. Tetrahedron, 53, P. 11317-11346 (1997)
67. M. Sekine. General method for the preparation of N3- and 04-substituted uridine derivatives by phase-transfer reactions. J. Org. Chem., 54, P. 2321-2326 (1989)
68. J. Heikila, N. Balgobin, J. Chattopadhyaya. The 2-nitrophenylsulfenyl (Nps) group for the protection of amino functions of cytidine, adenosine, guanosine and their 2'-deoxysugar derivatives. Acta Chem. Scand., 37, P. 857-862 (1983)
69. Deoxyuridine derivatives for internal modification. Glen Reports, 6 (1993)
70. A. Niewczyk, A. Krzyzaniak, J. Barciszewski, W.T. Markiewicz. Studies on the synthesis of O-ribosyl-adenosine a new minor nucleoside of tRNA. Nucleosides Nucleotides, 10, P. 635-638 (1991)
71. S.N. Mikhailov, A. DeBryun, P. Herdewijn. Synthesis and properties of some 2'-O-0-ribofuranosyinucleosides. Nucleosides Nucleotides, 14, P. 481-484 (1995)
72. S.N. Mikhailov, E.V. Efimtseva, G.V. Gurskaya, M.V. Fomitcheva, S.V. Meshkov. An efficient synthesis and physico-chemical properties of 2'-0-D-ribofuranosylnucieosides, minor tRNA components. J. Carbohydr. Chem., 16, P. 7592 (1997)
73. M. Manoharan, C.J. Gutnosso, P.D. Cook. Novel functionalizatton of the sugar moiety of nucleic acids for multiple labeling in the minor groove. Tetrahedron Lett., 32, P. 7171-7174(1991)
74. H.K. Кочетков, Э.И. Будовский, Е.Д. Свердлов, Н.А. Симукова, М.Ф. Турчинский, В.Н. Шибаев. Органическая химия нуклеиновых кислот. М., «Химия». С. 333334. (1970)
75. S. Iwai. Synthesis and thermodynamic studies of oligonucleotides containing the two isomers of thymine glycol. Chem. Eur. J., 7, P. 4343-4351 (2001)
76. M. Scroder. Osmium tetraoxide in cis-hydroxylation of unsaturated substrates. Chem. Rev., 80, P. 187-213 (1980)
77. A. Holy, M. Soucek. Benzoyl cyanide a new benzoylating agent in nucleoside and nucleotide chemistry. Tetrahedron Lett., 12, P. 185-188 (1971)
78. A.D. Barone, J.-Y. Tang, M.H. Caruthers. In situ activation of bis-diaikyiamino-phosphines a new method for synthesizing deoxyoligonucleotides on polymer supports. Nucl. Acids Res., 12, P. 4051-4061 (1984)
79. Ю.С. Шабаров. Органическая химия. M., «Химия», 1, С. 202 (1994)
80. В.S. Sproat, A.I. Iribarren, R.G. Garcia, B. Beijer. New synthetic routes to synthons suitable for 2'-0-allyloligoribonucleotide assembly. Nucl. Acids Res., 19, P. 733-738 (1991)
81. S.L. Beaucage. Protocols for oligonucleotides and analogs; synthesis and properties. (Ed. S. Agrawal) Humana Press Inc. New Jersey 07512. P. 33-63 (1993)