RNA editing catalyzed by ADAR1 and its function in mammalian cells

Biochemistry (Moscow)

Volumn 76, Issue 8, 2011, Pages 900-911

  Wang, Qingde ^a  

^a UNIVERSITY OF PITTSBURGH CANCER INSTITUTE   (United States)

Author keywords

ADAR1; Apoptosis; Cell differentiation; Embryonic development; RNAi

Indexed keywords

ANIMALIA; MAMMALIA;

EID: 80054119641     PISSN: 00062979     EISSN: 16083040     Source Type: Journal    
DOI: 10.1134/S0006297911080050     Document Type: Review

References (137)

1. Polson, A. G., Crain, P. F., Pomerantz, S. C., McCloskey, J. A., and Bass, B. L. (1991) Biochemistry, 30, 11507-11514.
2. Bass, B. L. (2002) Ann. Rev. Biochem., 71, 817-846.
3. Morse, D. P., and Bass, B. L. (1999) Proc. Natl. Acad. Sci. USA, 96, 6048-6053.
4. Palladino, M. J., Keegan, L. P., O'Connell, M. A., and Reenan, R. A. (2000) Cell, 102, 437-449.
5. Hanrahan, C. J., Palladino, M. J., Bonneau, L. J., and Reenan, R. A. (1999) Ann. NY Acad. Sci., 868, 51-66.
6. Palavicini, J. P., O'Connell, M. A., and Rosenthal, J. J. (2009) RNA (N.Y.), 15, 1208-1218.
7. Herbert, A., Lowenhaupt, K., Spitzner, J., and Rich, A. (1995) Proc. Natl. Acad. Sci. USA, 92, 7550-7554.
8. Kim, U., Garner, T. L., Sanford, T., Speicher, D., Murray, J. M., and Nishikura, K. (1994) J. Biol. Chem., 269, 13480-13489.
9. O'Connell, M. A., and Keller, W. (1994) Proc. Natl. Acad. Sci. USA, 91, 10596-10600.
10. Mittaz, L., Antonarakis, S. E., Higuchi, M., and Scott, H. S. (1997) Hum. Genet., 100, 398-400.
11. Mittaz, L., Scott, H. S., Rossier, C., Seeburg, P. H., Higuchi, M., and Antonarakis, S. E. (1997) Genomics, 41, 210-217.
12. Nishikura, K. (2004) Nature Biotechnol., 22, 962-963.
13. Nishikura, K. (2006) Nature Rev., 7, 919-931.
14. Higuchi, M., Maas, S., Single, F. N., Hartner, J., Rozov, A., Burnashev, N., Feldmeyer, D., Sprengel, R., and Seeburg, P. H. (2000) Nature, 406, 78-81.
15. Wang, Q., Khillan, J., Gadue, P., and Nishikura, K. (2000) Science, 290, 1765-1768.
16. Hartner, J. C., Schmittwolf, C., Kispert, A., Muller, A. M., Higuchi, M., and Seeburg, P. H. (2004) J. Biol. Chem., 279, 4894-4902.
17. Wang, Q., Miyakoda, M., Yang, W., Khillan, J., Stachura, D. L., Weiss, M. J., and Nishikura, K. (2004) J. Biol. Chem., 279, 4952-4961.
18. Kawahara, Y., Zinshteyn, B., Sethupathy, P., Iizasa, H., Hatzigeorgiou, A. G., and Nishikura, K. (2007) Science, 315, 1137-1140.
19. Hundley, H. A., and Bass, B. L. (2010) Trends Biochem. Sci., 35, 377-383.
20. Zinshteyn, B., and Nishikura, K. (2009) Wiley Interdiscip. Rev., 1, 202-209.
21. Bass, B. L. (2006) Cold Spring Harbor Symp. Quant. Biol., 71, 285-292.
22. Morabito, M. V., and Emeson, R. B. (2009) Neuropsychopharmacology, 34, 246.
23. Kim, U., Wang, Y., Sanford, T., Zeng, Y., and Nishikura, K. (1994) Proc. Natl. Acad. Sci. USA, 91, 11457-11461.
24. Bass, B. L., and Weintraub, H. (1988) Cell, 55, 1089-1098.
25. Bass, B. L., and Weintraub, H. (1987) Cell, 48, 607-613.
26. O'Connell, M. A., Krause, S., Higuchi, M., Hsuan, J. J., Totty, N. F., Jenny, A., and Keller, W. (1995) Mol. Cell. Biol., 15, 1389-1397.
27. Patterson, J. B., Thomis, D. C., Hans, S. L., and Samuel, C. E. (1995) Virology, 210, 508-511.
28. Melcher, T., Maas, S., Herb, A., Sprengel, R., Seeburg, P. H., and Higuchi, M. (1996) Nature, 379, 460-464.
29. Melcher, T., Maas, S., Herb, A., Sprengel, R., Higuchi, M., and Seeburg, P. H. (1996) J. Biol. Chem., 271, 31795-31798.
30. Chen, C. X., Cho, D. S., Wang, Q., Lai, F., Carter, K. C., and Nishikura, K. (2000) RNA (N.Y.), 6, 755-767.
31. Lai, F., Chen, C. X., Lee, V. M., and Nishikura, K. (1997) J. Neurochem., 69, 43-52.
32. Lai, F., Drakas, R., and Nishikura, K. (1995) J. Biol. Chem., 270, 17098-17105.
33. Yang, W., Wang, Q., Howell, K. L., Lee, J. T., Cho, D. S., Murray, J. M., and Nishikura, K. (2005) J. Biol. Chem., 280, 3946-3953.
34. Geiger, J. R., Melcher, T., Koh, D. S., Sakmann, B., Seeburg, P. H., Jonas, P., and Monyer, H. (1995) Neuron, 15, 193-204.
35. Lomeli, H., Mosbacher, J., Melcher, T., Hoger, T., Geiger, J. R., Kuner, T., Monyer, H., Higuchi, M., Bach, A., and Seeburg, P. H. (1994) Science, 266, 1709-1713.
36. Egebjerg, J., Kukekov, V., and Heinemann, S. F. (1994) Proc. Natl. Acad. Sci. USA, 91, 10270-10274.
37. Kohler, M., Burnashev, N., Sakmann, B., and Seeburg, P. H. (1993) Neuron, 10, 491-500.
38. Higuchi, M., Single, F. N., Kohler, M., Sommer, B., Sprengel, R., and Seeburg, P. H. (1993) Cell, 75, 1361-1370.
39. Sommer, B., Kohler, M., Sprengel, R., and Seeburg, P. H. (1991) Cell, 67, 11-19.
40. Rueter, S. M., Burns, C. M., Coode, S. A., Mookherjee, P., and Emeson, R. B. (1995) Science, 267, 1491-1494.
41. Burns, C. M., Chu, H., Rueter, S. M., Hutchinson, L. K., Canton, H., Sanders-Bush, E., and Emeson, R. B. (1997) Nature, 387, 303-308.
42. Niswender, C. M., Sanders-Bush, E., and Emeson, R. B. (1998) Ann. NY Acad. Sci., 861, 38-48.
43. Seeburg, P. H. (2002) Neuron, 35, 17-20.
44. Seeburg, P. H., and Hartner, J. (2003) Curr. Opin. Neurobiol., 13, 279-283.
45. Rueter, S. M., Dawson, T. R., and Emeson, R. B. (1999) Nature, 399, 75-80.
46. Yang, W., Chendrimada, T. P., Wang, Q., Higuchi, M., Seeburg, P. H., Shiekhattar, R., and Nishikura, K. (2006) Nature Struct. Mol. Biol., 13, 13-21.
47. Nishikura, K. (2010) Ann. Rev. Biochem., 79, 321-349.
48. XuFeng, R., Boyer, M. J., Shen, H., Li, Y., Yu, H., Gao, Y., Yang, Q., Wang, Q., and Cheng, T. (2009) Proc. Natl. Acad. Sci. USA, 106, 17763-17768.
49. Hartner, J. C., Walkley, C. R., Lu, J., and Orkin, S. H. (2009) Nature Immunol., 10, 109-115.
50. Jacobs, M. M., Fogg, R. L., Emeson, R. B., and Stanwood, G. D. (2009) Dev. Neurosci., 31, 223-237.
51. Osenberg, S., Paz Yaacov, N., Safran, M., Moshkovitz, S., Shtrichman, R., Sherf, O., Jacob-Hirsch, J., Keshet, G., Amariglio, N., Itskovitz-Eldor, J., and Rechavi, G. (2010) PloS ONE, 5, e11173.
52. Toth, A. M., Li, Z., Cattaneo, R., and Samuel, C. E. (2009) J. Biol. Chem., 284, 29350-29356.
53. Ward, S. V., George, C. X., Welch, M. J., Liou, L. Y., Hahm, B., Lewicki, H., de la Torre, J. C., Samuel, C. E., and Oldstone, M. B. (2011) Proc. Natl. Acad. Sci. USA, 108, 331-336.
54. Nie, Y., Hammond, G. L., and Yang, J. H. (2007) J. Virol., 81, 917-923.
55. Doria, M., Neri, F., Gallo, A., Farace, M. G., and Michienzi, A. (2009) Nucleic Acids Res., 37, 5848-5858.
56. Phuphuakrat, A., Kraiwong, R., Boonarkart, C., Lauhakirti, D., Lee, T. H., and Auewarakul, P. (2008) J. Virol., 82, 10864-10872.
57. Hartwig, D., Schutte, C., Warnecke, J., Dorn, I., Hennig, H., Kirchner, H., and Schlenke, P. (2006) J. Viral Hepat., 13, 150-157.
58. Jayan, G. C., and Casey, J. L. (2002) J. Virol., 76, 3819-3827.
59. Cenci, C., Barzotti, R., Galeano, F., Corbelli, S., Rota, R., Massimi, L., Di Rocco, C., O'Connell, M. A., and Gallo, A. (2008) J. Biol. Chem., 283, 7251-7260.
60. Galeano, F., Leroy, A., Rossetti, C., Gromova, I., Gautier, P., Keegan, L. P., Massimi, L., Di Rocco, C., O'Connell, M. A., and Gallo, A. (2010) Int. J. Cancer, 127, 127-137.
61. Martinez, H. D., Jasavala, R. J., Hinkson, I., Fitzgerald, L. D., Trimmer, J. S., Kung, H. J., and Wright, M. E. (2008) J. Biol. Chem., 283, 29938-29949.
62. Gandy, S. Z., Linnstaedt, S. D., Muralidhar, S., Cashman, K. A., Rosenthal, L. J., and Casey, J. L. (2007) J. Virol., 81, 13544-13551.
63. Laxminarayana, D., Khan, I. U., O'Rourke, K. S., and Giri, B. (2007) Immunology, 122, 623-633.
64. Linnstaedt, S. D., Kasprzak, W. K., Shapiro, B. A., and Casey, J. L. (2009) RNA (N.Y.), 15, 1177-1187.
65. Zhang, X. J., Gao, M., Li, M., Li, M., Li, C. R., Cui, Y., He, P. P., Xu, S. J., Xiong, X. Y., Wang, Z. X., Yuan, W. T., Yang, S., and Huang, W. (2003) J. Invest. Dermatol., 120, 776-780.
66. Miyamura, Y., Suzuki, T., Kono, M., Inagaki, K., Ito, S., Suzuki, N., and Tomita, Y. (2003) Am. J. Hum. Genet., 73, 693-699.
67. Suzuki, N., Suzuki, T., Inagaki, K., Ito, S., Kono, M., Horikawa, T., Fujiwara, S., Ishiko, A., Matsunaga, K., Aoyama, Y., Tosaki-Ichikawa, H., and Tomita, Y. (2007) J. Invest. Dermatol., 127, 309-311.
68. George, C. X., Gan, Z., Liu, Y., and Samuel, C. E. (2011) J. Interferon Cytokine Res., 31, 99-117.
69. Gallo, A., and Galardi, S. (2008) RNA Biol., 5, 135-139.
70. Maas, S., Kawahara, Y., Tamburro, K. M., and Nishikura, K. (2006) RNA Biol., 3, 1-9.
71. Hanrahan, C. J., Palladino, M. J., Ganetzky, B., and Reenan, R. A. (2000) Genetics, 155, 1149-1160.
72. Domeier, M. E., Morse, D. P., Knight, S. W., Portereiko, M., Bass, B. L., and Mango, S. E. (2000) Science, 289, 1928-1931.
73. Patterson, J. B., and Samuel, C. E. (1995) Mol. Cell. Biol., 15, 5376-5388.
74. Herbert, A., Alfken, J., Kim, Y. G., Mian, I. S., Nishikura, K., and Rich, A. (1997) Proc. Natl. Acad. Sci. USA, 94, 8421-8426.
75. Herbert, A., Schade, M., Lowenhaupt, K., Alfken, J., Schwartz, T., Shlyakhtenko, L. S., Lyubchenko, Y. L., and Rich, A. (1998) Nucleic Acids Res., 26, 3486-3493.
76. George, C. X., and Samuel, C. E. (1999) Proc. Natl. Acad. Sci. USA, 96, 4621-4626.
77. George, C. X., and Samuel, C. E. (1999) Gene, 229, 203-213.
78. Kawakubo, K., and Samuel, C. E. (2000) Gene, 258, 165-172.
79. Shtrichman, R., Heithoff, D. M., Mahan, M. J., and Samuel, C. E. (2002) Infect. Immun., 70, 5579-5588.
80. Markle, D., Das, S., Ward, S. V., and Samuel, C. E. (2003) Gene, 304, 143-149.
81. George, C. X., Wagner, M. V., and Samuel, C. E. (2005) J. Biol. Chem., 280, 15020-15028.
82. George, C. X., Das, S., and Samuel, C. E. (2008) Virology, 380, 338-343.
83. Ward, S. V., Markle, D., Das, S., and Samuel, C. E. (2002) J. Interferon Cytokine Res., 22, 891-898.
84. Samuel, C. E. (2001) Clin. Microbiol. Rev., 14, 778-809, table of contents.
85. Rabinovici, R., Kabir, K., Chen, M., Su, Y., Zhang, D., Luo, X., and Yang, J. H. (2001) Circ. Res., 88, 1066-1071.
86. Yang, J. H., Nie, Y., Zhao, Q., Su, Y., Pypaert, M., Su, H., and Rabinovici, R. (2003) J. Biol. Chem., 278, 45833-45842.
87. Li, Z., Wolff, K. C., and Samuel, C. E. (2010) Virology, 396, 316-322.
88. Schwartz, T., Rould, M. A., Lowenhaupt, K., Herbert, A., and Rich, A. (1999) Science (N. Y.), 284, 1841-1845.
89. Kim, Y. G., Lowenhaupt, K., Maas, S., Herbert, A., Schwartz, T., and Rich, A. (2000) J. Biol. Chem., 275, 26828-26833.
90. Herbert, A., and Rich, A. (1999) Genetica, 106, 37-47.
91. Berger, I., Winston, W., Manoharan, R., Schwartz, T., Alfken, J., Kim, Y. G., Lowenhaupt, K., Herbert, A., and Rich, A. (1998) Biochemistry, 37, 13313-13321.
92. Eckmann, C. R., and Jantsch, M. F. (1999) J. Cell Biol., 144, 603-615.
93. Raitskin, O., Cho, D. S., Sperling, J., Nishikura, K., and Sperling, R. (2001) Proc. Natl. Acad. Sci. USA, 98, 6571-6576.
94. Ray, B. K., Dhar, S., Shakya, A., and Ray, A. (2011) Proc. Natl. Acad. Sci. USA, 108, 103-108.
95. Kim, D., Lee, Y. H., Hwang, H. Y., Kim, K. K., and Park, H. J. (2010) Current Drug Targets, 11, 335-344.
96. Ward, S. V., George, C. X., Welch, M. J., Liou, L. Y., Hahm, B., Lewicki, H., de la Torre, J. C., Samuel, C. E., and Oldstone, M. B. (2011) Proc. Natl. Acad. Sci. USA, 108, 331-336.
97. Kawahara, Y., Grimberg, A., Teegarden, S., Mombereau, C., Liu, S., Bale, T. L., Blendy, J. A., and Nishikura, K. (2008) J. Neurosci., 28, 12834-12844.
98. Mombereau, C., Kawahara, Y., Gundersen, B. B., Nishikura, K., and Blendy, J. A. (2009) Neuropharmacology, 59, 468-473.
99. Morabito, M. V., Abbas, A. I., Hood, J. L., Kesterson, R. A., Jacobs, M. M., Kump, D. S., Hachey, D. L., Roth, B. L., and Emeson, R. B. (2010) Neurobiol. Disease, 39, 169-180.
100. Sakurai, M., Yano, T., Kawabata, H., Ueda, H., and Suzuki, T. (2010) Nature Chem. Biol., 6, 733-740.
101. Levanon, E. Y., and Eisenberg, E. (2006) Brief. Funct. Genom. Proteom., 5, 43-45.
102. Levanon, E. Y., Eisenberg, E., Yelin, R., Nemzer, S., Hallegger, M., Shemesh, R., Fligelman, Z. Y., Shoshan, A., Pollock, S. R., Sztybel, D., Olshansky, M., Rechavi, G., and Jantsch, M. F. (2004) Nature Biotechnol., 22, 1001-1005.
103. Kim, D. D., Kim, T. T., Walsh, T., Kobayashi, Y., Matise, T. C., Buyske, S., and Gabriel, A. (2004) Genome Res., 14, 1719-1725.
104. Blow, M., Futreal, P. A., Wooster, R., and Stratton, M. R. (2004) Genome Res., 14, 2379-2387.
105. Bhalla, T., Rosenthal, J. J., Holmgren, M., and Reenan, R. (2004) Nature Struct. Mol. Biol., 11, 950-956.
106. Athanasiadis, A., Rich, A., and Maas, S. (2004) PLoS Biol., 2, e391.
107. Graveley, B. R., Brooks, A. N., Carlson, J. W., Duff, M. O., Landolin, J. M., Yang, L., Artieri, C. G., van Baren, M. J., Boley, N., Booth, B. W., Brown, J. B., Cherbas, L., Davis, C. A., Dobin, A., Li, R., Lin, W., Malone, J. H., Mattiuzzo, N. R., Miller, D., Sturgill, D., Tuch, B. B., Zaleski, C., Zhang, D., Blanchette, M., Dudoit, S., Eads, B., Green, R. E., Hammonds, A., Jiang, L., Kapranov, P., Langton, L., Perrimon, N., Sandler, J. E., Wan, K. H., Willingham, A., Zhang, Y., Zou, Y., Andrews, J., Bickel, P. J., Brenner, S. E., Brent, M. R., Cherbas, P., Gingeras, T. R., Hoskins, R. A., Kaufman, T. C., Oliver, B., and Celniker, S. E. (2011) Nature, doi:10.1038/nature09715.
108. Picardi, E., Horner, D. S., Chiara, M., Schiavon, R., Valle, G., and Pesole, G. (2010) Nucleic Acids Res., 38, 4755-4767.
109. Rosenberg, B. R., Hamilton, C. E., Mwangi, M. M., Dewell, S., and Papavasiliou, F. N. (2011) Nature Struct. Mol. Biol., 18, 230-236.
110. Wulff, B. E., Sakurai, M., and Nishikura, K. (2011) Nat. Rev. Genet., 12, 81-85.
111. Levanon, K., Eisenberg, E., Rechavi, G., and Levanon, E. Y. (2005) EMBO Rep., 6, 831-835.
112. Kawahara, Y., Megraw, M., Kreider, E., Iizasa, H., Valente, L., Hatzigeorgiou, A. G., and Nishikura, K. (2008) Nucleic Acids Res., 36, 5270-5280.
113. Kawahara, Y., Zinshteyn, B., Chendrimada, T. P., Shiekhattar, R., and Nishikura, K. (2007) EMBO Rep., 8, 763-769.
114. Habig, J. W., Dale, T., and Bass, B. L. (2007) Mol. Cell, 25, 792-793.
115. Rula, E. Y., and Emeson, R. B. (2007) Methods Enzymol., 424, 333-367.
116. Zhang, Z., and Carmichael, G. G. (2001) Cell, 106, 465-475.
117. Wang, Q., Zhang, Z., Blackwell, K., and Carmichael, G. G. (2005) Curr. Biol., 15, 384-391.
118. Scadden, A. D., and O'Connell, M. A. (2005) Nucleic Acids Res., 33, 5954-5964.
119. Vitali, P., and Scadden, A. D. (2010) Nature Struct. Mol. Biol., 17, 1043-1050.
120. Clerzius, G., Gelinas, J. F., Daher, A., Bonnet, M., Meurs, E. F., and Gatignol, A. (2009) J. Virol., 83, 10119-10128.
121. Pain, V. M. (1994) Biochimie, 76, 718-728.
122. Pain, V. M. (1986) Biochem. J., 235, 625-637.
123. Jefferson, L. S., and Kimball, S. R. (2003) J. Nutr., 133, 2046S-2051S.
124. Kimball, S. R. (2001) Progr. Mol. Subcell. Biol., 26, 155-184.
125. Clemens, M. J., Bushell, M., Jeffrey, I. W., Pain, V. M., and Morley, S. J. (2000) Cell Death Differ., 7, 603-615.
126. Pain, V. M. (1996) Eur. J. Biochem./FEBS, 236, 747-771.
127. Kimball, S. R. (1999) Int. J. Biochem. Cell Biol., 31, 25-29.
128. Samuel, C. E., Kuhen, K. L., George, C. X., Ortega, L. G., Rende-Fournier, R., and Tanaka, H. (1997) Int. J. Hematol., 65, 227-237.
129. Wang, Y., and Samuel, C. E. (2009) J. Mol. Biol., 393, 777-787.
130. Yeo, J., Goodman, R. A., Schirle, N. T., David, S. S., and Beal, P. A. (2010) Proc. Natl. Acad. Sci. USA, 107, 20715-20719.
131. Zhang, X. J., He, P. P., Li, M., He, C. D., Yan, K. L., Cui, Y., Yang, S., Zhang, K. Y., Gao, M., Chen, J. J., Li, C. R., Jin, L., Chen, H. D., Xu, S. J., and Huang, W. (2004) Human Mutation, 23, 629-630.
132. Oyama, M., Shimizu, H., Ohata, Y., Tajima, S., and Nishikawa, T. (1999) Br. J. Dermatol., 140, 491-496.
133. Nie, Y., Ding, L., Kao, P. N., Braun, R., and Yang, J. H. (2005) Mol. Cell. Biol., 25, 6956-6963.
134. Agranat, L., Raitskin, O., Sperling, J., and Sperling, R. (2008) Proc. Natl. Acad. Sci. USA, 105, 5028-5033.
135. Heale, B. S., Keegan, L. P., McGurk, L., Michlewski, G., Brindle, J., Stanton, C. M., Caceres, J. F., and O'Connell, M. A. (2009) EMBO J., 28, 3145-3156.
136. Feng, Y., Sansam, C. L., Singh, M., and Emeson, R. B. (2006) Mol. Cell. Biol., 26, 480-488.
137. Ohlson, J., Pedersen, J. S., Haussler, D., and Ohman, M. (2007) RNA (N. Y.), 13, 698-703.