[1] Acehan, D., Jiang, X., Morgan, D.G., Heuser, J.E., Wang, X., and Akey, C.W. (2002). Three-dimensional structure of the apoptosome: implications for assembly, procaspase-9 binding, and activation.
Mol Cell 9, 423-432 .
10.1016/S1097-2765(02)00442-2[2] Adams, J.M., and Cory, S. (1998). The Bcl-2 protein family: arbiters of cell survival.
Science 281, 1322-1326 .
10.1126/science.281.5381.1322[3] Ashkenazi, A., and Dixit, V.M. (1998). Death receptors: signaling and modulation.
Science 281, 1305-1308 .
10.1126/science.281.5381.1305[4] Bao, Q., Lu, W., Rabinowitz, J.D., and Shi, Y. (2007). Calcium blocks formation of apoptosome by preventing nucleotide exchange in Apaf-1.
Mol Cell 25, 181-192 .
10.1016/j.molcel.2006.12.013[5] Beere, H.M., Wolf, B.B., Cain, K., Mosser, D.D., Mahboubi, A., Kuwana, T., Tailor, P., Morimoto, R.I., Cohen, G.M., and Green, D.R. (2000). Heat-shock protein 70 inhibits apoptosis by preventing recruitment of procaspase-9 to the Apaf-1 apoptosome.
Nat Cell Biol 2, 469-475 .
[6] Boatright, K.M., Renatus, M., Scott, F.L., Sperandio, S., Shin, H., Pedersen, I.M., Ricci, J.E., Edris, W.A., Sutherlin, D.P., Green, D.R.,
. (2003). A unified model for apical caspase activation.
Mol Cell 11, 529-541 .
[7] Bruey, J.M., Ducasse, C., Bonniaud, P., Ravagnan, L., Susin, S.A., Diaz-Latoud, C., Gurbuxani, S., Arrigo, A.P., Kroemer, G., Solary, E.,
. (2000). Hsp27 negatively regulates cell death by interacting with cytochrome c.
Nat Cell Biol 2, 645-652 .
10.1038/35023595[8] Cain, K., Langlais, C., Sun, X.M., Brown, D.G., and Cohen, G.M. (2001). Physiological concentrations of K+ inhibit cytochrome c-dependent formation of the apoptosome.
J Biol Chem 276, 41985-41990 .
10.1074/jbc.M107419200[9] Chandra, D., Bratton, S.B., Person, M.D., Tian, Y., Martin, A.G., Ayres, M., Fearnhead, H.O., Gandhi, V., and Tang, D.G. (2006). Intracellular nucleotides act as critical prosurvival factors by binding to cytochrome C and inhibiting apoptosome.
Cell 125, 1333-1346 .
[10] Chang, D.W., Xing, Z., Capacio, V.L., Peter, M.E., and Yang, X. (2003). Interdimer processing mechanism of procaspase-8 activation.
EMBO J 22, 4132-4142 .
10.1093/emboj/cdg414[11] Chang, H.Y., and Yang, X. (2000). Proteases for cell suicide: functions and regulation of caspases.
Microbiol Mol Biol Rev 64, 821-846 .
10.1128/MMBR.64.4.821-846.2000[12] Chipuk, J.E., and Green, D.R. (2008). How do BCL-2 proteins induce mitochondrial outer membrane permeabilization?
Trends Cell Biol 18, 157-164 .
10.1016/j.tcb.2008.01.007[13] Cole, C., Sobala, A., Lu, C., Thatcher, S.R., Bowman, A., Brown, J.W., Green, P.J., Barton, G.J., and Hutvagner, G. (2009). Filtering of deep sequencing data reveals the existence of abundant Dicer-dependent small RNAs derived from tRNAs.
RNA 15, 2147-2160 .
[14] Costanzi, J., Sidransky, D., Navon, A., and Goldsweig, H. (2005). Ribonucleases as a novel pro-apoptotic anticancer strategy: review of the preclinical and clinical data for ranpirnase.
Cancer Invest 23, 643-650 .
10.1080/07357900500283143[15] Crighton, D., Woiwode, A., Zhang, C., Mandavia, N., Morton, J.P., Warnock, L.J., Milner, J., White, R.J., and Johnson, D.L. (2003). p53 represses RNA polymerase III transcription by targeting TBP and inhibiting promoter occupancy by TFIIIB.
EMBO J 22, 2810-2820 .
10.1093/emboj/cdg265[16] Datta, S.R., Dudek, H., Tao, X., Masters, S., Fu, H., Gotoh, Y., and Greenberg, M.E. (1997). Akt phosphorylation of BAD couples survival signals to the cell-intrinsic death machinery.
Cell 91, 231-241 .
[17] de Bruijn, M.H., and Klug, A. (1983). A model for the tertiary structure of mammalian mitochondrial transfer RNAs lacking the entire ‘dihydrouridine’ loop and stem.
EMBO J 2, 1309-1321 .
[18] Elbarbary, R.A., Takaku, H., Uchiumi, N., Tamiya, H., Abe, M., Nishida, H., and Nashimoto, M. (2009a). Human cytosolic tRNase ZL can downregulate gene expression through miRNA.
FEBS Lett 583, 3241-3246 .
10.1016/j.febslet.2009.09.015[19] Elbarbary, R.A., Takaku, H., Uchiumi, N., Tamiya, H., Abe, M., Takahashi, M., Nishida, H., Nashimoto, M., and Randau, L. (2009b). Modulation of gene expression by human cytosolic tRNase Z(L) through 5'-half-tRNA.
PLoS ONE 4, e5908.
10.1371/journal.pone.0005908[20] Gomez-Roman, N., Felton-Edkins, Z.A., Kenneth, N.S., Goodfellow, S.J., Athineos, D., Zhang, J., Ramsbottom, B.A., Innes, F., Kantidakis, T., Kerr, E.R.,
. (2006). Activation by c-Myc of transcription by RNA polymerases I, II and III.
Biochem Soc Symp , 141-154 .
[21] Hinnebusch, A.G. (2005). Translational regulation of GCN4 and the general amino acid control of yeast.
Annu Rev Microbiol 59, 407-450 .
10.1146/annurev.micro.59.031805.133833[22] Huang, D.C., and Strasser, A. (2000). BH3-Only proteins-essential initiators of apoptotic cell death.
[In Process Citation] Cell 103, 839-842 .
[23] Iordanov, M.S., Ryabinina, O.P., Wong, J., Dinh, T.H., Newton, D.L., Rybak, S.M., and Magun, B.E. (2000). Molecular determinants of apoptosis induced by the cytotoxic ribonuclease onconase: evidence for cytotoxic mechanisms different from inhibition of protein synthesis.
Cancer Res 60, 1983-1994 .
[24] Jiang, X., Kim, H.E., Shu, H., Zhao, Y., Zhang, H., Kofron, J., Donnelly, J., Burns, D., Ng, S.C., Rosenberg, S.,
. (2003). Distinctive roles of PHAP proteins and prothymosin-alpha in a death regulatory pathway.
Science 299, 223-226 .
10.1126/science.1076807[25] Kamhi, E., Raitskin, O., Sperling, R., and Sperling, J. (2010). A potential role for initiator-tRNA in pre-mRNA splicing regulation.
Proc Natl Acad Sci U S A 107, 11319-11324 .
10.1073/pnas.0911561107[26] Kim, H.E., Du, F., Fang, M., and Wang, X. (2005). Formation of apoptosome is initiated by cytochrome c-induced dATP hydrolysis and subsequent nucleotide exchange on Apaf-1.
Proc Natl Acad Sci U S A 102, 17545-17550 .
10.1073/pnas.0507900102[27] Kim, H.E., Jiang, X., Du, F., and Wang, X. (2008). PHAPI, CAS, and Hsp70 promote apoptosome formation by preventing Apaf-1 aggregation and enhancing nucleotide exchange on Apaf-1.
Mol Cell 30, 239-247 .
10.1016/j.molcel.2008.03.014[28] Kleiman, L., Jones, C.P., and Musier-Forsyth, K. (2010). Formation of the tRNALys packaging complex in HIV-1.
FEBS Lett 584, 359-365 .
10.1016/j.febslet.2009.11.038[29] Larminie, C.G., Sutcliffe, J.E., Tosh, K., Winter, A.G., Felton-Edkins, Z.A., and White, R.J. (1999). Activation of RNA polymerase III transcription in cells transformed by simian virus 40.
Mol Cell Biol 19, 4927-4934 .
[30] Lee, Y.S., Shibata, Y., Malhotra, A., and Dutta, A. (2009). A novel class of small RNAs: tRNA-derived RNA fragments (tRFs).
Genes Dev 23, 2639-2649 .
10.1101/gad.1837609[31] Li, J., and Yuan, J. (2008). Caspases in apoptosis and beyond.
Oncogene 27, 6194-6206 .
10.1038/onc.2008.297[32] Liu, X., Kim, C.N., Yang, J., Jemmerson, R., and Wang, X. (1996). Induction of apoptotic program in cell-free extracts: requirement for dATP and cytochrome
c.
Cell 86, 147-157 .
[33] Lowe, T.M., and Eddy, S.R. (1997). tRNAscan-SE: a program for improved detection of transfer RNA genes in genomic sequence.
Nucleic Acids Res 25, 955-964 .
10.1093/nar/25.5.955[34] Marshall, L., Kenneth, N.S., and White, R.J. (2008). Elevated tRNA(iMet) synthesis can drive cell proliferation and oncogenic transformation.
Cell 133, 78-89 .
[35] Martin, A.G., and Fearnhead, H.O. (2002). Apocytochrome c blocks caspase-9 activation and Bax-induced apoptosis.
J Biol Chem 277, 50834-50841 .
10.1074/jbc.M209369200[36] Mei, Y., Yong, J., Liu, H., Shi, Y., Meinkoth, J., Dreyfuss, G., and Yang, X. (2010). tRNA binds to cytochrome c and inhibits caspase activation.
Mol Cell 37, 668-678 .
10.1016/j.molcel.2010.01.023[37] Mesner, P.W. Jr, Bible, K.C., Martins, L.M., Kottke, T.J., Srinivasula, S.M., Svingen, P.A., Chilcote, T.J., Basi, G.S., Tung, J.S., Krajewski, S.,
. (1999). Characterization of caspase processing and activation in HL-60 cell cytosol under cell-free conditions. Nucleotide requirement and inhibitor profile.
J Biol Chem 274, 22635-22645 .
[38] Pandey, P., Saleh, A., Nakazawa, A., Kumar, S., Srinivasula, S.M., Kumar, V., Weichselbaum, R., Nalin, C., Alnemri, E.S., Kufe, D.,
. (2000). Negative regulation of cytochrome c-mediated oligomerization of Apaf-1 and activation of procaspase-9 by heat shock protein 90.
EMBO J 19, 4934-4322 .
10.1093/emboj/19.16.4310[39] Pavon-Eternod, M., Gomes, S., Geslain, R., Dai, Q., Rosner, M.R., and Pan, T. (2009). tRNA over-expression in breast cancer and functional consequences.
Nucleic Acids Res 37, 7268-7280 .
10.1093/nar/gkp787[40] Riedl, S.J., and Salvesen, G.S. (2007). The apoptosome: signalling platform of cell death.
Nat Rev Mol Cell Biol 8, 405-413 .
10.1038/nrm2153[41] Ruggero, D., and Pandolfi, P.P. (2003). Does the ribosome translate cancer?
Nat Rev Cancer 3, 179-192 .
10.1038/nrc1015[42] Saleh, A., Srinivasula, S.M., Balkir, L., Robbins, P.D., and Alnemri, E.S. (2000). Negative regulation of the Apaf-1 apoptosome by Hsp70.
Nat Cell Biol 2, 476-483 .
[43] Salvesen, G.S., and Duckett, C.S. (2002). IAP proteins: blocking the road to death’s door.
Nat Rev Mol Cell Biol 3, 401-410 .
10.1038/nrm830[44] Saxena, S.K., Sirdeshmukh, R., Ardelt, W., Mikulski, S.M., Shogen, K., and Youle, R.J. (2002). Entry into cells and selective degradation of tRNAs by a cytotoxic member of the RNase A family.
J Biol Chem 277, 15142-15146 .
10.1074/jbc.M108115200[45] Schwickart, M., Huang, X., Lill, J.R., Liu, J., Ferrando, R., French, D.M., Maecker, H., O’Rourke, K., Bazan, F., Eastham-Anderson, J.,
. (2010). Deubiquitinase USP9X stabilizes MCL1 and promotes tumour cell survival.
Nature 463, 103-107 .
10.1038/nature08646[46] Shaheen, H.H., Horetsky, R.L., Kimball, S.R., Murthi, A., Jefferson, L.S., and Hopper, A.K. (2007). Retrograde nuclear accumulation of cytoplasmic tRNA in rat hepatoma cells in response to amino acid deprivation.
Proc Natl Acad Sci U S A 104, 8845-8850 .
[47] Soengas, M.S., Capodieci, P., Polsky, D., Mora, J., Esteller, M., Opitz-Araya, X., McCombie, R., Herman, J.G., Gerald, W.L., Lazebnik, Y.A.,
. (2001). Inactivation of the apoptosis effector Apaf-1 in malignant melanoma.
Nature 409, 207-211 .
10.1038/35051606[48] Suhasini, A.N., and Sirdeshmukh, R. (2006). Transfer RNA cleavages by onconase reveal unusual cleavage sites.
J Biol Chem 281, 12201-12209 .
10.1074/jbc.M504488200[49] Thompson, C.B. (1995). Apoptosis in the pathogenesis and treatment of disease.
Science 267, 1456-1462 .
10.1126/science.7878464[50] Thompson, D.M., Lu, C., Green, P.J., and Parker, R. (2008). tRNA cleavage is a conserved response to oxidative stress in eukaryotes.
RNA 14, 2095-2103 .
[51] Thompson, D.M., and Parker, R. (2009a). The RNase Rny1p cleaves tRNAs and promotes cell death during oxidative stress in Saccharomyces cerevisiae.
J Cell Biol 185, 43-50 .
10.1083/jcb.200811119[52] Thompson, D.M., and Parker, R. (2009b). Stressing out over tRNA cleavage.
Cell 138, 215-219 .
[53] Vaughn, A.E., and Deshmukh, M. (2008). Glucose metabolism inhibits apoptosis in neurons and cancer cells by redox inactivation of cytochrome c.
Nat Cell Biol 10, 1477-1483 .
10.1038/ncb1807[54] Vaux, D.L., and Korsmeyer, S.J. (1999). Cell death in development.
Cell 96, 245-254 .
[55] Vousden, K.H., and Lane, D.P. (2007). p53 in health and disease.
Nat Rev Mol Cell Biol 8, 275-283 .
10.1038/nrm2147[56] Wallace, D.C. (2005). A mitochondrial paradigm of metabolic and degenerative diseases, aging, and cancer: a dawn for evolutionary medicine.
Annu Rev Genet 39, 359-407 .
10.1146/annurev.genet.39.110304.095751[57] Wang, X. (2001). The expanding role of mitochondria in apoptosis.
Genes Dev 15, 2922-2933 .
[58] Watanabe, Y., Kawai, G., Yokogawa, T., Hayashi, N., Kumazawa, Y., Ueda, T., Nishikawa, K., Hirao, I., Miura, K., and Watanabe, K. (1994). Higher-order structure of bovine mitochondrial tRNA(SerUGA): chemical modification and computer modeling.
Nucleic Acids Res 22, 5378-5384 .
10.1093/nar/22.24.5378[59] White, R.J. (2004). RNA polymerase III transcription and cancer.
Oncogene 23, 3208-3216 .
10.1038/sj.onc.1207547[60] White, R.J. (2005). RNA polymerases I and III, growth control and cancer.
Nat Rev Mol Cell Biol 6, 69-78 .
10.1038/nrm1551[61] Yamasaki, S., Ivanov, P., Hu, G.F., and Anderson, P. (2009). Angiogenin cleaves tRNA and promotes stress-induced translational repression.
J Cell Biol 185, 35-42 .
10.1083/jcb.200811106[62] Yang, X., Chang, H.Y., and Baltimore, D. (1998). Autoproteolytic activation of pro-caspases by oligomerization.
Mol Cell 1, 319-325 .
10.1016/S1097-2765(00)80032-5[63] Yue, D., Maizels, N., and Weiner, A.M. (1996). CCA-adding enzymes and poly(A) polymerases are all members of the same nucleotidyltransferase superfamily: characterization of the CCA-adding enzyme from the archaeal hyperthermophile Sulfolobus shibatae.
RNA 2, 895-908 .
[64] Zou, H., Henzel, W.J., Liu, X., Lutschg, A., and Wang, X. (1997). Apaf-1, a human protein homologous to C. elegans CED-4, participates in cytochrome c-dependent activation of caspase-3.
Cell 90, 405-413 .