Architectural role of mitochondrial transcription factor a in maintenance of human mitochondrial DNA

Molecular and Cellular Biology

Volumn 24, Issue 22, 2004, Pages 9823-9834

  Kanki, Tomotake ^a   Ohgaki, Kippei ^a   Gaspari, Martina ^b   Gustafsson, Claes M ^b   Fukuoh, Atsushi ^a   Sasaki, Narie ^c   Hamasaki, Naotaka ^a   Kang, Dongchon ^a  

^a KYUSHU UNIVERSITY   (Japan)

^b OCHANOMIZU UNIVERSITY   (Japan)

^c KAROLINSKA INSTITUTE   (Sweden)

Author keywords

[No Author keywords available]

Indexed keywords

CALNEXIN; CYTOCHROME B; CYTOCHROME C; MITOCHONDRIAL DNA; MITOCHONDRIAL PROTEIN; TRANSCRIPTION FACTOR;

ANIMAL CELL; ARTICLE; CARBOXY TERMINAL SEQUENCE; CONTROLLED STUDY; DNA BINDING; DNA TRANSCRIPTION; GENE EXPRESSION; GENE OVEREXPRESSION; GENETIC IDENTIFICATION; HELA CELL; HUMAN; HUMAN CELL; MITOCHONDRION; MOUSE; NONHUMAN; PRIORITY JOURNAL; PROTEIN ANALYSIS; PROTEIN EXPRESSION; RNA INTERFERENCE; TRANSCRIPTION INITIATION;

ANIMALS; BASE SEQUENCE; DNA, MITOCHONDRIAL; DNA-BINDING PROTEINS; GENE EXPRESSION; HELA CELLS; HIGH MOBILITY GROUP PROTEINS; HUMANS; MICE; MITOCHONDRIA; MITOCHONDRIAL PROTEINS; NUCLEAR PROTEINS; RECOMBINANT PROTEINS; RNA INTERFERENCE; RNA, SMALL INTERFERING; SEQUENCE DELETION; TRANSCRIPTION FACTORS; TRANSCRIPTION, GENETIC;

ANIMALIA;

EID: 7644237446     PISSN: 02707306     EISSN: None     Source Type: Journal    
DOI: 10.1128/MCB.24.22.9823-9834.2004     Document Type: Article

References (39)

1. Alam, T. I., T. Kanki, T. Muta, K. Ukaji, Y. Abe, H. Nakayama, K. Takio, N. Hamasaki, and D. Kang. 2003. Human mitochondrial DNA is packaged with TFAM. Nucleic Acids Res. 31:1640-1645.
2. Albring, M., J. Griffith, and G. Attardi. 1977. Association of a protein structure of probable membrane derivation with HeLa cell mitochondrial DNA near its origin of replication. Proc. Natl. Acad. Sci. USA 74:1348-1352.
3. Barat, M., D. Rickwood, C. Dufresne, and J. C. Mounolou. 1985. Characterization of DNA-protein complexes from the mitochondria of Xenopus laevis oocytes. Exp. Cell Res. 157:207-217.
4. Bowmaker, M., M. Y. Yang, T. Yasukawa, A. Reyes, H. T. Jacobs, J. A. Huberman, and I. J. Holt. 2003. Mammalian mitochondrial DNA replicates bidirectionally from an initiation zone. J. Biol. Chem. 278:50961-50969.
5. Caron, F., C. Jacq, and J. Rouviere-Yaniv. 1979. Characterization of a histone-like protein extracted from yeast mitochondria. Proc. Natl. Acad. Sci. USA 76:4265-4269.
6. Dairaghi, D. J., G. S. Shadel, and D. A. Clayton. 1995. Addition of a 29 residue carboxyl-terminal tail converts a simple HMG box-containing protein into a transcriptional activator. J. Mol. Biol. 249:11-28.
7. DeFrancesco, L., and G. Attardi. 1981. In situ photochemical crosslinking of HeLa cell mitochondrial DNA by a psoralen derivative reveals a protected region near the origin of replication. Nucleic Acids Res. 9:6017-6030.
8. Diffley, J. F., and B. Stillman. 1992. DNA binding properties of an HMG1-related protein from yeast mitochondria. J. Biol. Chem. 267:3368-3374.
9. Enriquez, J. A., A. Perez-Martos, M. J. Lopez-Perez, and J. Montoya. 1996. In organello RNA synthesis system from mammalian liver and brain. Methods Enzymol. 264:50-57.
10. Falkenberg, M., M. Gaspari, A. Rantanen, A. Trifunovic, N. G. Larsson, and C. M. Gustafsson. 2002. Mitochondrial transcription factors B1 and B2 activate transcription of human mtDNA. Nat. Genet. 31:289-294.
11. Fisher, R. P., and D. A. Clayton. 1988. Purification and characterization of human mitochondrial transcription factor 1. Mol. Cell. Biol. 8:3496-3509.
12. Fisher, R. P., T. Lisowsky, M. A. Parisi, and D. A. Clayton. 1992. DNA wrapping and bending by a mitochondrial high mobility group-like transcriptional activator protein. J. Biol. Chem. 267:3358-3367.
13. Garrido, N., L. Griparic, E. Jokitalo, J. Wartiovaara, A. M. van der Bliek, and J. N. Spelbrink. 2003. Composition and dynamics of human mitochondrial nucleoids. Mol. Biol. Cell 14:1583-1596.
14. Garstka, H. L., W. E. Schmitt, J. Schultz, B. Sogl, B. Silakowski, A. Perez-Martos, J. Montoya, and R. J. Wiesner. 2003. Import of mitochondrial transcription factor A (TFAM) into rat liver mitochondria stimulates transcription of mitochondrial DNA. Nucleic Acids Res. 31:5039-5047.
15. Goto, A., Y. Matsushima, T. Kadowaki, and Y. Kitagawa. 2001. Drosophila mitochondrial transcription factor A (d-TFAM) is dispensable for the transcription of mitochondrial DNA in Kc167 cells. Biochem. J. 354:243-248.
16. Holt, I. J., H. E. Lorimer, and H. T. Jacobs. 2000. Coupled leading- and lagging-strand synthesis of mammalian mitochondrial DNA. Cell 100:515-524.
17. Kaufman, B. A., S. M. Newman, R. L. Hallberg, C. A. Slaughter, P. S. Perlman, and R. A. Butow. 2000. In organello formaldehyde crosslinking of proteins to mtDNA: identification of bifunctional proteins. Proc. Natl. Acad. Sci. USA 97:7772-7777.
18. Kozak, M. 1989. Context effects and inefficient initiation at non-AUG codons in eucaryotic cell-free translation systems. Mol. Cell. Biol. 9:5073-5080.
19. Larsson, N. G., J. Wang, H. Wilhelmsson, A. Oldfors, P. Rustin, M. Lewandoski, G. S. Barsh, and D. A. Clayton. 1998. Mitochondrial transcription factor A is necessary for mtDNA maintenance and embryogenesis in mice. Nat. Genet. 18:231-236.
20. Lee, D. Y., and D. A. Clayton. 1998. Initiation of mitochondrial DNA replication by transcription and R-loop processing. J. Biol. Chem. 273:30614-30621.
21. Liu, T., B. Lu, I. Lee, G. Ondrovicova, E. Kutejova, and C. K. Suzuki. 2004. DNA and RNA binding by the mitochondrial Ion protease is regulated by nucleotide and protein substrate. J. Biol. Chem. 279:13902-13910.
22. Matsushima, Y., K. Matsumura, S. Ishii, H. Inagaki, T. Suzuki, Y. Matsuda, K. Beck, and Y. Kitagawa. 2003. Functional domains of chicken mitochondrial transcription factor A for the maintenance of mitochondrial DNA copy number in lymphoma cell line DT40. J. Biol. Chem. 278:31149-31158.
23. McCulloch, V., B. L. Seidel-Rogol, and G. S. Shadel. 2002. A human mitochondrial transcription factor is related to RNA adenine methyltransferases and binds S-adenosylmethionine. Mol. Cell. Biol. 22:1116-1125.
24. McCulloch, V., and G. S. Shadel. 2003. Hum. mitochondrial transcription factor B1 interacts with the C-terminal activation region of h-mtTFA and stimulates transcription independently of its RNA methyltransferase activity. Mol. Cell. Biol. 23:5816-5824.
25. Megraw, T. L., and C. B. Chae. 1993. Functional complementarity between the HMGl-like yeast mitochondrial histone HM and the bacterial histone-like protein HU. J. Biol. Chem. 268:12758-12763.
26. Miyakawa, I., N. Sando, S. Kawano, S. Nakamura, and T. Kuroiwa. 1987. Isolation of morphologically intact mitochondrial nucleoids from the yeast, Saccharomyces cerevisiae. J. Cell Sci. 88:431-439.
27. Muta, T., D. Kang, S. Kitajima, T. Fujiwara, and N. Hamasaki. 1997. p32 protein, a splicing factor 2-associated protein, is localized in mitochondrial matrix and is functionally important in maintaining oxidative phosphorylation. J. Biol. Chem. 272:24363-24370.
28. Ohno, T., S. Umeda, N. Hamasaki, and D. Kang. 2000. Binding of human mitochondrial transcription factor A, an HMG box protein, to a four-way DNA junction. Biochem. Biophys. Res. Commun. 271:492-498.
29. Pardue, M. L., J. M. Fostel, and T. R. Cech. 1984. DNA-protein interactions in the Drosophila virilis mitochondrial chromosome. Nucleic Acids Res. 12:1991-1999.
30. Parisi, M. A., B. Xu, and D. A. Clayton. 1993. A human mitochondrial transcriptional activator can functionally replace a yeast mitochondrial HMG-box protein both in vivo and in vitro. Mol. Cell. Biol. 13:1951-1961.
31. Potter, D. A., J. M. Fostel, M. Berninger, M. L. Pardue, and T. R. Cech. 1980. DNA-protein interactions in the Drosophila melanogaster mitochondrial genome as deduced from trimethylpsoralen crosslinking patterns. Proc. Natl. Acad. Sci. USA 77:4118-4122.
32. Sasaki, N., H. Kuroiwa, C. Nishitani, H. Takano, T. Higashiyama, T. Kobayashi, Y. Shirai, A. Sakai, S. Kawano, K. Murakami-Murofushi, and T. Kuroiwa. 2003. Glom is a novel mitochondrial DNA packaging protein in Physarum polycephalum and causes intense chromatin condensation without suppressing DNA functions. Mol. Biol. Cell 14:4758-4769.
33. Seidel-Rogol, B. L., and G. S. Shadel. 2002. Modulation of mitochondrial transcription in response to mtDNA depletion and repletion in HeLa cells. Nucleic Acids Res. 30:1929-1934.
34. Shadel, G. S., and D. A. Clayton. 1997. Mitochondrial DNA maintenance in vertebrates. Annu. Rev. Biochem. 66:409-435.
35. Spelbrink, J. N., F. Y. Li, V. Tiranti, K. Nikali, Q. P. Yuan, M. Tariq, S. Wanrooij, N. Garrido, G. Comi, L. Morandi, L. Santoro, A. Toscano, G. M. Fabrizi, H. Somer, R. Croxen, D. Beeson, J. Poulton, A. Suomalainen, H. T. Jacobs, M. Zeviani, and C. Larsson. 2001. Hum. mitochondrial DNA deletions associated with mutations in the gene encoding Twinkle, a phage T7 gene 4-like protein localized in mitochondria. Nat. Genet. 28:223-231.
36. Takamatsu, C., S. Umeda, T. Ohsato, T. Ohno, Y. Abe, A. Fukuoh, H. Shinagawa, N. Hamasaki, and D. Kang. 2002. Regulation of mitochondrial D-loops by transcription factor A and single-stranded DNA-binding protein. EMBO Rep. 3:451-456.
37. Tang, Y., E. A. Schon, E. Wilichowski, M. E. Vazquez-Memije, E. Davidson, and M. P. King. 2000. Rearrangements of human mitochondrial DNA (mtDNA): new insights into the regulation of mtDNA copy number and gene expression. Mol. Biol. Cell 11:1471-1485.
38. Yang, M. Y., M. Bowmaker, A. Reyes, L. Vergani, P. Angeli, E. Gringeri, H. T. Jacobs, and I. J. Holt. 2002. Biased incorporation of ribonucleotides on the mitochondrial L-strand accounts for apparent strand-asymmetric DNA replication. Cell 111:495-505.
39. Zelenaya-Troitskaya, O., S. M. Newman, K. Okamoto, P. S. Perlman, and R. A. Butow. 1998. Functions of the high mobility group protein, Abf2p, in mitochondrial DNA segregation, recombination and copy number in Saccharomyces cerevisiae. Genetics 148:1763-1776.