Mitochondrial upstream promoter sequences modulate in vivo the transcription of a gene in yeast mitochondria

Mitochondrion

Volumn 6, Issue 6, 2006, Pages 289-298

  Pfeuty, A ^a   Dufresne, C ^a   Gueride, M ^a   Lecellier, G ^a  

^a LABORATOIRE DES SCIENCES DU CLIMAT ET DE L ENVIRONNEMENT   (France)

Author keywords

Heteroplasmy; Mitochondrial DNA; Mitochondrial transcription; Tandem repeats; Yeast

Indexed keywords

CYCLOOXYGENASE 2; MITOCHONDRIAL DNA;

ARTICLE; AT RICH SEQUENCE; BASE PAIRING; CONTROLLED STUDY; FUNGAL GENETICS; GENE DELETION; GENE EXPRESSION; GENE SEQUENCE; GENE STRUCTURE; GENETIC TRANSCRIPTION; IN VIVO STUDY; MITOCHONDRIAL GENETICS; MOLECULAR EVOLUTION; NONHUMAN; PRIORITY JOURNAL; PROMOTER REGION; SACCHAROMYCES CEREVISIAE; SHORT TANDEM REPEAT;

SACCHAROMYCES CEREVISIAE;

EID: 33751404867     PISSN: 15677249     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.mito.2006.10.003     Document Type: Article

References (39)

1. Amiott E.A., and Jaehning J.A. Mitochondrial transcription is regulated via an ATP "sensing" mechanism that couples RNA abundance to respiration. Mol. Cell 22 (2006) 329-338
2. Attardi G., and Schatz G. Biogenesis of mitochondria. Annu. Rev. Cell Biol. 4 (1988) 289-333
3. Birky Jr. C.W. Transmission genetics of mitochondria and chloroplasts. Annu. Rev. Genet. 12 (1978) 471-512
4. Biswas T.K. Usage of non-canonical promoter sequence by the yeast mitochondrial RNA polymerase. Gene 212 (1998) 305-314
5. Biswas T.K. Nucleotide sequences surrounding the nonanucleotide promoter motif influence the activity of yeast mitochondrial promoter. Biochemistry 38 (1999) 9693-9703
6. Bonnefoy N., and Fox T.D. In vivo analysis of mutated initiation codons in the mitochondrial COX2 gene of Saccharomyces cerevisiae fused to the reporter gene ARG8m reveals lack of downstream reinitiation. Mol. Gen. Genet. 262 (2000) 1036-1046
7. Bonnefoy N., and Fox T.D. Genetic transformation of Saccharomyces cerevisiae mitochondria. Methods Cell. Biol. 65 (2001) 381-396
8. Butow R.A., and Avadhani N.G. Mitochondrial signaling: the retrograde response. Mol. Cell 14 (2004) 1-15
9. Chen D.C., Yang B.C., and Kuo T.T. One-step transformation of yeast in stationary phase. Curr. Genet. 21 (1992) 83-84
10. Chen O.S., Crisp R.J., Valachovic M., Bard M., Winge D.R., et al. Transcription of the yeast iron regulon does not respond directly to iron but rather to iron-sulfur cluster biosynthesis. J. Biol. Chem. 279 (2004) 29513-29518 Epub 22004 Apr 29528
11. Dere R., Napierala M., Ranum L.P., and Wells R.D. Hairpin structure-forming propensity of the (CCTG.CAGG) tetranucleotide repeats contributes to the genetic instability associated with myotonic dystrophy type 2. J. Biol. Chem. 279 (2004) 41715-41726 Epub 42004 Jul 41729
12. Dujon B. In: Strathern J.N., Jones E.W., and Broach J.R. (Eds). Molecular Biology of the Yeast Saccharomyces: Life Cycle and Inheritance (1981), Cold Spring Harbor, New York 505-635
13. Dunstan H.M., Green-Willms N.S., and Fox T.D. In vivo analysis of Saccharomyces cerevisiae COX2 mRNA 5′-untranslated leader functions in mitochondrial translation initiation and translational activation. Genetics 147 (1997) 87-100
14. Fox T.D., Folley L.S., Mulero J.J., McMullin T.W., Thorsness P.E., et al. Analysis and manipulation of yeast mitochondrial genes. Methods Enzymol. 194 (1991) 149-165
15. Hill J.E., Myers A.M., Koerner T.J., and Tzagoloff A. Yeast/E. coli shuttle vectors with multiple unique restriction sites. Yeast 2 (1986) 163-167
16. Iglesias A.R., Kindlund E., Tammi M., and Wadelius C. Some microsatellites may act as novel polymorphic cis-regulatory elements through transcription factor binding. Gene 341 (2004) 149-165
17. Iqbal J., Gerard H.C., Rahman M.U., and Hudson A.P. A probable cis-regulatory element on yeast mitochondrial DNA responsible for cAMP-mediated transcription. Curr. Genet. 30 (1996) 493-501
18. Johnston M. Feasting, fasting and fermenting. Glucose sensing in yeast and other cells. Trends Genet. 15 (1999) 29-33
19. Kouzine F., Liu J., Sanford S., Chung H.J., and Levens D. The dynamic response of upstream DNA to transcription-generated torsional stress. Nat. Struct. Mol. Biol. 11 (2004) 1092-1100 Epub 2004 Oct 1024
20. Lira M.E., Lloyd D.B., Hallowell S., Milos P.M., and Thompson J.F. Highly polymorphic repeat region in the CETP promoter induces unusual DNA structure. Biochim. Biophys. Acta 1684 (2004) 38-45
21. Lisowsky T., and Michaelis G. A nuclear gene essential for mitochondrial replication suppresses a defect of mitochondrial transcription in Saccharomyces cerevisiae. Mol. Gen. Genet. 214 (1988) 218-223
22. Lupold D.S., Caoile A.G., and Stern D.B. The maize mitochondrial cox2 gene has five promoters in two genomic regions, including a complex promoter consisting of seven overlapping units. J. Biol. Chem. 274 (1999) 3897-3903
23. Masters B.S., Stohl L.L., and Clayton D.A. Yeast mitochondrial RNA polymerase is homologous to those encoded by bacteriophages T3 and T7. Cell 51 (1987) 89-99
24. Matsunaga M., and Jaehning J.A. Intrinsic promoter recognition by a "core" RNA polymerase. J. Biol. Chem. 279 (2004) 44239-44242 Epub 42004 Sep 44231
25. Mignotte F., Gueride M., Champagne A.M., and Mounolou J.C. Direct repeats in the non-coding region of rabbit mitochondrial DNA. Involvement in the generation of intra- and inter-individual heterogeneity. Eur. J. Biochem. 194 (1990) 561-571
26. Mulero J.J., and Fox T.D. Alteration of the Saccharomyces cerevisiae COX2 mRNA 5′-untranslated leader by mitochondrial gene replacement and functional interaction with the translational activator protein PET111. Mol. Biol. Cell 4 (1993) 1327-1335
27. Oh D.B., Kim Y.G., and Rich A. Z-DNA-binding proteins can act as potent effectors of gene expression in vivo. Proc. Natl. Acad. Sci. USA 99 (2002) 16666-16671 Epub 12002 Dec 16616
28. Pfeuty A., Gueride M., and Lecellier G. Expansion/contraction of mammalian mitochondrial DNA repeats in Escherichia coli mimics the mitochondrial heteroplasmy. J. Mol. Biol. 314 (2001) 709-716
29. Puopolo K.M., and Madoff L.C. Upstream short sequence repeats regulate expression of the alpha C protein of group B Streptococcus. Mol. Microbiol. 50 (2003) 977-991
30. Rose M.D., Winston F., and Hieter P. Methods in Yeast Genetics (1988), Cold Spring Harbor Laboratory Press, Cold Spring Harbor, New York
31. Rothenburg S., Koch-Nolte F., and Haag F. DNA methylation and Z-DNA formation as mediators of quantitative differences in the expression of alleles. Immunol. Rev. 184 (2001) 286-298
32. Rutherford J.C., and Bird A.J. Metal-responsive transcription factors that regulate iron, zinc, and copper homeostasis in eukaryotic cells. Eukaryot. Cell 3 (2004) 1-13
33. Schuller H.J. Transcriptional control of nonfermentative metabolism in the yeast Saccharomyces cerevisiae. Curr. Genet. 43 (2003) 139-160 Epub 2003 Apr 2025
34. Sheridan S.D., Opel M.L., and Hatfield G.W. Activation and repression of transcription initiation by a distant DNA structural transition. Mol. Microbiol. 40 (2001) 684-690
35. Sia E.A., Butler C.A., Dominska M., Greenwell P., Fox T.D., and Petes T.D. Analysis of microsatellite mutations in the mitochondrial DNA of Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. USA 97 (2000) 250-255
36. Steele D.F., Butler C.A., and Fox T.D. Expression of a recoded nuclear gene inserted into yeast mitochondrial DNA is limited by mRNA-specific translational activation. Proc. Natl. Acad. Sci. USA 93 (1996) 5253-5257
37. Tian G.L., Macadre C., Kruszewska A., Szczesniak B., Ragnini A., et al. Incipient mitochondrial evolution in yeasts. I. The physical map and gene order of Saccharomyces douglasii mitochondrial DNA discloses a translocation of a segment of 15,000 base-pairs and the presence of new introns in comparison with Saccharomyces cerevisiae. J. Mol. Biol. 218 (1991) 735-746
38. Wach A., Pick H., and Philippsen P. Procedures for isolating yeast DNA for different purposes. In: Johnston J.R. (Ed). Molecular Genetics of Yeast, A Practical Approach (1994), Oxford University Press, New York 1-16
39. Yaffe M.P. Analysis of mitochondrial function and assembly. Methods Enzymol. 194 (1991) 627-643