Skip to main content
Log in

Mutations in mitochondrial DNA and approaches for their correction

  • Review
  • Published:
Biochemistry (Moscow) Aims and scope Submit manuscript

Abstract

Apart from the nucleus, the mitochondrion is the only organelle of an animal cell that contains its own genome. Mitochondrial DNA is much less in size than the nuclear one and codes for only several dozens of biological macromolecules. Nevertheless, mutations in mitochondrial genes often result in the occurrence of serious hereditary neuromuscular diseases. New mitochondrial DNA mutations and their relations to clinical symptoms are continuously reported in the scientific literature. In this review, we summarize existing data about such mutations, and also about contemporary gene therapy approaches that have been developed for their suppression.

This is a preview of subscription content, log in via an institution to check access.

Access this article

Price excludes VAT (USA)
Tax calculation will be finalised during checkout.

Instant access to the full article PDF.

Similar content being viewed by others

Abbreviations

mtDNA:

mitochondrial DNA

References

  1. Naviaux, R. K. (2004) Developing a systematic approach to the diagnosis and classification of mitochondrial disease, Mitochondrion, 4, 351–361.

    Article  CAS  PubMed  Google Scholar 

  2. Luft, R., Ikkos, D., Palmieri, G., Ernster, L., and Afzelius, B. (1962) A case of severe hypermetabolism of nonthyroid origin with a defect in the maintenance of mitochondrial respiratory control: a correlated clinical, biochemical, and morphological study, J. Clin. Invest., 41, 1776–1804.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  3. DiMauro, S., Bonilla, E., Zeviani, M., Nakagawa, M., and DeVivo, D. C. (1985) Mitochondrial myopathies, Ann. Neurol., 17, 521–538.

    Article  CAS  PubMed  Google Scholar 

  4. Nass, S., and Nass, M. M. (1963) Intramitochondrial fibers with DNA characteristics. II. Enzymatic and other hydrolytic treatments, J. Cell Biol., 19, 613–629.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  5. Montoya, J., Christianson, T., Levens, D., Rabinowitz, M., and Attardi, G. (1982) Identification of initiation sites for heavy-strand and light-strand transcription in human mitochondrial DNA, Proc. Natl. Acad. Sci. USA, 79, 7195–7199.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  6. Wallace, D. C., Singh, G., Lott, M. T., Hodge, J. A., Shurr, T. G., Lezza, A. M., Elsas, L. J., 2nd, and Nikoskelainen, E. K. (1988) Mitochondrial DNA mutation associated with Leber’s hereditary optic neuropathy, Science, 242, 1427–1430.

    Article  CAS  PubMed  Google Scholar 

  7. Holt, I. J., Harding, A. E., and Morgan-Hughes, J. A. (1988) Deletions of muscle mitochondrial DNA in patients with mitochondrial myopathies, Nature, 331, 717–719.

    Article  CAS  PubMed  Google Scholar 

  8. Dimauro, S. (2011) A history of mitochondrial diseases, J. Inherit. Metab. Dis., 34, 261–276.

    Article  CAS  PubMed  Google Scholar 

  9. Spelbrink, J. N. (2010) Functional organization of mammalian mitochondrial DNA in nucleoids: history, recent developments, and future challenges, IUBMB Life, 62, 19–32.

    CAS  PubMed  Google Scholar 

  10. Anderson, S., Bankier, A. T., Barrell, B. G., de Bruijn, M. H., Coulson, A. R., Drouin, J., Eperon, I. C., Nierlich, D. P., Roe, B. A., Sanger, F., Schreier, P. H., Smith, A. J., Staden, R., and Young, I. G. (1981) Sequence and organization of the human mitochondrial genome, Nature, 290, 457–465.

    Article  CAS  PubMed  Google Scholar 

  11. Lightowlers, R. N., Chinnery, P. F., Turnbull, D. M., and Howell, N. (1997) Mammalian mitochondrial genetics: heredity, heteroplasmy and disease, Trends Genet., 13, 450–455.

    Article  CAS  PubMed  Google Scholar 

  12. Chinnery, P. F., Howell, N., Lightowlers, R. N., and Turnbull, D. M. (1998) Genetic counseling and prenatal diagnosis for mtDNA disease, Am. J. Hum. Genet., 63, 1908–1911.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  13. Cummins, J. M. (2000) Fertilization and elimination of the paternal mitochondrial genome, Hum. Reprod., 15, 92–101.

    Article  PubMed  Google Scholar 

  14. Schwartz, M., and Vissing, J. (2002) Paternal inheritance of mitochondrial DNA, N. Engl. J. Med., 347, 576–580.

    Article  PubMed  Google Scholar 

  15. Wonnapinij, P., Chinnery, P. F., and Samuels, D. C. (2008) The distribution of mitochondrial DNA heteroplasmy due to random genetic drift, Am. J. Hum. Genet., 83, 582–593.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  16. Gilkerson, R. W., and Schon, E. A. (2008) Nucleoid autonomy: an underlying mechanism of mitochondrial genetics with therapeutic potential, Commun. Integr. Biol., 1, 34–36.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  17. Dean, N. L., Battersby, B. J., Ao, A., Gosden, R. G., Tan, S. L., Shoubridge, E. A., and Molnar, M. J. (2003) Prospect of pre-implantation genetic diagnosis for heritable mitochondrial DNA diseases, Mol. Hum. Reprod., 9, 631–638.

    Article  CAS  PubMed  Google Scholar 

  18. De Laat, P., Koene, S., Heuvel, L. P., Rodenburg, R. J., Janssen, M. C., and Smeitink, J. A. (2013) Inheritance of the m.3243A>G mutation, JIMD Rep., 8, 47–50.

    Article  PubMed Central  PubMed  Google Scholar 

  19. Shoubridge, E. A., and Wai, T. (2007) Mitochondrial DNA and the mammalian oocyte, Curr. Top Dev. Biol., 77, 87–111.

    Article  CAS  PubMed  Google Scholar 

  20. Calvo, S. E., and Mootha, V. K. (2010) The mitochondrial proteome and human disease, Annu. Rev. Genom. Hum. Genet., 11, 25–44.

    Article  CAS  Google Scholar 

  21. Harbauer, A. B., Zahedi, R. P., Sickmann, A., Pfanner, N., and Meisinger, C. (2014) The protein import machinery of mitochondria — a regulatory hub in metabolism, stress, and disease, Cell Metab., 4, 357–372.

    Article  Google Scholar 

  22. Wang, J., Schmitt, E. S., Landsverk, M. L., Zhang, V. W., Li, F. Y., Graham, B. H., Craigen, W. J., and Wong, L. J. (2012) An integrated approach for classifying mitochondrial DNA variants: one clinical diagnostic laboratory’s experience, Genet. Med., 14, 620–626.

    Article  PubMed  Google Scholar 

  23. DiMauro, S., and Schon, E. A. (2001) Mitochondrial DNA mutations in human disease, Am. J. Med. Genet., 106, 18–26.

    Article  CAS  PubMed  Google Scholar 

  24. Bosley, T. M., and Abu-Amero, K. K. (2010) Assessing mitochondrial DNA nucleotide changes in spontaneous optic neuropathies, Ophthalm. Genet., 31, 163–172.

    Article  CAS  Google Scholar 

  25. Schiff, M., Benit, P., Jacobs, H. T., Vockley, J., and Rustin, P. (2012) Therapies in inborn errors of oxidative metabolism, Trends Endocrinol. Metab., 23, 488–495.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  26. Manfredi, G., Fu, J., Ojaimi, J., Sadlock, J. E., Kwong, J. Q., Guy, J., and Schon, E. A. (2002) Rescue of a deficiency in ATP synthesis by transfer of MTATP6, a mitochondrial DNA-encoded gene, to the nucleus, Nature Genet., 30, 394–399.

    Article  CAS  PubMed  Google Scholar 

  27. Kaltimbacher, V., Bonnet, C., Lecoeuvre, G., Forster, V., Sahel, J. A., and Corral-Debrinski, M. (2006) mRNA localization to the mitochondrial surface allows the efficient translocation inside the organelle of a nuclear recoded ATP6 protein, RNA, 12, 1408–1417.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  28. Bonnet, C., Kaltimbacher, V., Ellouze, S., Augustin, S., Benit, P., Forster, V., Rustin, P., Sahel, J. A., and Corral-Debrinski, M. (2007) Allotopic mRNA localization to the mitochondrial surface rescues respiratory chain defects in fibroblasts harboring mitochondrial DNA mutations affecting complex I or v-subunits, Rejuven. Res., 10, 127–144.

    Article  CAS  Google Scholar 

  29. Ojaimi, J., Pan, J., Santra, S., Snell, W. J., and Schon, E. A. (2002) An algal nucleus-encoded subunit of mitochondrial ATP synthase rescues a defect in the analogous human mitochondrial-encoded subunit, Mol. Biol. Cell, 13, 3836–3844.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  30. Tanaka, M., Borgeld, H. J., Zhang, J., Muramatsu, S., Gong, J. S., Yoneda, M., Maruyama, W., Naoi, M., Ibi, T., Sahashi, K., Shamoto, M., Fuku, N., Kurata, M., Yamada, Y., Nishizawa, K., Akao, Y., Ohishi, N., Miyabayashi, S., Umemoto, H., Muramatsu, T., Furukawa, K., Kikuchi, A., Nakano, I., Ozawa, K., and Yagi, K. (2002) Gene therapy for mitochondrial disease by delivering restriction endonuclease SmaI into mitochondria, J. Biomed. Sci., 9, 534–541.

    CAS  PubMed  Google Scholar 

  31. Alexeyev, M. F., Venediktova, N., Pastukh, V., Shokolenko, I., Bonilla, G., and Wilson, G. L. (2008) Selective elimination of mutant mitochondrial genomes as therapeutic strategy for the treatment of NARP and MILS syndromes, Gene Ther., 15, 516–523.

    Article  CAS  PubMed  Google Scholar 

  32. Bacman, S. R., Williams, S. L., Garcia, S., and Moraes, C. T. (2010) Organ-specific shifts in mtDNA heteroplasmy following systemic delivery of a mitochondria-targeted restriction endonuclease, Gene Ther., 17, 713–720.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  33. Minczuk, M., Papworth, M. A., Kolasinska, P., Murphy, M. P., and Klug, A. (2006) Sequence-specific modification of mitochondrial DNA using a chimeric zinc finger methylase, Proc. Natl. Acad. Sci. USA, 103, 19689–19694.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  34. Gammage, P. A., Rorbach, J., Vincent, A. I., Rebar, E. J., and Minczuk, M. (2014) Mitochondrially targeted ZFNs for selective degradation of pathogenic mitochondrial genomes bearing large-scale deletions or point mutations, EMBO Mol. Med., 6, 458–466.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  35. Guy, J., Qi, X., Pallotti, F., Schon, E. A., Manfredi, G., Carelli, V., Martinuzzi, A., Hauswirth, W. W., and Lewin, A. S. (2002) Rescue of a mitochondrial deficiency causing Leber hereditary optic neuropathy, Ann. Neurol., 52, 534–542.

    Article  CAS  PubMed  Google Scholar 

  36. Yu, H., Koilkonda, R. D., Chou, T. H., Porciatti, V., Ozdemir, S. S., Chiodo, V., Boye, S. L., Boye, S. E., Hauswirth, W. W., Lewin, A. S., and Guy, J. (2012) Gene delivery to mitochondria by targeting modified adenoassociated virus suppresses Leber’s hereditary optic neuropathy in a mouse model, Proc. Natl. Acad. Sci. USA, 109, 1238–1247.

    Article  Google Scholar 

  37. Park, J. S., Li, Y. F., and Bai, Y. (2007) Yeast NDI1 improves oxidative phosphorylation capacity and increases protection against oxidative stress and cell death in cells carrying a Leber’s hereditary optic neuropathy mutation, Biochim. Biophys. Acta, 1772, 533–542.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  38. Bonnet, C., Augustin, S., Ellouze, S., Benit, P., Bouaita, A., Rustin, P., Sahel, J. A., and Corral-Debrinski, M. (2008) The optimized allotopic expression of ND1 or ND4 genes restores respiratory chain complex I activity in fibroblasts harboring mutations in these genes, Biochim. Biophys. Acta, 1783, 1707–1717.

    Article  CAS  PubMed  Google Scholar 

  39. Bacman, S. R., Williams, S. L., Pinto, M., Peralta, S., and Moraes, C. T. (2013) Specific elimination of mutant mitochondrial genomes in patient-derived cells by mitoTALENs, Nature Med., 19, 1111–1113.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  40. Kolesnikova, O. A., Entelis, N. S., Jacquin-Becker, C., Goltzene, F., Chrzanowska-Lightowlers, Z. M., Lightowlers, R. N., Martin, R. P., and Tarassov, I. (2004) Nuclear DNA-encoded tRNAs targeted into mitochondria can rescue a mitochondrial DNA mutation associated with the MERRF syndrome in cultured human cells, Hum. Mol. Genet., 13, 2519–2534.

    Article  CAS  PubMed  Google Scholar 

  41. Kolesnikova, O. A., Entelis, N. S., Mireau, H., Fox, T. D., Martin, R. P., and Tarassov, I. A. (2000) Suppression of mutations in mitochondrial DNA by tRNAs imported from the cytoplasm, Science, 289, 1931–1933.

    Article  CAS  PubMed  Google Scholar 

  42. Tarassov, I., Kamenski, P., Kolesnikova, O., Karicheva, O., Martin, R. P., Krasheninnikov, I. A., and Entelis, N. (2007) Import of nuclear DNA-encoded RNAs into mitochondria and mitochondrial translation, Cell Cycle, 6, 2473–2477.

    Article  CAS  PubMed  Google Scholar 

  43. Wang, G., Shimada, E., Zhang, J., Hong, J. S., Smith, G. M., Teitell, M. A., and Koehler, C. M. (2012) Correcting human mitochondrial mutations with targeted RNA import, Proc. Natl. Acad. Sci. USA, 109, 4840–4845.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  44. Ling, J., Yadavalli, S. S., and Ibba, M. (2007) Phenylalanyl-tRNA synthetase editing defects result in efficient mistranslation of phenylalanine codons as tyrosine, RNA, 13, 1881–1886.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  45. Park, H., Davidson, E., and King, M. P. (2008) Overexpressed mitochondrial leucyl-tRNA synthetase suppresses the A3243G mutation in the mitochondrial tRNA (Leu (UUR)) gene, RNA, 14, 2407–2416.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  46. Karicheva, O. Z., Kolesnikova, O. A., Schirtz, T., Vysokikh, M. Y., Mager-Heckel, A. M., Lombes, A., Boucheham, A., Krasheninnikov, I. A., Martin, R. P., Entelis, N., and Tarassov, I. (2011) Correction of the consequences of mitochondrial 3243A>G mutation in the MT-TL1 gene causing the MELAS syndrome by tRNA import into mitochondria, Nucleic Acids Res., 39, 8173–8186.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  47. Comte, C., Tonin, Y., Heckel-Mager, A. M., Boucheham, A., Smirnov, A., Aure, K., Lombes, A., Martin, R. P., Entelis, N., and Tarassov, I. (2013) Mitochondrial targeting of recombinant RNAs modulates the level of a heteroplasmic mutation in human mitochondrial DNA associated with Kearns-Sayre Syndrome, Nucleic Acids Res., 41, 418–433.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  48. Schon, E. A., Santra, S., Pallotti, F., and Girvin, M. E. (2001) Pathogenesis of primary defects in mitochondrial ATP synthesis, Sem. Cell Dev. Biol., 12, 441–448.

    Article  CAS  Google Scholar 

  49. Solaini, G., Harris, D. A., Lenaz, G., Sgarbi, G., and Baracca, A. (2008) The study of the pathogenic mechanism of mitochondrial diseases provides information on basic bioenergetics, Biochim. Biophys. Acta, 1777, 941–945.

    Article  CAS  PubMed  Google Scholar 

  50. Holt, I. J., Harding, A. E., Petty, R. K., and Morgan-Hughes, J. A. (1990) A new mitochondrial disease associated with mitochondrial DNA heteroplasmy, Am. J. Hum. Genet., 46, 428–433.

    CAS  PubMed Central  PubMed  Google Scholar 

  51. Tatuch, Y., Christodoulou, J., Feigenbaum, A., Clarke, J. T., Wherret, J., Smith, C., Rudd, N., Petrova-Benedict, R., and Robinson, B. H. (1992) Heteroplasmic mtDNA mutation (T-G) at 8993 can cause Leigh disease when the percentage of abnormal mtDNA is high, Am. J. Hum. Genet., 50, 852–858.

    CAS  PubMed Central  PubMed  Google Scholar 

  52. Bacman, S. R., Williams, S. L., Duan, D., and Moraes, C. T. (2012) Manipulation of mtDNA heteroplasmy in all striated muscles of newborn mice by AAV9-mediated delivery of a mitochondria-targeted restriction endonuclease, Gene Ther., 19, 1101–1106.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  53. Sadun, A. A., La Morgia, C., and Carelli, V. (2011) Leber’s hereditary optic neuropathy, Curr. Treat. Options Neurol., 13, 109–117.

    Article  PubMed  Google Scholar 

  54. Huoponen, K., Vilkki, J., Aula, P., Nikoskelainen, E. K., and Savontaus, M. L. (1991) A new mtDNA mutation associated with Leber hereditary optic neuroretinopathy, Am. J. Hum. Genet., 48, 1147–1153.

    CAS  PubMed Central  PubMed  Google Scholar 

  55. Jun, A. S., Trounce, I. A., Brown, M. D., Shoffner, J. M., and Wallace, D. C. (1996) Use of trans-mitochondrial cybrids to assign a complex I defect to the mitochondrial DNA-encoded NADH dehydrogenase subunit 6 gene mutation at nucleotide pair 14,459 that causes Leber hereditary optic neuropathy and dystonia, Mol. Cell Biol., 16, 771–777.

    CAS  PubMed Central  PubMed  Google Scholar 

  56. Cermak, T., Doyle, E. L., Christian, M., Wang, L., Zhang, Y., Schmidt, C., Baller, J. A., Somia, N. V., Bogdanove, A. J., and Voytas, D. F. (2011) Efficient design and assembly of custom TALEN and other TAL effector-based constructs for DNA targeting, Nucleic Acids Res., 39, e82.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  57. Silvestri, G., Ciafaloni, E., Santorelli, F. M., Shanske, S., Servidei, S., Graf, W. D., Sumi, M., and DiMauro, S. (1993) Clinical features associated with the A->G transition at nucleotide 8344 of mtDNA (“MERRF mutation”), Neurology, 43, 1200–1206.

    Article  CAS  PubMed  Google Scholar 

  58. Tonin, Y., Heckel, A. M., Dovydenko, I., Meschaninova, M., Comte, C., Venyaminova, A., Pyshnyi, D., Tarassov, I., and Entelis, N. (2014) Characterization of chemically modified oligonucleotides targeting a pathogenic mutation in human mitochondrial DNA, Biochimie, 100, 192–199.

    Article  CAS  PubMed  Google Scholar 

  59. Mancuso, M., Filosto, M., Mootha, V. K., Rocchi, A., Pistolesi, S., Murri, L., DiMauro, S., and Siciliano, G. (2004) A novel mitochondrial tRNAPhe mutation causes MERRF syndrome, Neurology, 62, 2119–2121.

    Article  CAS  PubMed  Google Scholar 

  60. Suzuki, T., Nagao, A., and Suzuki, T. (2011) Human mitochondrial tRNAs: biogenesis, function, structural aspects, and diseases, Annu. Rev. Genet., 45, 299–329.

    Article  CAS  PubMed  Google Scholar 

  61. Schon, E. A., Rizzuto, R., Moraes, C. T., Nakase, H., Zeviani, M., and DiMauro, S. (1989) A direct repeat is a hotspot for large-scale deletion of human mitochondrial DNA, Science, 244, 346–349.

    Article  CAS  PubMed  Google Scholar 

  62. Maceluch, J. A., and Niedziela, M. (2006) The clinical diagnosis and molecular genetics of Kearns-Sayre syndrome: a complex mitochondrial encephalomyopathy, Pediatr. Endocrinol. Rev., 4, 117–137.

    PubMed  Google Scholar 

  63. Corral-Debrinski, M., Horton, T., Lott, M. T., Shoffner, J. M., Beal, M. F., and Wallace, D. C. (1992) Mitochondrial DNA deletions in human brain: regional variability and increase with advanced age, Nature Genet., 2, 324–329.

    Article  CAS  PubMed  Google Scholar 

  64. Kolesnikova, O., Kazakova, H., Comte, C., Steinberg, S., Kamenski, P., Martin, R. P., Tarassov, I., and Entelis, N. (2010) Selection of RNA aptamers imported into yeast and human mitochondria, RNA, 16, 926–941.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  65. Dimauro, S. (2004) Mitochondrial medicine, Biochim. Biophys. Acta, 1659, 107–114.

    Article  CAS  PubMed  Google Scholar 

  66. Pfeffer, G., Horvath, R., Klopstock, T., Mootha, V. K., Suomalainen, A., Koene, S., Hirano, M., Zeviani, M., Bindoff, L. A., Yu-Wai-Man, P., Hanna, M., Carelli, V., McFarland, R., Majamaa, K., Turnbull, D. M., Smeitink, J., and Chinnery, P. F. (2013) New treatments for mitochondrial disease — no time to drop our standards, Nature Rev. Neurol., 9, 474–481.

    Article  CAS  Google Scholar 

  67. Footitt, E. J., Sinha, M. D., Raiman, J. A., Dhawan, A., Moganasundram, S., and Champion, M. P. (2008) Mitochondrial disorders and general anaesthesia: a case series and review, Br. J. Anaesth., 100, 436–441.

    Article  CAS  PubMed  Google Scholar 

  68. Tachibana, M., Amato, P., Sparman, M., Woodward, J., Sanchis, D. M., Ma, H., Gutierrez, N. M., Tippner-Hedges, R., Kang, E., Lee, H. S., Ramsey, C., Masterson, K., Battaglia, D., Lee, D., Wu, D., Jensen, J., Patton, P., Gokhale, S., Stouffer, R., and Mitalipov, S. (2013) Towards germline gene therapy of inherited mitochondrial diseases, Nature, 493, 627–631.

    Article  CAS  PubMed Central  PubMed  Google Scholar 

  69. Bredenoord, A. L., Dondorp, W., Pennings, G., and De Wert, G. (2011) Ethics of modifying the mitochondrial genome, J. Med. Ethics, 37, 97–100.

    Article  CAS  PubMed  Google Scholar 

Download references

Author information

Authors and Affiliations

Authors

Corresponding authors

Correspondence to P. A. Kamenski or I. O. Mazunin.

Additional information

Original Russian Text © M. V. Patrushev, P. A. Kamenski, I. O. Mazunin, 2014, published in Biokhimiya, 2014, Vol. 79, No. 11, pp. 1417–1428.

Rights and permissions

Reprints and permissions

About this article

Check for updates. Verify currency and authenticity via CrossMark

Cite this article

Patrushev, M.V., Kamenski, P.A. & Mazunin, I.O. Mutations in mitochondrial DNA and approaches for their correction. Biochemistry Moscow 79, 1151–1160 (2014). https://doi.org/10.1134/S0006297914110029

Download citation

  • Received:

  • Revised:

  • Published:

  • Issue Date:

  • DOI: https://doi.org/10.1134/S0006297914110029

Key words

Navigation