Rodríguez-Salinas E, González-Halphen D

Language: Spanish
References: 62
Page: 44-57
PDF size: 292.85 Kb.

ABSTRACT

The number of completely sequenced green algal mitochondrial genomes is expanding rapidly. However, comparative studies have revealed very different mitochondrial genome organizations, structures and gene contents. Gene transfer events from mitochondrial DNA to the nucleus have occurred during the evolutionary history of green algae. This genetic flux has shaped mitochondrial genome content and has increased nuclear genome complexity. This review examines the relationship between mitochondrial and nuclear genome evolution in the chlorophycean lineage of green algae and describes rare genome arrangements that are unlikely to have occurred twice during the evolutionary history of this lineage and therefore can be used in phylogenetic studies.

REFERENCES

1. Adams KL., & J. D. Palmer. 2003. Evolution of mitochondrial gene content: gene loss and transfer to the nucleus. Mol Phylogenet Evol. 29: 380-395.

2. Andersson, SGO, Karlberg, B. Canbäck & CG. Kurland. 2003. On the origin of mitochondria: a genomics perspective. Philos Trans R Soc Lond B Biol Sci. 358: 165-179.

3. Babushok, D. V., E. M. Ostertag & H. H. Jr. Kazazian. 2007. Current topics in genome evolution: molecular mechanisms of new gene formation. Cell Mol Life Sci. 64: 542-554.

4. Barr, C. M., M. Neiman & D. R. Taylor. 2005. Inheritance and recombination of mitochondrial genomes in plants, fungi and animals. New Phytol. 168(1):39-50.

5. Boer, P. H. & M. W. Gray. 1988. Genes encoding a subunit of respiratory NADH dehydrogenase (ND1) and a reverse transcriptase-like protein (RTL) are linked to ribosomal RNA gene pieces in Chlamydomonas reinhardtii mitochondrial DNA. EMBO J. 7: 3501-3508.

6. Brown, W. M., M. Jr. George & A. C. Wilson. 1979. Rapid evolution of animal mitochondrial DNA. Proc Natl Acad Sci U S A. 76: 1967-1971.

7. Bullerwell, D. E. & M. W. Gray. 2004. Evolution of the mitochondrial genome: protist connections to animals, fungi and plants. Curr Opin Microbiol. 7: 528-534.

8. Burger, G., M. W. Gray & B. F. Lang. 2003. Mitochondrial genomes: anything goes. Trends Genet. 19(12):709-16.

9. C onway, D. J., C. Fanello, J. M. Lloyd, B. M. Al-Joubori, A. H. Baloch, S. D. Somanath, C. Roper, A. M. Oduola, B. Mulder, M. M. Povoa, B. Singh & A. W. Thomas. 2000. Origin of Plasmodium falciparum malaria is traced by mitochondrial DNA. Mol Biochem Parasitol. 111: 163-171.

10. Denovan-Wright, E. M., A. M. Nedelcu & R. W. Lee. 1998. Complete sequence of the mitochondrial DNA of Chlamydomonas eugametos. Plant Mol Biol. 36: 285-295.

11. Dieckmann, C. L. & B. Gandy. 1987. Preferential recombination between GC clusters in yeast mitochondrial DNA. EMBO J. 6: 4197-4203.

12. Fan, J. & R. W. Lee. 2002. Mitochondrial genome of the colorless green alga Polytomella parva: two linear DNA molecules with homologous inverted repeat Termini. Mol Biol Evol. 19: 999-1007.

13. Fauron, C., M. Casper, Y. Gao & B. Moore. 1995. The maize mitochondrial genome: dynamic, yet functional. Trends Genet. 11: 228-235.

14. Fedorova, L. & A. Fedorov. 2003. Introns in gene evolution. Genetica. 118: 123-131.

15. Funes, S., E. Davidson, A. Reyes-Prieto, S. Magallón, P. Herion, M. P. King & D. González-Halphen. 2002. A green algal apicoplast ancestor. Science. 298: 2155.

16. Funes, S., E. Davidson, M. G. Claros, R. van Lis, X. Pérez-Martínez, M. Vázquez-Acevedo, M. P. King & D. González-Halphen. 2002. The typically mitochondrial DNA-encoded ATP6 subunit of the F1F0-ATPase is encoded by a nuclear gene in Chlamydomonas reinhardtii. J Biol Chem. 277: 6051-6058.

17. Funes, S., X. Pérez-Martínez, A. Antamarian., M. Vázquez-Acevedo, R. van Lis, A. Reyes-Prieto, J. I. Santillán-Torres, M. G. Claros, E. Davidson, M. P. King & D. González-Halphen. 2002. Transfer of Mitochondrial Genes to the Nucleus in Chlamydomonad Algae: Perspectives for the Allotopic Expression of OX-PHOS Proteins and Future Human therapies. pp. 173-194. Recent Research Developments in bioenergetics. Research Signpost, India.

18. González-Halphen, D., X. Pérez-Martínez, S. Funes, A. Reyes-Prieto & J. L. Santillán-Torres. 2003. La migración de genes de la mitocondria al núcleo y la evolución de los genomas mitocondriales. Mensaje Bioquímico. Vol. XXVII: 201-220.

19. Gray, M. W., B. F. Lang, R. Cedergren, G. B. Golding, C. Lemieux, D. Sankoff, M. Turmel, N. Brossard, E. Delage, T. G. Littlejohn, I. Plante, P. Rioux, D. Saint-Louis, Y. Zhu & G. Burger. 1998. Genome structure and gene content in protist mitochondrial DNAs. Nucleic Acids Res. 26: 865-878.

20. Gray, M. W., G. Burger & B. F. Lang. 1999. Mitochondrial evolution. Science. 283: 1476-1481.

21. Gray, M. W., G. Burger & B. F. Lang. 2001. The origin and early evolution of mitochondria. Genome Biol. 2: 1018.1-1018.5.

22. Hartman, H. & A. Fedorov. 2002. The origin of the eukaryotic cell: a genomic investigation. Proc Natl Acad Sci U S A. 99: 1420-1425.

23. Haugen, P., D. M. Simon & D. Bhattacharya. 2005. The natural history of group I introns. Trends Genet. 21(2):111-9.

24. Katz, L. A. 2002. Lateral gene transfers and the evolution of eukaryotes: theories and data. Int J Syst Evol Microbiol. 52: 1893-1900.

25. Knight, R. D., L. F. Landweber & M. Yarus. 2001. How mitochondria redefine the code. J Mol Evol. 53(4-5):299-313.

26. Kroymann, J. & K. Zetsche. 1998. The mitochondrial genome of Chlorogonium elongatum inferred from the complete sequence. J Mol Evol. 47: 431-440.

27. Lang, B. F., G. Burger, C. J. O’Kelly, R. Cedergren, G. B. Golding, C. Lemieux, D. Sankoff, M. Turmel & M. W. Gray. 1997. An ancestral mitochondrial DNA resembling a eubacterial genome in miniature. Nature. 387: 493-497.

28. Lewis, L. A. & R. M. McCourt. 2004. Green algae and the origin of land plants. Am J Bot. 91: 1535-1556.

29. Logan, D. C. 2007. The mitochondrial compartment. J Exp Bot. 58: 1225-1243.

30. Louis, E. J. 2007. Evolutionary genetics: making the most of redundancy. Nature. 449: 677-681.

31. Margulis L. 1975. Symbiotic theory of the origin of eukaryotic organelles; criteria for proof. Symp Soc Exp Biol. (29):21-38.

32. Margulis, L. & D. Sagan. 2003. Acquiring Genomes: A Theory of the Origins of Species. pp. 201-205 Basic Books USA.

33. Margulis, L. & K.V. Schwartz. 1998. Five Kingdoms: An Illustrated Guide to the Phyla of Life on Earth. pp. 192-193. 3ra ed. W. H. Freeman and company. N Y.

34. Mentel, M. & W. Martin. 2008. Energy metabolism among eukaryotic anaerobes in light of Proterozoic ocean chemistry. Philos Trans R Soc Lond B Biol Sci. 363(1504):2717-29.

35. Morris, J. C., M. E. Drew, M. M. Klingbeil, S. A. Motyka, T. T. Saxowsky, Z. Wang & P. T. Englund. 2001. Replication of kinetoplast DNA: an update for the new millennium. Int J Parasitol. 31: 453-458.

36. Mühlenhoff, U. & R. Lill. 2000. Biogenesis of iron-sulfur proteins in eukaryotes: a novel task of mitochondria that is inherited from bacteria. Biochim Biophys Acta. 1459: 370-382.

37. Nedelcu, A. M. & R. W. Lee. 1998. Short repetitive sequences in green algal mitochondrial genomes: potential roles in mitochondrial genome evolution. Mol Biol Evol. 15: 690-701.

38. Nedelcu, A. M., R. W. Lee, Lemieux C, Gray MW & G. Burger. 2000. The complete mitochondrial DNA sequence of Scenedesmus obliquus reflects an intermediate stage in the evolution of the green algal mitochondrial genome. Genome Res. 10: 819-831.

39. Pérez-Martínez, X., A. Antaramian, M. Vázquez-Acevedo, S. Funes, E. Tolkunova, J. d’Alayer, M. G. Claros, E. Davidson, M. P. King & D. González-Halphen. 2001. Subunit II of cytochrome c oxidase in Chlamydomonad algae is a heterodimer encoded by two independent nuclear genes. J Biol Chem. 276: 11302-11309.

40. Pérez-Martínez, X., M. Vazquez-Acevedo, E. Tolkunova, S. Funes, M. G. Claros, E. Davidson, M. P. King & D. González-Halphen. 2000. Unusual location of a mitochondrial gene. Subunit III of cytochrome C oxidase is encoded in the nucleus of Chlamydomonad algae. J Biol Chem. 275: 30144-30152.

41. Pombert, J. F., C. Otis, C. Lemieux & M. Turmel. 2004. The complete mitochondrial DNA sequence of the green alga Pseudendoclonium akinetum (Ulvophyceae) highlights distinctive evolutionary trends in the chlorophyta and suggests a sister-group relationship between the Ulvophyceae and Chlorophyceae. Mol Biol Evol. 21: 922-935.

42. Pombert, J. F., P. Beauchamp, C. Otis, C. Lemieux & M. Turmel. 2006. The complete mitochondrial DNA sequence of the green alga Oltmannsiellopsis viridis: evolutionary trends of the mitochondrial genome in the Ulvophyceae. Curr Genet. 50: 137-147.

43. Pont-Kingdon, G., N. A. Okada, J. L. Macfarlane, C. T. Beagley, C. D. Watkins-Sims, T. Cavalier-Smith, G. D. Clark-Walker & D. R. Wolstenholme. 1998. Mitochondrial DNA of the coral Sarcophyton glaucum contains a gene for a homologue of bacterial MutS: a possible case of gene transfer from the nucleus to the mitochondrion. J Mol Evol. 46: 419-431.

44. Poole, A. M. & D. Penny. 2007. Evaluating hypotheses for the origin of eukaryotes. Bioessays. 29: 74-84.

45. Pröschold T, B. Marin, U. G. Schlösser & M. Melkonian. 2001. Molecular phylogeny and taxonomic revision of Chlamydomonas (Chlorophyta). Emendation of Chlamydomonas Ehrenberg and Chloromonas Gobi, and description of Oogamochlamys gen. nov. and Lobochlamys gen. nov. Protist. 152: 265-300.

46. R obbens, S., E. Derelle, C. Ferraz, J. Wuyts, H. Moreau & Y. Van de Peer. 2007. The complete chloroplast and mitochondrial DNA sequence of Ostreococcus tauri: organelle genomes of the smallest eukaryote are examples of compaction. Mol Biol Evol. 24: 956-968.

47. Saccone, C., C. Lanave & A. De Grassi. 2006. Metazoan OXPHOS gene families: evolutionary forces at the level of mitochondrial and nuclear genomes. Biochim Biophys Acta. 1757: 1171-1178.

48. Salinas, T., A. M. Duchêne & L. Maréchal-Drouard. 2008. Recent advances in tRNA mitochondrial import. Trends Biochem Sci. 33: 320-329.

49. Schmidt, E. E. & C. J. Davies. 2007. The origins of polypeptide domains. Bioessays. 29: 262-270.

50. Smith, D. R. & R. W. Lee. 2008. Mitochondrial genome of the colorless green alga Polytomella capuana: a linear molecule with an unprecedented GC content. Mol Biol Evol. 25: 487-496.

51. Sugino, R. P. & H. Innan. 2006. Selection for more of the same product as a force to enhance concerted evolution of duplicated genes. Trends Genet. 22(12):642-4.

52. Tamames, J. 2001. Evolution of gene order conservation in prokaryotes. Genome Biol. 2: 20.1-20.11.

53. Terasawa, K., M. Odahara, Y. Kabeya, T. Kikugawa, Y. Sekine, M. Fujiwara & N. Sato. 2007. The mitochondrial genome of the moss Physcomitrella patens sheds new light on mitochondrial evolution in land plants. Mol Biol Evol. 24: 699-709.

54. Timmis, J. N., M. A. Ayliffe, C. Y. Huang & W. Martin. 2004. Endosymbiotic gene transfer: organelle genomes forge eukaryotic chromosomes. Nat Rev Genet. 5: 123-135.

55. Turmel, M., C. Lemieux, G. Burger, B. F. Lang, C. Otis, I. Plante & M. W. Gray. 1999. The complete mitochondrial DNA sequences of Nephroselmis olivacea and Pedinomonas minor. Two radically different evolutionary patterns within green algae. Plant Cell. 11: 1717-1730.

56. U eda, M., M. Fujimoto, S. I. Arimura, N. Tsutsumi & K. I. Kadowaki. 2008. Presence of a latent mitochondrial targeting signal in gene on mitochondrial genome. Mol Biol Evol. 25(9):1791-1793.

57. Vahrenholz, C., G. Riemen, E. Pratje, B. Dujon & G. Michaelis. 1993. Mitochondrial DNA of Chlamydomonas reinhardtii: the structure of the ends of the linear 15.8-kb genome suggests mechanisms for DNA replication. Curr Genet. 24(3):241-7.

58. van Lis, R., D. González-Halphen & A. Atteia. 2005. Divergence of the mitochondrial electron transport chains from the green alga Chlamydomonas reinhardtii and its colorless close relative Polytomella sp. Biochim Biophys Acta. 1708(1):23-34.

59. Vazquez-Acevedo, M., P. Cardol, A. Cano-Estrada, M. Lapaille, C. Remacle & D. Gonzalez-Halphen. 2006. The mitochondrial ATP synthase of chlorophycean algae contains eight subunits of unknown origin involved in the formation of an atypical stator-stalk and in the dimerization of the complex. J Bioenerg Biomembr. 38: 271-282.

60. Walker, J. E. & V. K. Dickson. 2006. The peripheral stalk of the mitochondrial ATP synthase. Biochim Biophys Acta. 1757(5-6):286-96.

61. Waller, R. F. & P. J. Keeling. 2006. Alveolate and chlorophycean mitochondrial cox2 genes split twice independently. Gene. 383: 33-37.

62. Wolff, G., I. Plante, B. F. Lang, U. Kück & G. Burger. 1994. Complete sequence of the mitochondrial DNA of the chlorophyte alga Prototheca wickerhamii. Gene content and genome organization. J Mol Biol. 237: 75-86.