The chloroplast genome of dinoflagellates - A reduced instruction set?

Protist

Volumn 155, Issue 1, 2004, Pages 23-31

  Green, Beverley R ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

Author keywords

[No Author keywords available]

Indexed keywords

ALGAE; DINOPHYCEAE; EUKARYOTA;

EID: 1942540766     PISSN: 14344610     EISSN: None     Source Type: Journal    
DOI: 10.1078/1434461000161     Document Type: Note

References (45)

1. Allen JF (2003) The function of genomes in bioenergetic organelles. Phil Trans R Soc Lond B 358: 19-37
2. Barbrook AC, Howe CJ (2000) Minicircular plastid DNA in the dinoflagellate Amphidinium operculatum. Mol Gen Genet 263: 152-158
3. Barbrook AC, Symington H, Nisbet RER, Larkum A, Howe CJ (2001) Organisation and expression of the plastid genome of the dinoflagellate Amphidinium operculatum. Mol Gen Genet 266: 632-638
4. Ben Ali A, De Baere R, Van der Auwera G, De Wachter R, Van de Peer Y (2001) Phylogenetic relationships among algae based on complete large-subunit rRNA sequences. Int J Syst Evol Microbiol 51: 737-749
5. Cavalier-Smith T (2000) Membrane heredity and early chloroplast evolution. Trends Plant Sci 5: 174-182
6. Cavalier-Smith T (2002) Chloroplast evolution: secondary symbiogenesis and multiple losses. Curr Biol 12: R62-R64
7. Durnford DG, Deane JA, Tan S, McFadden GI, Gantt E, Green BR (1999) A phylogenetic assessment of the eukaryotic light-harvesting antenna proteins, with implications for plastid evolution. J Mol Evol 48: 59-68
8. Fast NM, Kissinger JC, Roos DS, Keeling PJ (2001) Nuclear-encoded, plastid targeted genes suggest a single common origin for Apicomplexan and dinoflagellate plastids. Mol Biol Evol 18: 418-426
9. Gajadhar AA, Marquardt WC, Hall R, Gunderson J, Ariztia-Carmona EV, Sogin ML (1991) Ribosomal RNA sequences of Sarcocystis muris, Theileria annulata and Crypthecodinium cohnii reveal evolutionary relationships among apicomplexans, dinoflagellates, and ciliates. Mol Biochem Parasitol 45: 147-154
10. Gockel G, Hachtel H (2000) Complete gene map of the plastid genome of the nonphotosynthetic euglenoid flagellate Astasia longa. Protist 151: 347-351
11. Grzebyk D, Schofield O, Vetriani C, Falkowski PG (2003) The mesozoic radiation of eukaryotic algae: the portable plastid hypothesis. J Phycol 39: 259-267
12. Harper JT, Keeling PJ (2003) Nucleus-encoded, plastid-targeted glyceraldehyde-3-phosphate dehydrogenase (GAPDH) indicates a single origin for chromalveolate plastids. Mol Biol Evol 20: 1730-1735
13. Hiller RG (2001) 'Empty' minicircles and petB/atpA and psbD/psbE (cytb559α) genes in tandem in Amphidinium carterae plastid DNA. FEBS Lett 505: 449-452
14. Howe CJ, Barbrook AC, Koumandou VL, Nisbet RER, Symington HA, Wightman TF (2003) Evolution of the chloroplast genome. Phil Trans R Soc Lond B 358: 99-107
15. Huang CY, Ayliffe MA, Timmis JN (2003) Direct measurement of the transfer rate of chloroplast DNA into the nucleus. Nature 422: 72-76
16. Ishida K, Green BR (2002) Second- and third-hand chloroplasts in dinoflagellates: Phylogeny of oxygen-evolving enhancer 1 (PsbO) protein reveals replacement of a nuclear-encoded plastid gene by that of a haptophyte tertiary endosymbiont. Proc Natl Acad Sci USA 99: 9294-9299
17. Ishida K, Green BR, Cavalier-Smith T (1999) Diversification of a chimaeric algal group, the Chlorarachniophytes: Phylogeny of nuclear and nucleomorph small subunit rRNA genes. Mol Biol Evol 16: 321-331
18. Köhler S, Delwiche CF, Denny PW, Tilney LG, Webster P, Wilson RJM, Palmer JD, Roos DS (1997) A plastid of probable green algal origin in apicomplexan parasites. Science 275: 1485-1489
19. Lilly JW, Havey MJ, Jackson SA, Jiang J (2001) Cytogenomic analyses reveal the structural plasticity of the chloroplast genome in higher plants. Plant Cell 13: 245-254
20. Martin W (2003) Gene transfer from organelles to the nucleus: frequent and in big chunks. Proc Natl Acad Sci USA 100: 8612-8614
21. Martin W, Stoebe B, Goremykin V, Hansmann S, Hasegawa M, Kowallik KV (1998) Gene transfer to the nucleus and the evolution of chloroplasts. Nature 393: 162-165
22. Martin W, Rujan T, Richly E, Hansen A, Cornelsen S, Lins T, Leister D, Stoebe B, Hasegawa M, Penny D (2002) Evolutionary analysis of Arabidopsis, cyanobacterial, and chloroplast genomes reveals plastid phylogeny and thousands of cyanobacterial genes in the nucleus. Proc Natl Acad Sci USA 99: 12246-12251
23. Maul JE, Lilly JW, Cui L, dePamphilis CW, Miller W, Harris EH, Stern DB (2002) The Chlamydomonas reinhardtii plastid chromosome: Islands of genes in a sea of repeats. Plant Cell 14: 2659-2679
24. McFadden GI (1999) Ever decreasing circles. Nature 400: 119-120
25. McFadden GI (2001) Primary and secondary endosymbiosis and the origin of plastids. J Phycol 37: 951-959
26. Millen RS, Olmstead RG, Adams KL, Palmer JD, Lao NT, Heggie L, Kavanagh TA, Hibberd JM, Gray JC, Morden CW, Calie PJ, Jermiin LS, Wolfe KH (2001) Many parallel losses of infA from chloroplast DNA during angiosperm evolution with multiple independent transfers to the nucleus. Plant Cell 13: 645-658
27. Moore RB, Ferguson KM, Loh WKW, Hoegh-Guldberg O, Carter DA (2003) Highly organized structure in the non-coding region of the psbA mincircle from clade C Symbiodinium. Int J Syst Evol Microbiol 53: 1725-1734
28. Morse D, Salois P, Markovic P, Hastings JW (1995) A nuclear-encoded form II RuBisCo in dinoflagellates. Science 268: 1622-1624
29. Palmer JD (1997) Organelle genomes: Going, going, gone. Science 275: 790-791
30. Palmer JD (2003) The symbiotic birth and spread of plastids: How many times and whodunit? J Phycol 39: 4-11
31. Rowan R, Whitney SM, Fowler A, Yellowlees D (1996) Rubisco in marine symbiotic dinoflagellates: form II enzymes in eukaryotic oxygenic phototrophs encoded by a nuclear multigene family. Plant Cell 8: 539-553
32. Saldarriaga J, Taylor FJR, Keeling PJ, Cavalier-Smith T (2001) Dinoflagellate nuclear SSU rRNA phylogeny suggests multiple plastid losses and replacements. J Mol Evol 53: 204-213
33. Simpson CL, Stern DB (2002) The treasure trove of algal chloroplast genomes. Surprises in architecture and gene content, and their functional implications. Plant Physiol 129: 957-966
34. Smith AC, Purton S (2002) The transcriptional apparatus of algal plastids. Eur J Phycol 37: 301-311
35. Stechmann A, Cavalier-Smith T (2003) The root of the eukaryote tree pinpointed. Curr Biol 13: R665-R666
36. Stegemann S, Hartmann S, Ruf S, Bock R (2003) High-frequency gene transfer from the chloroplast genome to the nucleus. Proc Natl Acad Sci USA 100: 8828-8833
37. Stoebe B, Kowallik KV (1999) Gene-cluster analysis in chloroplast genomics. Trends Genet 15: 344-347
38. Wilson RJM, Denny PW, Preiser PR, Rangachari K, Roberts K, Roy A, Whyte A, Strath M, Moore DJ, Moore PW, Williamson DH (1996) Complete gene map of the plastid-like DNA of the malaria parasite Plasmodium falciparum. J Mol Biol 261: 155-172
39. Yamaguchi K, Beligni MV, Prieto S, Haynes PA, McDonald WH, Yates JR, Mayfield SP (2003) Proteomic characterization of the Chlamydomonas reinhardtii chloroplast ribosome. Identification of proteins unique to the 70S ribosome. J Biol Chem 278: 33774-33785
40. Yoon HS, Hackett JD, Pinto G, Bhattacharya D (2002) The single, ancient origin of chromist plastids. Proc Natl Acad Sci USA 99: 11724-11729
41. Zhang Z, Green BR, Cavalier-Smith T (1999) Single gene circles in dinoflagellate chloroplast genomes. Nature 400: 155-159
42. Zhang Z, Green BR, Cavalier-Smith T (2000) Phylogeny of ultra-rapidly evolving dinoflagellate chloroplast genes: A possible common origin for sporozoan and dinoflagellate plastids. J Mol Evol 51: 26-40
43. Zhang Z, Green BR, Cavalier-Smith T (2001) A family of selfish minicircular chromosomes with jumbled chloroplast gene fragments from a dinoflagellate. Mol Biol Evol 18: 1558-1565
44. Zhang Z, Green BR, Cavalier-Smith T (2002) Evolution of dinoflagellate unigenic minicircles and the partially concerted divergence of their putative replicon origins. Mol Biol Evol 19: 489-500
45. Zerges W (2002) Does complexity constrain organelle evolution? Trends Plant Sci 7: 175-182