Colponemids represent multiple ancient alveolate lineages

Current Biology

Volumn 23, Issue 24, 2013, Pages 2546-2552

  Janouškovec, Jan ^a   Tikhonenkov, Denis V ^a,b   Mikhailov, Kirill V ^c,d   Simdyanov, Timur G ^c   Aleoshin, Vladimir V ^c,d   Mylnikov, Alexander P ^b   Keeling, Patrick J ^a  

^a UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^b PAPANIN INSTITUTE FOR BIOLOGY OF INLAND WATERS   (Russian Federation)

^c MOSCOW STATE UNIVERSITY   (Russian Federation)

^d INSTITUTE FOR INFORMATION TRANSMISSION PROBLEMS   (Russian Federation)

Author keywords

[No Author keywords available]

Indexed keywords

ALVEOLATA; APICOMPLEXA; CILIOPHORA; DINOPHYCEAE; PLASMODIUM (APICOMPLEXA); PROTISTA; SYMBIODINIUM; TETRAHYMENA;

ALVEOLATA; ARTICLE; BIODIVERSITY; CLASSIFICATION; GENETICS; MITOCHONDRIAL GENOME; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY;

ALVEOLATA; BASE SEQUENCE; BIODIVERSITY; GENOME, MITOCHONDRIAL; MOLECULAR SEQUENCE DATA; PHYLOGENY;

EID: 84890803181     PISSN: 09609822     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.cub.2013.10.062     Document Type: Article

References (50)

1. S.M. Adl, B.S. Leander, A.G.B. Simpson, J.M. Archibald, O.R. Anderson, D. Bass, S.S. Bowser, G. Brugerolle, M.A. Farmer, and S. Karpov Diversity, nomenclature, and taxonomy of protists Syst. Biol. 56 2007 684 689
2. L. Guillou, M. Viprey, A. Chambouvet, R.M. Welsh, A.R. Kirkham, R. Massana, D.J. Scanlan, and A.Z. Worden Widespread occurrence and genetic diversity of marine parasitoids belonging to Syndiniales (Alveolata) Environ. Microbiol. 10 2008 3349 3365
3. J. Janouškovec, A. Horák, K.L. Barott, F.L. Rohwer, and P.J. Keeling Global analysis of plastid diversity reveals apicomplexan-related lineages in coral reefs Curr. Biol. 22 2012 R518 R519
4. P. López-García, F. Rodríguez-Valera, C. Pedrós-Alió, and D. Moreira Unexpected diversity of small eukaryotes in deep-sea Antarctic plankton Nature 409 2001 603 607
5. J. Janouškovec, A. Horák, K.L. Barott, F.L. Rohwer, and P.J. Keeling Environmental distribution of coral-associated relatives of apicomplexan parasites ISME J. 7 2013 444 447
6. C.W. Greider, and E.H. Blackburn Identification of a specific telomere terminal transferase activity in Tetrahymena extracts Cell 43 1985 405 413
7. T.R. Cech, A.J. Zaug, and P.J. Grabowski In vitro splicing of the ribosomal RNA precursor of Tetrahymena: involvement of a guanosine nucleotide in the excision of the intervening sequence Cell 27 1981 487 496
8. K. Hu, J. Johnson, L. Florens, M. Fraunholz, S. Suravajjala, C. DiLullo, J. Yates, D.S. Roos, and J.M. Murray Cytoskeletal components of an invasion machine - the apical complex of Toxoplasma gondii PLoS Pathog. 2 2006 e13
9. S.G. Gornik, K.L. Ford, T.D. Mulhern, A. Bacic, G.I. McFadden, and R.F. Waller Loss of nucleosomal DNA condensation coincides with appearance of a novel nuclear protein in dinoflagellates Curr. Biol. 22 2012 2303 2312
10. D.M. Prescott Genome gymnastics: unique modes of DNA evolution and processing in ciliates Nat. Rev. Genet. 1 2000 191 198
11. H. Zhang, Y. Hou, L. Miranda, D.A. Campbell, N.R. Sturm, T. Gaasterland, and S. Lin Spliced leader RNA trans-splicing in dinoflagellates Proc. Natl. Acad. Sci. USA 104 2007 4618 4623
12. G.I. McFadden, M.E. Reith, J. Munholland, and N. Lang-Unnasch Plastid in human parasites Nature 381 1996 482
13. M.E. Fichera, and D.S. Roos A plastid organelle as a drug target in apicomplexan parasites Nature 390 1997 407 409
14. R.F. Waller, and C.J. Jackson Dinoflagellate mitochondrial genomes: stretching the rules of molecular biology Bioessays 31 2009 237 245
15. Z. Zhang, B.R. Green, and T. Cavalier-Smith Single gene circles in dinoflagellate chloroplast genomes Nature 400 1999 155 159
16. J. Janouškovec, A. Horák, M. Oborník, J. Lukeš, and P.J. Keeling A common red algal origin of the apicomplexan, dinoflagellate, and heterokont plastids Proc. Natl. Acad. Sci. USA 107 2010 10949 10954
17. R.B. Moore, M. Oborník, J. Janouškovec, T. Chrudimský, M. Vancová, D.H. Green, S.W. Wright, N.W. Davies, C.J.S. Bolch, and K. Heimann A photosynthetic alveolate closely related to apicomplexan parasites Nature 451 2008 959 963
18. C.Y. Botté, Y. Yamaryo-Botté, J. Janouškovec, T. Rupasinghe, P.J. Keeling, P. Crellin, R.L. Coppel, E. Maréchal, M.J. McConville, and G.I. McFadden Identification of plant-like galactolipids in Chromera velia, a photosynthetic relative of malaria parasites J. Biol. Chem. 286 2011 29893 29903
19. L. Kořený, R. Sobotka, J. Janouškovec, P.J. Keeling, and M. Oborník Tetrapyrrole synthesis of photosynthetic chromerids is likely homologous to the unusual pathway of apicomplexan parasites Plant Cell 23 2011 3454 3462
20. A.P. Mylnikov, and D.V. Tikhonenkov A new species of soil predatory flagellate, Colponema edaphicum sp. n., from Vorontsovskaya Cave, North Caucasus (Protista, Alveolata: Colponemidae) Zoosystematica Ross. 16 2007 1 4
21. J. Mignot, and G. Brugerolle Étude ultrastructurale du flagelle phagotrophe Colponema loxodes Stein Protistologica (Paris) XI 1975 429 444
22. Z.M. Myl'nikova, and A.P. Myl'nikov Biology and morphology of freshwater rapacious flagellate Colponema aff. loxodes Stein (Colponema, Alveolata) Inland Water Biol. 3 2010 21 26
23. T. Cavalier-Smith, and E.E. Chao Protalveolate phylogeny and systematics and the origins of Sporozoa and dinoflagellates (phylum Myzozoa nom. nov.) Eur. J. Protistol. 40 2004 185 212
24. B.S. Leander, and P.J. Keeling Morphostasis in alveolate evolution Trends Ecol. Evol. 18 2003 395 402
25. R.W. Goldbach, A.C. Arnberg, E.F. van Bruggen, J. Defize, and P. Borst The structure of Tetrahymena pyriformis mitochondrial DNA. I. Strain differences and occurrence of inverted repetitions Biochim. Biophys. Acta 477 1977 37 50
26. G.B. Morin, and T.R. Cech Mitochondrial telomeres: surprising diversity of repeated telomeric DNA sequences among six species of Tetrahymena Cell 52 1988 367 374
27. J. Nosek, L. Tomáška, and B. Kucejová The chromosome end replication: lessons from mitochondrial genetics J. Appl. Biomedecine 2 2004 71 79
28. E.C. Swart, M. Nowacki, J. Shum, H. Stiles, B.P. Higgins, T.G. Doak, K. Schotanus, V.J. Magrini, P. Minx, E.R. Mardis, and L.F. Landweber The Oxytricha trifallax mitochondrial genome Genome Biol. Evol. 4 2012 136 154
29. A.E. Pritchard, J.J. Seilhamer, R. Mahalingam, C.L. Sable, S.E. Venuti, and D.J. Cummings Nucleotide sequence of the mitochondrial genome of Paramecium Nucleic Acids Res. 18 1990 173 180
30. M.M. Moradian, D. Beglaryan, J.M. Skozylas, and V. Kerikorian Complete mitochondrial genome sequence of three Tetrahymena species reveals mutation hot spots and accelerated nonsynonymous substitutions in Ymf genes PLoS ONE 2 2007 e650
31. K. Hikosaka, Y.-I. Watanabe, N. Tsuji, K. Kita, H. Kishine, N. Arisue, N.M.Q. Palacpac, S.-I. Kawazu, H. Sawai, and T. Horii Divergence of the mitochondrial genome structure in the apicomplexan parasites, Babesia and Theileria Mol. Biol. Evol. 27 2010 1107 1116
32. K. Hikosaka, K. Kita, and K. Tanabe Diversity of mitochondrial genome structure in the phylum Apicomplexa Mol. Biochem. Parasitol. 188 2013 26 33
33. A.C. Esseiva, A. Naguleswaran, A. Hemphill, and A. Schneider Mitochondrial tRNA import in Toxoplasma gondii J. Biol. Chem. 279 2004 42363 42368
34. K. Kawahara, T. Mogi, T.Q. Tanaka, M. Hata, H. Miyoshi, and K. Kita Mitochondrial dehydrogenases in the aerobic respiratory chain of the rodent malaria parasite Plasmodium yoelii yoelii J. Biochem. 145 2009 229 237
35. J.E. Feagin, B.L. Mericle, E. Werner, and M. Morris Identification of additional rRNA fragments encoded by the Plasmodium falciparum 6 kb element Nucleic Acids Res. 25 1997 438 446
36. J.E. Feagin, M.I. Harrell, J.C. Lee, K.J. Coe, B.H. Sands, J.J. Cannone, G. Tami, M.N. Schnare, and R.R. Gutell The fragmented mitochondrial ribosomal RNAs of Plasmodium falciparum PLoS ONE 7 2012 e38320
37. G. Burger, Y. Zhu, T.G. Littlejohn, S.J. Greenwood, M.N. Schnare, B.F. Lang, and M.W. Gray Complete sequence of the mitochondrial genome of Tetrahymena pyriformis and comparison with Paramecium aurelia mitochondrial DNA J. Mol. Biol. 297 2000 365 380
38. J. Edqvist, G. Burger, and M.W. Gray Expression of mitochondrial protein-coding genes in Tetrahymena pyriformis J. Mol. Biol. 297 2000 381 393
39. S. Funes, E. Davidson, A. Reyes-Prieto, S. Magallón, P. Herion, M.P. King, and D. González-Halphen A green algal apicoplast ancestor Science 298 2002 2155
40. R.F. Waller, and P.J. Keeling Alveolate and chlorophycean mitochondrial cox2 genes split twice independently Gene 383 2006 33 37
41. R.F. Waller, P.J. Keeling, G.G. van Dooren, and G.I. McFadden Comment on "A green algal apicoplast ancestor" Science 301 2003 49 author reply 49
42. D.G.S. Smith, R.M.R. Gawryluk, D.F. Spencer, R.E. Pearlman, K.W.M. Siu, and M.W. Gray Exploring the mitochondrial proteome of the ciliate protozoon Tetrahymena thermophila: direct analysis by tandem mass spectrometry J. Mol. Biol. 374 2007 837 863
43. N. Lartillot, and H. Philippe A Bayesian mixture model for across-site heterogeneities in the amino-acid replacement process Mol. Biol. Evol. 21 2004 1095 1109
44. T. Cavalier-Smith Principles of protein and lipid targeting in secondary symbiogenesis: euglenoid, dinoflagellate, and sporozoan plastid origins and the eukaryote family tree J. Eukaryot. Microbiol. 46 1999 347 366
45. M. Matsuzaki, H. Kuroiwa, T. Kuroiwa, K. Kita, and H. Nozaki A cryptic algal group unveiled: a plastid biosynthesis pathway in the oyster parasite Perkinsus marinus Mol. Biol. Evol. 25 2008 1167 1179
46. M.S. Abrahamsen, T.J. Templeton, S. Enomoto, J.E. Abrahante, G. Zhu, C.A. Lancto, M. Deng, C. Liu, G. Widmer, and S. Tzipori Complete genome sequence of the apicomplexan, Cryptosporidium parvum Science 304 2004 441 445
47. J.C. de Leon, N. Scheumann, W. Beatty, J.R. Beck, J.Q. Tran, C. Yau, P.J. Bradley, K. Gull, B. Wickstead, and N.S. Morrissette A SAS-6-like protein suggests that the Toxoplasma conoid complex evolved from flagellar components Eukaryot. Cell 12 2013 1009 1019
48. J. Söding, A. Biegert, and A.N. Lupas The HHpred interactive server for protein homology detection and structure prediction Nucleic Acids Res. 33 Web Server issue 2005 W244 W248
49. L.A. Kelley, and M.J.E. Sternberg Protein structure prediction on the Web: a case study using the Phyre server Nat. Protoc. 4 2009 363 371
50. P. Schattner, A.N. Brooks, and T.M. Lowe The tRNAscan-SE, snoscan and snoGPS web servers for the detection of tRNAs and snoRNAs Nucleic Acids Res. 33 Web Server issue 2005 W686 W689