메뉴 건너뛰기




Volumn 36, Issue 4, 2013, Pages 571-585

Phylogenetic study of Class Armophorea (Alveolata, Ciliophora) based on 18S-rDNA data

Author keywords

Caenomorpha; Metopus; Nyctotherus; Sensitivity analysis

Indexed keywords

DNA 18S; NUCLEOTIDE; RIBOSOME RNA;

EID: 84890413277     PISSN: 14154757     EISSN: 16784685     Source Type: Journal    
DOI: 10.1590/S1415-47572013000400017     Document Type: Article
Times cited : (35)

References (90)
  • 1
    • 3042806972 scopus 로고    scopus 로고
    • The information content of an ambiguously alignable region, a case study of the trnL intron from the Rhamnaceae
    • Aagesen L (2004) The information content of an ambiguously alignable region, a case study of the trnL intron from the Rhamnaceae. Org Divers Evol 4:35-49.
    • (2004) Org Divers Evol , vol.4 , pp. 35-49
    • Aagesen, L.1
  • 2
    • 2542488450 scopus 로고    scopus 로고
    • Phylogenetic position of species in the genera Anoplophrya, Plagiotoma, and Nyctotheroides (Phylum Ciliophora), endosymbiotic ciliates of annelids and anurans
    • Affa'A FM, Hickey DA, Struder-Kypke M and Lynn DH (2004) Phylogenetic position of species in the genera Anoplophrya, Plagiotoma, and Nyctotheroides (Phylum Ciliophora), endosymbiotic ciliates of annelids and anurans. J Euk Microbiol 51:301-306.
    • (2004) J Euk Microbiol , vol.51 , pp. 301-306
    • Affa'A, F.M.1    Hickey, D.A.2    Struder-Kypke, M.3    Lynn, D.H.4
  • 3
    • 0016355478 scopus 로고
    • A new look at the statistical model identification
    • Akaike HA (1974) A new look at the statistical model identification. IEEE Trans Automat Contr 19:716-723.
    • (1974) IEEE Trans Automat Contr , vol.19 , pp. 716-723
    • Akaike, H.A.1
  • 4
    • 33745256005 scopus 로고    scopus 로고
    • Approximate likelihood ratio test for branches: A fast, accurate, and powerful alternative
    • Anisimova M and Gascuel O (2006) Approximate likelihood ratio test for branches: A fast, accurate, and powerful alternative. Syst Biol 55:539-552.
    • (2006) Syst Biol , vol.55 , pp. 539-552
    • Anisimova, M.1    Gascuel, O.2
  • 5
    • 20444491634 scopus 로고    scopus 로고
    • A review of long-branch attraction
    • Bergsten J (2005) A review of long-branch attraction. Cladistics 21:163-193.
    • (2005) Cladistics , vol.21 , pp. 163-193
    • Bergsten, J.1
  • 6
    • 9644260415 scopus 로고    scopus 로고
    • Using models of nucleotide evolution to build phylogenetic trees
    • Bos DH and Posada D (2005) Using models of nucleotide evolution to build phylogenetic trees. Dev Comp Immunol 29:211-227.
    • (2005) Dev Comp Immunol , vol.29 , pp. 211-227
    • Bos, D.H.1    Posada, D.2
  • 7
    • 0032927161 scopus 로고    scopus 로고
    • Topological bias and inconsistency of maximum likelihood using wrong models
    • Bruno WJ and Halpern AL (1999) Topological bias and inconsistency of maximum likelihood using wrong models. Mol Biol Evol 16:564-566.
    • (1999) Mol Biol Evol , vol.16 , pp. 564-566
    • Bruno, W.J.1    Halpern, A.L.2
  • 9
    • 0842292828 scopus 로고    scopus 로고
    • Chromalveolate diversity and cell megaevolution: Interplay of membranes, genomes and cytoskeleton
    • Hirt RP and Horner DS (eds) Organelles, CRC Press, Boca Raton
    • Cavalier-Smith T (2004) Chromalveolate diversity and cell megaevolution: Interplay of membranes, genomes and cytoskeleton. In: Hirt RP and Horner DS (eds) Organelles, Genomes and Eukaryote Phylogeny. CRC Press, Boca Raton, pp 75-108.
    • (2004) Genomes and Eukaryote Phylogeny , pp. 75-108
    • Cavalier-Smith, T.1
  • 11
    • 0031425625 scopus 로고    scopus 로고
    • Observations on the morphology of Caenomorpha uniserialis Levander, 1894 (Ciliophora, Heterotrichida) isolated from a wastewater treatment plant
    • Decamp O and Warren A (1997) Observations on the morphology of Caenomorpha uniserialis Levander, 1894 (Ciliophora, Heterotrichida) isolated from a wastewater treatment plant. Acta Protozool 36:105-110.
    • (1997) Acta Protozool , vol.36 , pp. 105-110
    • Decamp, O.1    Warren, A.2
  • 12
    • 77950538424 scopus 로고    scopus 로고
    • Phylogenetic assessment of alignments reveals neglected tree signal in gaps
    • Dessimoz C and Gil M (2010) Phylogenetic assessment of alignments reveals neglected tree signal in gaps. Genome Biol 11:R37.
    • (2010) Genome Biol , vol.11
    • Dessimoz, C.1    Gil, M.2
  • 13
    • 0002500495 scopus 로고    scopus 로고
    • Homology in molecular phylogenetics: A parsimony perspective
    • Solis DE, Soltis PS and Doyle JJ (eds) Molecular Systematics of Plants. II, Kluwer Academic Publishers, Boston
    • Doyle JJ and Davis JI (1998) Homology in molecular phylogenetics: A parsimony perspective. In: Solis DE, Soltis PS and Doyle JJ (eds) Molecular Systematics of Plants. II. DNA Sequencing. Kluwer Academic Publishers, Boston, pp 101-131.
    • (1998) DNA Sequencing , pp. 101-131
    • Doyle, J.J.1    Davis, J.I.2
  • 15
    • 0000193892 scopus 로고
    • Diversity of free-living morphospecies in the ciliate genus Metopus
    • Esteban G, Fenchel T and Finlay B (1995) Diversity of free-living morphospecies in the ciliate genus Metopus. Arch Protistenkunde 146:137-164.
    • (1995) Arch Protistenkunde , vol.146 , pp. 137-164
    • Esteban, G.1    Fenchel, T.2    Finlay, B.3
  • 16
    • 0026013172 scopus 로고
    • Synchronous division of an endosymbiotic methanogenic bacterium in the anaerobic ciliate Plagiopyla frontata Kahl
    • Fenchel T and Finlay BJ (1991) Synchronous division of an endosymbiotic methanogenic bacterium in the anaerobic ciliate Plagiopyla frontata Kahl. J Protozool 38:22-28.
    • (1991) J Protozool , vol.38 , pp. 22-28
    • Fenchel, T.1    Finlay, B.J.2
  • 17
    • 0033056336 scopus 로고    scopus 로고
    • Morphology and morphogenesis of Metopus hasei Sondheim, 1929 and M. inversus (Jankowski, 1964) nov. comb. (Ciliophora, Metopida)
    • Foissner W and Agatha S (1999) Morphology and morphogenesis of Metopus hasei Sondheim, 1929 and M. inversus (Jankowski, 1964) nov. comb. (Ciliophora, Metopida). J Euk Microbiol 46:174-193.
    • (1999) J Euk Microbiol , vol.46 , pp. 174-193
    • Foissner, W.1    Agatha, S.2
  • 18
    • 0030807655 scopus 로고    scopus 로고
    • BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data
    • Gascuel O (1997) BIONJ: An improved version of the NJ algorithm based on a simple model of sequence data. Mol Biol Evol 14:685-695.
    • (1997) Mol Biol Evol , vol.14 , pp. 685-695
    • Gascuel, O.1
  • 19
    • 0026680627 scopus 로고
    • Contribution of anaerobic protozoa and methanogens to hindgut metabolic activities of the American cockroach, Periplaneta americana
    • Gijzen HJ and Barugahare M (1992) Contribution of anaerobic protozoa and methanogens to hindgut metabolic activities of the American cockroach, Periplaneta americana. Appl Environ Microbiol 58:2565-2570.
    • (1992) Appl Environ Microbiol , vol.58 , pp. 2565-2570
    • Gijzen, H.J.1    Barugahare, M.2
  • 21
    • 0005705790 scopus 로고
    • Estimating character weights during tree search
    • Goloboff PA (1993) Estimating character weights during tree search. Cladistics 9:83-91.
    • (1993) Cladistics , vol.9 , pp. 83-91
    • Goloboff, P.A.1
  • 22
    • 0033499153 scopus 로고    scopus 로고
    • Analyzing large data sets in reasonable times: Solutions for composite optima
    • Goloboff PA (1999) Analyzing large data sets in reasonable times: Solutions for composite optima. Cladistics 15:415-428.
    • (1999) Cladistics , vol.15 , pp. 415-428
    • Goloboff, P.A.1
  • 23
    • 51549095913 scopus 로고    scopus 로고
    • Weighting against homoplasy improves phylogenetic analysis of morphological data sets
    • Goloboff PA, Carpenter JM, Arias JS and Esquivel DRM (2008) Weighting against homoplasy improves phylogenetic analysis of morphological data sets. Cladistics 24:1-6.
    • (2008) Cladistics , vol.24 , pp. 1-6
    • Goloboff, P.A.1    Carpenter, J.M.2    Arias, J.S.3    Esquivel, D.R.M.4
  • 24
    • 67651176181 scopus 로고    scopus 로고
    • Small subunit rRNA phylogenies show that the Class Nassophorea is not monophyletic (Phylum Ciliophora)
    • Gong J, Stoeck T, Yi Z, Miao M, Zhang Q, Roberts DM, Warren A and Song W (2009) Small subunit rRNA phylogenies show that the Class Nassophorea is not monophyletic (Phylum Ciliophora). J Euk Microbiol 56:339-347.
    • (2009) J Euk Microbiol , vol.56 , pp. 339-347
    • Gong, J.1    Stoeck, T.2    Yi, Z.3    Miao, M.4    Zhang, Q.5    Roberts, D.M.6    Warren, A.7    Song, W.8
  • 25
    • 0031977861 scopus 로고    scopus 로고
    • A comparison of three populations of the ciliate genus, Paracichlidotherus Grim, 1992. New fish hosts, and biogeography; Revised genus description
    • Grim JN (1998) A comparison of three populations of the ciliate genus, Paracichlidotherus Grim, 1992. New fish hosts, and biogeography; Revised genus description. J Euk Microbiol 45:40-44.
    • (1998) J Euk Microbiol , vol.45 , pp. 40-44
    • Grim, J.N.1
  • 26
    • 0242578620 scopus 로고    scopus 로고
    • A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood
    • Guindon S and Gascuel O (2003) A simple, fast, and accurate algorithm to estimate large phylogenies by maximum likelihood. Syst Biol 52:696-704.
    • (2003) Syst Biol , vol.52 , pp. 696-704
    • Guindon, S.1    Gascuel, O.2
  • 27
    • 77950806408 scopus 로고    scopus 로고
    • New algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0
    • Guindon S, Dufayard JF, Lefort V, Anisimova M, Hordijk W and Gascuel O (2010) New algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0. Syst Biol 59:307-321.
    • (2010) Syst Biol , vol.59 , pp. 307-321
    • Guindon, S.1    Dufayard, J.F.2    Lefort, V.3    Anisimova, M.4    Hordijk, W.5    Gascuel, O.6
  • 28
    • 14544277657 scopus 로고    scopus 로고
    • Comparison of the accuracies of several phylogenetic methods using protein and DNA sequences
    • Hall BG (2005) Comparison of the accuracies of several phylogenetic methods using protein and DNA sequences. Mol Biol Evol 22:792-802.
    • (2005) Mol Biol Evol , vol.22 , pp. 792-802
    • Hall, B.G.1
  • 29
    • 0002051540 scopus 로고    scopus 로고
    • BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT
    • Hall TA (1999) BioEdit: A user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Series 41:95-98.
    • (1999) Nucleic Acids Symp Series , vol.41 , pp. 95-98
    • Hall, T.A.1
  • 30
    • 56849104634 scopus 로고    scopus 로고
    • Taxon sampling and the accuracy of phylogenetic analyses
    • Heath TA, Hedtke SM and Hillis DM (2008) Taxon sampling and the accuracy of phylogenetic analyses. J Syst Evol 46:239-257.
    • (2008) J Syst Evol , vol.46 , pp. 239-257
    • Heath, T.A.1    Hedtke, S.M.2    Hillis, D.M.3
  • 31
    • 0023501273 scopus 로고
    • Molecular vs. morphological approaches to systematics
    • Hillis DM (1987) Molecular vs. morphological approaches to systematics. Annu Rev Ecol Syst 18:23-42.
    • (1987) Annu Rev Ecol Syst , vol.18 , pp. 23-42
    • Hillis, D.M.1
  • 32
    • 0029265580 scopus 로고
    • Phylogenetic relationships among karyorelictids and heterotrichs inferred from small subunit rRNA sequences: Resolution at the base of the ciliate tree
    • Hirt RP, Dyal PL, Wilkinson M, Finlay BJ, Roberts DM and Embley TM (1995) Phylogenetic relationships among karyorelictids and heterotrichs inferred from small subunit rRNA sequences: Resolution at the base of the ciliate tree. Mol Phylogenet Evol 4:77-87.
    • (1995) Mol Phylogenet Evol , vol.4 , pp. 77-87
    • Hirt, R.P.1    Dyal, P.L.2    Wilkinson, M.3    Finlay, B.J.4    Roberts, D.M.5    Embley, T.M.6
  • 33
    • 0029821511 scopus 로고    scopus 로고
    • Do phylogenetic methods produce trees with biased shapes?
    • Huelsenbeck JP and Kirkpatrick M (1996) Do phylogenetic methods produce trees with biased shapes? Evolution 50:1418-1424.
    • (1996) Evolution , vol.50 , pp. 1418-1424
    • Huelsenbeck, J.P.1    Kirkpatrick, M.2
  • 34
    • 0035989021 scopus 로고    scopus 로고
    • Evolution of duplicated alpha-tubulin genes in ciliates
    • Israel RL, Pond SLK, Muse SV and Katz LA (2002) Evolution of duplicated alpha-tubulin genes in ciliates. Evolution 56:1110-1122.
    • (2002) Evolution , vol.56 , pp. 1110-1122
    • Israel, R.L.1    Pond, S.L.K.2    Muse, S.V.3    Katz, L.A.4
  • 35
    • 0345530522 scopus 로고
    • Morphology and evolution of Ciliophora. I. The new system of sapropelebiotic Heterotrichida
    • Jankowski AW (1964a) Morphology and evolution of Ciliophora. I. The new system of sapropelebiotic Heterotrichida. Zoologichesky Zhurnal 43:503-517.
    • (1964) Zoologichesky Zhurnal , vol.43 , pp. 503-517
    • Jankowski, A.W.1
  • 36
    • 0342326246 scopus 로고
    • Morphology and evolution of Ciliophora. III. Diagnoses and phylogenesis of 53 sapropelebionts, mainly of the Order Heterotrichida
    • Jankowski AW (1964b) Morphology and evolution of Ciliophora. III. Diagnoses and phylogenesis of 53 sapropelebionts, mainly of the Order Heterotrichida. Arch Protistenkunde 107:185-294.
    • (1964) Arch Protistenkunde , vol.107 , pp. 185-294
    • Jankowski, A.W.1
  • 37
    • 67649211001 scopus 로고    scopus 로고
    • Phylum Ciliophora Doflein, 1901
    • In: Krylow MV and Frolov AO, Part 2. Nauka, St. Petersburg
    • Jankowski AW (2007) Phylum Ciliophora Doflein, 1901. In: Krylow MV and Frolov AO (eds) Protista: Handbook on Zoology, Part 2. Nauka, St. Petersburg, pp 415-976.
    • (2007) Protista: Handbook On Zoology , pp. 415-976
    • Jankowski, A.W.1
  • 38
    • 77955682555 scopus 로고    scopus 로고
    • Alternative processing of scrambled genes generates protein diversity in the ciliate Chilodonella uncinata
    • Katz LA and Kovner AM (2010) Alternative processing of scrambled genes generates protein diversity in the ciliate Chilodonella uncinata. J Exp Zool, Part B, Mol Develop Evol 314:480-488.
    • (2010) J Exp Zool, Part B, Mol Develop Evol , vol.314 , pp. 480-488
    • Katz, L.A.1    Kovner, A.M.2
  • 39
    • 1542614590 scopus 로고    scopus 로고
    • Dramatic diversity of ciliate histone H4 genes revealed by comparisons of patterns of substitutions and paralog divergences among eukaryotes
    • Katz LA, Bornstein JG, Lasek-Nesselquist E and Muse SV (2004) Dramatic diversity of ciliate histone H4 genes revealed by comparisons of patterns of substitutions and paralog divergences among eukaryotes. Mol Biol Evol 21:555-562.
    • (2004) Mol Biol Evol , vol.21 , pp. 555-562
    • Katz, L.A.1    Bornstein, J.G.2    Lasek-Nesselquist, E.3    Muse, S.V.4
  • 40
    • 67651151446 scopus 로고    scopus 로고
    • Phylogeny and systematic position of Zosterodasys (Ciliophora, Synhymeniida): A combined analysis of ciliate relationships using morphological and molecular data
    • Kivimaki KL, Bowditch BM, Riordan GP and Lipscomb DL (2009) Phylogeny and systematic position of Zosterodasys (Ciliophora, Synhymeniida): A combined analysis of ciliate relationships using morphological and molecular data. J Euk Microbiol 56:323-338.
    • (2009) J Euk Microbiol , vol.56 , pp. 323-338
    • Kivimaki, K.L.1    Bowditch, B.M.2    Riordan, G.P.3    Lipscomb, D.L.4
  • 41
    • 34247577270 scopus 로고    scopus 로고
    • Opinions on multiple sequence alignment, and an empirical comparison of repeatability and accuracy between POY and structural alignment
    • Kjer KM, Gillespie JJ and Ober KA (2007) Opinions on multiple sequence alignment, and an empirical comparison of repeatability and accuracy between POY and structural alignment. Syst Biol 56:133-146.
    • (2007) Syst Biol , vol.56 , pp. 133-146
    • Kjer, K.M.1    Gillespie, J.J.2    Ober, K.A.3
  • 42
    • 76649100745 scopus 로고    scopus 로고
    • Protocruzia, a highly ambiguous ciliate (Protozoa; Ciliophora): Very likely an ancestral form for Heterotrichea, Colpodea or Spirotrichea? With reevaluation of its evolutionary position based on multigene analyses
    • Li LF, Stoeck T, Shin MK, Al-Rasheid KAS, Al-Khedhairy BA and Song W (2010) Protocruzia, a highly ambiguous ciliate (Protozoa; Ciliophora): Very likely an ancestral form for Heterotrichea, Colpodea or Spirotrichea? With reevaluation of its evolutionary position based on multigene analyses. Science China (Life Sci) 53:131-138.
    • (2010) Science China (Life Sci) , vol.53 , pp. 131-138
    • Li, L.F.1    Stoeck, T.2    Shin, M.K.3    Al-Rasheid, K.A.S.4    Al-Khedhairy, B.A.5    Song, W.6
  • 43
    • 0034351388 scopus 로고    scopus 로고
    • Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violation positional homology
    • Lutzoni F, Wagner P, Reeb V and Zoller S (2000) Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violation positional homology. Syst Biol 49:628-651.
    • (2000) Syst Biol , vol.49 , pp. 628-651
    • Lutzoni, F.1    Wagner, P.2    Reeb, V.3    Zoller, S.4
  • 45
    • 84879752195 scopus 로고    scopus 로고
    • Biodiversity and molecular phylogeny of Australian Clevelandella species (Class Armophorea, Order Clevelandellida, Family Clevelandellidae), intestinal endosymbiotic ciliates in the wood-feeding roach Panesthia cribrata Saussure, 1864
    • Lynn DH and Wright AD (2013) Biodiversity and molecular phylogeny of Australian Clevelandella species (Class Armophorea, Order Clevelandellida, Family Clevelandellidae), intestinal endosymbiotic ciliates in the wood-feeding roach Panesthia cribrata Saussure, 1864. J Euk Microbiol 60:335-341.
    • (2013) J Euk Microbiol , vol.60 , pp. 335-341
    • Lynn, D.H.1    Wright, A.D.2
  • 46
    • 85010377021 scopus 로고
    • Cortical morphogenesis and conjugation process in Caenomorpha medusula (Ciliophora, Heterotrichida)
    • Martin-Gonzalez A, Serrano S and Fernandez-Galiano D (1987) Cortical morphogenesis and conjugation process in Caenomorpha medusula (Ciliophora, Heterotrichida). Eur J Protistol 23:111-121.
    • (1987) Eur J Protistol , vol.23 , pp. 111-121
    • Martin-Gonzalez, A.1    Serrano, S.2    Fernandez-Galiano, D.3
  • 47
    • 63449119043 scopus 로고    scopus 로고
    • Caryotricha minuta (Xu et al., 2008) nov. comb., a unique marine ciliate (Protista, Ciliophora, Spirotrichea), with phylogenetic analysis of the ambiguous genus Caryotricha inferred from the small-subunit rRNA gene sequence
    • Miao M, Shao C, Jiang J, Li L, Stoeck T and Song W (2009a) Caryotricha minuta (Xu et al., 2008) nov. comb., a unique marine ciliate (Protista, Ciliophora, Spirotrichea), with phylogenetic analysis of the ambiguous genus Caryotricha inferred from the small-subunit rRNA gene sequence. Int J Syst Evol Microbiol 59:430-438.
    • (2009) Int J Syst Evol Microbiol , vol.59 , pp. 430-438
    • Miao, M.1    Shao, C.2    Jiang, J.3    Li, L.4    Stoeck, T.5    Song, W.6
  • 48
    • 65849187282 scopus 로고    scopus 로고
    • Further consideration of the phylogeny of some "traditional" heterotrichs (Protista, Ciliophora) of uncertain affinities, based on new sequences of the small subunit rRNA gene
    • Miao M, Song W, Clamp JC, Al-Rasheid KAS, Al-Khedhairy AA and Al-Arifi S (2009b) Further consideration of the phylogeny of some "traditional" heterotrichs (Protista, Ciliophora) of uncertain affinities, based on new sequences of the small subunit rRNA gene. J Euk Microbiol 56:244-250.
    • (2009) J Euk Microbiol , vol.56 , pp. 244-250
    • Miao, M.1    Song, W.2    Clamp, J.C.3    Al-Rasheid, K.A.S.4    Al-Khedhairy, A.A.5    Al-Arifi, S.6
  • 49
    • 78751558547 scopus 로고    scopus 로고
    • Pfeiffer W and Schwartz T (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees
    • IEEE, New Orleans
    • Miller MA, Pfeiffer W and Schwartz T (2010) Creating the CIPRES Science Gateway for inference of large phylogenetic trees. In: Proceedings of the Gateway Computing Environments Workshop. IEEE, New Orleans, pp 1-8.
    • Proceedings of the Gateway Computing Environments Workshop , pp. 1-8
    • Miller, M.A.1
  • 50
    • 0030934592 scopus 로고    scopus 로고
    • Effects of nucleotide sequence alignment on phylogeny estimation: A case study of 18S rDNAs of Apicomplexa
    • Morrison DA and Ellis JT (1997) Effects of nucleotide sequence alignment on phylogeny estimation: A case study of 18S rDNAs of Apicomplexa. Mol Biol Evol 14:428-441.
    • (1997) Mol Biol Evol , vol.14 , pp. 428-441
    • Morrison, D.A.1    Ellis, J.T.2
  • 51
    • 0033504552 scopus 로고    scopus 로고
    • The Parsimony Ratchet, a new method for rapid Parsimony analysis
    • Nixon KC (1999) The Parsimony Ratchet, a new method for rapid Parsimony analysis. Cladistics 15:407-414.
    • (1999) Cladistics , vol.15 , pp. 407-414
    • Nixon, K.C.1
  • 52
    • 0027505613 scopus 로고
    • Ribosomal RNA: A key to phylogeny
    • Olsen GJ and Woese CR (1993) Ribosomal RNA: A key to phylogeny. FASEB J 7:113-123.
    • (1993) FASEB J , vol.7 , pp. 113-123
    • Olsen, G.J.1    Woese, C.R.2
  • 53
    • 0014089672 scopus 로고
    • The fine structure of Nyctotherus cordiformis (Ehrenberg)
    • Paulin JJ (1967) The fine structure of Nyctotherus cordiformis (Ehrenberg). J Protozool 14:183-196.
    • (1967) J Protozool , vol.14 , pp. 183-196
    • Paulin, J.J.1
  • 54
    • 0002401385 scopus 로고
    • Spinneret morphology and the phylogeny of haplogyne spiders (Araneae, Araneomorphae)
    • Platnick NI, Coddington JA, Forster RR and Griswold CE (1991) Spinneret morphology and the phylogeny of haplogyne spiders (Araneae, Araneomorphae). Am Mus Novitat 3016:1-73.
    • (1991) Am Mus Novitat , vol.3016 , pp. 1-73
    • Platnick, N.I.1    Coddington, J.A.2    Forster, R.R.3    Griswold, C.E.4
  • 55
    • 0001404982 scopus 로고    scopus 로고
    • Is Farris optimization perfect? Three-taxon statements and multiple branching
    • Platnick NI, Humphries CJ, Nelson GJ and Williams DM (1996) Is Farris optimization perfect? Three-taxon statements and multiple branching. Cladistics 12:243-252.
    • (1996) Cladistics , vol.12 , pp. 243-252
    • Platnick, N.I.1    Humphries, C.J.2    Nelson, G.J.3    Williams, D.M.4
  • 56
    • 0031773680 scopus 로고    scopus 로고
    • Modeltest: Testing the model of DNA substitution
    • Posada D and Crandall KA (1998) Modeltest: Testing the model of DNA substitution. Bioinformatics 14:817-818.
    • (1998) Bioinformatics , vol.14 , pp. 817-818
    • Posada, D.1    Crandall, K.A.2
  • 57
    • 37549027613 scopus 로고    scopus 로고
    • SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB
    • Pruesse E, Quast C, Knittel K, Fuchs BM, Ludwig W, Peplies J and Glockner FO (2007) SILVA: A comprehensive online resource for quality checked and aligned ribosomal RNA sequence data compatible with ARB. Nucleic Acids Res 35:7188-7196.
    • (2007) Nucleic Acids Res , vol.35 , pp. 7188-7196
    • Pruesse, E.1    Quast, C.2    Knittel, K.3    Fuchs, B.M.4    Ludwig, W.5    Peplies, J.6    Glockner, F.O.7
  • 58
    • 0004385565 scopus 로고
    • Phylum Ciliophora Doflein, 1901
    • Puytorac P de (1994) Phylum Ciliophora Doflein, 1901. Traité Zoologie 2:1-15.
    • (1994) Traité Zoologie , vol.2 , pp. 1-15
    • De Puytorac, P.1
  • 59
    • 0041134451 scopus 로고
    • Ultrastructure du córtex buccal et evolution chez les cilies
    • Puytorac P de and Grain J (1976) Ultrastructure du córtex buccal et evolution chez les cilies. Protistologica 12:49-67.
    • (1976) Protistologica , vol.12 , pp. 49-67
    • De Puytorac, P.1    Grain, J.2
  • 60
    • 0032225752 scopus 로고    scopus 로고
    • Taxon sampling and the accuracy of large phylogenies
    • Rannala B, Huelsenbeck JP, Yang Z and Nielsen R (1998) Taxon sampling and the accuracy of large phylogenies. Syst Biol 47:702-710.
    • (1998) Syst Biol , vol.47 , pp. 702-710
    • Rannala, B.1    Huelsenbeck, J.P.2    Yang, Z.3    Nielsen, R.4
  • 61
    • 77957910374 scopus 로고    scopus 로고
    • Robust inferences from ambiguous alignments
    • (ed) Sequence Alignment: Methods, Concepts, and Strategies. University of California Press, Berkeley
    • Redelings BD and Suchard MA (2009) Robust inferences from ambiguous alignments. In: Rosenberg M (ed) Sequence Alignment: Methods, Concepts, and Strategies. University of California Press, Berkeley, pp 209-270.
    • (2009) Rosenberg M , pp. 209-270
    • Redelings, B.D.1    Suchard, M.A.2
  • 62
    • 0034916154 scopus 로고    scopus 로고
    • Widespread distribution of extensive genome fragmentation in ciliates
    • Riley JL and Katz LA (2001) Widespread distribution of extensive genome fragmentation in ciliates. Mol Biol Evol 18:1372-1377.
    • (2001) Mol Biol Evol , vol.18 , pp. 1372-1377
    • Riley, J.L.1    Katz, L.A.2
  • 63
    • 0041386108 scopus 로고    scopus 로고
    • MrBayes 3: Bayesian phylogenetic inference under mixed models
    • Ronquist F and Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572-1574.
    • (2003) Bioinformatics , vol.19 , pp. 1572-1574
    • Ronquist, F.1    Huelsenbeck, J.P.2
  • 66
    • 0036623258 scopus 로고    scopus 로고
    • An approximately unbiased test of phylogenetic tree selection
    • Shimodaira H (2002) An approximately unbiased test of phylogenetic tree selection. Syst Biol 51:492-508.
    • (2002) Syst Biol , vol.51 , pp. 492-508
    • Shimodaira, H.1
  • 67
    • 21644440363 scopus 로고    scopus 로고
    • Approximately unbiased tests of regions using multistep-multiscale bootstrap resampling
    • Shimodaira H (2004) Approximately unbiased tests of regions using multistep-multiscale bootstrap resampling. Ann Stat 32:2616-2641.
    • (2004) Ann Stat , vol.32 , pp. 2616-2641
    • Shimodaira, H.1
  • 68
    • 0036139287 scopus 로고    scopus 로고
    • CONSEL: For assessing the confidence of phylogenetic tree selection
    • Shimodaira H and Hasegawa M (2001) CONSEL: For assessing the confidence of phylogenetic tree selection. Bioinformatics 17:1246-1247.
    • (2001) Bioinformatics , vol.17 , pp. 1246-1247
    • Shimodaira, H.1    Hasegawa, M.2
  • 69
    • 0034714875 scopus 로고    scopus 로고
    • Phylogenetic position of the ciliates Phacodinium (Order Phacodiniida) and Protocruzia (Subclass Protocruziidia) and systematic of the spirotrich ciliates examined by small subunit ribosomal RNA gene sequences
    • Shin MK, Hwang UW, Kim W, Wright ADG, Krawczyk C and Lynn DH (2000) Phylogenetic position of the ciliates Phacodinium (Order Phacodiniida) and Protocruzia (Subclass Protocruziidia) and systematic of the spirotrich ciliates examined by small subunit ribosomal RNA gene sequences. Eur J Protistol 36:293-302.
    • (2000) Eur J Protistol , vol.36 , pp. 293-302
    • Shin, M.K.1    Hwang, U.W.2    Kim, W.3    Wright, A.D.G.4    Krawczyk, C.5    Lynn, D.H.6
  • 71
    • 0002356467 scopus 로고
    • Phylum Ciliophora Doflein, 1901
    • In: Lee J, Hutner SH and Bovee EC, Allen Press, Kansas
    • Small EB and Lynn DH (1985) Phylum Ciliophora Doflein, 1901. In: Lee J, Hutner SH and Bovee EC (eds) An Illustrated Guide to the Protozoa. Allen Press, Kansas, pp 393-575.
    • (1985) An Illustrated Guide to The Protozoa , pp. 393-575
    • Small, E.B.1    Lynn, D.H.2
  • 72
    • 34147157841 scopus 로고    scopus 로고
    • Nematode small subunit phylogeny correlates with alignment parameters
    • Smythe AB, Sanderson MJ and Nadler SA (2006) Nematode small subunit phylogeny correlates with alignment parameters. Syst Biol 55:972-992.
    • (2006) Syst Biol , vol.55 , pp. 972-992
    • Smythe, A.B.1    Sanderson, M.J.2    Nadler, S.A.3
  • 73
    • 0345692631 scopus 로고
    • Nouvelles données sur l'infraciliature somatique et buccale de Caenornorpha uniserialis Levander, 1894 (Ciliophora, Heterotrichida)
    • Sola A, Guinea A, Longás JE and Fernandez-Galiano D (1990) Nouvelles données sur l'infraciliature somatique et buccale de Caenornorpha uniserialis Levander, 1894 (Ciliophora, Heterotrichida). Arch Protistenkunde 138:233-238.
    • (1990) Arch Protistenkunde , vol.138 , pp. 233-238
    • Sola, A.1    Guinea, A.2    Longás, J.E.3    Fernandez-Galiano, D.4
  • 74
    • 35148886708 scopus 로고    scopus 로고
    • Evidence for local ciliate endemism in an alpine anoxic lake
    • Stoeck T, Bruemmer F and Foissner W (2007) Evidence for local ciliate endemism in an alpine anoxic lake. Microb Ecol 54:478-486.
    • (2007) Microb Ecol , vol.54 , pp. 478-486
    • Stoeck, T.1    Bruemmer, F.2    Foissner, W.3
  • 76
    • 0001336205 scopus 로고    scopus 로고
    • Phylogenetic inference
    • Hillis DM, Moritz C and Mable BK (eds), Sinauer Associates, Sunderland
    • Swofford DL, Olsen GJ, Waddell PJ and Hillis DM (1996) Phylogenetic inference. In: Hillis DM, Moritz C and Mable BK (eds) Molecular Systematics. Sinauer Associates, Sunderland, pp 407-514.
    • (1996) Molecular Systematics , pp. 407-514
    • Swofford, D.L.1    Olsen, G.J.2    Waddell, P.J.3    Hillis, D.M.4
  • 77
    • 0035527406 scopus 로고    scopus 로고
    • Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods
    • Swofford DL, Waddell PJ, Huelsenbeck JP, Foster PG, Lewis PO and Rogers JS (2001) Bias in phylogenetic estimation and its relevance to the choice between parsimony and likelihood methods. Syst Biol 50:525-539.
    • (2001) Syst Biol , vol.50 , pp. 525-539
    • Swofford, D.L.1    Waddell, P.J.2    Huelsenbeck, J.P.3    Foster, P.G.4    Lewis, P.O.5    Rogers, J.S.6
  • 78
    • 84890412862 scopus 로고
    • Light and scanning electron microscopy of Nyctotherus kyphodes (Ciliophora, Plagiotomidae) from the Galapagos giant tortoise, Testudo sp
    • Takahashi EI and Imai S (1989) Light and scanning electron microscopy of Nyctotherus kyphodes (Ciliophora, Plagiotomidae) from the Galapagos giant tortoise, Testudo sp. Bull Nippon Vet Zootechnical College 38:9-15.
    • (1989) Bull Nippon Vet Zootechnical College , vol.38 , pp. 9-15
    • Takahashi, E.I.1    Imai, S.2
  • 79
    • 34547489084 scopus 로고    scopus 로고
    • Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments
    • Talavera G and Castresana J (2007) Improvement of phylogenies after removing divergent and ambiguously aligned blocks from protein sequence alignments. Syst Biol 56:564-577.
    • (2007) Syst Biol , vol.56 , pp. 564-577
    • Talavera, G.1    Castresana, J.2
  • 80
    • 79957613599 scopus 로고    scopus 로고
    • MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods
    • Tamura K, Peterson D, Peterson N, Stecher G, Nei M and Kumar S (2011) MEGA5: Molecular Evolutionary Genetics Analysis using Maximum Likelihood, Evolutionary Distance, and Maximum Parsimony Methods. Mol Biol Evol 28:2731-2739.
    • (2011) Mol Biol Evol , vol.28 , pp. 2731-2739
    • Tamura, K.1    Peterson, D.2    Peterson, N.3    Stecher, G.4    Nei, M.5    Kumar, S.6
  • 81
    • 0021084212 scopus 로고
    • Phylogenetic inference from restriction endonuclease cleavage site maps with particular reference to the humans and apes
    • Templeton AR (1983) Phylogenetic inference from restriction endonuclease cleavage site maps with particular reference to the humans and apes. Evolution 37:221-244.
    • (1983) Evolution , vol.37 , pp. 221-244
    • Templeton, A.R.1
  • 82
    • 0027968068 scopus 로고
    • CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice
    • Thompson JD, Higgins DG and Gibson TJ (1994) CLUSTAL W: Improving the sensitivity of progressive multiple sequence alignment through sequence weighting, position-specific gap penalties and weight matrix choice. Nucleic Acids Res 22:4673-4680.
    • (1994) Nucleic Acids Res , vol.22 , pp. 4673-4680
    • Thompson, J.D.1    Higgins, D.G.2    Gibson, T.J.3
  • 83
    • 0031851504 scopus 로고    scopus 로고
    • Evolution of anaerobic ciliates from the gastrointestinal tract: Phylogenetic analysis of the ribosomal repeat from Nyctotherus ovalis and its relatives
    • van Hoek AHAM, van Alen TA, Sprakel VSI, Hackstein JHP and Vogels GD (1998) Evolution of anaerobic ciliates from the gastrointestinal tract: Phylogenetic analysis of the ribosomal repeat from Nyctotherus ovalis and its relatives. Mol Biol Evol 15:1195-1206.
    • (1998) Mol Biol Evol , vol.15 , pp. 1195-1206
    • van Hoek, A.H.A.M.1    van Alen, T.A.2    Sprakel, V.S.I.3    Hackstein, J.H.P.4    Vogels, G.D.5
  • 87
    • 78649904363 scopus 로고    scopus 로고
    • Molecular and morphological evidence for a sister group relationship of the Classes Armophorea and Litostomatea (Ciliophora, Intramacronucleata, Lamellicorticata infraphyl. nov.), with an account on basal haptorid litostomateans
    • Vd'Acny P, Orsi W and Foissner W (2010) Molecular and morphological evidence for a sister group relationship of the Classes Armophorea and Litostomatea (Ciliophora, Intramacronucleata, Lamellicorticata infraphyl. nov.), with an account on basal haptorid litostomateans. Eur J Protistol 46:298-309.
    • (2010) Eur J Protistol , vol.46 , pp. 298-309
    • Vd'Acny, P.1    Orsi, W.2    Foissner, W.3
  • 88
    • 0028878618 scopus 로고
    • Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data
    • Wheeler WC (1995) Sequence alignment, parameter sensitivity, and the phylogenetic analysis of molecular data. Syst Biol 44:321-331.
    • (1995) Syst Biol , vol.44 , pp. 321-331
    • Wheeler, W.C.1
  • 89
    • 78649909067 scopus 로고    scopus 로고
    • The systematic position of Paraspathidium Noland, 1937 (Ciliophora, Litostomatea?) inferred from primary SSU rRNA gene sequences and predicted secondary rRNA structure
    • Zhang Q, Yi Z, Song W, Al-Rasheid KAS and Warren A (2010) The systematic position of Paraspathidium Noland, 1937 (Ciliophora, Litostomatea?) inferred from primary SSU rRNA gene sequences and predicted secondary rRNA structure. Eur J Protistol 46:280-288.
    • (2010) Eur J Protistol , vol.46 , pp. 280-288
    • Zhang, Q.1    Yi, Z.2    Song, W.3    Al-Rasheid, K.A.S.4    Warren, A.5
  • 90
    • 0036699481 scopus 로고    scopus 로고
    • Increased taxon sampling greatly reduces phylogenetic error
    • Zwickl DJ and Hillis DM (2002) Increased taxon sampling greatly reduces phylogenetic error. Syst Biol 51:588-598.
    • (2002) Syst Biol , vol.51 , pp. 588-598
    • Zwickl, D.J.1    Hillis, D.M.2


* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.