Further use of nearly complete 28S and 18S rRNA genes to classify Ecdysozoa: 37 more arthropods and a kinorhynch

Molecular Phylogenetics and Evolution

Volumn 40, Issue 3, 2006, Pages 772-794

  Mallatt, Jon ^a   Giribet, Gonzalo ^b  

^a WASHINGTON STATE UNIVERSITY   (United States)

^b HARVARD UNIVERSITY   (United States)

Author keywords

28S rRNA; Arthropoda; Covarion model; Crustacea; Hexapoda; Kinorhyncha; Molecular phylogeny; Parametric bootstrapping; Ribosomal RNA genes

Indexed keywords

RNA 18S; RNA 28S;

ANIMAL; ARTHROPOD; ARTICLE; BAYES THEOREM; CLASSIFICATION; COMPARATIVE STUDY; GENETICS; HELMINTH; PHYLOGENY;

ANIMALS; ARTHROPODS; BAYES THEOREM; HELMINTHS; PHYLOGENY; RNA, RIBOSOMAL, 18S; RNA, RIBOSOMAL, 28S;

ANIMALIA; ANOSTRACA; ARANEAE; ARGULOIDA; ARTHROPODA; BRANCHIOPODA; CHELICERATA; CHILOPODA; CIRRIPEDIA; COLLEMBOLA; CRATEROSTIGMUS; CRUSTACEA; DECAPODA (CRUSTACEA); DIPLOPODA; DIPLURA (HEXAPODS); ECDYSOZOA; EUPHAUSIACEA; HEXAPODA; INSECTA; ISOPODA; KINORHYNCHA; LIMULUS; LOBSTER; MALACOSTRACA; MAXILLOPODA; MEROSTOMATA; MYRIAPODA; NOTOSTRACA; OSTRACODA; PANCRUSTACEA; PENTASTOMIDA; PHTHIRAPTERA; PRIAPULUS; PROTURA; PYCNOGONIDA; SCORPIONES; STOMATOPODA; THORACICA;

EID: 33746693659     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2006.04.021     Document Type: Article

References (167)

1. Abele L.G., Kim W., and Felgenhauer B.E. Molecular evidence for inclusion of the phylum Pentastomida in the Crustacea. Mol. Biol. Evol. 6 (1989) 685-691
2. Adoutte A., and Philippe H. The major lines of metazoan evolution: summary of traditional evidence and lessons from ribosomal RNA sequence analysis. In: Pichon Y. (Ed). Comparative Molecular Neurobiology (1993), Birkhäuser Verlag, Basel 1-30
3. Aguinaldo A.M.A., Turbeville J.M., Lindford L.S., Rivera M.C., Garey J.R., Raff R.A., and Lake J.A. Evidence for a clade of nematodes, arthropods and other moulting animals. Nature 387 (1997) 489-493
4. Ahyong S.T., and O'Meally D. Phylogeny of the Decapoda Reptantia: resolution using three molecular loci and morphology. Raffles Bull. Zool. 52 (2004) 673-693
5. Anderson D.T. Embryology and Phylogeny in Annelids and Arthropods (1973), Pergamon, Oxford
6. Ané C., Burleigh J.G., McMahon M.M., and Sanderson M.J. Covarion structure in plastid genome evolution: a new statistical test. Mol. Biol. Evol. 22 (2005) 914-924
7. Antezana M. When being "most likely" is not enough: examining the performance of three uses of the parametric bootstrap in phylogenetics. J. Mol. Evol. 56 (2003) 198-222
8. Ax P. Das System der Metazoa II. Ein Lehrbuch der phylogenetischen Systematik (1999), Gustav Fischer Verlag, Stuttgart
9. Babbitt C.C., and Patel N.H. Relationships within the Pancrustacea: examining the influence of additional Malacostracan 18S and 28S rDNA. In: Koenemann S., and Jenner R.A. (Eds). Crustacean Issues 16: Crustacea and Arthropod Relationships. Festschrift for Frederick R. Schram (2005), Taylor & Francis, Boca Raton 275-294
10. Boore J.L., Lavrov D.V., and Brown W.M. Gene translocation links insects and crustaceans. Nature 392 (1998) 667-668
11. Borucki H. Evolution und Phylogenetisches System der Chilopoda (Mandibulata, Tracheata). Verh. naturwiss. Ver. Hamburg 35 (1996) 95-226
12. Boudreaux H.B. Arthropod Phylogeny with Special Reference to Insects (1979), John Willey, New York
13. Braband A., Richter S., Hiesel R., and Scholtz G. Phylogenetic relationships within the Phyllopoda (Crustacea, Branchiopoda) based on mitochondrial and nuclear markers. Mol. Phylogenet. Evol. 25 (2002) 229-244
14. Brown J.R., Douady C.J., Italia M.J., Marshall W.E., and Stanhope M.J. Universal trees based on large combined protein sequence data sets. Nat. Genet. 28 (2001) 281-285
15. Castro L.R., and Dowton M. The position of the Hymenoptera within the Holometabola as inferred from the mitochondrial genome of Perga condei (Hymenoptera: Symphyta: Pergidae). Mol. Phylogenet. Evol. 34 (2005) 469-479
16. Chen J.Y., Vannier J., and Huang D.Y. The origin of crustaceans: new evidence from the Early Cambrian of China. Proc. R. Soc. Lond. B 268 (2001) 2181-2187
17. Choe C.P., Hancock J.M., Hwang U.W., and Kim W. Analysis of the primary sequence and secondary structure of the unusually long SSU rRNA of the soil bug, Armadillidium vulgare. J. Mol. Evol. 49 (1999) 798-805
18. Coddington J.A., Giribet G., Harvey M.S., Prendini L., and Walter D.E. Arachnida. In: Cracraft J., and Donoghue M.J. (Eds). Assembling the Tree of Life (2004), Oxford University Press, New York 296-318
19. Cook C.E., Smith M.L., Telford M.J., Bastianello A., and Akam M. Hox genes and the phylogeny of the arthropods. Curr. Biol. 11 (2001) 759-763
20. Cook C.E., Yue Q., and Akam M. Mitochondrial genomes suggest that hexapods and crustaceans are mutually paraphyletic. Proc. R. Soc. B 272 (2005) 1295-1304
21. Dohle W. Phylogenetic pathways in the Chilopoda. Bijdr. Dierkunde 55 (1985) 55-66
22. Dohle W. Myriapod-insect relationships as opposed to an insect-crustacean sister group relationship. In: Fortey R.A., and Thomas R.H. (Eds). Arthropod Relationships (1998), Chapman & Hall, London 305-315
23. Dohle W. Are the insects terrestrial crustaceans? A discussion of some new facts and arguments and the proposal of the proper name Tetraconata for the monophyletic unit Crustacea + Hexapoda. Ann. Soc. Entomol. Fr. 37 (2001) 85-103
24. Dohle W., and Scholtz G. Clonal analysis of the crustacean segment: the discordance between genealogical and segmental borders. Development 104 Suppl. (1988) 147-160
25. Dove H., and Stollewerk A. Comparative analysis of neurogenesis in the myriapod Glomeris marginata (Diplopoda) suggests more similarities to chelicerates than to insects. Development 130 (2003) 2161-2171
26. Dunlop J.A. Phylogeny of Chelicerata. In: Llorente Bousquets J.E., Morrone J.J., and Ponce Ulloa H. (Eds). Biodiversidad, Taxonomía y Biogeografía de Artrópodos de México: Hacia una síntesis de su conocimiento (2002), Prensas de Ciencias, Universidad Nacional Autónoma de México, Mexico D.F. 117-141
27. Dunlop J.A., and Arango C.P. Pycnogonid affinities: a review. J. Zool. Syst. Evol. Res. 43 (2005) 8-21
28. Edgecombe G.D. Morphological data, extant Myriapoda, and the myriapod stem-group. Contrib. Zool. 73 (2004) 207-252
29. Edgecombe G.D., and Giribet G. Myriapod phylogeny and the relationships of Chilopoda. In: Llorente Bousquets J.E., and Morrone J.J. (Eds). Biodiversidad, Taxonomía y Biogeografía de Artrópodos de México: Hacia una síntesis de su conocimiento (2002), Prensas de Ciencias, Universidad Nacional Autónoma de México, Mexico D.F. 143-168
30. Edgecombe G.D., and Giribet G. Adding mitochondrial sequence data (16S rRNA and cytochrome c oxidase subunit I) to the phylogeny of centipedes (Myriapoda, Chilopoda): an analysis of morphology and four molecular loci. J. Zool. Syst. Evol. Res. 42 (2004) 89-134
31. Edgecombe G.D., Giribet G., and Wheeler W.C. Filogenia de Chilopoda: combinando secuencias de los genes ribosómicos 18S y 28S y morfología [Phylogeny of Chilopoda: combining 18S and 28S rRNA sequences and morphology]. In: Melic A., de Haro J.J., Méndez M., and Ribera I. (Eds). Filogenia y Evolución de Arthropoda (1999), Sociedad Entomológica Aragonesa, Zaragoza 293-331
32. Edgecombe G.D., Richter S., and Wilson G.D.F. The mandibular gnathal edges: Homologous structures throughout Mandibulata?. Afr. Invertebr. 44 (2003) 115-135
33. Enghoff H. Phylogeny of millipedes-a cladistic analysis. Z. Zool. Syst. Evol. -Forsch. 22 (1984) 8-26
34. Enghoff H., Dohle W., and Blower J.G. Anamorphosis in millipedes (Diplopoda)-the present state of knowledge with some developmental and phylogenetic considerations. Zool. J. Linnean Soc. 109 (1993) 103-234
35. Fortey R.A., and Thomas R.H. Arthropod Relationships (1998), Chapman and Hall, London
36. Friedrich M., and Tautz D. Ribosomal DNA phylogeny of the major extant arthropod classes and the evolution of myriapods. Nature 376 (1995) 165-167
37. Friedrich M., and Tautz D. An episodic change of rDNA nucleotide substitution rate has occurred during the emergence of the insect order Diptera. Mol. Biol. Evol. 14 (1997) 644-653
38. Friedrich M., and Tautz D. Arthropod rDNA phylogeny revisited: a consistency analysis using Monte Carlo simulation. Ann. Soc. Entomol. France 37 (2001) 21-40
39. Fürst von Lieven A. The transformation from monocondylous to dicondylous mandibles in the Insecta. Zool. Anz. 239 (2000) 139-146
40. Galtier N. Maximum-likelihood phylogenetic analysis under a covarion-like model. Mol. Biol. Evol. 18 (2001) 866-873
41. Garey J.R. Ecdysozoa: the relationship between Cycloneuralia and Panarthropoda. Zool. Anz. 240 (2001) 321-330
42. Gaunt M.W., and Miles M.A. An insect molecular clock dates the origin of the insects and accords with palaeontological and biogeographic landmarks. Mol. Biol. Evol. 19 (2002) 748-761
43. Giribet G. Current advances in the phylogenetic reconstruction of metazoan evolution. A new paradigm for the Cambrian explosion?. Mol. Phylogenet. Evol. 24 (2002) 345-357
44. Giribet G. Molecules, development and fossils in the study of metazoan evolution: Articulata versus Ecdysozoa revisited. Zoology 106 (2003) 303-326
45. Giribet G. Stability in phylogenetic formulations and its relationship to nodal support. Syst. Biol. 52 (2003) 554-564
46. Giribet G., Carranza S., Baguñà J., Riutort M., and Ribera C. First molecular evidence for the existence of a Tardigrada + Arthropoda clade. Mol. Biol. Evol. 13 (1996) 76-84
47. Giribet G., Carranza S., Riutort M., Baguñà J., and Ribera C. Internal phylogeny of the Chilopoda (Myriapoda, Arthropoda) using complete 18S rDNA and partial 28S rDNA sequences. Phil. Trans. R. Soc. Lond. 354 (1999) 215-222
48. Giribet G., Distel D.L., Polz M., Sterrer W., and Wheeler W.C. Triploblastic relationships with emphasis on the acoelomates and the position of Gnathostomulida, Cycliophora, Plathelminthes, and Chaetognatha: a combined approach of 18S rDNA sequences and morphology. Syst. Biol. 49 (2000) 539-562
49. Giribet G., and Edgecombe G.D. Conflict between data sets and phylogeny of centipedes: an analysis based on seven genes and morphology. Proc. R. Soc. B 273 (2006) 531-538
50. Giribet G., Edgecombe G.D., Carpenter J.M., D'Haese C.A., and Wheeler W.C. Is Ellipura monophyletic? A combined analysis of basal hexapod relationships with emphasis on the origin of insects. Org. Divers. Evol. 4 (2004) 319-340
51. Giribet G., Edgecombe G.D., and Wheeler W.C. Arthropod phylogeny based on eight molecular loci and morphology. Nature 413 (2001) 157-161
52. Giribet G., Edgecombe G.D., Wheeler W.C., and Babbitt C. Phylogeny and systematic position of Opiliones: a combined analysis of chelicerate relationships using morphological and molecular data. Cladistics 18 (2002) 5-70
53. Giribet G., and Ribera C. A review of arthropod phylogeny: new data based on ribosomal DNA sequences and direct character optimization. Cladistics 16 (2000) 204-231
54. Giribet G., Richter S., Edgecombe G.D., and Wheeler W.C. The position of crustaceans within the Arthropoda-evidence from nine molecular loci and morphology. In: Koenemann S., and Jenner R.A. (Eds). Crustacean Issues 16: Crustacea and Arthropod Relationships. Festschrift for Frederick R. Schram (2005), Taylor & Francis, Boca Raton 307-352
55. Giribet G., Sørensen M.V., Funch P., Kristensen R.M., and Sterrer W. Investigations into the phylogenetic position of Micrognathozoa using four molecular loci. Cladistics 20 (2004) 1-13
56. Giribet G., and Wheeler W.C. Some unusual small-subunit ribosomal RNA sequences of metazoans. Am. Mus. Novit. 3337 (2001) 1-14
57. Giribet G., Wheeler W.C., and Muona J. DNA multiple sequence alignments. In: DeSalle R., Giribet G., and Wheeler W.C. (Eds). Molecular Systematics and Evolution: Theory and Practice (2002), Birkhäuser Verlag, Basel 107-114
58. Gutell R.R. Collection of small subunit (16S- and 16S-like) ribosomal RNA structures: 1994. Nucleic Acids Res. 22 (1994) 3502-3507
59. Gutell R.R., Gray M.W., and Schnare M.N. A compilation of large subunit (23S and 23S-like) ribosomal RNA structures: 1993. Nucleic Acids Res. 21 (1993) 3055-3074
60. Harzsch S. The phylogenetic significance of crustacean optic neuropils and chiasmata: a re-examination. J. Comp. Neurol. 453 (2002) 10-21
61. Harzsch S., Müller C.H.G., and Wolf H. From variable to constant cell numbers: cellular characteristics of the arthropod nervous system argue against a sister-group relationship of Chelicerata and "Myriapoda" but favour the Mandibulata concept. Dev. Genes Evol. 215 (2005) 53-68
62. Hassouna N., Michot B., and Bachellerie J.P. The complete nucleotide sequence of mouse 28S rRNA gene. Implications for the process of size increase of the large subunit rRNA in higher eukaryotes. Nucleic Acids Res. 12 (1984) 3563-3583
63. Hennig W. Kritische Bermerkunden zur Phylogenetischen System der Insekten. Beitr. Entomol. 3 (1953) 1-83
64. Hennig W. Insect Phylogeny (1981), John Wiley, New York
65. Hillis D.M., and Dixon M.T. Ribosomal DNA: molecular evolution and phylogenetic inference. Q. Rev. Biol. 66 (1991) 411-453
66. Huelsenbeck J.P. Testing a covariotide model of DNA substitution. Mol. Biol. Evol. 19 (2002) 698-707
67. Huelsenbeck J.P., Hillis D.M., and Jones R. Parametric bootstrapping in molecular phylogenetics: applications and performance. In: Ferraris J.D., and Palumbi S.R. (Eds). Molecular Zoology. Advances, Strategies, and Protocols (1996), The Society for integrative and comparative Biology, and Wiley-Liss, New York 19-45
68. Huelsenbeck J.P., and Ronquist F. MrBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2003) 754-755
69. Huelsenbeck, J.P., Ronquist, F., 2003b. MrBayes: Bayesian Inference of Phylogeny, v. 3.0. Program and documentation available at: .
70. Huelsenbeck J.P., Ronquist F., Nielsen R., and Bollback J.P. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294 (2001) 2310-2314
71. Hwang U.W., Friedrich M., Tautz D., Park C.J., and Kim W. Mitochondrial protein phylogeny joins myriapods with chelicerates. Nature 413 (2001) 154-157
72. Inagaki Y., Susko E., Fast N.M., and Roger A.J. Covarion shifts cause a long-branch attraction artifact that unites microsporidia and archaebacteria in EF-1a phylogenies. Mol. Biol. Evol. 21 (2004) 1340-1349
73. Jamieson B.G.M., and Storch V. Further spermatological evidence for including the Pentastomida in the Crustacea. Int. J. Parasitol. 22 (1992) 95-108
74. Jarman S.N., Nicol S., Elliott N.G., and McMinn A. 28S rDNA evolution in the Eumalacostraca and the phylogenetic position of krill. Mol. Phylogenet. Evol. 17 (2000) 26-36
75. Jenner R.A. When molecules and morphology clash: reconciling conflicting phylogenies of the Metazoa by considering secondary character loss. Evol. Dev. 6 (2004) 372-378
76. Jermiin L., Ho S.Y., Ababneh F., Robinson J., and Larkum A.W. The biasing effect of compositional heterogeneity on phylogenetic estimates may be underestimated. Syst. Biol. 53 (2004) 638-643
77. Jow H., Hudelot C., Rattray M., and Higgs P.G. Bayesian phylogenetics using a RNA substitution model applied to early vertebrate evolution. Mol. Biol. Evol. 19 (2002) 1591-1601
78. Kadner D., and Stollewerk A. Neurogenesis in the chilopod Lithobius forficatus suggests more similarities to chelicerates than to insects. Dev. Genes Evol. 214 (2004) 367-379
79. Kjer K.M. Aligned 18S and insect phylogeny. Syst. Biol. 53 (2004) 506-514
80. Koch M. Monophyly and phylogenetic position of the Diplura (Hexapoda). Pedobiologia 41 (1997) 9-12
81. Kraus O. Phylogenetic relationships between higher taxa of tracheate arthropods. In: Fortey R.A., and Thomas R.H. (Eds). Arthropod Relationships (1998), Chapman & Hall, London 295-303
82. Kraus O. "Myriapoda" and the ancestry of the Hexapoda. Ann. Soc. Entomol. Fr. 37 (2001) 105-127
83. Kristensen N.P. Phylogeny of extant hexapods. In: Nauman I.D. (Ed). The Insects of Australia (1991), Cornell University Press, Ithaca 125-140
84. Kristensen N.P. The groundplan and basal diversification of the hexapods. In: Fortey R.A., and Thomas R.H. (Eds). Arthropod Relationships (1998), Chapman and Hall, London 281-293
85. Kukalová-Peck J. New Carboniferous Diplura, Monura, and Thysanura, the hexapod ground plan, and the role of thoracic side lobes in the origin of wings (Insecta). Can. J. Zool. 65 (1987) 2327-2345
86. Kukalová-Peck J. Fossil history and the evolution of hexapod structures. In: Nauman I.D. (Ed). The Insects of Australia (1991), Cornell University Press, Ithaca 141-179
87. Lake J.A. Reconstructing evolutionary trees from DNA and protein sequences: paralinear distances. Proc. Natl. Acad. Sci. USA 91 (1994) 1455-1459
88. Lavrov D.V., Brown W.M., and Boore J.L. Phylogenetic position of the Pentastomida and (pan)crustacean relationships. Proc. R. Soc. B 271 (2004) 1471-2954
89. Lemburg C. Ultrastructure of sense organs and receptor cells of the neck and lorica of the Halicryptus spinulosus larva (Priapulida). Microfauna Marina 10 (1995) 7-30
90. Luan Y.X., Mallatt J.M., Xie R.D., Yang Y.M., and Yin W.Y. The phylogenetic positions of three basal-hexapod groups (Protura, Diplura, and Collembola) based on ribosomal RNA gene sequences. Mol. Biol. Evol. 22 (2005) 1579-1592
91. Mallatt J.M., Garey J.R., and Shultz J.W. Ecdysozoan phylogeny and Bayesian inference: first use of nearly complete 28S and 18S rRNA gene sequences to classify the arthropods and their kin. Mol. Phylogenet. Evol. 31 (2004) 178-191
92. Mallatt J., and Sullivan J. 28S and 18S rDNA sequences support the monophyly of lampreys and hagfishes. Mol. Biol. Evol. 15 (1998) 1706-1718
93. Mallatt J., Sullivan J., and Winchell C.J. The relationships of lampreys to hagfishes: a spectral analysis of ribosomal DNA sequences. In: Ahlberg P. (Ed). Major Events in Early Vertebrate Evolution: Palaeontology, Phylogeny, and Development (2001), Taylor and Francis, London 106-118
94. Mallatt J., and Winchell C.J. Testing the new animal phylogeny: first use of combined large-subunit and small-subunit rRNA gene sequences to classify the protostomes. Mol. Biol. Evol. 19 (2002) 289-301
95. Matsuda R. Morphology and evolution of the insect thorax. Mem. Entomol. Soc. Can. 76 (1970) 1-431
96. Maxmen A., Browne W.E., Martindale M.Q., and Giribet G. Neuroanatomy of sea spiders implies an appendicular origin of the protocerebral segment. Nature 437 (2005) 1144-1148
97. Mittmann B. Early neurogenesis in the horseshoe crab Limulus polyphemus and its implication for arthropod relationships. Biol. Bull. 203 (2002) 221-222
98. Møller O.S., Olesen J., and Høeg J.T. SEM studies on the early larval development of Triops cancriformis (Bosc) (Crustacea: Branchiopoda, Notostraca). Acta Zool. (Stockholm) 84 (2003) 267-284
99. Müller C.H.G., Rosenberg J., Richter S., and Benno Meyer-Rochow V. The compound eye of Scutigera coeleoptrata (Linnaeus, 1758) (Chilopoda: Notostigmophora): an ultrastructural investigation that adds support to the Mandibulata concept. Zoomorphology 122 (2003) 191-209
100. Mushegian A.R., Garey J.R., Martin J., and Liu L.X. Large-scale taxonomic profiling of eukaryotic model organisms: a comparison of orthologous proteins encoded by the human, fly, nematode, and yeast genomes. Genome Res. 8 (1998) 590-598
101. Nardi F., Spinsanti G., Boore J.L., Carapelli A., Dallai R., and Frati F. Hexapod origins: monophyletic or paraphyletic?. Science 299 (2003) 1887-1889
102. Neuhaus B., and Higgins R.P. Ultrastructure, biology, and phylogenetic relationships of Kinorhyncha. Integr. Comp. Biol. 42 (2002) 619-632
103. Nielsen C. Animal Evolution. second ed. (2001), Oxford University Press, Oxford
104. Ogden T.H., and Whiting M.F. The problem with "the Palaeoptera Problem:" sense and sensitivity. Cladistics 19 (2003) 432-442
105. Ogden T.H., Whiting M.F., and Wheeler W.C. Poor taxon sampling, poor character sampling, and non-repeatable analyses of a contrived dataset do not provide a more credible estimate of insect phylogeny: a reply to Kjer. Cladistics 21 (2005) 295-302
106. Omilian A.R., and Taylor D.J. Rate acceleration and long-branch attraction in a conserved gene of cryptic daphniid (Crustacea) species. Mol. Biol. Evol. 18 (2001) 2201-2212
107. Penny D., McComish B.J., Charleston M.A., and Hendy M.D. Mathematical elegance with biochemical realism: the covarion model of molecular evolution. J. Mol. Evol. 53 (2001) 711-723
108. Petrov N.B., and Vladychenskaya N.S. Phylogeny of the molting animals (Ecdysozoa) as inferred from 18S and 28S rRNA gene-sequences. Molecular Biology 39 (2005) 503-513
109. Philip G.K., Creevey C.J., and McInerney J.O. The Opisthokonta and the Ecdysozoa may not be clades: stronger support for the grouping of plant and animal than for animal and fungi and stronger support for the Coelomata than Ecdysozoa. Mol. Biol. Evol. 22 (2005) 1175-1184
110. Philippe H., Lartillot N., and Brinkmann H. Multigene analyses of bilaterian animals corroborate the monophyly of Ecdysozoa, Lophotrochozoa and Protostomia. Mol. Biol. Evol. 22 (2005) 1246-1253
111. Pisani D., Poling L.L., Lyons-Weiler M., and Hedges S.B. The colonization of land by animals: molecular phylogeny and divergence times among arthropods. BMC Biol. 2 (2004) 1-10
112. Posada D., and Buckley T. Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests. Syst. Biol. 53 (2004) 793-808
113. Posada D., and Crandall K.A. MODELTEST: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
114. Rambaut, A., Grassly, N.C., 2001. Seq-Gen sequence generator: an application for the Monte-Carlo simulation of DNA sequence evolution along phylogenetic trees. Version 1. 2. 5.
115. Regier J.C., and Shultz J.W. Elongation factor-2: a useful gene for arthropod phylogenetics. Mol. Phylogenet. Evol. 20 (2001) 136-148
116. Regier J.C., Shultz J.W., and Kambic R.E. Pancrustacean phylogeny: hexapods are terrestrial crustaceans and maxillopods are not monophyletic. Proc. R. Soc. B 272 (2005) 395-401
117. Regier J.C., Wilson H.M., and Shultz J.W. Phylogenetic analysis of Myriapoda using three nuclear protein-coding genes. Mol. Phylogenet. Evol. 34 (2005) 147-158
118. Richter S. The Tetraconata concept: hexapod-crustacean relationships and the phylogeny of Crustacea. Org. Divers. Evol. 2 (2002) 217-237
119. Richter S. A comparison of the mandibular gnathal edges in branchiopod crustaceans: implications for the phylogenetic position of the Laevicaudata. Zoomorphology 123 (2004) 31-44
120. Richter S., and Scholtz G. Phylogenetic analysis of the Malacostraca (Crustacea). J. Zool. Syst. Evol. Res. 39 (2001) 113-136
121. Riley J., Banaja A.A., and James J.L. The phylogenetic relationships of the Pentastomida: the case for their inclusion within the Crustacea. Int. J. Parasitol. 8 (1978) 245-254
122. Rooney A.P. Mechanisms underlying the evolution and maintenance of functionally heterogeneous 18S rRNA genes in apicomplexans. Mol. Biol. Evol. 21 (2004) 1704-1711
123. Ruppert E.E., Fox R.S., and Barnes R.D. Invertebrate Zoology, A Functional Evolutionary Approach. Seventh ed. (2004), Thomson, Brooks/Cole, Belmont, CA
124. Schmidt-Rhaesa A., Bartolomaeus T., Lemburg C., Ehlers U., and Garey J.R. The position of the Arthropoda in the phylogenetic system. J. Morphol. 238 (1998) 263-285
125. Schnare M.N., Damberger S.H., Gray M.W., and Gutell R.R. Comprehensive comparison of structural characteristics in eukaryotic cytoplasmic large subunit (23S-like) ribosomal RNA. J. Mol. Evol. 256 (1996) 701-719
126. Scholtz G. The Articulata hypothesis-or what is a segment?. Org. Divers. Evol. 2 (2002) 197-215
127. Scholtz G., and Edgecombe G.D. Heads, Hox and the phylogenetic position of trilobites. In: Koenemann S., and Jenner R.A. (Eds). Crustacean Issues 16: Crustacea and Arthropod Relationships. Festschrift for Frederick R. Schram (2005), Taylor & Francis, Boca Raton 139-165
128. Schram F.R., and Koenemann S. Are the crustaceans monophyletic?. In: Cracraft J., and Donoghue M.J. (Eds). Assembling the Tree of Life (2004), Oxford University Press, New York 319-325
129. Shear W.A., and Bonamo P.M. Devonobiomorpha, a new order of centipeds (Chilopoda) from the middle Devonian of Gilboa, New York State, USA, and the phylogeny of centiped orders. Am. Mus. Novit. 2927 (1988) 1-30
130. Shultz J.W. Evolutionary morphology and phylogeny of Arachnida. Cladistics 6 (1990) 1-38
131. Sierwald P., Shear W.A., Shelley R.M., and Bond J.E. Millipede phylogeny revisited in the light of the enigmatic order Siphoniulida. J. Zool. Syst. Evol. Res. 41 (2003) 87-99
132. Sinakevitch I., Douglass J.K., Scholtz G., Loesel R., and Strausfeld N.J. Conserved and convergent organization in the optic lobes of insects and isopods, with reference to other crustacean taxa. J. Comp. Neurol. 467 (2003) 150-172
133. Spears T., and Abele L.G. Crustacean phylogeny inferred from 18S rDNA. In: Fortey R.A., and Thomas R.H. (Eds). Arthropod Relationships (1998), Chapman and Hall, London 169-187
134. Spears T.R., DeBry W., Abele L.G., and Chodyla K. Peracarid monophyly and interordinal phylogeny inferred from nuclear small-subunit ribosomal DNA sequences (Crustacea: Malacostraca: Peracarida). Proc. Biol. Soc. Wash. 118 (2005) 117-157
135. Staniczek A.H. The mandible of silverfish (Insecta: Zygentoma) and mayflies (Ephemeroptera): Its morphology and phylogenetic significance. Zool. Anz. 239 (2000) 147-178
136. Stock, D.W., 1992. A molecular phylogeny of fishes, PhD Thesis. University of Illinois at Urbana-Champagne.
137. Suzuki Y., Glazko G.V., and Nei M. Overcredibility of molecular phylogenies obtained by Bayesian phylogenetics. Proc. Natl. Acad. Sci. USA 99 (2002) 16138-16143
138. Svenson G.J., and Whiting M.F. Phylogeny of Mantodea based on molecular data: evolution of a charismatic predator. Syst. Entomol. 29 (2004) 359-370
139. Swofford, D.L., 2002. PAUP*: Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4.0 beta 10. Sinauer Associates, Sunderland, MA.
140. Swofford D.L., Olsen G.J., Waddell P.J., and Hillis D.M. Phylogenetic inference. In: Hillis D.M., Moritz C., and Mable B.K. (Eds). Molecular Systematics. second ed. (1996), Sinauer Associates, Sunderland 407-514
141. Telford M.J., Wise M.J., and Gowri-Shankar V. Consideration of RNA secondary structure significantly improves likelihood-based estimates of phylogeny: examples from the Bilateria. Mol. Biol. Evol. 22 (2005) 1129-1136
142. Terry M.D., and Whiting M.F. Mantophasmatodea and phylogeny of the lower neopterous insects. Cladistics 21 (2005) 240-257
143. Turbeville J.M., Pfeifer D.M., Field K.G., and Raff R.A. The phylogenetic status of arthropods, as inferred from 18S rRNA sequences. Mol. Biol. Evol. 8 (1991) 669-686
144. Walossek D., and Müller K.J. Early arthropod phylogeny in light of the Cambrian "Orsten" fossils. In: Edgecombe G.D. (Ed). Arthropod Fossils and Phylogeny (1998), Columbia University Press, New York 185-231
145. Waloszek D., Chen J.Y., Maas A., and Wang X.Q. Early Cambrian arthropods-new insights into arthropod head and structural evolution. Arthropod Struct. Dev. 34 (2005) 189-205
146. Waloszek D., and Dunlop J.A. A larval sea spider (Arthropoda: Pycnogonida) from the Upper Cambrian 'Orsten' of Sweden, and the phylogenetic position of pycnogonids. Palaeontology 45 (2002) 421-446
147. Wheeler W.C., Cartwright P., and Hayashi C.Y. Arthropod phylogeny: a combined approach. Cladistics 9 (1993) 1-39
148. Wheeler W.C., Giribet G., and Edgecombe G.D. Arthropod systematics. The comparative study of genomic, anatomical, and paleontological information. In: Cracraft J., and Donoghue M.J. (Eds). Assembling the Tree of Life (2004), Oxford University Press, New York 281-295
149. Wheeler W.C., and Hayashi C.Y. The phylogeny of extant chelicerate orders. Cladistics 14 (1998) 173-192
150. Wheeler W.C., and Honeycutt R.L. Paired sequence difference in ribosomal RNAs: evolutionary and phylogenetic implications. Mol. Biol. Evol. 5 (1988) 90-96
151. Wheeler W.C., Whiting M.F., Wheeler Q.D., and Carpenter J.M. The phylogeny of the extant hexapod orders. Cladistics 17 (2001) 113-169
152. Whiting M.F. Mecoptera is paraphyletic: multiple genes and phylogeny of Mecoptera and Siphonaptera. Zool. Scr. 31 (2002) 93-104
153. Whiting M.F. Phylogeny of the holometabolous insect orders: molecular evidence. Zool. Scr. 31 (2002) 3-15
154. Whiting M.F., Bradler S., and Maxwell T. Loss and recovery of wings in stick insects. Nature 421 (2003) 264-267
155. Whiting M.F., Carpenter J.M., Wheeler Q.D., and Wheeler W.C. The Strepsiptera problem: phylogeny of the holometabolous insect orders inferred from 18S and 28S ribosomal DNA sequences and morphology. Syst. Biol. 46 (1997) 1-68
156. Willmann R. Die phylogenetischen Beziehungen der Insecta: Offene Fragen und Probleme. Verh. Westd. Entom. Tag 2001 (2003) 1-64
157. Wills M.A. A phylogeny of recent and fossil Crustacea derived from morphological characters. In: Fortey R.A., and Thomas R.H. (Eds). Arthropod Relationships (1998), Chapman and Hall, London 189-209
158. Wilson H.M., and Anderson L.I. Morphology and taxonomy of Paleozoic millipedes (Diplopoda: Chilognatha: Archipolypoda) from Scotland. J. Paleontol. 78 (2004) 169-184
159. Wilson K., Cahill V., Ballment E., and Benzie J. The complete sequence of the mitochondrial genome of the crustacean Penaeus monodon: are malacostracan crustaceans more closely related to insects than to branchiopods?. Mol. Biol. Evol. 17 (2000) 863-874
160. Winchell C.J., Martin A.P., and Mallatt J. Phylogeny of elasmobranchs based on LSU and SSU ribosomal RNA genes. Mol. Phylogenet. Evol. 31 (2004) 214-224
161. Winchell C.J., Sullivan J., Cameron C.B., Swalla B.J., and Mallatt J. Evaluating hypotheses of deuterostome phylogeny and chordate evolution with new LSU and SSU ribosomal DNA data. Mol. Biol. Evol. 19 (2002) 762-776
162. Wingstrand K.G. Comparative spermatology of a pentastomid, Raillietiella hemidactyli, and a branchiuran crustacean, Argulus foliaceus, with a discussion of pentastomid relationships. K. Dan. Vidensk. Selsk. Biol. Skr. 19 (1972) 1-72
163. Wuyts J., Van de Peer Y., Winkelmans T., and De Wachter R. The European database on small subunit ribosomal RNA. Nucleic Acids Res. 30 (2002) 183-185
164. Zrzavý J. The interrelationships of metazoan parasites: a review of phylum-and higher-level hypotheses from recent morphological and molecular phylogenetic analyses. Folia Parasitol. 48 (2001) 81-103
165. Zrzavý J., Hypša V., and Vlášková M. Arthropod phylogeny: taxonomic congruence, total evidence and conditional combination approaches to morphological and molecular data sets. In: Fortey R.A., and Thomas R.H. (Eds). Arthropod Relationships (1998), Chapman and Hall, London 97-107
166. Zrzavý J., and Štys P. The basic body plan of arthropods: insights from evolutionary morphology and developmental biology. J. Evol. Biol. 10 (1997) 353-367
167. Zwickl D.J., and Hillis D.M. Increased taxon sampling greatly reduces phylogenetic error. Syst. Biol. 51 (2002) 588-598