Molecular phylogenetics of the spider family Micropholcommatidae (Arachnida: Araneae) using nuclear rRNA genes (18S and 28S)

Molecular Phylogenetics and Evolution

Volumn 46, Issue 3, 2008, Pages 1031-1048

  Rix, Michael G ^a,b   Harvey, Mark S ^b   Roberts, J Dale ^a  

^a UNIVERSITY OF WESTERN AUSTRALIA   (Australia)

^b WESTERN AUSTRALIAN MUSEUM   (Australia)

Author keywords

Anapidae; Araneoidea; Autocorrelation; Bayesian analysis; Combined analysis; Doublet model; Malkaridae; Palpimanoidea; Secondary structures; Symphytognathoidea; Teutoniella

Indexed keywords

RNA 18S; RNA 28S;

ANIMAL; ARTICLE; BAYES THEOREM; CELL NUCLEUS; CHEMISTRY; CLASSIFICATION; CONFORMATION; DNA SEQUENCE; GENETICS; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE; PHYLOGENY; SPIDER;

ANIMALS; BASE SEQUENCE; BAYES THEOREM; CELL NUCLEUS; MOLECULAR SEQUENCE DATA; NUCLEIC ACID CONFORMATION; PHYLOGENY; RNA, RIBOSOMAL, 18S; RNA, RIBOSOMAL, 28S; SEQUENCE ANALYSIS, DNA; SPIDERS;

ARACHNIDA; ARANEAE; ARANEOIDEA; HICKMANIA TROGLODYTES; MAMMALIA; PALPIMANOIDEA;

EID: 40849137933     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2007.11.001     Document Type: Article

References (56)

1. Agnarsson I. Morphological phylogeny of cobweb spiders and their relatives (Araneae, Araneoidea, Theridiidae). Zool. J. Linn. Soc. 141 (2004) 447-626
2. Arnedo M.A., Coddington J., Agnarsson I., and Gillespie R.G. From a comb to a tree: phylogenetic relationships of the comb-footed spiders (Araneae, Theridiidae) inferred from nuclear and mitochondrial genes. Mol. Phylogenet. Evol. 31 (2004) 225-245
3. Butler L.S.G. Studies in Australian spiders, No. 2. Proc. R. Soc. Vic. 44 (1932) 103-117
4. Crosby C.R., and Bishop S.C. New species of Erigoneae and Theridiidae. J. N. Y. Entomol. Soc. 35 (1927) 147-154
5. Davies V.T. Malkara loricata, a new spider (Araneidae: Malkarinae) from Australia. Verh. Int. Arachnol. Kong 8 (1980) 377-382
6. Dohrmann M., Voigt O., Erpenbeck D., and Wörheide G. Non-monophyly of most supraspecific taxa of calcareous sponges (Porifera, Calcarea) revealed by increased taxon sampling and partitioned Bayesian analysis of ribosomal DNA. Mol. Phylogenet. Evol. 40 (2006) 830-843
7. Erpenbeck D., Nichols S.A., Voigt O., Dohrmann M., Degnan B.M., Hooper J.N.A., and Wörheide G. Phylogenetic analyses under secondary structure-specific substitution models outperform traditional approaches: case studies with Diploblast LSU. J. Mol. Evol. 64 (2007) 543-557
8. Felsenstein J. Confidence limits on phylogenies-an approach using the bootstrap. Evolution 39 (1985) 783-791
9. Forster R.R. New Zealand spiders of the family Symphytognathidae. Rec. Canterbury Mus. 5 (1951) 231-244
10. Forster R.R. Spiders of the family Archaeidae from Australia and New Zealand. Trans. R. Soc. New Zealand 83 (1955) 391-403
11. Forster R.R. The spiders of the family Symphytognathidae. Trans. R. Soc. New Zealand 86 (1959) 269-329
12. Forster R.R., and Platnick N.I. A review of the spider family Symphytognathidae (Arachnida, Araneae). Am. Mus. Novit. 2619 (1977) 1-29
13. Forster R.R., and Platnick N.I. A review of the archaeid spiders and their relatives, with notes on the limits of the superfamily Palpimanoidea (Arachnida, Araneae). Bull. Am. Mus. Nat. Hist. 178 (1984) 1-106
14. Griswold C.E., Coddington J.A., Hormiga G., and Scharff N. Phylogeny of the orb-web building spiders (Araneae, Orbiculariae: Deinopoidea, Araneoidea). Zool. J. Linn. Soc. 123 (1998) 1-99
15. Griswold C.E., Ramírez M.J., Coddington J.A., and Platnick N.I. Atlas of phylogenetic data for Entelegyne spiders (Araneae: Araneomorphae: Entelegynae) with comments on their phylogeny. Proc. Cal. Acad. Sci. 56 Suppl. II (2005) 1-324
16. Harvey M.S. A new species of Symphytognatha Hickman (Araneae: Symphytognathidae) from Western Australia. Rec. West. Aust. Mus. 15 (1992) 685-689
17. Hedin M., and Bond J.E. Molecular phylogenetics of the spider infraorder Mygalomorphae using nuclear rRNA genes (18S and 28S): conflict and agreement with the current system of classification. Mol. Phylogenet. Evol. 41 (2006) 454-471
18. Heimer S. Notes on the spider family Mimetidae with description of a new genus from Australia (Arachnida, Araneae). Ent. Abh. Mus. Tierk. Dresden 49 (1986) 113-137
19. Hickman V.V. On a dipneumone spider (Risdonius parvus, gen. et sp. n.), the female of which has reduced palpi. Proc. Zool. Soc. Lond. (B) 108 (1939) 655-660
20. Hickman V.V. On some new Australian Apneumonomorphae with notes on their respiratory system. Pap. Proc. R. Soc. Tasman. 1943 (1944) 179-195
21. Hickman V.V. A new group of apneumone spiders. Trans. Conn. Acad. Arts Sci. (1945) 135-148
22. Hickman V.V. Some Tasmanian spiders of the families Oonopidae, Anapidae and Mysmenidae. Pap. Proc. R. Soc. Tasman. 113 (1979) 53-79
23. Higgins E.T., and Petterd W.F. Description of a new cave-inhabiting spider, together with notes on mammalian remains from a recently discovered cave in the Chudleigh district. Pap. Proc. R. Soc. Tasman. 1882 (1883) 191-192
24. Hong-Chun P., Kai-Ya Z., Da-Xiang S., and Yang Q. Phylogenetic placement of the spider genus Nephila (Araneae: Araneoidea) inferred from rRNA and MaSp1 gene sequences. Zool. Sci. 21 (2004) 343-351
25. Huelsenbeck J.P., and Ronquist F. MRBAYES: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2001) 754-755
26. Kjer K.M., Gillespie J.J., and Ober K.A. Opinions on multiple sequence alignment, and an empirical comparison of repeatability and accuracy between POY and structural alignment. Syst. Biol. 56 (2007) 133-146
27. Lehtinen, P.T., 1975. Notes on the phylogenetic classification of Araneae. In: Proceedings of the Sixth International Arachnological Congress, Nederlandse Entomologische Vereniging, Amsterdam, pp. 26-29.
28. Maddison W.P., and Hedin M.C. Jumping spider phylogeny (Araneae: Salticidae). Invert. Syst. 17 (2003) 529-549
29. Mello-Leitão C.F.de. Arañas de Misiones, Corrientes y Entre Ríos. Revta. Mus. La Plata (N.S., Zool.) 4 (1945) 213-302
30. Nunn G.B., Theisen B.F., Christensen B., and Arctander D. Simplicity-correlated size growth of the nuclear 28S ribosomal RNA D3 expansion segment in the crustacean order Isopoda. J. Mol. Evol. 42 (1996) 211-223
31. Nylander, J.A.A., 2004. MrModeltest version 2. Program distributed by the author. School of Computational Science, Florida State University (http://www.csit.fsu.edu/~nylander).
32. Platnick, N.I., 2008. The World Spider Catalog, Version 8.0. American Museum of Natural History, New York, online at http://research.amnh.org/entomology/spiders/catalog/INTRO1.html.
33. Platnick N.I., Coddington J.A., Forster R.R., and Griswold C.E. Spinneret morphology and the phylogeny of haplogyne spiders (Araneae, Araneomorphae). Am. Mus. Novit. 3016 (1991) 1-73
34. Platnick N.I., and Forster R.R. On Teutoniella, an American genus of the spider family Micropholcommatidae (Araneae, Palpimanoidea). Am. Mus. Novit. 2854 (1986) 1-9
35. Platnick N.I., and Forster R.R. On the first American spiders of the subfamily Sternodinae (Araneae, Malkaridae). Am. Mus. Novit. 2894 (1987) 1-12
36. Platnick N.I., and Forster R.R. A revision of the temperate South American and Australasian spiders of the family Anapidae (Araneae, Araneoidea). Bull. Am. Mus. Nat. Hist. 190 (1989) 1-139
37. Platnick N.I., and Shadab M.U. A review of the spider genus Anapis (Araneae, Anapidae), with a dual cladistic analysis. Am. Mus. Novit. 2663 (1978) 1-23
38. Posada D., and Crandall K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 14 (1998) 817-818
39. Prendini L., Crowe T.M., and Wheeler W.C. Systematics and biogeography of the family Scorpionidae (Chelicerata: Scorpiones), with a discussion on phylogenetic methods. Invert. Syst. 17 (2003) 185-259
40. Rix M.G. Systematics of the Australasian spider family Pararchaeidae (Arachnida: Araneae). Invert. Syst. 20 (2006) 203-254
41. Ronquist F., and Huelsenbeck J.P. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19 (2003) 1572-1574
42. Ronquist, F., Huelsenbeck, J.P., van der Mark, P., 2005. MrBayes 3.1 Manual. Draft 5/26/2005. Distributed by the authors.
43. 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. Biol. 256 (1996) 701-719
44. Schoniger M., and Haeseler A.v. A stochastic model and the evolution of autocorrelated DNA sequences. Mol. Phylogenet. Evol. 3 (1994) 240-247
45. Schütt K. The limits of the Araneoidea (Arachnida: Araneae). Aust. J. Zool. 48 (2000) 135-153
46. Schütt K. Phylogeny of Symphytognathidae s.l. (Araneae, Araneoidea). Zool. Scr. 32 (2003) 129-151
47. Simon E. Matériaux pour servir a une faune arachnologique de la Nouvelle-Calédonie. Ann. Soc. Ent. Belg. 23 (1880) 164-175
48. *. Phylogenetic Analysis Using Parsimony (* and Other Methods). Version 4.0b10. Sinauer Associates, Sunderland, Massachusetts.
49. Tautz D., Hancock J.M., Webb D.A., Tautz C., and Dover G.A. Conplete sequences of the rRNA genes of Drosophila melanogaster. Mol. Biol. Evol. 5 (1988) 366-376
50. Telford M.J., Wise M.J., and Gowri-Shankar V. Consideration of RNA secondary structure significantly improves likelihood-based estimates of phylogeny: examples from Bilateria. Mol. Biol. Evol. 22 (2005) 1129-1136
51. Thompson J.D., Gibson T.J., Plewniak F., Jeanmougin F., and Higgins D.G. The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment. Nucleic Acids Res. 25 (1997) 4876-4882
52. Vink C.J., Thomas S.M., Paquin P., Hayashi C., and Hedin M. The effects of preservatives and temperatures on arachnid DNA. Invert. Syst. 19 (2005) 99-104
53. Wheeler W.C., Whiting M., Wheeler Q.D., and Carpenter J.M. The phylogeny of the extant Hexapod orders. Cladistics 17 (2001) 113-169
54. Wunderlich J. Spinnenfauna gestern und heute: Fossile Spinnen in Bernstein und ihre heute lebenden Verwandten (1986), Quelle & Meyer, Wiesbaden
55. Wunderlich J. Fossil pirate spiders (Araneae: Araneoidea: Mimetidae s. l.) in Baltic and Dominican amber, with notes on intrafamiliar higher taxa. Beitr. Araneol. 3 (2004) 1249-1278
56. Wuyts J., De Rijk P., Van de Peer Y., Pison G., Rousseeuw P., and De Wachter R. Comparative analysis of more than 3000 sequences reveals the existence of two pseudoknots in area V4 of eukaryotic small subunit ribosomal RNA. Nucleic Acids Res. 28 (2000) 4698-4708