Treating fossils as terminal taxa in divergence time estimation reveals ancient vicariance patterns in the palpimanoid spiders

Systematic Biology

Volumn 62, Issue 2, 2013, Pages 264-284

  Wood, Hannah Marie ^a,b,c   Matzke, Nicholas J ^d   Gillespie, Rosemary G ^a   Griswold, Charles E ^a,b,e  

^a UNIVERSITY OF CALIFORNIA   (United States)

^b CALIFORNIA ACADEMY OF SCIENCES   (United States)

^c UNIVERSITY OF COPENHAGEN   (Denmark)

^d UNIVERSITY OF CALIFORNIA   (United States)

^e SAN FRANCISCO STATE UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ANIMAL; ARTICLE; CLASSIFICATION; FOSSIL; GENETICS; PHYLOGENY; PHYLOGEOGRAPHY; SPIDER; TIME;

ANIMALS; FOSSILS; PHYLOGENY; PHYLOGEOGRAPHY; SPIDERS; TIME;

EID: 84873581687     PISSN: 10635157     EISSN: 1076836X     Source Type: Journal    
DOI: 10.1093/sysbio/sys092     Document Type: Article

References (95)

1. Ayoub N.A., Garb J.E., Hedin M., Hayashi C.Y. 2007. Utility of the nuclear protein-coding gene, elongation factor-1 gamma (EF-1-), for spider systematics, emphasizing family level relationships of tarantulas and their kin (Araneae: Mygalomorphae). Mol. Phylogenet. Evol. 42: 394-409.
2. Azar D. 2007. Preservation and accumulation of biological inclusions in Lebanese amber and their significance. Comptes Rendus Palevol. 6: 151-156.
3. Cambridge O.-P. 1881. On some new genera and species of Araneidea. Proc. Zool. Soc. Lond. 49: 765-775.
4. Cerveira A.M., Jackson R.R. 2005. Specialised predation by Palpimanus sp.(Araneae: Palpimanidae) on jumping spiders (Araneae: Salticidae). J. East Afr. Nat. Hist. 94: 303-317.
5. Chen W., Ji Q., Liu D., Zhang Y., Song B., Liu X. 2004. Isotope geochronology of the fossil-bearing beds in the Daohugou area, Ningcheng, Inner Mongolia. Geol. Bull. China (In Chinese, English summary) 23: 1165-1169.
6. Cook L.G., Crisp M.D. 2005. Not so ancient: the extant crown group of Nothofagus represents a post-Gondwanan radiation. Proc. Roy. Soc. B Biol. Sci. 272: 2535-2544.
7. Cox C.B. 2001. The biogeographic regions reconsidered. J. Biogeogr. 28: 511-523.
8. Crisp M., Cook L., Steane D. 2004. Radiation of the Australian flora: what can comparisons of molecular phylogenies across multiple taxa tell us about the evolution of diversity in present-day communities? Phil. Trans. Roy. Soc. Lond. B 359: 1551-1571.
9. Crisp M.D., Trewick S.A., Cook L.G. 2011. Hypothesis testing in biogeography. Trends Ecol. Evol. 26: 66-72.
10. Davis C.C., Bell C.D., Mathews S., Donoghue M.J. 2002. Laurasian migration explains Gondwanan disjunctions: evidence from Malpighiaceae. Proc. Natl Acad. Sci. USA 99: 6833-6837.
11. Dimitrov D., Lopardo L., Giribet G., Arnedo M.A., Álvarez-Padilla F., Hormiga G. 2012. Tangled in a sparse spiderweb: single origin of orb weavers and their spinning work unravelled by denser taxonomic sampling. Proc. Roy. Soc. B Biol. Sci. 279: 1341-1350.
12. Donoghue M.J., Moore B.R. 2003. Toward an integrative historical biogeography. Integr. Comp. Biol. 43: 261-270.
13. Drummond A., Rambaut A. 2007. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 7: 214.
14. Drummond A.J., Ho S.Y.W., Phillips M.J., Rambaut A. 2006. Relaxed phylogenetics and dating with confidence. PLoS Biol. 4: e88.
15. Eskov K.Y. 1987. A new archaeid spider (Chelicerata: Araneae) from the Jurassic of Kazakhstan, with notes on the so-called "Gondwanan" ranges of recent taxa. Neues Jahrbuch für Geologie und Paläontologie, Abhandlungen 175: 81-106.
16. Eskov K.Y. 1992. Archaeid spiders from Eocene Baltic amber (Chelicerata, Araneida, Archaeidae) with remarks on the so-called "Gondwanan" ranges of Recent taxa. Neues Jahrb. Geol. Paläontol. Abh. 185: 311-328.
17. Eskov K.Y., Golovatch S.I. 1986. On the origin of trans-Pacific disjunctions. Zoologische Jahrbuecher Systematik 113: 265-285.
18. Eskov K.Y., Wunderlich J. 1995. On the spiders from Taimyr ambers, Siberia, with the description of a newfamily and with general notes on the spiders fromthe Cretaceous resins. Beiträge zur Araneologie 4: 95-107.
19. Forster R.R., Platnick N.I. 1984. 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: 1-106.
20. Gao K.-Q., Ren D. 2006. Radiometric dating of Ignimbrite from inner mongolia provides no indication of a post middle Jurassic Age for the Daohugou Beds. Acta Geol. Sin. Engl. Ed. 80: 42-45.
21. Griswold C.E., Ramírez M.J., Coddington J., Platnick N. 2005. Atlas of phylogenetic data for entelegyne spiders (Araneae: Araneomorphae: Entelegynae) with comments on their phylogeny. Proc. Calif. Acad. Sci. 56: 1-324.
22. Harris A., Xiang Q.Y.J. 2009. Estimating ancestral distributions of lineages with uncertain sister groups: a statistical approach to Dispersal-Vicariance Analysis and a case using Aesculus L. (Sapindaceae) including fossils. J. Syst. Evol. 47: 349-368.
23. Heath T.A. 2012. A hierarchical Bayesian model for calibrating estimates of species divergence times. Syst. Biol. 61: 793-809.
24. Heled J., Drummond A.J. 2012. Calibrated tree priors for relaxed phylogenetics and divergence time estimation. Syst. Biol. 61: 138-149.
25. Iturralde-Vinent M.A., MacPhee R.D.E. 1996. Age and paleogeographical origin of Dominican amber. Science 273: 1850-1852.
26. Jansa S.A., Goodman S.M., Tucker P.K. 1999. Molecular phylogeny and biogeography of the native rodents of Madagascar (Muridae: Nesomyinae): a test of the single-origin hypothesis. Cladistics Int. J. Willi Hennig Soc. 15: 253-270.
27. Knapp M., Stöckler K., Havell D., Delsuc F., Sebastiani F., Lockhart P.J. 2005. Relaxed molecular clock provides evidence for long-distance dispersal of Nothofagus (southern beech). PLoS Biol. 3: 38-43.
28. Koch C.L., Berendt G.C. 1854. Die im Bernstein befindlichen Crustaceen, Myriapoden, Arachniden und Apteren der Vorwelt. In: Berendt G.C., editor. Die im Bernstein befindlichen organischen Reste der Vorwelt gesammelt in verbindung mit mehreren bearbeitetet und herausgegeben. Berlin (Germany): In Commission der Nicolaischen Buchhandlung. p. 1-124.
29. Larrasoaña J.C., Garcés M., Martínez-Torres L.M. 2003. Estratigrafía magnética de los yacimientos de ámbar de Montoria-Peñacerrada (Álava, Cuenca Vasco-Cantábrica). Estudios del Museo de Ciencias Naturales de Álava 18 (special volume 1): 33-48.
30. Legendre R. 1961. Études sur les Archaea (Aranéides).-II. La capture des proies et la prise de nourriture. Bull. Zool. Soc. France 86: 316-319.
31. Legendre R. 1977. Les araignées de la famille des Archaeidae et leur distribution géographique actuelle. Bull. Biol. Fr. Belg. 3: 231-248.
32. Lewis P.O. 2001. A likelihood approach to estimating phylogeny from discrete morphological character data. Syst. Biol. 50: 913-925.
33. Li Z.X., Powell C.M. 2001. An outline of the palaeogeographic evolution of the Australasian region since the beginning of the Neoproterozoic. Earth Sci. Rev. 53: 237-277.
34. Lieberman B.S. 2002. Phylogenetic biogeography with and without the fossil record: gauging the effects of extinction and paleontological incompleteness. Palaeogeogr. Palaeoclimatol. Palaeoecol. 178: 39-52.
35. Lotz L.N. 1996. Afrotropical Archaeidae (Araneae): 1. New species of Afrarchaea with notes on Afrarchaea godfreyi (Hewitt, 1919). Navorsinge van die Nasionale Museum Bloemfontein 12: 141-160.
36. Lotz L.N. 2003. Afrotropical Archaeidae: 2. New species of genera Archaea and Afrarchaea (Arachnida: Araneae). Navorsinge van die Nasionale Museum Bloemfontein 19: 221-240.
37. Lotz L.N. 2006. Afrotropical Archaeidae: 3. The female of Eriauchenius cornutus and newspecies of Afrarchaea (Arachnida: Araneae) from South Africa.Navorsinge van dieNasionale Museum Bloemfontein 22: 113-126.
38. Marshall Charles R. 2008. A simple method for bracketing absolute divergence times on molecular phylogenies using multiple fossil calibration points. Am. Nat. 171: 726-742.
39. Millot J. 1948. Faits nouveaux concernant les Archaea (Aranéides). Mémoires L'Institut Scientifique de Madagascar, Série A 1: 3-14.
40. Nylander J.A.A., Olsson U., Alström P., Sanmartín I. 2008. Accounting for phylogenetic uncertainty in biogeography: a Bayesian approach to dispersal-vicariance analysis of the thrushes (Aves: Turdus). Syst. Biol. 57: 257-268.
41. Parham J.F., Donoghue P.C.J., Bell C.J., Calway T.D., Head J.J., Holroyd P.A., Inoue J.G., Irmis R.B., Joyce W.G., Ksepka D.T., Patané J.S.L., Smith N.D., Tarver J.E., van Tuinen M., Yang Z., Angielczyk K.D., Greenwood J.M., Hipsley C.A., Jacobs L., Makovicky P.J., Müller J., Smith K.T., Theodor J.M., Warnock R.C.M., Benton M.J. 2012. Best practices for justifying fossil calibrations. Syst. Biol. 61: 346-359.
42. Paulian R., Viette P. 2003. An introduction to terrestrial and freshwater invertebrates. In: Goodman S., Benstead J., editors. The natural history of Madagascar. Chicago (IL): University of Chicago Press. p. 503-511.
43. Pekar S., Sobotnik J., Lubin Y. 2011. Armoured spiderman: morphological and behavioural adaptations of a specialised araneophagous predator (Araneae: Palpimanidae). Naturwissenschaften 98: 593-603.
44. Penney D. 2001. Advances in the taxonomy of spiders in Miocene amber from the Dominican Republic (Arthropoda: Araneae). Palaeontology 44: 987-1009.
45. Penney D. 2003. Afrarchaea grimaldii, a new species of Archaeidae (Araneae) in Cretaceous Burmese amber. J. Arachnol. 31: 122-130.
46. Penney D. 2011. Grandoculidae: a new fossil spider family from the Upper Cretaceous of Canada. Bull. Br. Arachnol. Soc. 15: 179-180.
47. Penney D., Dunlop J.A., Marusik Y.M. 2012. Summary statistics for fossil spider species taxonomy. Zookeys 192: 1-13.
48. Penney D., McNeil A., Green D.I., Bradley R., Marusik Y.M., Withers P.J., Preziosi R.F. 2011. A new species of anapid spider (Araneae: Araneoidea, Anapidae) in Eocene Baltic amber, imaged using phase contrast X-ray computed micro-tomography. Zootaxa 2742: 60-66.
49. Penney D., Ortuño V.M. 2006. Oldest true orb-weaving spider (Araneae: Araneidae). Biol. Lett. 2: 447-450.
50. Penney D., Selden P.A. 2002. The oldest linyphiid spider, in lower Cretaceous Lebanese amber (Araneae, Linyphiidae, Linyphiinae). J. Arachnol. 30: 487-493.
51. Penney D., Selden P.A. 2006. First fossil Huttoniidae (Arthropoda: Chelicerata: Araneae) in late Cretaceous Canadian amber. Cretaceous Res. 27: 442-446.
52. Penney D., Selden P.A. 2007. Spinning with the dinosaurs: the fossil record of spiders. Geol. Today 23: 231-237.
53. Penney D., Wheater C.P., Selden P.A. 2003. Resistance of spiders to Cretaceous Tertiary extinction events. Evolution 57: 2599-2607.
54. Petrunkevitch A.I. 1942. A study of amber spiders. Trans. Connect. Acad. Arts Sci. 34: 119-464.
55. Platnick N. 2012. The world spider catalog, version 12.5. American Museum of Natural History [Internet]. Available from: URL http://research.amnh.org/iz/ spiders/catalog. DOI: 10.5531/db.iz.0001.
56. Platnick N.I. 1977. The hypochiloid spiders: a cladistic analysis, with notes on the Atypoidea (Arachnida, Araneae). American Museum Novitates 2627: 1-23.
57. Platnick N.I., Coddington J.A., Forster R.R., Griswold C.E. 1991. Spinneret morphology and the phylogeny of haplogyne spiders (Araneae, Araneomorphae). American Museum Novitates 3016: 1-73.
58. Poinar G.O., Zavortinik T., Pike T., Johnston P. 2000. Paleoculicis minututs (Diptera: Culicidae) n. Gen., n. Sp., from Cretaceous Canadian amber, with a summary of described fossil mosquitoes. Acta Geológica Hispánica 35: 119-130.
59. Pyron R.A. 2011. Divergence time estimation using fossils as terminal taxa and the origins of Lissamphibia. Syst. Biol. 60: 466-481.
60. Queiroz A. 2005. The resurrection of oceanic dispersal in historical biogeography. Trends Ecol. Evol. 20: 68-73.
61. Quental T.B., Marshall C.R. 2010. Diversity dynamics: molecular phylogenies need the fossil record. Trends Ecol. Evol. 25: 434-441.
62. R Development Core Team. 2008. R: a language and environment for statistical computing [Internet]. Vienna (Austria): R Foundation for Statistical Computing. Available from: URL http://www.R-project.org.
63. Rabinowitz P.D., Coffin M.F., Falvey D. 1983. The separation of Madagascar and Africa. Science 220: 67-69.
64. Rambaut A. 2010. FigTree version 1.3.1 [Internet]. Available from: URL http://tree.bio.ed.ac.uk/software/figtree/.
65. Ramírez M.J. 2000. Respiratory systemmorphology and the phylogeny of haplogyne spiders (Araneae, Araneomorphae). J. Arachnol. 28: 149-157.
66. Raup D.M. 1993. Extinction: bad genes or bad luck? Oxford: Oxford University Press.
67. Raxworthy C., Forstner M., Nussbaum R. 2002. Chameleon radiation by oceanic dispersal. Nature 415: 784-787.
68. Ree R.H., Moore B.R., Webb C.O., Donoghue M.J. 2005. A likelihood framework for inferring the evolution of geographic range on phylogenetic trees. Evolution 59: 2299-2311.
69. Ree R.H., Smith S.A. 2008. Maximum likelihood inference of geographic range evolution by dispersal, local extinction, and cladogenesis. Syst. Biol. 57: 4-14.
70. Rees P.M., Ziegler A.M., Gibbs M.T., Kutzbach J.E., Behling P.J., Rowley D.B. 2002. Permian phytogeographic patterns and climate data/model comparisons. J. Geol. 110: 1-31.
71. Renner S.S. 2004. Multiple miocene melastomataceae dispersal between Madagascar, Africa and India. Phil. Trans. Roy. Soc. Lond. Ser. B Biol. Sci. 359: 1485-1494.
72. Rix M.G., HarveyM.S. 2011.Australian Assassins, Part I: a reviewof the Assassin Spiders (Araneae, Archaeidae) of mid-eastern Australia. Zookeys 123: 1-100.
73. Rix M.G., Harvey M.S. 2012. Phylogeny and historical biogeography of ancient assassin spiders (Araneae: Archaeidae) in the Australian mesic zone: evidence forMiocene speciation within Tertiary refugia. Mol. Phylogenet. Evol. 62: 375-396.
74. Ronquist F. 1996. DIVA version 1.1. Uppasala (Sweden): Computer program and manual available by anonymous FTP from Uppsala University.
75. Ronquist F., Klopfstein S., Vilhelmsen L., Schulmeister S., Murray D.L., Rasnitsyn A.P. 2012. A total-evidence approach to dating with fossils, applied to the early radiation of theHymenoptera. Syst. Biol. 61: 973-999.
76. Ronquist F., Sanmartín I. 2011. Phylogenetic methods in biogeography. Annu. Rev. Ecol. Evol. Syst. 42: 441-464.
77. San Mauro D., Vences M., Alcobendas M., Zardoya R., Meyer A. 2005. Initial diversification of living amphibians predated the breakup of Pangaea. Am. Nat. 165: 590-599.
78. Scotese C.R. 2004. A continental drift flipbook. J. Geol. 112: 729-742.
79. Selden P., Shear W., Bonamo P. 1991. A spider and other arachnids from the Devonian of New York, and reinterpretations of Devonian Araneae. Palaeontology 34: 241-281.
80. Selden P.A., Huang D.Y., Ren D. 2008a. Palpimanoid spiders from the Jurassic of China. J. Arachnol. 36: 306-321.
81. Selden P.A., Shear W.A., Sutton M.D. 2008b. Fossil evidence for the origin of spider spinnerets, and a proposed arachnid order. Proc. Natl Acad. Sci. 105: 20781-20785.
82. Selden P.A., Shih C.K., Ren D. 2011. A golden orb-weaver spider (Araneae: Nephilidae: Nephila) from the Middle Jurassic of China. Biol. Lett. 7: 775-778.
83. Seward D., Grujic D., Schreurs G. 2004. An insight into the breakup ofGondwana: identifying events through low-temperature thermochronology from the basement rocks of Madagascar. Tectonics 23: TC3007.
84. Smith A.G., Smith D.G., Funnell B.M. 2004. Atlas of Mesozoic and Cenozoic coastlines. Cambridge (UK): Cambridge University Press.
85. Smith S.A. 2009. Taking into account phylogenetic and divergencetime uncertainty in a parametric biogeographical analysis of the Northern Hemisphere plant clade Caprifolieae. J. Biogeogr. 36: 2324-2337.
86. Upchurch P. 2008. Gondwanan break-up: legacies of a lost world? Trends Ecol. Evol. 23: 229-236.
87. Vellard J. 1957. Études fuégiennes, Premiere note: araigneés de la Terre de Feu. Institut Française d'Études Andines 6: 119-146.
88. Wood H. 2008. A revision of the assassin spiders of the Eriauchenius gracilicollis group, a clade of spiders endemic to Madagascar (Araneae : Archaeidae). Zool. J. Linn. Soc. 152: 255-296.
89. Wood H.M., Griswold C.E., Gillespie R.G. 2012. Phylogenetic placement of pelican spiders (Archaeidae, Araneae), with insight into evolution of the "neck" and predatory behaviours of the superfamily Palpimanoidea. Cladistics Int. J. Willi Hennig Soc. 28: 598-626.
90. Wood H.M., Griswold C.E., Spicer G.S. 2007. Phylogenetic relationships within an endemic group of Malagasy 'assassin spiders' (Araneae, Archaeidae): ancestral character reconstruction, convergent evolution and biogeography. Mol. Phylogenet. Evol. 45: 612-619.
91. Wunderlich J. 2004a. Fossil and extant spiders (Araneae) of the superfamily Eresoidea s.l., with special reference to the Archaeidae and remarks on some higher taxa of the superfamily Araneoidea. In: Wunderlich J., editor. Beiträge zur Araneologie. p. 747-808.
92. Wunderlich J. 2004b. On selected higher and lower taxa of fossil and extant spiders of the superfamily Oecobioidea, with a provisional cladogram (Araneae: Hersiliidae and Oecobiidae). In: Wunderlich J., editor. Beiträge zur Araneologie. p. 809-848.
93. Wunderlich J. 2008. The dominance of ancient spider families of the Araneae: Haplogyne in the Cretaceous, and the late diversification of advanced ecribellate spiders of the Entelegynae after the Cretaceous-Tertiary boundary extinction events, with descriptions of new families. In: Wunderlich J., editor. Beiträge zur Araneologie. p. 524-675.
94. Xiang Q.Y.J., Manchester S.R., Thomas D.T., Zhang W., Fan C. 2005. Phylogeny, biogeography, and molecular dating of cornelian cherries (Cornus, Cornaceae): tracking Tertiary plant migration. Evolution 59: 1685-1700.
95. Yoder A.D., Nowak M.D. 2006. Has vicariance or dispersal been the predominant biogeographic force in Madagascar? Only time will tell. Annu. Rev. Ecol. Evol. Syst. 37: 405-431.