Phylogenetic analysis of New Zealand earthworms (Oligochaeta: Megascolecidae) reveals ancient clades and cryptic taxonomic diversity

Molecular Phylogenetics and Evolution

Volumn 58, Issue 1, 2011, Pages 85-96

  Buckley, Thomas R ^a   James, Sam ^b   Allwood, Julia ^a,c   Bartlam, Scott ^d   Howitt, Robyn ^a   Prada, Diana ^a  

^a LANDCARE RESEARCH   (New Zealand)

^b UNIVERSITY OF KANSAS   (United States)

^c UNIVERSITY OF AUCKLAND   (New Zealand)

^d LANDCARE RESEARCH   (New Zealand)

Author keywords

Acanthodrilinae; Biogeography; Earthworm; Gondwana; Megascolecidae; Megascolecinae; New Zealand

Indexed keywords

ANIMAL; ANNELID WORM; ARTICLE; CLASSIFICATION; DNA BASE COMPOSITION; GENETICS; MITOCHONDRIAL GENE; MOLECULAR GENETICS; NEW ZEALAND; NUCLEOTIDE SEQUENCE; PHYLOGENY;

ANIMALS; BASE COMPOSITION; GENES, MITOCHONDRIAL; MOLECULAR SEQUENCE DATA; NEW ZEALAND; OLIGOCHAETA; PHYLOGENY;

ANNELIDA; MEGASCOLECIDAE; OLIGOCHAETA (METAZOA);

EID: 78650991632     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2010.09.024     Document Type: Article

References (114)

1. Akaike H. Information theory as an extension of the Maximum Likelihood principle. Second International Symposium Information Theory 1973, 267-281. Akademiai Kiado. N. Petrov, F. Csaki (Eds.).
2. Allwood J., Gleeson D.M., Mayer D., Daniels S., Beggs J., Buckley T.R. Support for vicariant origins of the New Zealand Onychophora. J. Biogeogr. 2010, 37:669-681.
3. Arensburger P.A., Buckley T.R., Simon C., Moulds M.S., Holsinger K.E. Biogeography and phylogeny of the New Zealand cicada genera based on nuclear and mitochondrial DNA data. J. Biogeogr. 2004, 31:557-569.
4. Baird W. Megascolex antarctica, an earthworm from New Zealand. Proc. Linn. Soc. Lond. 1871, 11:96.
5. Barker F.K., Barrowclough G.F., Groth J.G. A phylogenetic hypothesis for passerine birds: taxonomic and biogeographic implications of an analysis of nuclear DNA sequence data. Proc. R. Soc. B: Biol. Sci. 2001, 269:295-308.
6. Barker G.M., Efford M.G. Predatory gastropods as natural enemies of terrestrial gastropods and other invertebrates. Natural Enemies of Terrestrial Molluscs 2004, 279-404. CABI Publishing. G.M. Barker (Ed.).
7. Barker N.P., Weston P.H., Rutschmann F., Sauquet H. Molecular dating of the " Gondwanan" plant family Proteaceae is only partially congruent with the timing of the break-up of Gondwana. J. Biogeogr. 2007, 34:2012-2027.
8. Batt G.E., Braun J. The tectonic evolution of the Southern Alps, New Zealand: insights from fully thermally coupled dynamical modeling. Geophys. J. Int. 1999, 136:403-421.
9. Beddard F.E. On the oligochaetous fauna of New Zealand with preliminary descriptions of new species. Proc. Zool. Soc. Lond. 1889, 1889:377-382.
10. Beddard, F.E., 1895a. A monograph of the order Oligochaeta. Oxford.
11. Beddard, F.E., 1895b. A textbook of zoogeography. Cambridge.
12. Benham W.B. On some earthworms from the islands around New Zealand. Trans. NZ Inst. 1901, 33:129-144.
13. Benham W.B. The geographical distribution of earthworms and the palaeogeography of the Antarctic region. Rep. Aust. Assoc. Adv. Sci. 1902, 1902:319-343.
14. Benham W.B. On some edible and other new species of earthworms from the North Island of New Zealand. Proc. Zool. Soc. Lond. 1904, 1904:220-263.
15. Benham W.B. Some earthworms from the North Island of New Zealand. Trans. NZ Inst. 1905, 37:281-285.
16. Benham W.B. Additional notes on the earthworms of the North Island of New Zealand. Trans. NZ Inst. 1906, 38:329-344.
17. Benham, W.B., 1909. Report on the oligochaeta of the subantarctic islands of New Zealand. In: Subantarctic Islands of New Zealand, vol. 1, Government Printer, Wellington, New Zealand, pp. 251-294.
18. Benham W.B. Oligochaeta of Macquarie Island. Sci. Rep. Aust. Antarc. Exped. Zool. Bot. 1922, 6:1-38.
19. Blakemore, R.J., 2005. A definitive checklist of Australian Earthworm (Annelida: Oligochaeta: Moniligastridae, Ocnerodrilidae, Acanthodrilidae, Octochaetidae, Benhamiinae, Exxidae? Megascolecidae, Glossoscolecidae, Lumbricidae, Eudrilidae). Unpublished checklist, Available from: http://bio-eco.eis.ynu.ac.jp/eng/database/earthworm/.
20. Blakemore, R.J., 2006. Checklist of New Zealand earthworms updated from Lee (1959). Unpublished checklist, Available from: http://bio-eco.eis.ynu.ac.jp/eng/database/earthworm/.
21. Blakemore R.J. Origin and means of dispersal of cosmopolitan Pontodrilus litoralis (Oligochaeta: Megascolecidae). Eur. J. Soil Biol. 2007, 43:S3-S8.
22. Boon W.M., Daugherty C.H., Chambers G.K. The Norfolk Island green parrot and New Caledonian red-crowned parakeet are distinct species. EMU 2001, 101:113-121.
23. Boyer S.L., Giribet G. Welcome back New Zealand: regional biogeography and Gondwanan origin of three endemic genera of mite harvestmen (Arachnida, Opiliones, Cyphophthalmi). J. Biogeogr. 2009, 36:1084-1099.
24. Briones M.J.I., Morán P., Posada D. Are the sexual, somatic and genetic characters enough to solve nomenclatural problems in lumbricid taxonomy?. Soil Biol. Biochem. 2009, 41:2257-2271.
25. Brockie R.E., Moeed A. Animal biomass in a New Zealand forest compared with other parts of the world. Oecologia 1986, 70:24-34.
26. Brook F.J., Thrasher B.W. Cretaceous and Cenozoic geology of northernmost New Zealand. NZ Geol. Sur. Rec. 1991, 41.
27. Buckley T.R., Simon C., Chambers G.K. Exploring among-site rate variation models in a maximum likelihood framework using empirical data: effects of model assumptions on estimates of topology, branch lengths and bootstrap support. Syst. Biol. 2001, 50:67-86.
28. Buckley T.R., Simon C. The evolution of the cicada genus Maoricicada Dugdale (Hemiptera: Cicadoidea) and the origins of the New Zealand alpine biota. Biol. J. Linn. Soc. 2007, 91:419-435.
29. Buckley T.R., Attanayake D., Nylander J.A.A., Bradler S. The phylogenetic placement and biogeographical origins of the New Zealand stick insects (Phasmatodea). Syst. Entomol. 2010, 35:207-225.
30. Buckley T.R., Marske K., Attanayake D. Phylogeography and ecological niche modelling of the New Zealand stick insect Clitarchus hookeri (White) support survival in multiple coastal refugia. J. Biogeogr. 2010, 37:682-695.
31. Buller, W.L., 1888. A History of the birds of New Zealand, second ed., vol. 2. London, 359 pp.
32. Bunce M., Worthy T.H., Phillips M.J., Holdaway R.N., Willerslev E., Haile J., Shapiro B., Scofield P., Drummond A., Kamp P., Cooper A. The evolutionary history of the extinct ratite moa and New Zealand Neogene paleogeography. Proc. Natl. Acad. Sci. 2009, 106:20646-20651.
33. Chang C.-H., Lin S.-M., Chen J.-H. Molecular systematics and phylogeography of the gigantic earthworms of the Metaphire formosae species group (Clitellata, Megascolecidae). Mol. Phylogenet. Evol. 2008, 49:958-968.
34. Cooper R.A., Millener P.R. The New Zealand biota: historical background and new research. Trends Ecol. Evol. 1993, 8:429-433.
35. Cooper A., Cooper R.A. The Oligocene bottleneck and New Zealand biota: genetic record of a past environmental crisis. Proc. R. Soc. B: Biol. Sci. 1995, 261:293-302.
36. Craw R.C. Two biogeographical frameworks: implications for the biogeography of New Zealand: a review. Tuatara 1978, 23:81-114.
37. Drummond A.J., Ho S.Y.W., Philips M.J., Rambaut A. Relaxed phylogenetics and dating with confidence. PLoS Biol. 2006, 4:e88.
38. Drummond A.J., Rambaut A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC Evol. Biol. 2007, 7:214.
39. Efford M. Consumption of amphipods by the New Zealand land snail Wainuia urnula (Pulmonata: Rhytididae). J. Mollusc. Stud. 2000, 66:45-52.
40. Ericson P.G.P., Christidis L., Cooper A., Irestedt M., Jackson J., Johansson U.S., Norman J.A. A Gondwanan origin of passerine birds supported by DNA sequences of the endemic New Zealand wrens. Proc. R. Soc. B: Biol. Sci. 2002, 269:235-241.
41. Fleming C.A. The Geological History of New Zealand and its Life 1979, Auckland University Press, Auckland, New Zealand.
42. Gaina, C., Roest, W.R., Müller, R.D., Symonds, P., 1998. The opening of the Tasman Sea: a gravity anomaly animation. Earth Interact. 2004 (Electron. J.).
43. Gaskin D.E. The origins of the New Zealand fauna and flora: a review. Geogr. Rev. 1970, 60:414-434.
44. Gibbs G.W. Local or global? Biogeography of some primitive Lepidoptera in New Zealand. NZ J. Zool. 1989, 16:689-698.
45. Gillespie J.J., Johnston J.S., Cannone J.J., Gutell R.R. Characteristics of the nuclear (18S, 5.8S, 28S and 5S) and mitochondrial (12S and 16S) rRNA genes of Apis mellifera (Insecta: Hymenoptera): structure, organization, and retrotransposable elements. Ins. Mol. Biol 2006, 15:657-686.
46. Giribet G., Boyer S.L. 'Moa's Ark' or 'Goodbye Gondwana': is the origin of New Zealand's terrestrial invertebrate fauna ancient, recent, or both?. Invert. System. 2010, 24:1-8.
47. Giribet G., Vogt L., Pérez González A., Sharmaa P., Kury A.B. A multilocus approach to harvestman (Arachnida: Opiliones) phylogeny with emphasis on biogeography and the systematics of Laniatores. Cladistics 2010, 26:408-437.
48. Heads M. Globally basal centres of endemism: the Tasman-Coral Sea region (south-west Pacific), Latin America and Madagascar/South Africa. Biol. J. Linn. Soc. 2009, 96:222-245.
49. Herzer R.H., Chaproniere G.C.H., Edwards A.R., Hollis C.J., Pelletier B., Raine J.I., Scott G.H., Stagpoole V., Strong C.P., Symonds P., Wilson G.J., Zhu H. Seismic stratigraphy and structural history of the Reinga Basin and its margins, southern Norfolk Ridge system. NZ J. Geol. Geophys. 1997, 40:425-451.
50. Ivanova N.V., deWaard J.R., Hebert P.D.N. An inexpensive, automation-friendly protocol for recovering high-quality DNA. Mol. Ecol. Notes 2006, 6:998-1002.
51. Ivanova, N.V., deWaard, J.R., Hebert, P.D.N., 2006b. Available from: http://www.dnabarcoding.ca/CCDB_DOCS/CCDB_DNA_Extraction.pdf.
52. James S.J. Planetary processes and their interactions with earthworm distributions and ecology. Earthworm Ecology 2004, CRC Press, Florida. C.A. Edwards (Ed.).
53. Jamieson B.G.M. The zoogeography and evolution of Tasmanian Oligochaeta. Biogeography and Ecology in Tasmania: 195-228, Dr. W. Junk 1974, The Hague. W.D. Williams (Ed.).
54. Jamieson, B.G.M., Bennett, J.D., 1979. New species of Acanthodrilinae and a new genus of Perionychini (Oligochaeta, Megascolecidae), from New Caledonia, their phylogeny and zoogeography. Bulletin du Muséum National d'Histoire Naturelle, 4e Série 1, section A, 353-403.
55. Jamieson B.G.M., Tillier S., Tillier A., Justine J.-L., Ling E., James S., MacDonald K., Hugall A.F. Phylogeny of the Megascolecidae and Crassiclitellata (Annelida, Oligochaeta): combined versus partitioned analysis using nuclear (28S) and mitochondrial (12S, 16S) rDNA. Zoosystema 2002, 24:707-734.
56. Jones M.E., Tennyson A.J., Worthy J.P., Evans S.E., Worthy T.H. A sphenodontine (Rhynchocephalia) from the Miocene of New Zealand and palaeobiogeography of the tuatara (Sphenodon). Proc. R. Soc. B: Biol. Sci. 2009, 276:1385-1390.
57. King P.R. Tectonic reconstructions of New Zealand: 40Ma to the present. NZ J. Geol. Geophys. 2000, 43:611-638.
58. King R.A., Tibble A.L., Symondson W.O.C. Opening a can of worms: unprecedented sympatric cryptic diversity within British lumbricid earthworms. Mol. Ecol. 2008, 17:4684-4698.
59. Knapp M., Mudaliar R., Havell D., Wagstaff S.J., Lockhart P.J. The drowning of New Zealand and the problem of Agathis. Syst. Biol. 2007, 56:862-870.
60. Ladiges P.Y., Cantrill D. New Caledonia-Australia connections: biogeographic patterns and geology. Aust. Syst. Bot. 2007, 20:383-389.
61. Landis C.A., Campbell H.J., Begg J.G., Mildenhall D.C., Paterson A.M., Trewick S.A. The Waipounamu Erosion Surface: questioning the antiquity of the New Zealand land surface and terrestrial fauna and flora. Geol. Mag. 2008, 145:173-197.
62. Larkin M.A., Blackshields G., Brown N.P., Chenna R., McGettigan P.A., McWilliam H., Valentin F., Wallace I.M., Wilm A., Lopez R., Thompson J.D., Gibson T.J., Higgins D.G. Clustal W and Clustal X version 2.0. Bioinformatics 2007, 23:2947-2948.
63. Lee D.E., Lee W.G., Mortimer N. Where and why have all the flowers gone? Depletion and turnover in the New Zealand Cenozoic angiosperm flora in relation to palaeogeography and climate. Aust. J. Bot. 2001, 49:341-356.
64. Lee K.E. A key of the identification of New Zealand earthworms. Tuatara 1959, 8:13-60.
65. Lee, K.E., 1959b. The earthworm fauna of New Zealand. New Zealand Department of Scientific and Industrial Research Bulletin, vol. 130.
66. Lee, K.E., 1985. Earthworms: their ecology and relationships with soils and land use. Academic Press.
67. Lee, K.E., Blakemore, R.J., Fraser, P., 2000. Noke a Aoteoroa: the earthworms of NZ. The New Zealand Inventory of Biodiversity: A Species 2000 Symposium Review.
68. McGlone M.S. Plant biogeography and the late Cenozoic history of New Zealand. NZ J. Bot. 1985, 23:723-749.
69. Michaelsen W. Weiterer Beitrag zur Systematik der Regenwürmer. Verh. Naturw. Ver. Hamb. 1896, 1896:1-26.
70. Michaelsen, W., 1900. Oligochaeta. Tierreich 10.
71. Michaelsen, W., 1907. Oligochaeta. Fauna-Südwest-Aust 1.
72. Michaelsen W. Oligochäten von Westlichen Vorderindien und ihre Beziehungen zur Oligochätenfauna von Madagaskar und Seychellen. Mitt. Zool. Mus. Hamb. 1920, 38:27-68.
73. Michaelsen W. Die Verbreitung der Oligochäten im Lichte der Wegener'sschen Theorie der Kontinentenverschiebung und andere Fragen zur Stammesgeschichte und Verbreitung dieser Tiergruppe. Verh. Naturw. Ver. Hamb. 1922, 3:1-37.
74. Michaux B., Leschen R.A.B. East meets west: biogeology of the Campbell Plateau. Biol. J. Linn. Soc. 2005, 86:95-115.
75. Michaux B. Reciprocality between biology and geology: reconstructing polar Gondwana. Gond. Res. 2009, 16:655-668.
76. Monaghan M.T., Inward D.J.G., Hunt T., Vogler A.P. A molecular phylogenetic analysis of the Scarabaeinae (dung beetles). Mol. Phylogenet. Evol. 2007, 45:674-692.
77. Novo M., Almodóvar A., Díaz-Cosín D.J. High genetic divergence of hormogastrid earthworms (Annelida, Oligochaeta) in the central Iberian Peninsula: evolutionary and demographic implications. Zool. Scr. 2009, 38:537-552.
78. Omodeo P. Evolution and biogeography of megadriles (Annelida, Clitellata). It. J. Zool. 2000, 67:179-201.
79. Phillips M.J., Gibb G.C., Crimp E.A., Penny D. Tinamous and moa flock together: mitochondrial genome sequence analysis reveals independent losses of flight among ratites. Syst. Biol. 2010, 59:90-107.
80. Pole M.S. The New Zealand flora - entirely long-distance dispersal?. J. Biogeogr. 1994, 21:625-635.
81. Pole M.S. Can long-distance dispersal be inferred from the New Zealand plant fossil record?. Aust. J. Bot. 2001, 49:357-366.
82. Ponder W.F., Colgan D.J., Gleeson D.M., Sherley G.H. Relationships of Placostylus from Lord Howe Island: an investigation using the mitochondrial cytochrome c oxidase 1 gene. Moll. Res. 2003, 23:159-178.
83. Posada D., Crandall K.A. Modeltest: testing the model of DNA substitution. Bioinformatics 1998, 14:817-818.
84. Pratt R.C., Morgan-Richards M., Trewick S.A. Diversification of New Zealand weta (Orthoptera: Ensifera: Anostostomatidae) and their relationships in Australasia. Phils. Trans. R. Soc. B: Biol. Sci. 2008, 363:3427-3437.
85. Reid B., Ordish R.G., Harrison M. An analysis of the gizzard contents of 50 North Island Brown Kiwis, Apteryx australis mantelli, and notes on feeding observations. NZ J. Ecol. 1982, 5:76-85.
86. Rest J.S., Ast J.C., Austin C.C., Waddell P.J., Tibbetts E.A., Hay J.M., Mindell D.P. Molecular systematics of primary reptilian lineages and the tuatara mitochondrial genome. Mol. Phylogenet. Evol. 2003, 29:289-297.
87. Roach R.W. Observations on kiwis, Little Barrier Island. Tane 1954, 6:153-164.
88. Roelants K., Gower D.J., Wilkinson M., Loader S.P., Biju S.D., Guillaume K., Moriau L., Bossuyt F. Global patterns of diversification in the history of modern amphibians. Proc. Natl. Acad. Sci. 2007, 104:887-892.
89. Rogers G.M. The nature of the lower North Island floristic gap. NZ J. Bot. 1989, 27:221-241.
90. Schellart W.P., Kennett B.L.N., Spakman W., Amaru M. Plate reconstructions and tomography reveal a fossil lower mantle slab below the Tasman Sea. Earth Planet. Sci. Lett. 2009, 278:143-151.
91. Simon C., Frati F., Crespi B., Liu H., Flook P.K. Evolution, weighting, and phylogenetic utility of mitochondrial gene sequences and a compilation of conserved PCR primers. Ann. Entomol. Soc. Am. 1994, 87:651-701.
92. Smith A.S., Sadlier R.A., Bauer A.M., Austin C.C., Jackman T. Molecular phylogeny of the scincid lizards of New Caledonia and adjacent areas: evidence for a single origin of the endemic skinks of Tasmantis. Mol. Phylogenet. Evol. 2007, 43:1151-1166.
93. Springett J.A., Gray R.A.J. Burrowing behaviour of the New Zealand indigenous earthworm Octochaetus multiporus (Megascolecidae: Oligochaeta). NZ J. Ecol. 1998, 22:95-97.
94. Springett J.A., Gray R.A.J., Barker D.J., Lambert M.G., MacKay A.D., Thomas V.J. Population density and distribution of the New Zealand indigenous earthworm Octochaetus multiporus (Megascolecidae: Oligochaeta). NZ J. Ecol. 1998, 22:87-93.
95. Stamatakis A. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 2006, 22:2688-2690.
96. Stephenson J. Contributions to the morphology, classification and zoogeography of Indian Oligochaeta. Pt. 3. Some general considerations on the geographical distribution of Indian Oligochaeta. Proc. Zool. Soc. Lond. 1921, 1921:124-142.
97. Stephenson J. Oligochaeta. The fauna of British India, including Ceylon and Burma 1923, Taylor and Francis.
98. Stephenson J. The Oligochaeta 1930, Clarendon Press, Oxford.
99. Stringer I.A.N., Bassett S.M., McLean M.J., McCartney J., Parrish G.R. Biology and conservation of the rare New Zealand land snail Paryphanta busbyi watti (Mollusca, Pulmonata). Invert. Biol. 2005, 122:241-251.
100. Sullivan J., Swofford D.L. Are guinea pigs rodents? The importance of adequate models in molecular phylogenetics. J. Mamm. Evol. 1997, 4:77-86.
101. Swofford D.L. PAUP*. Phylogenetic analysis using parsimony (* and other methods). Version 4 1998, Sinauer Associates, Sunderland, MA.
102. Trewick S.A., Paterson A.M., Campbell H.J. Hello New Zealand. J. Biogeogr. 2007, 34:1-6.
103. Upchurch P. Gondwanan break-up: legacies of a lost world?. Trends Ecol. Evol. 2008, 23:229-236.
104. Venditti C., Meade A., Pagel M. Detecting the node-density artefact in phylogeny reconstruction. Syst. Biol. 2006, 55:637-643.
105. Wagstaff S.J., Dawson M.I. Classification, origin, and patterns of diversification of Corynocarpus (Corynocarpaceae) inferred from DNA sequences. Syst. Bot. 2000, 25:134-149.
106. Wallis G.P., Trewick S.A. New Zealand phylogeography: evolution on a small continent. Mol. Ecol. 2009, 18:3548-3580.
107. Ward J.B., Leschen R.A.B., Smith B.J., Dean J.C. Phylogeny of the caddisfly (Trichoptera) family Hydrobiosidae using larval and adult morphology, with the description of a new genus and species from Fiordland, New Zealand. Rec. Cant. Mus. 2004, 18:23-43.
108. Wardle P. Evolution and distribution of the New Zealand flora, as affected by quaternary climates. NZ J. Bot. 1963, 1:3-17.
109. Waters J.M., Craw D. Goodbye Gondwana? New Zealand biogeography, geology, and the problem of circularity. Syst. Biol. 2006, 55:351-356.
110. Wesener T., VandenSpiegel D. A first phylogenetic analysis of giant pill-millipedes (Diplopoda: Sphaerotheriida), a new model Gondwanan taxon, with special emphasis on island gigantism. Cladistics 2009, 25:545-573.
111. Worthy T.H., Tennyson A.J.D., Archer M., Musser A.M., Hand S.J., Jones C., Douglas B.J., McNamara J.A., Beck R.M.D. Miocene mammal reveals a Mesozoic ghost lineage on insular New Zealand, southwest Pacific. Proc. Natl. Acad. Sci. 2006, 103:19419-19423.
112. Wright S.D., Yong C.G., Dawson J.W., Whittaker D.J., Gardner R.C. Riding the ice age El Nino? Pacific biogeography and evolution of Metrosideros subg. Metrosideros (Myrtaceae) inferred from nuclear ribosomal DNA. Proc. Natl. Acad. Sci. 2000, 97:4118-4123.
113. Wright T.F., Schirtzinger E.E., Matsumoto T., Eberhard J.R., Graves G.R., Sanchez J.J., Capelli S., Müller H., Scharpegge J., Chambers G.K., Fleischer R.C. A multilocus molecular phylogeny of the parrots (Psittaciformes): support for a Gondwanan origin during the Cretaceous. Mol. Biol. Evol. 2008, 25:2141-2156.
114. Yang Z., Goldman N., Friday A.E. Comparison of models for nucleotide substitution used in maximum likelihood phylogenetic estimation. Mol. Biol. Evol. 1994, 11:316-324.