Relationships within the Munnopsidae (Crustacea, Isopoda, Asellota) based on three genes

Zoologica Scripta

Volumn 38, Issue 6, 2009, Pages 617-635

  Osborn, Karen J ^a  

^a MONTEREY BAY AQUARIUM RESEARCH INSTITUTE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ASELLOTA; CRUSTACEA; EURYCOPE; ISOPODA; MUNNEURYCOPE; MUNNOPSIDAE; MUNNOPSIDIDAE; MUNNOPSURUS; SYNEURYCOPE; TYTTHOCOPE;

EID: 70350557650     PISSN: 03003256     EISSN: 14636409     Source Type: Journal    
DOI: 10.1111/j.1463-6409.2009.00394.x     Document Type: Article

References (69)

1. Akaike, H. (1974). New look at statistical model identification. IEEE Transactions on Automatic Control, 19, 716 723.
2. Aydogan, A. Wägele, J. W. Park, J. Y. (2000). New deep-sea isopods (Crustacea, Isopoda, Asellota) from the Atacama Trench. Mitteilungen aus dem Museum fuer Naturkunde in Berlin Zoologische Reihe, 76, 175 194.
3. Bonnard, C., Berry, V. Lartillot, N. (2006). Multipolar consensus for phylogenetic trees. Systematic Biology, 55, 837 843.
4. Bradford-Grieve, J. M. (2002). Colonization of the pelagic realm by calanoid copepods. Hydrobiologia, 485, 223 244.
5. Brandt, A. (1990). The deep-sea isopod genus Echinozone new record Sars, 1897 and its occurrence on the continental shelf of Antarctica. Antarctic Science, 2, 215 220.
6. Brandt, A., Gooday, A. J., Brandão, S. N., Brix, S., Brökland, W., Cedhagen, T., Choudhury, M., Cornelius, N., Danis, B., De Mesel, I., Diaz, R. J., Gillan, D. C., Ebbe, B., Howe, J. A., Janussen, D., Kaiser, S., Linse, K., Malyutina, M., Pawlowski, J., Raupach, M. Vanreusel, A. (2007). First insights into the biodiversity and biogeography of the Southern Ocean deep sea. Nature, 447, 307 311. (Pubitemid 46788841)
7. Brinkmann, H., Van Der Giezen, M., Zhou, Y., De Raucourt, G. P. Philippe, H. (2005). An empirical assessment of long-branch attraction artifacts in deep eukaryotic phylogenomics. Systematic Biology, 54, 743 757.
8. Buhay, J. E. (2009). 'COI-like' sequences are becoming problematic in molecular systematic and DNA barcoding studies. Journal of Crustacean Biology, 29, 96 110.
9. Chippindale, P. T. Weins, J. J. (1994). Weighting, partitioning, and combining characters in phylogenetic analysis. Systematic Biology, 42, 278 287.
10. Cho, G. Y., Lee, S. H. Boo, S. M. (2004). A new brown algal order, Ishigeales (Phaeophyseae), established on the basis of plastid protein-coding rbcL, psaA, and psbA region comparisons. Journal of Phycology, 40, 921 936.
11. Cunningham, C. W. (1997). Is congruence between data partitions a reliable predictor of phylogenetic accuracy? Empirically testing an iterative procedure for choosing among phylogenetic methods. Systematic Biology, 46, 464 478.
12. Delsuc, F., Brinkmann, H. Philippe, H. (2006). Phylogenomics and the reconstruction of the tree of life. Nature Review Genetics, 6, 361 375.
13. Dunn, C. W., Hejnol, A., Matus, D. Q., Pang, K., Browne, W. E., Smith, S. A., Seaver, E., Rouse, G. W., Obst, M., Edgecombe, G. D. S., Sørensen, M. V., Haddock, S. H. D., Schmidt-Rhaesa, A., Okusu, A., Kristensen, R. M., Wheeler, W. C., Martindale, M. Q. Giribet, G. (2008). Broad phylogenomic sampling improves resolution of the animal tree of life. Nature, 452, 745 749.
14. Edgar, R. C. (2004). MUSCLE: multiple sequence alignment with high accuracy and high throughput. Nucleic Acids Research, 32, 1792 1797.
15. Folmer, O., Black, M., Hoeh, R., Lutz, R. Vrijenhoek, R. (1994). DNA primers for amplification of mitochondrial cytochrome c oxidase subunit I from metazoan invertebrates. Molecular Marine Biology and Biotechnology, 3, 294 299.
16. Frøslev, T. G., Matheny, P. B. Hibbett, D. S. (2005). Lower level relationships in the mushroom genus Cortinarius (Basidiomycota, Agaricales): a comparison of rpb1, rpb2, and its phylogenies. Molecular Phylogenetics and Evolution, 37, 602 618.
17. Fulton, T. L. Strobeck, C. (2006). Molecular phylogeny of the Arctoidea (Carnivora): Effect of missing data on supertree and supermatrix analyses of multiple gene data sets. Molecular Phylogenetics and Evolution, 41, 165 181.
18. Gontcharov, A. A., Marin, B. Melkonian, M. (2004). Are combined analyses better than single gene phylogenies? A case study using ssu rDNA and rbcL sequence comparisons in the Zygnematophyceae (Streptophyta). Molecular Biology and Evolution, 21, 612 624.
19. Graybeal, A. (1998). Is it better to add taxa or characters to a difficult phylogenetic problem? Systematic Biology, 47, 9 17.
20. Hansen, H. J. (1916). Crustacea Malacostraca III. V. The order Isopoda. Danish Ingolf Expedition, 3, 1 262.
21. Haugness, J. A. Hessler, R. R. (1979). A revision of the subfamily Syneurycopinae (Isopoda: Asellota: Eurycopidae) with a new genus and species (Bellibos buzwillsoni). Transactions of the San Diego Society of Natural History, 19, 121 151.
22. Hessler, R. R. Thistle, D. (1975). Place of origin of deep-sea isopods. Marine Biology, 32, 155 165.
23. Hillis, D. M., Pollock, D. D., McGuire, J. A. Zwickl, D. J. (2003). Is sparse taxon sampling a problem for phylogenetic inference? Systematic Biology, 52, 124 126.
24. Hipp, A. L., Hall, J. C. Sytsma, K. J. (2004). Congruence versus phylogenetic accuracy: revisiting the incongruence length difference test. Systematic Biology, 53, 81 89.
25. Hodgson, T. V. (1910). Crustacea, IX. Isopoda. In National Antarctic Expedition 1901-1904 Vol. 1910, pp. 77 Natural History. 5. Zoology and Botany. London : British Museum.
26. Huelsenbeck, J. P. Ronquist, F. (2001). MrBayes: bayesian inference of phylogenetic trees. Bioinformatics, 17, 754 755.
27. Hult, J. (1941). On the soft-bottom isopods of the Skager Rak. Zoologiska Bidrag Fran Uppsala, 21, 1 234.
28. Kussakin, O. G. (2003). Marine and Brackish Water Crustaceans (Isopoda) of Cold and Temperate Waters of the Northern Hemisphere. Vol. 3. Sub-order Asellota. Part 3. Family Munnopsidae. Nauka : Opredeliteli po faune, izdavaemie Zoologicheskim Institutom Rossiyskoy Academii Nauk.
29. Larson, A. (1994). The comparison of morphological and molecular data in phylogenetic systematics. In B. Schierwater, B. Streit, G. P. Wagner R. DeSalle (Eds) Molecular Ecology and Evolution: Approaches and Applications (pp. 371 390). Birkhäuser-Verlag : Basel, Switzerland.
30. Leebens-Mack, J., Raubeson, L. A., Cui, L. Y., Kuehl, J. V., Fourcade, M. H., Chumley, T. W., Boore, J. L., Jansen, R. K. Depamphilis, C. W. (2005). Identifying the basal angiosperm node in chloroplast genome phylogenies: sampling one's way out of the felsenstein zone. Molecular Biology and Evolution, 22, 1948 1963.
31. Lenaers, G., Maroteaux, L., Michot, B. Herzog, M. (1989). Dinoflagellates in evolution. A molecular phylogenetic analysis of large subunit ribosomal RNA. Journal of Molecular Evolution, 29, 40 51.
32. Maddison, D. R. Maddison, W. P. (2000). MacClade. Version 4.04. (Computer software and manual). Sunderland, MA : Sinauer Associates.
33. Malyutina, M. V. (1999). Storthyngurella, new genus of Munnopsidae (Crustacea: Isopoda), with descriptions of three new species from deep-sea basins of the Southern Hemisphere. Memoirs of Museum Victoria, 57, 267 285.
34. Malyutina, M. V. (2003). Revision of Storthyngura Vanhöffen, 1914 (Crustacea: Isopoda: Munnopsididae) with descriptions of three new genera and four new species from the deep south Atlantic. Organisms Diversity and Evolution, 3 (& Electr. Suppl.) 13, 245 252.
35. Malyutina, M. V. Brandt, A. (2006). A revalutation of the Eurycopinae (Crustacea, Isopoda, Munnopsidae) with a description of Dubinectes gen. nov. from the southern Atlantic deep sea. Zootaxa, 1272, 1 44.
36. Medlin, L., Elwood, H. J., Stickel, S. Sogin, M. L. (1988). The characterization of enzymatically amplified eukaryotic 16S-like rRNA-coding regions. Gene, 71, 491 499.
37. Menzies, R. J. (1956). New bathyal isopoda from the Caribbean with observations on their nutrition. Breviora, Museum of Comparative Zoology, 63, 1 10.
38. Menzies, R. J. George, R. Y. (1972). Isopod Crustacea of the Peru-Chile Trench. Anton Bruun Report, 9, 1 124.
39. Merrin, K. L. (2004). Review of the deep-water asellote genus Notopais Hodgson, 1910 (Crustacea: Isopoda: Munnopsididae) with description of three new species from the south-western Pacific. Zootaxa, 513, 1 27.
40. Phillippe, H. Laurent, J. (1998). How good are deep phylogenetic trees? Current Opinion in Genetics and Development, 8, 616 623.
41. Posada, D. Crandall, K. A. (1998). Modeltest: testing the model of DNA substitution. Bioinformatics, 14, 917 918.
42. Posada, D. Crandall, K. A. (2001). Selecting the best-fit model of nucleotide substitution. Systematic Biology, 50, 580 601.
43. Raupach, M. J., Held, C. Wägele, J. W. (2004). Multiple colonization of the deep sea by the Asellota (Crustacea: Peracarida: Isopoda). Deep-Sea Research Part II Topical Studies in Oceanography, 51, 1787 1795.
44. Raupach, M. J., Mayer, C., Malyutina, M. Wägele, J. W. (2009). Multiple origins of deep-sea Asellota (Crustacea: Isopoda) from shallow waters revealed by molecular data. Proceedings of the Royal Society B, 276, 799 808.
45. Rigby, S. Milsom, C. (1996). Benthic origins of zooplankton: an environmentally determined macroevolutionary effect. Geology, 24, 52 54.
46. Robison, B. H. (1993). Midwater research methods with MBARI's ROV. Marine Technology Society J, 26, 32 39.
47. Sanders, H. L. Hessler, R. R. (1969). Ecology of the deep sea benthos. Science, 163, 1419 1424.
48. Schultz, G. A. (1976). Species of asellotes (Isopoda: Paraselloidea) from Anvers Island, Antarctica. American Geophysical Union, Antarctic Research Series, 26, 1 35.
49. Shimomura, M. Ohtsuka, S. (2005). Deep-sea asellote isopods (Crustacea: Peracarida) of Nansei Islands, southwestern Japan. In K. Hasegawa, G. Shinohara M. Takeda (Eds) Deep-Sea Fauna and Pollutants in Nansei Islands pp. 249 259). Tokyo : National Science Museum Monographs.
50. Song, H., Buhay, J. E., Whiting, M. F. Crandall, K. A. (2008). Many species in one: DNA barcoding overestimates the number of species when nuclear mitochondrial pseudogenes are coamplified. Proceedings of the National Academy of Sciences, 105, 13486 13491.
51. Swofford, D. L. (2002). Paup (Phylogenetic Analysis Using Parsimony) [Computer software and manual]. Sunderland, MA : Sinauer Associates.
52. Tattersall, W. M. (1905). The marine fauna of the coast of Ireland. Part V. Isopoda. Great Britain Reports of the Department of Agriculture and Technical Instruction for Ireland Scientific Investigations of the Fisheries Branch, 1904, 1 90.
53. Thistle, D. Hessler, R. R. (1976). Origin of a deep-sea family, Ilyarachnidae (Crustacea: Isopoda). Systematic Zoology, 25, 110 116.
54. Vanhöffen, N. E. (1914). Die Isopoden der Deutschen Südpolar-Expedition 1901-03. Deutschen Südpolar-Expedition 1901-1903, 25, Zoologie, 7, 447 598.
55. Wägele, J. W. (1989). Evolution und phylogenetisches System der Isopoda. Stand der Forschung und neue Erkenntnisse. Zoologica (Stuttgart), 47, 1 262.
56. Wetzer, R. (2002). Mitochondrial genes and isopod phylogeny (Peracarida: Isopoda). Journal of Crustacean Biology, 22, 1 14.
57. Whitfield, J. B. Lockhart, P. J. (2007). Deciphering ancient rapid radiations. Trends in Ecology and Evolution, 22, 258 265.
58. Wiens, J. J. (2006). Missing data and the design of phylogenetic analyses. Journal of Biomedical Informatics, 39, 34 42.
59. Wilgenbusch, J. C., Warren, D. L. Swofford, D. L. (2007 July). AWTY: A system for graphical exploration of MCMC convergence in Bayesian phylogenetic inference. Available via http://ceb.csit.fsu.edu/awty.
60. Williams, S. T. Knowlton, N 2001). Mitochondrial pseudogenes are pervasive and often insidious in the snapping shrimp genus Alpheus. Molecular Biology and Evolution, 18, 1484 1493.
61. Wilson, G. D. F. (1982). Two new natatory asellote isopods (Crustacea) from the San Juan Archipelago, Baeonectes improvisus n. gen., n. sp. and Acanthamunnopsis milleri n. sp., with a revised description of A. hystrix. Canadian Journal of Zoology, 60, 3332 3343.
62. Wilson, G. D. F. (1983). An unusual species complex in the genus Eurycope (Crustacea: Isopoda: Asellota) from the deep north Atlantic Ocean. Proceedings of the Biological Society of Washington, 96, 452 467.
63. Wilson, G. D. F. (1987). The road to the Janiroidea: comparative morphology and evolution of the asellote isopod crustaceans. Sonderdruck aus Zeitschrift fuer Zoologische Systematik und Evolutionsforschung, 25, 257 280.
64. Wilson, G. D. F. (1989). A systematic revision of the deep-sea subfamily Lipomerinae of the isopod crustacean family Munnopsidae. Bulletin of the Scripps Institution of Oceanography of the University of California, 27, 1 138.
65. Wilson, G. D. F. (1999). Some of the deep-sea fauna is ancient. Crustaceana, 72, 1019 1030.
66. Wilson, G. D. F. Hessler, R. R. (1980). Taxonomic characters in the morphology of the genus Eurycope (Isopoda: Asellota), with a redescription of Eurycope cornuta Sars, G. O., 1864. Cahiers de Biologie Marine, 21, 241 263.
67. Wilson, G. D. F. Hessler, R. R. (1981). A revision of the genus Eurycope (Isopods, Asellota) with descriptions of three new genera. Journal of Crustacean Biology, 1, 401 423.
68. Wilson, G. D. F. Hessler, R. R. (1987). Speciation in the deep-sea. Annual Review of Ecology and Systematics, 18, 185 207.
69. Wolff, T. (1962). The systematics and biology of bathyal and abyssal Isopoda Asellota. Galathea Report, Scientific Results of the Danish Deep-Sea Expedition Round the World 1950-1952, 6, 1 320.