Taxonomy and phylogeny reconstruction: Two distinct research agendas in systematics

Edinburgh Journal of Botany

Volumn 59, Issue 3, 2002, Pages 335-349

  Wortley, A H ^a   Bennett, J R ^a   Scotland, R W ^a  

^a UNIVERSITY OF OXFORD   (United Kingdom)

Author keywords

Biodiversity; Molecular systematics; Morphology; Species inventory; Tree of life

Indexed keywords

THUJA;

EID: 0042136678     PISSN: 09604286     EISSN: None     Source Type: Journal    
DOI: 10.10M/S0960428602000203     Document Type: Review

References (83)

1. ANON. (1994). Systematics Agenda 2000: Charting the Biosphere. New York: American Museum of Natural History.
2. BAYER, C., FAY, M. F., DE BRUIJN, P. Y. et al. (1999). Support for an expanded family concept of Malvaceae within a recircumscribed order Malvales: a combined analysis of plastid atpB and rbcL DNA sequences. Bot. J. Linn. Soc. 129: 267-303.
3. BIOSCIENCES INFORMATION SERVICE (1986). Serial Sources for the BIOSIS Database. Philadelphia: Biosciences Information Service.
4. BLACKMORE, S. (1996). Knowing the earth's biodiversity: Challenges for the infrastructure of systematic biology. Science 274: 63-64.
5. BRUMMITT, R. K. (1992). Vascular Plant Families and Genera. London: Royal Botanic Gardens, Kew.
6. BRUMMITT, R. K., CASTROVIEJO, S., CHIKUNI, A. C. et al. (2001). The Species Plantarum project, an international collaborative initiative for higher plant taxonomy. Taxon 50: 1217-1230.
7. BUYCK, B. (1999). Taxonomists are an endangered species in Europe. Nature 401: 321.
8. CHASE, M. W., FAY, M. F. & SAVOLAINEN, V. (2000). Higher-level classification in the angiosperms: new insights from the perspective of DNA sequence data. Taxon 49: 685-704.
9. CHASE, M. W., SOLTIS, D. E., OLMSTEAD, R. G. et al. (1993). Phylogenetics of seed plants: an analysis of nucleotide sequences from the plastid gene rbcL. Ann. Missouri Bot. Gard. 80: 528-580.
10. CHAW, S.-M., PARKINSON, C. L., CHENG, Y. C. et al. (2000). Seed plant phylogeny inferred from all three plant genomes: monophyly of extant gymnosperms and origin of Gnetales. Proc. Natl. Acad. Sci. U. S. A. 97: 4086-4091.
11. CLARIDGE, M. (2001). Systematic Biology Initiative. Antenna 25: 268-272.
12. CLEGG, M. T. & ZURAWSKI, G. (1992). Chloroplast DNA and the study of plant phylogeny: present status and future prospects. In: SOLTIS, P. S., SOLTIS, D. E. & DOYLE, J. J. (eds) Molecular Systematics of Plants, pp. 1-13. New York: Chapman & Hall.
13. COLWELL, R. K. & CODDINGTON, J. A. (1995). Estimating terrestrial biodiversity through extrapolation. In: HAWKSWORTH, D. L. (ed.) Biodiversity Measurement and Estimation, pp. 101-118. London: Chapman & Hall.
14. DALY, D. C., CAMERON, K. M. & STEVENSON, D. W. (2001). Plant systematics in the age of genomics. Pl. Physiol. 127: 1328-1333.
15. DAVIS, J. I. (1995). Species concepts and phylogenetic analysis - an introduction. Syst. Bot. 20: 555-559.
16. DISNEY, H. (1998). Rescue plan needed for taxonomy. Nature 394: 120.
17. DONOGHUE, M. J. (1994). Progress and prospects in reconstructing plant phylogeny. Ann. Missouri Bot. Gard. 81:405-418.
18. DONOGHUE, M. J. (2001). A wish list for systematic biology. Syst. Biol. 50: 755-757.
19. DONOGHUE, M. J. & SANDERSON, M. J. (1992). The suitability of molecular and morphological evidence in reconstructing plant phylogeny. In: SOLTIS, P. S., SOLTIS, D. E. & DOYLE, J. J. (eds) Molecular Systematics of Plants, pp. 340-368. New York: Chapman & Hall.
20. DOOLITTLE, W. F. (1999). Phylogenetic classification and the universal tree. Science 284: 2124-2128.
21. DOYLE, J. A. (1998). Phylogeny of vascular plants. Annu. Rev. Ecol. Syst. 29: 567-599.
22. DUMLER, J. S., BARBET, A. F., BEKKER, C. P. J. et al. (2001). Reorganisation of genera in the families Rickettsiaceae and Anaplasmataceae in the order Rickettsiales: unification of some species of Ehrlichia with Anaplasma, Cowdria with Ehrlichia and Ehrlichia with Neorickettsia, description of six new species combinations and designation of Ehrlichia equi and 'HGE agent' as subjective synonyms of Ehrlichia phagocytophila. Int. J. Syst. Evol. Microbiol. 51: 2145-2165.
23. FRIEDMAN, W. E. (2001). Comparative embryology of basal angiosperms. Curr. Opin. Plant Biol. 4: 14-20.
24. GASTON, K. J. & MAY, R. M. (1992). Taxonomy of taxonomists. Nature 356: 281-282.
25. GAULD, I. (2001). Describing all insects: should we bother to try? Address to the Centre for Ecology and Evolution Forum: Systematics: the Foundation of Biology. 28th November 2001. London: Natural History Museum.
26. GODFRAY, H. C. J. (2002). How might more systematics be funded? Antenna 26: 11-17.
27. GOVAERTS, R. (2001). How many species of seed plants are there? Taxon 50: 1085-1090.
28. HENNIG, W. (1966). Phylogenetic Systematics. Urbana: University of Illinois Press.
29. HEYWOOD, V. (2001). Floristics and monography - an uncertain future? Taxon 50: 361-380.
30. HILLIS, D. M. (1987). Molecular versus morphological approaches to systematics. Annu. Rev. Ecol. Syst. 18: 23-42.
31. HOOT, S. B., MAGALLON, S. & CRANE, P. R. (1999). Phylogeny of basal eudicots based on three molecular data sets: atpE, rbcL, and 18S nuclear ribosomal DNA sequences. Ann. Missouri Bot. Gard. 86: 1-32.
32. HOUSE OF LORDS (1992). Report of the House of Lords Select Committee on Science and Technology: Systematic Biology Research. London: HMSO.
33. HOUSE OF LORDS (2002). What on Earth? The Threat to the Science Underpinning Conservation. London: The Stationery Office.
34. ITO, M., KAWAMOTO, A., KITA, Y. et al. (1999). Phylogenetic relationships of Amaryllidaceae based on matK sequence data. J. Pl. Res. 112: 207-216.
35. JANZEN, D. H. (1993). Taxonomy: universal and essential infrastructure for development and management of tropical wildland biodiversity. In: SANDLUND, O. T. & SCHEI, P. J. (eds) Proceedings of the Norway/UNEP Expert Conference on Biodiversity, pp. 100-113. Trondheim, Norway: NINA.
36. KÄLLERSJÖ, M., FARRIS, J. S., CHASE, M. W. et al. (1998). Simultaneous parsimony jackknife analysis of 2538 rbcL DNA sequences reveals support for major clades of green plants, land plants, seed plants and flowering plants. Pl. Syst. Evol. 213: 259-287.
37. KIM, S., PARK, C. W., KIM, Y. D. et al. (2001). Phylogenetic relationships in family Magnoliaceae inferred from ndhF sequences. Am. J. Bot. 88: 717-728.
38. KORNAS, J. (1997). Taxonomy of vascular plants and phytogeography in the Institute of Botany of the Jagiellonian University (1913-1993). Wiadom. Bot. 41: 11-17.
39. KRUCKEBERG, A. R. (1997). Essay: Whither plant taxonomy in the 21st century? Syst. Bot. 22: 181-186.
40. KUBITZKI, K. (1993). Introduction. In: KUBITZKI, K. (ed.) The Families and Genera of Vascular Plants, pp. 1-3. Berlin: Springer-Verlag.
41. LAMMERS, T. G. (1999). Plant systematics today: all our eggs in one basket? Syst. Bot. 24: 494-496.
42. LANDRUM, L. R. (2001). What has happened to descriptive systematics? What would make it thrive? Syst. Bot. 26: 438-442.
43. LOPEZ, M. F., BOYA, J., MARIN, F. et al. (1996). Scientific research on the pineal gland and melatonin: a bibliometric study for the period 1966-1994. J. Pineal Res. 20: 115-124.
44. MABBERLEY, D. J. (1997). The Plant-Book. 2nd edition. Cambridge: Cambridge University Press.
45. MAY, R. M. (1990). How many species? Philos. Trans., Ser. B 330: 293-304.
46. MENENDEZ, M. C., PALENQUE, E., NAVARRO, M. C. et al. (2001). Characterisation of a Mycobacterium intracellulare variant strain by molecular techniques. J. Clin. Microbiol. 39: 4241-4246.
47. MICKEVICH, M. F. & PLATNICK, N. I. (1989). On the information content of classifications. Cladistics 5: 33-47.
48. MINELLI, A. (1994). Systematics and biodiversity. Trends Ecol. Evol. 9: 227.
49. MISHLER, B. D. (2000). Deep phylogenetic relationships among 'plants' and their implications for classification. Taxon 49: 661-683.
50. NANDI, O. I., CHASE, M. W. & ENDRESS, P. K. (1998). A combined cladistic analysis of angiosperms using rbcL and non-molecular data sets. Ann. Missouri Bot. Gard. 85: 137-212.
51. NELSON, G. & PLATNICK, N. I. (1981). Systematics and Biogeography: Cladistics and Vicariance. New York: Columbia University Press.
52. NIXON, K. C. & WHEELER, Q. D. (1990). An amplification of the phylogenetic species concept. Cladistics 6: 211-223.
53. PALMER, J. D., JANSEN, R. K., MICHAELS, H. J. et al. (1988). Chloroplast DNA variation and plant phylogeny. Ann. Missouri Bot. Gard. 75: 1180-1206.
54. PLATNICK, N. I. (1979). Philosophy and the transformation of cladistics. Syst. Zool. 28: 537-546.
55. PRANCE, G. T. (1995). Systematics, conservation and sustainable development. Biodiv. Conserv. 4: 490-499.
56. PRANCE, G. T. (2001). Discovering the plant world. Taxon 50: 345-359.
57. PRANCE, G. T., BEENTJE, H., DRANSFIELD, J. et al. (2000). The tropical flora remains undercollected. Ann. Missouri Bot. Gard. 87: 67-71.
58. PRICE, D. J. S. (1963). Little Science, Big Science. New York: Columbia University Press.
59. PRYER, K. M., SCHNEIDER, H., SMITH, A. R. et al. (2001). Horsetails and ferns are a monophyletic group and the closest relatives of seed plants. Nature 409: 618-622.
60. QIU, Y.-L., LEE, J. H., BERNASCONI-QUADRONI, F. et al. (1999). The earliest angiosperms: evidence from mitochondrial, plastid and nuclear genomes. Nature 402: 404-407.
61. REVIEW GROUP OF TAXONOMY (1979). Taxonomy in Britain. London: HMSO.
62. ROOS, M. (1997). Flora Malesiana: progress, needs and prospects. In: DRANSFIELD, J., COODE, M. J. E. & SIMPSON, D. A. (eds) Plant Diversity in Malesia III, pp. 231-246. London: Royal Botanic Gardens, Kew.
63. SCOTLAND, R. W., OLMSTEAD, R. G. & BENNETT, J. R. (2002). Phylogeny reconstruction: the role of morphology. Syst. Biol. (in press).
64. SOLTIS, D. E., KUZOFF, R. K., MORT, M. E. et al. (2001). Elucidating deep-level phylogenetic relationships in Saxifragaceae using sequences for six chloroplastic and nuclear DNA regions. Ann. Missouri Bot. Gard. 88: 669-693.
65. SOLTIS, P. S. & SOLTIS, D. E. (1995). Alternative genes for phylogenetic reconstruction in plants - introduction. Ann. Missouri Bot. Gard. 82: 147-148.
66. STACE, C. (1989). Plant Taxonomy and Biosystematics, 2nd edition. Cambridge: Cambridge University Press.
67. START, R. D., FIRTH, J. A., MACGILLIVRAY, F. et al. (1995). Have declining clinical necropsy rates reduced the contribution of necropsy to medical research? J. Clin. Pathol. 48: 402-404.
68. SUN, B.-Y., KIM, M. H., KIM, C. H. et al. (2001). Mankyua (Ophioglossaceae): a new fern genus from Cheju Island, Korea. Taxon 50: 1019-1024.
69. SYTSMA, K. J. (1990). DNA and morphology: inference of plant phylogeny. Trends Ecol. Evol. 5: 104-110.
70. THORNE, R. F. (2000). The classification and geography of the flowering plants: dicotyledons of the class Angiospermae. Bot. Rev. (London) 66: 441-647.
71. TURRILL, W. B. (1935). The investigation of plant species. Proc. Linn. Soc. London 4: 104-105.
72. TURRILL, W. B. (1938). The expansion of taxonomy with special reference to Spermatophyta. Biol. Rev. (London) 13: 342-373.
73. TURRILL, W. B. (1964). Plant taxonomy, phytogeography and plant ecology. In: TURRILL, W. B. (ed.) Vistas in Botany 4: Recent Researches in Plant Taxonomy, pp. 187-224. Oxford: Pergamon Press.
74. VALDECASAS, A. G., CASTROVIEJO, S. & MARCUS, L. F. (2000). Reliance on the citation index undermines the study of biodiversity. Nature 403: 698.
75. VENTER, J. C., ADAMS, M. D., MYERS, E. W. et al. (2001). The sequence of the human genome. Science 291: 1304-1351.
76. WELSH, S. L. (2001). Rupert C. Barneby (1911-2000). Taxon 50: 285-292.
77. WHEELER, Q. D. (1995). Systematics, the scientific basis for inventories of biodiversity. Biodiv. Conserv. 4: 476-489.
78. WHEELER, M. L., KANDLER, O. & WOESE, C. R. (1992). On the nature of global classification. Proc. Natl. Acad. Sci. U. S. A. 89: 2930-2934.
79. WIENS, J. J. & SERVEDIO, M. R. (2000). Species delimitation in systematics: inferring diagnostic differences between species. Proc. Roy. Soc. London, Ser. B, Biol. Sci. 267: 631-636.
80. WILSON, E. O. (2000a). On the future of conservation biology. Conserv. Biol. 14: 1-3.
81. WILSON, E. O. (2000b). A global biodiversity map. Science 289: 2279.
82. WINSTON, J. E. (1999). Describing Species. New York: Columbia University Press.
83. WOLFE, A. D. & LISTON, A. (1998). Contributions of PCR-based methods to plant systematics and evolutionary biology. In: SOLTIS, D. E., SOLTIS, P. S. & DOYLE, J. J. (eds) Molecular Systematics of Plants II: DNA Sequencing, pp. 43-86. Boston: Kluwer Academic Publishers.