Journal of Species Research

The National Institute of Biological Resources (국립생물자원관)
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Molecular phylogeny of Daucus (Apiaceae): Evidence from nuclear ribosomal DNA ITS sequences

  • Lee, Byoung Yoon (Division of Plant Resources, National Institute of Biological Resources) ;
  • Park, Chong-Wook (School of Biological Sciences, Seoul National University)
  • Received : 2013.11.29
  • Accepted : 2014.01.09
  • Published : 2014.02.28
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Abstract

The Apiaceae genus Daucus consists of approximately 25 species (including carrots) which are characterized by the presence of bracts in pedunculate umbels, dorsally compressed mericarps, hairs on primary ridges, and uniseriately arranged spines on the secondary ridges of the fruit. Taxonomically, Daucus has been considered to be one of the most problematic genera in the Apiaceae due to the highly variable fruit morphology. Despite taxonomic controversy and economic importance of the genus, no rigorously constructed estimate of phylogenetic relationships exists. To examine generic limit and relationships among species of Daucus and its putatively related taxa, phylogenetic analyses of characters derived from nuclear ribosomal DNA ITS sequences were conducted. Two major clades emerged within Daucus, but neither of them have been previously recognized using morphological characters. The phylogeny also provides taxonomic status of recently reported new species of Daucus, D. arcanus and D. conchitae.

Keywords

References

  1. Arnold, B. and S.L. Jury. 1996. Delimitation of Pseudorlaya taxa. Lagascalia 18(2):285-286.
  2. Baum, D.A., K.J. Systma and P.C. Hoch. 1994. A phylogenetic analysis of Epilobium (Onagraceae) based on nuclear ribosomal DNA sequences. Systematic Botany 19:363-388. https://doi.org/10.2307/2419763
  3. Bentham, G. and J.D. Hooker. 1867. Umbelliferae. In: G. Bentham and J.D. Hooker (eds.), Genera Plantarum 1. Reeve, London. pp. 859-931.
  4. Calestani, V.H. 1905. Contributo alla systematica delle ombellifere d'europa. Webbia 1:89-280. https://doi.org/10.1080/00837792.1905.10669550
  5. Cheeseman, T.F. 1925. Daucus. In: T.F. Cheeseman (ed.), Manual of the New Zealand Flora, Wellington. pp. 684-685.
  6. Davis, P.H. 1972. Umbelliferae. In: P.H. Davis (ed.), Flora of Turkey and the East Aegean Islands, vol. 4. The University Press at University of Edinburgh, Edinburgh. pp. 265-538.
  7. Debonte, L.R., B.F. Matthews and K.G. Wilson. 1984. Variation of plastid and mitochondrial DNAs in the genus Daucus. American Journal of Botany 71:932-940. https://doi.org/10.2307/2443663
  8. Downie, S.R. and D.S. Katz-Downie. 1996. A molecular phylogeny of Apiaceae subfamily Apioideae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences. American Journal of Botany 83:234-251. https://doi.org/10.2307/2445943
  9. Downie, S.R., D.S. Katz-Downie and K. Spalik. 2000. A phylogeny of Apiaceae tribe Scandiceae: evidence from nuclear ribosomal DNA internal transcribed spacer sequences. American Journal of Botany 87:76-95. https://doi.org/10.2307/2656687
  10. Drude, O. 1898. Umbelliferae. In: A. Engler and K. Prantl (eds.), Dienaturalichen pflanzenfamilien 3. Wilhelm Engelmann, Leipzig. pp. 63-250.
  11. Eriksson, T. 1997. AutoDecay version 2.9.9 (hypercard-stack computer program distributed by the author). Botaniska Institutionem, Stockholm University, Stockholm.
  12. Farris, J.S. 1989. The retention index and homoplasy excess. Systematic Zoology 38:406-407. https://doi.org/10.2307/2992406
  13. Felsenstein, J. 1981. Evolutionary trees from DNA sequences: A maximum likelihood approach. Journal of Molecular Evolution 17:368-376. https://doi.org/10.1007/BF01734359
  14. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791. https://doi.org/10.2307/2408678
  15. Felsenstein, J. 1993. PHYLIP (Phylogeny Inference Package) version 3.572. Distributed by the author. Department of Genetics, University of Washington, Seattle.
  16. Greuter, W. 1979. The flora and phytogeography of Kastellorizo (Dhodhekanisos, Greece). Willdenowia 8:531-611.
  17. Harborne, J.B. 1967. Comparative biochemistry of flavonoids - V. Luteolin 5-Glucoside and its occurrence in the Umbelliferae. Phytochemistry 6:1569-1573. https://doi.org/10.1016/S0031-9422(00)82952-0
  18. Harborne, J.B., V.H. Heywood and C.A. Williams. 1969. Distribution of Myristicin in seeds of the Umbelliferae. Phytochemistry 8:1729-1732. https://doi.org/10.1016/S0031-9422(00)85960-9
  19. Heywood, V.H. 1971. The characteristics of the scanning electron microscope and their importance in biological studies. In: V.H. Heywood (ed.), The Biology and Chemistry of the Umbelliferae, Supplement 1 to the Botanical Journal of the Linnean Society, Vol. 64, Academic Press, New York. pp. 1-16. https://doi.org/10.1111/j.1095-8339.1971.tb02133.x
  20. Heywood, V.H. 1973. The taxonomic position of Agrocharis Hochst. and allied genera. Notes Royal Botanic Garden, Edinburgh 32:211-215.
  21. Heywood, V.H. 1978. Flowering plants of the World. Oxford University Press, Oxford.
  22. Heywood, V.H. 1982. Multivariate taxonomic synthesis of the tribe Caucalideae. In: A.-M. Cauwet-Marc and J. Carbonnier (ed.), Les Ombelliferes. Actes du 2eme Symposium International sur les Ombelliferes "Contributions Pluridisciplinaires a la Systematique.", Monographs in Systematic Botany from the Missouri Botanical Garden, vol. 6, Braun-Brumfield, Ann Arbor. pp. 727-736.
  23. Heywood, V.H. 1983. Relationships and evolution in the Daucus carota complex. Israel Journal of Botany 32:51-65.
  24. Heywood, V.H. 1986. The Umbelliferae - an impossible family? Symbolae Botanicae Upsalienses 26:173-180.
  25. Heywood, V.H. and K.M.M. Dakshini. 1971. Fruit Structure in the Umbelliferae - Caucalideae. In: V.H. Heywood (ed.), The Biology and Chemistry of the Umbelliferae, Supplement 1 to the Botanical Journal of the Linnean Society, vol. 64, Academic Press, New York. pp. 215-232.
  26. Hiern, W.P. 1877. Agrocharis. In: D. Oliver (ed.), Flora of Tropical Africa 3. Lovell Reeve & Co., London. pp. 26-27.
  27. Higgins, D.G., A.J. Bleasby and R. Fuchs. 1992. CLUSTAL V: Improved software for multiple sequence alignment. Computer Applications in the Bioscience 8:189-191.
  28. Holmgren, P.K., N.H. Holmgren and L.C. Barnet. 1990. Index herbariorum. New York Botanical Garden, New York.
  29. Jacques-Felix, H. 1970. Ombellales. In: A. Aubreville and J.-F. Leroy (eds.), Flore du Cameroun, 10. Paris.
  30. Jury, S.L. 1982. Tuberculate fruits in the Umbelliferae, tribe Caucalideae. In: A.-M. Cauwet-Marc and J. Carbonnier (eds.), Les Ombelliferes. Actes du 2eme Symposium International sur les Ombelliferes "Contributions Pluridisciplinaires a la Systematique.", Monographs in Systematic Botany from the Missouri Botanical Garden, vol. 6. Braun-Brumfield, Ann Arbor. pp. 149-159.
  31. Jury, S.L. 1986. Fruit and leaf variation in the African species of the Umbelliferae tribe Caucalideae. Symbolae Botanicae Upsalienses 26:181-186.
  32. Katz-Downie, D.S., C.M. Valiejo-Roman, E.I. Terentieva, A.V. Troitsky, B. Lee and S.R. Downie. 1999. Towards a molecular phylogeny of Apiaceae subfamily Apioideae; additional information from nuclear ribosomal DNA ITS sequences. Plant Systematics and Evolution 216:167-195. https://doi.org/10.1007/BF01084397
  33. Kimura, M. 1980. A simple method for estimating evolutionary rates of base substitution through comparative studies of nucleotide sequences. Journal of Molecular Evolution 16:111-120. https://doi.org/10.1007/BF01731581
  34. Kluge, A.G. and J.S. Farris. 1969. Quantitative phyletics and evolution of anurans. Systematics Zoology 18:1-32. https://doi.org/10.2307/2412407
  35. Koso-Poljansky, B.M. 1916. Sciadophytorum systematis lineamenta. Bulletin de la Societe Imperiale des Naturalistes, Moscow 29:93-222.
  36. Koso-Poljansky, B.M. 1917. Sciadophytorum systematis lineamenta Mantissa prior. Bulletin de la Societe Imperiale des Naturalistes, Moscow 30:277-290.
  37. Lacey, E.P. 1981. Seed dispersal in wild carrot (Daucus carota). The Michigan Botanist. 15-20.
  38. Lee, B.-Y. and S.R. Downie. 1999. A molecular phylogeny of Apiaceae tribe Caucalideae and related taxa: inferences based on ITS sequence data. Systematic Botany 24:461-479. https://doi.org/10.2307/2419700
  39. Lee, B.-Y. and S.R. Downie. 2000. Phylogenetic analysis of cpDNA restriction sites and rps 16 intron sequences reveals relationships among Apiaceae tribes Caucalideae, Scandiceae and related taxa. Plant Systematics and Evolution 221:35-60. https://doi.org/10.1007/BF01086379
  40. Lee, B.-Y., G.A. Levin and S.R. Downie. 2001. Relationships within the spiny-fruited Umbellifers (Scandiceae subtribes Daucinae and Torilidinae) as assessed by phylogenetic analysis of morphological characters. Systematic Botany 26:622-642.
  41. Maddison, W.P. and D.R. Maddison. 1992. MacClade version 3.0: analysis of phylogeny and character evolution. Sinauer, Sunderland.
  42. Martin, F.G. and S. Silvestre. 1990. Una nueva especie de Daucus (Umbelliferae) de anadalucia occidental. Lagascalia 15:263-268.
  43. McCollum, G.D. 1975. Interspecific hybrid Daucus carota and D. capillifolius. Botanical Gazette 136:201-206. https://doi.org/10.1086/336803
  44. McCollum, G.D. 1977. Hybrids of Daucus gingidium with cultivated carrots (D. carota subsp. sativus) and D. capillifolius. Botanical Gazette 138:56-63. https://doi.org/10.1086/336899
  45. Norman, C. 1934. Notes on tropical African Umbelliferae. Journal of Botany (London) 72:205-206.
  46. Okeke, S.E. 1978. Systematic studies in Daucus L. (Umbelliferae). Ph. D. Thesis of the University of Reading, Reading.
  47. Okeke, S.E. 1982. Morphological variation of bracts, bracteoles and fruits in Daucus L. In: A.-M. Cauwet-Marc and J. Carbonnier (eds.), Les Ombelliferes. Actes du 2eme Symposium International sur les Ombelliferes "Contributions Pluridisciplinaires a la Systematique.", Monographs in Systematic Botany from the Missouri Botanical Garden, vol. 6, Braun-Brumfield, Ann. Arbor. pp. 161-174.
  48. Olsen, G.J., H. Matsuda, R. Hagstrom and R. Overbeek. 1994. Fast DNAml: A tool for construction of phylogenetic trees of DNA sequences using maximum likelihood. Computer Applications in the Biosciences 10:41-48.
  49. Onno, M. 1936. The wild forms of Daucus section Carota (in German). Beiheftezum Botanischen Zentralblatt 56:83-136.
  50. Owens, S.J. 1974. An examination of the floral biology, breeding system and cytology in species of the genus Daucus and related genera in tribe Caucalideae (Umbelliferae). Ph.D. Thesis of the University of Reading, Reading.
  51. Pierre, M.D., R.J. Randall and I.M. Bayer. 1990. An isozymebased assessment of the generic variability within the Daucus carota complex (Apiaceae: Caucalideae). Canadian Journal of Botany 68:2449-2457. https://doi.org/10.1139/b90-311
  52. Saenz, C. 1981. Research on Daucus L. (Umbelliferae). Anales des Instituto Botanico A. J. Cavanilles 37:481-533.
  53. Saenz de Rivas, C. and V.H. Heywood. 1974. Estudio preliminar sobre los Daucus de la Espa-na Peninsular. Anales des Instituto Botanico A. J. Cavanilles 31:97-118.
  54. Saenz de Rivas, C., V.H. Heywood, S. Jury and A. Al-Attar. 1982. Etude micromorphologique et anatomique du fruit des Caucalideae Bentham (Umbelliferae). In: A.-M. Cauwet-Marc and J. Carbonnier (eds.), Les Ombelliferes. Actes du 2eme Symposium International sur les Ombelliferes "Contributions Pluridisciplinaires a la Systematique.", Monographs in Systematic Botany from the Missouri Botanical Garden, vol. 6. Braun-Brumfield, Ann Arbor. pp. 175-193.
  55. Saitou, N. and M. Nei. 1987. The neighbor-joining method: a new method for reconstructing evolutionary trees. Molecular Biology and Evolution 4:406-425.
  56. Shneyer, V.S., G.P. Borschtschenko, M.G. Pimenov and M. V. Leonov. 1992. The tribe Smyrnieae (Umbelliferae) in the light of serotaxonomical analysis. Plant Systematics and Evolution 182:135-148. https://doi.org/10.1007/BF00939187
  57. Small, E. 1978. A numerical taxonomic analysis of the Daucus carota complex. Canadian Journal of Botany 56:249-276.
  58. Swofford, D.L. 2000. PAUP*. Phylogenetic Analysis Using Parsimony, version 4.0. Sinaur Associates, Sunderland.
  59. Thellung, A. 1926. Die Linneschen Daucus-Arten in Lichte der original-Herbarexemplare. Repertorium Specierum Novarum Regni Vegetabilis 22:300-315.
  60. Theobald, W.L. 1971. Comparative anatomical and developmental studies in the Umbelliferae. In: V.H. Heywood (ed.), The Biology and Chemistry of the Umbelliferae, Supplement 1 to the Botanical Journal of the Linnean Society. vol. 64. Academic Press, New York. pp. 171-179.
  61. White, T.J., T. Bruns, S. Lee and J. Taylor. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: M.A. Innis, D.H. Gelfand, J.J. Sninsky and T.J. White (eds.), PCR Protocols: a Guide to Methods and Applications, Academic Press, San Diego. pp. 315-322.
  62. Williams, C.A. and J.B. Harborne. 1972. Essential oils in the spiny-fruited Umbelliferae. Phytochemistry 11:1981-1987. https://doi.org/10.1016/S0031-9422(00)90162-6
  63. Zohary, M. 1972. Umbelliferae. In: M. Zohary (ed.), Flora Palaestina, Part 2. Goldberg's press, Jerusalem. pp. 378-460.

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