A molecular phylogenetic study of the subtribe Glycininae (Leguminosae) derived from the chloroplast DNA rps16 intron sequences

American Journal of Botany

Volumn 88, Issue 11, 2001, Pages 2064-2073

  Lee, Jeongran ^a   Hymowitz, Theodore ^a  

^a UNIVERSITY OF ILLINOIS AT URBANA CHAMPAIGN   (United States)

Author keywords

cpDNA; Glycininae; Leguminosae; Molecular phylogeny; rps16 intron

Indexed keywords

EID: 0000521631     PISSN: 00029122     EISSN: None     Source Type: Journal    
DOI: 10.2307/3558432     Document Type: Article

References (47)

1. BAKER, W. J., T. A. HEDDERSON, AND J. DRANSFIELD. 2000. Molecular phylogenetics of subfamily Calamoideae (Palmae) based on nrDNA ITS and cpDNA rps16 intron sequence data. Molecular Phylogenetics and Evolution 14: 195-217.
2. BAUDET, J. C. 1978. Prodrome d'une classification générique des Papilionaceae-Phaseoleae. Bulletin du Jardin Botanique National du Belgique 48: 183-220.
3. BENTHAM, G. 1837. Commentaiones de leguminosarum generibus. Sollingeri, Vienna, Austria.
4. BENTHAM, G. 1858. Synopsis of the genus Clitoria. Proceedings of the Linnean Society of London, Botany 2: 33-44.
5. BENTHAM, G. 1865. Genera Plantarum. In G. Bentham and J. D. Hooker [eds.], Leguminosae, 434-600. Reeve & Co., London, UK.
6. BENTHAM, G. 1866. IX. Description of some new genera and species of tropical Leguminosae. Transactions of the Linnean Society of London, Botany 25: 297-320.
7. BREMER, K. 1988. The limits of amino acid sequence data in angiosperm phylogenetic reconstruction. Evolution 42: 795-803.
8. BRUNEAU, A., J. J. DOYLE, AND J. L. DOYLE. 1994. Phylogenetic relationships in Phaseoleae: evidence from chloroplast DNA restriction site characters. In M. Crisp and J. J. Doyle [eds.], Advances in legume systematics, 309-330. Royal Botanic Gardens, Kew, UK.
9. DOWNIE, S. R., AND J. D. PALMER. 1992. Use of chloroplast DNA rearrangements in reconstructing plant phylogeny. In P. S. Soltis, D. E. Soltis, and J. E. Doyle [eds.], Molecular systematics of plants, 14-35. Chapman and Hall, New York, New York, USA.
10. DOYLE, J. J., AND J. L. DOYLE. 1987. A rapid DNA isolation procedure for small quantities of fresh leaf tissue. Phytochemical Bulletin 19: 11-15.
11. DOYLE, J. J., AND J. L. DOYLE. 1993. Chloroplast DNA phylogeny of the Papilionoid legume tribe Phaseoleae. Systematic Botany 18: 309-327.
12. DOYLE, J. J., J. L. DOYLE, AND J. D. PALMER. 1995. Multiple independent losses of two genes and one intron from legume chloroplast genomes. Systematic Botany 20: 272-294.
13. FARRIS, J. S. 1989. The retention index and homoplasy excess. Systematic Zoology 38: 406-407.
14. FEARING, O. S. 1959. A cytotaxonomic study of the genus Cologania and its relationship to Amphicarpaea (Leguminosae-Papilionoideae). Ph.D. dissertation, University of Texas, Austin, Texas, USA.
15. FELSENSTEIN, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39: 783-791.
16. FELSENSTEIN, J. 1993. PHYLIP (Phylogeny Inference Package), version 3.5s. Distributed by the author. Department of Genetics, University of Washington, Seattle, Washington, USA.
17. HARMS, H. 1911. Über die Verbreitung der Leguminosen - Gattung Mastersia. Repertorium specierum novarum regni vegatabilis 9: 367-369.
18. HILLIS, D. M. 1991. Discriminating between phylogenetic signal and random noise in DNA sequences. In M. M. Miyamoto and J. Cracraft [eds.], Phylogenetic analysis of DNA sequences, 278-294. Oxford University Press, New York, New York, USA.
19. HILLIS, D. M., AND J. P. HUELSENBECK. 1992. Signal, noise, and reliability in molecular phylogenetic analyses. Journal of Heredity 83: 189-195.
20. HIRATSUKA, J., ET AL. 1989. The complete sequence of the rice (Oryza sativa) chloroplast genome: intermolecular recombination between distant tRNA genes accounts for a major plastid DNA inversion during the evolution of the cereals. Molecular and General Genetics 217: 185-194.
21. INGHAM, J. L. 1990. Systematic aspects of phytoalexin formation within tribe Phaseoleae of the Leguminosae (Subfamily Papilionoideae). Biochemical Systematics and Ecology 18: 329-343.
22. 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.
23. KLUGE, A. G., AND J. S. FARRIS. 1969. Quantitative phyletics and evolution of anurans. Systematics Zoology 18: 1-32.
24. KRUKOFF, B. A., AND R. C. BARNEBY. 1981. Chromosomes. In R. M. Polhill and P. H. Raven [eds.], Advances in legume systematics, 307-310. Royal Botanic Gardens, Kew, UK.
25. LACKEY, J. A. 1977a. A synopsis of the Phaseoleae (Leguminosae, Papilionoideae). Ph.D. dissertation, Iowa State Universiy, Ames, Iowa, USA.
26. LACKEY, J. A. 1977b. A revised classification of the tribe Phaseoleae (Leguminosae: Papilionoideae), and its relation to canavanine distribution. Botanical Journal of the Linnean Society 74: 163-178.
27. LACKEY, J. A. 1977c. Neonotonia, a new generic name to include Glycine wightii (Arnott) Verdcourt (Leguminosae, Papilionoideae). Phytologia 37: 209-212.
28. LACKEY, J. A. 1981. Tribe 19. Phaseoleae DC. (1825). In R. M. Polhill and P. H. Raven [eds.], Advances in legume systematics, 301-327. Royal Botanic Gardens, Kew, UK.
29. LEE, J. 2000. Molecular genetics on the genus Glycine: I. Phylogenetic study of the subtribe Glycininae. II. Development of a universal soybean genetic map. Ph.D. dissertation, University of Illinois at Urbana-Champaign, Urbana, Illinois, USA.
30. MADDISON, W. P., AND D. R. MADDISON. 1992. MacClade, version 3.0: analysis of phylogeny and character evolution. Sinauer, Sunderland, Massachusetts, USA.
31. MARÉCHAL, R., J. M. MASCHERPA, AND F. STAINIER. 1978. Étude taxonomique d'un groupe d'espèces des genres Phaseolus et Vigna (Papilionaceae) sur la base de données morphologiques et polliniques, traités par l'analyse informatique. Boissiera 28: 1-273.
32. NEUHAUS, H., A. SCHOLZ, AND G. LINK. 1989. Structure and expression of a split chloroplast gene from mustard (Sinapis alba): ribosomal protein gene rps16 reveals unusual transcrptional features and complex RNA maturation. Current Genetics 15: 63-70.
33. OXELMAN, B., M. LIDEN, AND D. BERGLUND. 1997. Chloroplast rps16 intron phylogeny of the tribe Sileneae (Caryophyllaceae). Plant Systematics and Evolution 206: 393-410.
34. POLHILL, R. M. 1994. Classification of the Leguminosae. In F. A. Bisby, J. Buckingham, and J. B. Harborne [eds.], Phytochemical dictionary of the Leguminosae, xxxv-xlvii. Chapman & Hall, New York, New York, USA.
35. SAITOU, N., AND M. NEI. 1987. The neighbor-joining method: a new method for reconstructing evolutionary trees. Molecular Biology and Evolution 4: 406-425.
36. SEXTON, T. B., J. T. JONES, AND J. E. MULLET. 1990. Sequence and transcriptional analysis of the barley ctDNA region upstream of psbD-psbC encoding trnK (UUU), rps16, trnQ (UUG), psbK, psbI, and trnS (GCU). Current Genetics 17: 445-454.
37. SHINOZAKI, K., H. DENO, M. SUGITA, S. KURAMITSU, AND M. SUGIURA. 1986a. Intron in the gene for the ribosomal protein S16 of tobacco chloroplast and its conserved boundary sequences. Molecular and General Genetics 202: 1-5.
38. SHINOZAKI, K., ET AL. 1986b. The complete nucleotide sequence of the tobacco chloroplast genome: its gene organization and expression. European Molecular Biology Organization Journal 5: 2043-2049.
39. Sørensen, M. 1988. A taxonomic revision of the genus Pachyrhizus (Fabaceae-Phaseoleae). Nordic Journal of Botany 8: 167-192.
40. SWOFFORD, D. L. 1998. Phylogenetic analysis using parsimony, v.4.01 beta. Sinauer, Sunderland, Massaachusetts, USA.
41. TAUBERT, P. 1894. Leguminosae. In A. Engler and K. Prantl [eds.], Die natürlichen Pflanzenfamilien, 70-396. Wilhelm Englemann, Leipzig, Germany.
42. TURNER, B. L., AND O. S. FEARING. 1964. A taxonomic study of the genus Amphicarpaea (Leguminosae). Southwestern Naturalist 9: 207-218.
43. VAN DER MAESEN, L. J. G. 1985. Revision of the genus Pueraria DC. with some notes on Teyleria Backer (Leguminosae). Agricultural University, Wageningen, The Netherlands.
44. VERDCOURT, B. 1970. Studies in the Leguminosae-Papilionoideae for the Flora of Tropical East Africa: III. Kew Bulletin 24: 380-399.
45. VIVIANI, T., L. CONTE, G. CRISTOFOLINI, AND M. SPERANZA. 1991. Serosystematic and taximetric studies on the Phaseoleae (Fabaceae) and related tribes. Botanical Journal of the Linnean Society 105: 113-136.
46. WALBOT, V. 1988. Preparation of DNA from single rice seedlings. Rice Genetics Newsletter 5: 149-151.
47. WELZEN, P. C. V., AND S. D. HENGST. 1994. The genus Mastersia (Papilionaceae: Phaseoleae). Blumea 30: 77-87.