Overview of the phylogenetic relationships of some southern Brazilian species from section Torva and related sections of "spiny Solanum" (Solanum subgenus Leptostemonum, Solanaceae)

Genetica

Volumn 132, Issue 2, 2008, Pages 143-158

  Miz, Rogéria B ^a   Mentz, Lílian A ^a   Souza Chies, Tatiana T ^a  

^a FEDERAL UNIVERSITY OF RIO GRANDE DO SUL   (Brazil)

Author keywords

Intron trnL plus trnL trnF; ITS; Phylogenetic analysis; Solanaceae; Solanum section Torva; Subgenus Leptostemonum; trnS trnG

Indexed keywords

CHLOROPLAST DNA; RIBOSOMAL SPACER DNA;

ARTICLE; BIODIVERSITY; BRAZIL; CELL NUCLEUS; CLASSIFICATION; CONSENSUS SEQUENCE; CYTOLOGY; DNA SEQUENCE; GENETICS; INTRON; NUCLEIC ACID DATABASE; NUCLEOTIDE SEQUENCE; PHYLOGENY; SOLANUM;

BASE SEQUENCE; BIODIVERSITY; BRAZIL; CELL NUCLEUS; CONSENSUS SEQUENCE; DATABASES, NUCLEIC ACID; DNA, CHLOROPLAST; DNA, RIBOSOMAL SPACER; INTRONS; PHYLOGENY; SEQUENCE ANALYSIS, DNA; SOLANUM;

MAGNOLIOPHYTA; SOLANACEAE; SOLANUM; SOLANUM JAMAICENSE; SOLANUM MELONGENA; SOLANUM SISYMBRIIFOLIUM;

EID: 36649021314     PISSN: 00166707     EISSN: None     Source Type: Journal    
DOI: 10.1007/s10709-007-9156-3     Document Type: Article

References (50)

1. Akaike H (1974) A new look at the statistical model identification. IEEE Trans Automat Conr 19:716-723
2. Baker RH, Yu X, DeSalle R (1998) Assessing the relative contribution of molecular and morphological characteres in simultaneous analysis trees. Mol Phylogenetic Evol 9:427-436
3. Baldwin BG (1992) Phylogenetic utility of the Internal Transcribed Spacers of nuclear ribosomal DNA in plants: an example from the Compositae. Mol Phylogenet Evol 1(1):3-6
4. Baldwin BG, Sanderson MJ, Porter MJ et al (1995) The ITS region of nuclear ribosomal DNA: a valuable source of evidence on Angiosperm phylogeny. Ann Mo Bot Gard 82:247-277
5. Bitter G (1912). Solana nova vel minus cognita. Feddes Repert. 10:529-565;
6. Feddes Repert. 11:1-19, 202-237, 349-394, 431-473
7. Bitter G (1913) Solana nova vel minus cognita. Feddes Repert. 11:481-491, 562-566;
8. Feddes Repert. 12:1-10, 49-90, 136-162, 433-467, 542-555
9. Bitter G (1919) Solana nova vel minus cognita. Feddes Repert 16:10-15, 79-103
10. Bohs L (2004) A chloroplast DNA phylogeny of Solanum section Lasiocarpa. Syst Bot 29(1):177-187
11. Bohs L (2005) Major clades in Solanum based on ndhF sequences. In: Keating RC, Hollowell VC, Croat TB (eds) A Festschrift for William G. D'Arcy: The Legacy of a Taxonomist, Missouri Botanical Garden, St. Louis Monogr Syst Bot Missouri Bot Gard 104:27-49
12. Bohs L, Olmstead RG (1997) Phylogenetic relationship in Solanum (Solanaceae) based on ndhF sequences. Syst Bot 22:5-17
13. Bohs L, Olmstead RG (1999) Solanum phylogeny inferred from chloroplast DNA sequence data. In: Nee M, Symon DE, Lester RN et al (eds) Solanaceae IV: advances in biology and utilization. Royal Botanic Gardens, Kew, pp 97-110
14. Bohs L, Olmstead RG (2001) A ressessment of Normania and Triguera (Solanaceae). Plant Syst Evol 228:33-48
15. Bremer K (1988) The limits of amino acid sequence data in angiosperm phylogenetics reconstruction. Evolution 42:795-803
16. Bremer K (1994) Branch support and tree stability. Cladistics 10:295-304
17. Chase MW, Knapp S, Cox AV et al (2003) Molecular Systematics, GISH and the Origin of Hybrid Taxa in Nicotiana (Solanaceae). Ann Bot 92:107-127
18. Clarkson JJ, Knapp S, Garcia VF et al (2004) Phylogenetic relationships in Nicotiana (Solanaceae) inferred from multiple plastid DNA regions. Mol Phylogenet Evol 33:75-90
19. Child A (1983) Taxonomic studies in Solanum L. 1. Section Nemorense Child, section nova. Feddes Repert 94:35-42
20. Child A (1990) A synopsis of Solanum subgenus Potatoe (G. Don) D'Arcy (Tuberarium (Dun.) Bitter (s.1.)). Feddes Repert 101:29-245
21. D'Arcy WG (1991) The Solanaceae since 1976, wiyh a review of its biogeography. In: Hawkes JG, Lester RN, Nee M, Estrada RN (eds) Solanaceae III: Taxonomy, Chemistry, Evolution. Royal Botanic Gardens, Kew, pp 75-137
22. Desfeux C, Lejeune B (1996) Systematics of Euromediterranean Silene (Caryophyllaceae): evidence from a phylogenetic analysis using ITS sequence. CR Acad Sci Paris 319:351-358
23. Doyle JJ, Doyle JL (1990) Isolation of plant DNA from fresh tissue. Focus 12:13-15
24. Dunal MF (1852) Solanaceae. In: Candolle AP (ed) Prodomus Systematic Universalis Naturalis Regni Vegetabilis. Paris, 13(1):1-690
25. Farris JS, Källersjö M, Kluge AG et al (1994) Testing significance of congruence. Cladistics 10:315-319
26. Farris JS, Källersjö M, Kluge AG et al (1995) Constructing a significance test for incongruence. Syst Biol 44:570-572
27. Felsenstein J (1985) Confidence limits on phylogenies: an approach using the bootstrap. Evolution 39:783-791
28. Hall TA (1999) BioEdit: a user-friendly biological sequence alignment editor and analysis program for windows 95/98/NT. Nucl Acids Symp Ser 41:95-98
29. Hall BG (2001) Phylogenetic trees made easy-a how to manual for molecular biologists, 2nd edn. Sinauer Associates, Massachusetts
30. Hamilton MB (1999) Four primer pairs for the amplification of chloroplast intergenic regions with intraspecific variation. Mol Ecol 8:513-525
31. Hillis DM (1991) Discriminating between phylogenetic signal and random noise in DNA sequences. In: Myamoto MM, Craft J (eds) Phylogenetic analysis of DNA sequences. Oxford University Press, New York, NY, USA, pp. 278-294
32. Huelsenbeck JP, Ronquist F (2001) MrBayes: Bayesian inference of phylogeny. Department of Biology, University of Rochester, New York, USA
33. Hunziker AT (2001) Genera Solanacearum: The genera of Solanaceae illustrated, arranged according to a new system. Gantner Verlag, Ruggell, pp 500
34. Kress JW, Wurdack KJ, Zimmer EA, Weigt LA, Janzen DH (2005) Use of DNA barcodes to identify flowering plants. Proc Natl Acad Sci 102:8369-8374
35. Levin RA, Watson K, Bohs L (2005) A four-gene study of evolutionary relationships in Solanum section Acanthophora. Am J Bot 92(4):603-612
36. Levin RA, Myers NR, Bohs L (2006) Phylogenetic Relationships among the "Spiny Solanums" (Solanum subgenus Leptostemonum, Solananceae). Am J Bot 93(1):157-169
37. McCarthy C (1996-1998) Chromas 1.45 Copyright. 1996-1998 Conor McCarthy. School of Health Science. Griffith University, Gold Coast Campus, Southport, Queesland, Australia
38. Mentz LA, Oliveira PL (2004) Solanum (Solanaceae) na Região Sul do Brasil. Pesquisas. Instituto Anchietano de Pesquisas. Botânica, n° 54. Rio Grande do Sul, Brasil, pp 1-327
39. Nee M (1999) Synopsis of Solanum in the New World. In: Nee M, Symon DE, Lester RN, Jessop JP (eds), Solanaceae IV. Royal Botanic Gardens, Kew, pp. 285-333
40. Nicholas KB, Nicholas HBJ (1997) GeneDoc: a tool for editing and annotating multiple sequence aligments. Distributed by the author
41. Olmstead RG, Palmer J (1991) Chloroplast DNA and Systematics of the Solanaceae. Solanaceae III: Taxonomy, Chemistry, Evolution. In: Hawkes, Lester, Nee, Estrada (eds) Royal Botanic Gardens. Kew, and Linnean Society of London, pp. 161-168
42. Olmstead RG, Sweere JA, Spanger RE et al (1999) Phylogeny and Provisional classification of the Solanaceae based on Chloroplast DNA. In: Nee M, Symon DE, Lester RN, Jessop JP (eds) Solanaceae IV. Royal Botanic Gardens, Kew, pp. 111-137
43. Posada D, Crandall KA (1998) Modeltest: testing the model of DNA substitution. Bioinformatics 14:817-818
44. Saitou N, Nei M (1987) The neighbor-joining method: a new method for reconstructing phylogenetic trees. Mol Biol Evol 9:945-967
45. Shaw J, Lickey EB, Beck JT et al (2005) The tortoise and the hare II: Relative utility of 21 noncoding chloroplast DNA sequences for phylogenetic analysis. Am J Bot 92(1):142-166
46. Sorenson MD (1999) TreeRot, version 2. Boston University, Boston, MA
47. Swofford DL (2002) PAUP*. Phylogenetic Analysis Using Parsimony (*and other methods). Verion 4. Sinauer Assocites, Sunderland
48. Taberlet P, Gielly L, Pautou G et al (1991) Universal primers for amplification of three noncoding regions of chloroplast DNA. Plant Mol Biol 17:1105-1109
49. Thompson JD, Gibson TJ, Plewniak F et al (1997) The Clustal X windows interface: flexible strategies for multiple sequence alignment aided by quality tools. Nucleic Acids Res 24:4876-4882
50. Whalen MD (1984) Conspectus of Species Groups in Solanum Subgenus Leptostemonum. Gentes Herbarum 12(4):1-282