Phylogeny and infrageneric classification of Correa Andrews (Rutaceae) on the basis of nuclear and chloroplast DNA

Plant Systematics and Evolution

Volumn 288, Issue 3-4, 2010, Pages 127-138

  Othman, Raja Nur Ateeka ^a,b   Jordan, Gregory J ^a   Worth, James R P ^a   Steane, Dorothy A ^a   Duretto, Marco F ^c  

^a UNIVERSITY OF TASMANIA   (Australia)

^b UNIVERSITI TEKNOLOGI MARA   (Malaysia)

^c Tasmanian Herbarium   (Australia)

Author keywords

Chloroplast capture; Correa; Hybridisation; Phylogeny; Rutaceae; Taxonomy

Indexed keywords

RUTACEAE;

EID: 78049427385     PISSN: 03782697     EISSN: 16156110     Source Type: Journal    
DOI: 10.1007/s00606-010-0315-0     Document Type: Article

References (47)

1. Abkenar AA, Isshiki S, Tashiro Y (2004) Maternal inheritance of chloroplast DNA in intergeneric sexual hybrids of "true citrus fruit trees" revealed by PCR-RFLP analysis. J Hort Sci Biotech 79: 360-363.
2. Alvarez I, Wendel JF (2003) Ribosomal ITS sequences and plant phylogenetic inference. Mol Phylogenet Evol 29: 417-434.
3. Anderson R (1983) Variation and evolution in Correa (Rutaceae). Dissertation. La Trobe University.
4. Australia's Virtual Herbarium, available via Centre for Plant Biodiversity Research, Council of Heads of Australian Herbaria, http://www. cpbr. gov. au/cgi-bin/avh. cgi. Accessed September 2009.
5. Avise JC (1989) Gene trees and organismal histories: a phylogenetic approach to population biology. Evolution 43: 1192-1208.
6. Baldwin BG, Sanderson MS, Porter JM, Wojciechowski MF, Campbell CS, Donoghue MJ (1995) The ITS region of nuclear ribosomal DNA: a valuable source of evidence on angiosperm phylogeny. Ann Mo Bot Gard 82: 247-277.
7. Chase MW, Morton CM, Kallunki JA (1999) Phylogenetic relationships of the Rutaceae: a cladistic analysis of the subfamilies using evidence from rbcL and atpB sequence variation. Amer J Bot 86: 1191-1199.
8. Chase MW, Fay MF, Savolainen V (2000) Higher-level classification in the angiosperms: new insights from the perspective of DNA sequence data. Taxon 49: 685-704.
9. Clegg MT, Durbin ML (1990) Molecular approaches to the study of plant biosystematics. Aust Syst Bot 3: 1-8.
10. Comes HP, Abbott RJ (2001) Molecular phylogeography, reticulation, and lineage sorting in Mediterranean Senecio sect. Senecio (Asteraceae). Evolution 55: 1943-1962.
11. de Candolle AP (1824) Prodromus 1: 719.
12. Engler A (1896) Rutaceae. In: Naturlichen Pflanzenfamilien, teil III abt. 4, W. Engelman, Leipzig, pp 95-201.
13. Engler A (1931) Rutaceae. In: Engler A, Harms H (eds) Die Naturlichen Pflanzenfamilien, 2nd edn. W. Engelman, Leipzig, 19: 187-358.
14. Farris JS, Källersjö M, Kluge AG, Bult C (1995) Constructing a significance test for incongruence. Syst Biol 44: 570-572.
15. Gielly L, Taberlet P (1994) Chloroplast DNA polymorphism at the intrageneric level and plant phylogenies. C R Acad Sci 317: 685-692.
16. Grivet D, Petit RJ (2002) Phylogeography of the common ivy (Hedera sp.) in Europe: genetic differentiation through space and time. Mol Ecol 11: 1351-1362.
17. Groppo M, Pirani JR, Salatino MLF, Blanco SR, Kallunki JA (2008) Phylogeny of Rutaceae based on two non-coding regions from cpDNA. Am J Bot 8: 985-1005.
18. Heckman KL, Mariani CL, Rasoloarison R, Yoder AD (2007) Multiple nuclear loci reveal patterns of incomplete lineage sorting and complex species history within western mouse lemurs (Microcebus). Mol Phylogenet Evol 43: 353-367.
19. Hsiao C, Chatterton NJ, Asay KH, Jensen KB (1995) Molecular phylogeny of the Pooideae (Poaceae) based on nuclear rDNA (ITS) sequences. Theor Appl Genet 90: 389-398.
20. Huelsenbeck JP, Ronquist F (2001) MRBAYES: Bayesian inference of phylogeny. Bioinformatics 17: 754-755.
21. Johnson LA, Soltis DE (1994) matK DNA sequence and phylogenetic reconstruction in Saxifragaceae s. str. Syst Bot 19: 143-156.
22. Johnson LA, Soltis DE (1995) Phylogenetic inference in Saxifragaceae sensu stricto and Gilia (Polemoniaceae) using matK sequences. Ann Mo Bot Gard 82: 149-175.
23. Kita Y, Ueda K, Kadota Y (1995) Molecular phylogeny and evolution of the Asian Aconitum subgenus Aconitum (Ranunculaceae). J Plant Res 108: 429-442.
24. McKinnon GE, Jordan GJ, Vaillancourt RE, Steane DA, Potts BM (2004) Glacial refugia and reticulate evolution: the case of the Tasmanian eucalypts. Phil Trans R Soc Lond B 359: 275-284.
25. Nixon KC, Carpenter JM (1996) On simultaneous analysis. Cladistics 12: 221-241.
26. Ochieng JW, Henry RJ, Baverstock PR, Steane DA, Shepherd M (2007) Mol Phylogenet Evol 44: 752-764.
27. Othman RNA (2009). Systematic relationships within Correa. Dissertation. University of Tasmania.
28. Posada D, Crandall KA (1998) Modeltest: Testing the model of DNA substitution. Bioinformatics 14: 817-818.
29. Rieseberg LH, Wendel JF (1993) 'Introgression and its consequences in plants'. In: Harrison RG (ed) Hybrid zones and the evolutionary process. Oxford University Press, Oxford, pp 70-109.
30. Ronquist F, Huelsenbeck JP (2003) MRBAYES 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
31. Simmons MP, Ochoterena H (2000) Gaps as characters in sequence-based phylogenetic analyses. Syst Biol 49: 369-381.
32. Soltis DE, Kuzoff RK (1995) Discordance between molecular and chloroplast phylogenies in the Heuchera group (Saxifragaceae). Syst Bot 49: 727-742.
33. Soltis DE, Soltis PS, Collier TG, Edgerton ML (1991) Chloroplast DNA variation within and among genera of the Heuchera group (Saxifragaceae): evidence for chloroplast capture and paraphyly. Am J Bot 78: 1091-1112.
34. Soltis DE, Johnson LA, Looney C (1996) Discordance between ITS and chloroplast topologies in the Boykinia group (Saxifragaceae). Syst Bot 21: 169-176.
35. Steane DA, Byrne M, Vaillancourt RE, Potts BM (1998a) Chloroplast DNA polymorphism signals complex interspecific interactions in Eucalyptus (Myrtaceae). Aust Syst Bot 11: 25-40.
36. Steane DA, Byrne M, Vaillancourt RE, Potts BM (1998b) Complex interspecific interactions in Eucalyptus: evidence from the chloroplast. Aust Biol 11: 39-46.
37. Swofford DL (1998) PAUP*. Phylogenetic analysis using parsimony (*and other methods) (version4). Sinauer Associates, Sunderland.
38. Taberlet P, Gielly L, Pautou G, Bouvet J (1991) Universal primers for amplification of three non-coding regions of chloroplast DNA. Plant Mol Biol 17: 1105-1109.
39. White TJ, Bruns T, Lee S, Taylor JW (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis MA, Gelfand DH, Sninsky JJ, White TJ (eds) PCR protocols: a guide to methods and applications. Academic Press, San Diego, pp 315-322.
40. Wilson PG (1961) A taxonomic revision of the genus Correa (Rutaceae). Trans Roy Soc S Aust 85: 21-53.
41. Wilson PG (1998) Notes on the genus Correa (Rutaceae). Nuytsia 12: 89-105.
42. Wilson PG (submitted) Correa (Rutaceae). Flora Aust.
43. Wolfe KH, Li WH, Sharp PM (1987) Rates of nucleotide substitution vary greatly among plant mitochondrial, chloroplast and nuclear DNAs. Proc Nat Acad Sci USA 84: 9054-9058.
44. Xiang QY, Crawford DJ, Wolfe AD, Tang YC, Depamphilis CW (1998) Origin and biogeography of Aesculus L. (Hippocastanaceae): a molecular phylogenetic perspective. Evolution 52: 988-997.
45. Yuan YM, Kupfer P, Doyle JJ (1996) Infrageneric phylogeny of the genus Gentiana (Gentianaceae) inferred from nucleotide sequences of the internal transcribed spacers (ITS) of nuclear ribosomal DNA. Am J Bot 83: 641-652.
46. Zander RH (2004) Minimal values for reliability of bootstrap and jackknife proportions, decay index, and bayesian posterior probability. Phyloinformatics 2: 1-13.
47. Zurawski G, Clegg MT (1987) Evolution of higher-plant DNA-encoded genes: implications for structure, function and phylogenetic studies. Ann Rev Plant Phys 38: 391-418.