Reconstructing the species phylogeny of Pseudopanax (Araliaceae), a genus of hybridising trees

Molecular Phylogenetics and Evolution

Volumn 52, Issue 3, 2009, Pages 774-783

  Perrie, Leon R ^a   Shepherd, Lara D ^a  

^a MUSEUM OF NEW ZEALAND TE PAPA TONGAREWA   (New Zealand)

Author keywords

AFLP DNA fingerprinting; Araliaceae; Chloroplast DNA sequences; Hybridisation, gene flow, and introgression; Neopanax; New Zealand; Phylogeny; Pseudopanax; Trees

Indexed keywords

CHLOROPLAST DNA; PLANT DNA;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM; ARALIACEAE; ARTICLE; CLASSIFICATION; DNA FINGERPRINTING; DNA SEQUENCE; GENETICS; HYBRIDIZATION; MOLECULAR EVOLUTION; NEW ZEALAND; PHYLOGENY; SEQUENCE ALIGNMENT; SPECIES DIFFERENCE; SPECIES DIFFERENTIATION; TREE;

AMPLIFIED FRAGMENT LENGTH POLYMORPHISM ANALYSIS; ARALIACEAE; DNA FINGERPRINTING; DNA, CHLOROPLAST; DNA, PLANT; EVOLUTION, MOLECULAR; GENETIC SPECIATION; HYBRIDIZATION, GENETIC; NEW ZEALAND; PHYLOGENY; SEQUENCE ALIGNMENT; SEQUENCE ANALYSIS, DNA; SPECIES SPECIFICITY; TREES;

ARALIACEAE; NEOPANAX; PSEUDOPANAX; PSEUDOPANAX ARBOREUS; PSEUDOPANAX CHATHAMICUS; PSEUDOPANAX COLENSOI; PSEUDOPANAX CRASSIFOLIUS; PSEUDOPANAX KERMADECENSIS; PSEUDOPANAX LESSONII; PSEUDOPANAX LINEARIS;

EID: 67649641773     PISSN: 10557903     EISSN: 10959513     Source Type: Journal    
DOI: 10.1016/j.ympev.2009.05.030     Document Type: Article

References (49)

1. Albach D.C. Amplified fragment length polymorphisms and sequence data in the phylogenetic analysis of polyploids: multiple origins of Veronica cymbalaria (Plantaginaceae). New Phytologist 176 (2007) 481-498
2. Arnold J. Cytonuclear disequilibria in hybrid zones. Annual Review of Ecology and Systematics 24 (1993) 521-554
3. Bonin A., Bellemain E., Eidesen P.B., Pompanon F., Brochmann C., and Taberlet P. How to track and assess genotyping errors in population genetics studies. Molecular Ecology 13 (2004) 3261-3273
4. Burns K.C. Plastic heteroblasty in beach grondsel (Senecio lautus). New Zealand Journal of Botany 43 (2005) 665-672
5. Burns K.C., and Dawson J.W. A morphological comparison of leaf heteroblasty between New Caledonia and New Zealand. New Zealand Journal of Botany 44 (2006) 387-396
6. Cockanye L., and Allan H.H. Notes on New Zealand floristic botany, including descriptions of new species, &c. (No. 4). Transactions of the New Zealand Institute 56 (1926) 21-33
7. Coyne J.A., and Orr H.A. Speciation (2004), Sinauer Associates, Sunderland
8. Doyle J.J., and Doyle J.D. Isolation of plant DNA from fresh tissue. Focus 12 (1990) 13-15
9. Falush D., Stephens M., and Pritchard J.K. Inference of population structure using multilocus genotype data: dominant markers and null alleles. Molecular Ecology Notes 7 (2007) 574-578
10. Farris J.S., Källersjö M., Kluge A.G., and Bull C. Testing significance of incongruence. Cladistics 10 (1994) 315-319
11. Frodin D.G., and Govaerts R. World Checklist and Bibliography of Araliaceae (2004), Kew Publishing, London
12. Harrison R.G. Hybrids and hybrid zones: historical perspective. In: Harrison R.G. (Ed). Hybrid Zones and the Evolutionary Process (1993), Oxford University Press, Oxford 3-12
13. Harrison R.G. Linking evolutionary pattern and process: the relevance of species concepts for the study of speciation. In: Howard D.J., and Berlocher S.H. (Eds). Endless Forms. Species and Speciation (1998), Oxford University Press, New York 19-31
14. Hey J. Recent advances in assessing gene flow between diverging populations and species. Current Opinion in Genetics & Development 16 (2006) 592-596
15. Huelsenbeck J.P., and Ronquist F.R. MrBayes: Bayesian inference of phylogeny. Biometrics 17 (2001) 754-755
16. Huson D.H., and Bryant D. Application of phylogenetic networks in evolutionary studies. Molecular Biology and Evolution 23 (2006) 254-267
17. Koopman W.J.M. Phylogenetic signal in AFLP data sets. Systematic Biology 54 (2005) 197-217
18. Koopman W.J.M., Wissemann V., De Cock K., Van Huylenbroeck J.V., De Riek J., Sabatino G.J.H., Visser D., Vosman B., Ritz C.M., Maes B., Werlemark G., Nybom H., Debener T., Linde M., and Smulders M.J.M. AFLP markers as a tool to reconstruct complex relationships: a case study in Rosa (Rosaceae). American Journal of Botany 95 (2008) 353-366
19. Lexer C., Fay M.F., Joseph J.A., Nica M.-S., and Heinze B. Barriers to gene flow between two ecologically divergent Populus species, P. Alba (white poplar) and P. tremula (European aspen): the role of ecology and life history in gene introgression. Molecular Ecology 14 (2005) 1045-1057
20. Metcalf L.J. New Zealand Trees & Shrubs (2000), Reed, Auckland
21. Meudt H.M., and Bayly M.J. Phylogeographic patterns in the Australasian genus Chionohebe (Veronica s.l., Plantaginaceae) based on AFLP and chloroplast DNA sequences. Molecular Phylogenetics and Evolution 47 (2008) 319-338
22. Mitchell A.D., and Wagstaff S.J. Phylogenetic relationships of Pseudopanax species (Araliaceae) inferred from parsimony analysis of rDNA sequence data and morphology. Plant Systematics and Evolution 208 (1997) 121-138
23. Mitchell A.D., and Wagstaff S.J. Phylogeny and biogeography of the Chilean Pseudopanax laetevirens. New Zealand Journal of Botany 38 (2000) 409-414
24. Mitchell A.D., Frodin D.G., and Heads M.J. Reinstatement of Raukaua, a genus of the Araliaceae centred in New Zealand. New Zealand Journal of Botany 35 (1997) 309-315
25. Pelser P.B., Gravendeel B., and van der Meijden R. Phylogeny reconstruction in the gap between too little and too much divergence: the closest relatives of Senecio jacobaea (Asteraceae) according to DNA sequences and AFLPs. Molecular Phylogenetics and Evolution 29 (2003) 613-628
26. Perrie L.R., Brownsey P.J., Lockhart P.J., and Large M.F. Evidence for an allopolyploid complex in New Zealand Polystichum (Dryopteridaceae). New Zealand Journal of Botany 41 (2003) 189-215
27. Perrie L.R., Brownsey P.J., Lockhart P.J., Brown E.A., and Large M.F. Biogeography of temperate Australasian Polystichum ferns as inferred from chloroplast sequence and AFLP. Journal of Biogeography 30 (2003) 1729-1736
28. Perrie L.R., Brownsey P.J., Lockhart P.J., and Large M.F. Morphological and genetic diversity in the New Zealand fern Polystichum vestitum (Dryopteridaceae), with special reference to the Chatham Islands. New Zealand Journal of Botany 41 (2003) 581-602
29. Philipson W.R. The New Zealand genera of the Araliaceae. New Zealand Journal of Botany 3 (1965) 333-341
30. Plunkett G.M., Wen J., and Lowry II P.P. Infrafamilial classifications and characters in Araliaceae: Insights from the phylogenetic analysis of nuclear (ITS) and plastid (trnL-trnF) sequence data. Plant Systematics and Evolution 245 (2004) 1-39
31. Plunkett G.M., Lowry II P.P., Frodin D.G., and Wen J. Phylogeny and geography of Schefflera: pervasive polyphyly in the largest genus of Araliaceae. Annals of the Missouri Botanical Garden 92 (2005) 202-224
32. Pollock, H., 1988. A morphometric analysis of a Pseudopanax hybrid swarm. Unpublished M.Sc. Thesis, University of Auckland.
33. Posada D., and Buckley T.R. Model selection and model averaging in phylogenetics: advantages of Akaike information criterion and Bayesian approaches over likelihood ratio tests. Systematic Biology 53 (2004) 793-808
34. Rieseberg L.H., and Brouillet L. Are many plant species paraphyletic?. Taxon 43 (1994) 21-32
35. Rieseberg L.H., and Soltis D.E. Phylogenetic consequences of cytoplasmic gene flow in plants. Evolutionary Trends in Plants 5 (1991) 65-84
36. Shepherd L., Perrie L., and Brownsey P.J. Fire and ice: volcanic and glacial impacts on the phylogeography of the New Zealand forest fern Asplenium hookerianum. Molecular Ecology 16 (2007) 4536-4549
37. Shepherd L.D., Zuccarello G.C., and Perrie L.R. Microsatellite markers for Pseudopanax trees and their cross-species amplification in the Araliaceae. Conservation Genetics 9 (2008) 1687-1689
38. Shepherd, L.D., de Lange, P.J., Perrie, L.R., in press. Multiple colonizations of a remote oceanic archipelago by one species: how common is long-distance dispersal? Journal of Biogeography, doi: 10.1111/j.1365-2699.2009.02120.x.
39. Shimodaira H., and Hasegawa M. Multiple comparisons of log-likelihoods with applications to phylogenetic inference. Molecular Biology and Evolution 16 (1999) 1114-1116
40. Spooner D.M., McLean K., Ramsay G., Waugh R., and Bryan G.J. A single domestication for potato based on multilocus amplified fragment length polymorphism genotyping. Proceedings of the National Academy of Sciences of the United States of America 102 (2005) 14694-14699
41. Swofford D.L. PAUP* Phylogenetic analysis using parsimony (* and other methods) (2002), Sinauer Associates, Sunderland
42. Timme R.E., Simpson B.B., and Linder C.R. High-resolution phylogeny for Helianthus (Asteraceae) using the 18S-26S ribosomal DNA external transcribed spacer. American Journal of Botany 94 (2007) 1837-1852
43. Tremetsberger K., Stuessy T.F., Kadlec G., Urtubey E., Baeza C.M., Beck S.G., Valdebenito H.A., de Fátima Ruas C., and Matzenbacher N.I. AFLP phylogeny of South American species of Hypochaeris (Asteraceae, Lactuceae). Systematic Botany 31 (2006) 610-626
44. Tronchet F., Plunkett G.M., Jérémie H., and Lowry II P.P. Monophyly and major clades of Meryta (Araliaceae). Systematic Botany 30 (2005) 657-670
45. van den Berg R.G., and Groendijk-Wilders N. AFLP data support the recognition of a new tuber-bearing Solanum species but are uninformative about its taxonomic relationships. Plant Systematics and Evolution 269 (2007) 133-143
46. Vos P., Hogers R., Bleeker M., Reijans M., van de Lee T., Hornes M., Frijters A., Pot J., Peleman J., Kuiper M., and Zabeau M. AFLP: a new technique for DNA fingerprinting. Nucleic Acids Research 23 (1995) 4407-4414
47. Wardle P. The taxonomy and distribution of the stipulate species of Pseudopanax in New Zealand. New Zealand Journal of Botany 6 (1968) 226-236
48. Webb C.J., Lloyd D.G., and Delph L.F. Gender dimorphism in indigenous New Zealand seed plants. New Zealand Journal of Botany 32 (1999) 119-130
49. Yatabe Y., Kane N.C., Scotti-Saintagne C., and Rieseberg L.H. Rampant gene exchanges across a strong reproductive barrier between the annual sunflowers, Helianthus annuus and H. petiolaris. Genetics 175 (2007) 1883-1893